Query 006918
Match_columns 625
No_of_seqs 382 out of 3371
Neff 10.2
Searched_HMMs 46136
Date Thu Mar 28 16:21:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006918.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006918hhsearch_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 5.1E-65 1.1E-69 494.1 36.4 536 22-614 22-577 (897)
2 KOG4440 NMDA selective glutama 100.0 1.1E-59 2.3E-64 459.3 37.3 514 21-615 30-602 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 4.8E-53 1E-57 427.8 46.9 480 75-625 83-615 (1258)
4 cd06365 PBP1_Pheromone_recepto 100.0 2.8E-52 6.1E-57 438.4 39.2 369 25-414 1-453 (469)
5 cd06375 PBP1_mGluR_groupII Lig 100.0 7.3E-52 1.6E-56 433.4 41.4 365 25-413 1-454 (458)
6 cd06374 PBP1_mGluR_groupI Liga 100.0 1.8E-51 4E-56 434.4 40.8 376 22-420 5-470 (472)
7 cd06364 PBP1_CaSR Ligand-bindi 100.0 3.2E-51 7E-56 432.8 41.9 373 22-414 8-494 (510)
8 cd06362 PBP1_mGluR Ligand bind 100.0 1E-50 2.2E-55 428.5 40.0 371 25-417 1-450 (452)
9 cd06361 PBP1_GPC6A_like Ligand 100.0 3E-50 6.4E-55 414.2 40.8 348 28-415 1-395 (403)
10 cd06376 PBP1_mGluR_groupIII Li 100.0 2.5E-50 5.5E-55 425.0 40.9 367 25-413 1-452 (463)
11 cd06392 PBP1_iGluR_delta_1 N-t 100.0 2.1E-49 4.6E-54 400.1 39.0 362 28-417 1-398 (400)
12 cd06393 PBP1_iGluR_Kainate_Glu 100.0 6.4E-49 1.4E-53 404.8 39.7 365 26-418 2-382 (384)
13 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 3.9E-48 8.4E-53 391.5 38.5 355 28-417 1-363 (364)
14 KOG1056 Glutamate-gated metabo 100.0 3.5E-48 7.7E-53 406.3 37.9 393 22-457 27-495 (878)
15 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 2.5E-47 5.4E-52 392.9 40.4 338 22-414 15-364 (377)
16 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 4E-47 8.6E-52 382.7 39.7 360 29-417 2-371 (372)
17 cd06391 PBP1_iGluR_delta_2 N-t 100.0 8.4E-47 1.8E-51 385.8 39.0 365 28-417 1-398 (400)
18 cd06380 PBP1_iGluR_AMPA N-term 100.0 7.1E-46 1.5E-50 383.3 41.0 370 28-417 1-381 (382)
19 cd06367 PBP1_iGluR_NMDA N-term 100.0 2.8E-46 6.2E-51 383.3 35.9 339 26-413 2-351 (362)
20 cd06363 PBP1_Taste_receptor Li 100.0 7.9E-46 1.7E-50 385.3 39.3 353 23-414 3-396 (410)
21 cd06386 PBP1_NPR_C_like Ligand 100.0 1E-45 2.2E-50 380.8 39.3 351 31-414 4-379 (387)
22 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 1.9E-45 4.1E-50 373.8 39.5 361 28-418 1-370 (371)
23 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 3.8E-45 8.1E-50 372.7 39.0 359 28-417 1-368 (370)
24 cd06385 PBP1_NPR_A Ligand-bind 100.0 2.6E-45 5.6E-50 381.7 36.7 358 28-415 1-392 (405)
25 cd06372 PBP1_GC_G_like Ligand- 100.0 6.1E-45 1.3E-49 377.3 38.8 358 28-415 1-387 (391)
26 cd06370 PBP1_Speract_GC_like L 100.0 1.1E-44 2.5E-49 375.8 38.7 347 27-402 1-384 (404)
27 cd06366 PBP1_GABAb_receptor Li 100.0 3.8E-44 8.3E-49 366.4 37.8 337 28-417 1-346 (350)
28 cd06373 PBP1_NPR_like Ligand b 100.0 5.3E-44 1.2E-48 370.9 36.7 359 28-415 1-390 (396)
29 cd06352 PBP1_NPR_GC_like Ligan 100.0 1.4E-43 3E-48 367.7 38.8 360 28-415 1-383 (389)
30 cd06371 PBP1_sensory_GC_DEF_li 100.0 4.8E-43 1E-47 359.9 37.2 343 28-404 1-363 (382)
31 cd06394 PBP1_iGluR_Kainate_KA1 100.0 6.8E-44 1.5E-48 353.7 28.6 323 28-418 1-332 (333)
32 cd06384 PBP1_NPR_B Ligand-bind 100.0 1.9E-42 4E-47 358.9 38.9 357 28-415 1-393 (399)
33 cd06382 PBP1_iGluR_Kainate N-t 100.0 1.3E-42 2.7E-47 351.5 31.6 316 28-417 1-326 (327)
34 PF01094 ANF_receptor: Recepto 100.0 1.7E-41 3.7E-46 347.5 33.1 335 42-400 1-348 (348)
35 cd06368 PBP1_iGluR_non_NMDA_li 100.0 4.2E-39 9.2E-44 325.7 32.9 315 28-416 1-322 (324)
36 PRK15404 leucine ABC transport 100.0 2.5E-38 5.3E-43 323.5 36.5 342 19-404 18-364 (369)
37 cd06381 PBP1_iGluR_delta_like 100.0 4.4E-38 9.6E-43 318.1 36.4 332 28-417 1-362 (363)
38 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 1.1E-37 2.3E-42 317.2 34.7 328 28-399 1-334 (334)
39 cd06350 PBP1_GPCR_family_C_lik 100.0 8.1E-38 1.8E-42 319.8 31.5 309 28-414 1-340 (348)
40 cd06383 PBP1_iGluR_AMPA_Like N 100.0 4E-38 8.7E-43 319.0 25.3 330 36-393 7-354 (368)
41 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 6.3E-36 1.4E-40 296.3 37.7 343 23-419 15-376 (382)
42 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 4.1E-37 9E-42 310.5 29.1 304 73-419 43-355 (362)
43 cd06338 PBP1_ABC_ligand_bindin 100.0 1.9E-36 4.2E-41 309.2 33.9 328 28-398 1-344 (345)
44 cd06345 PBP1_ABC_ligand_bindin 100.0 2.5E-36 5.5E-41 307.7 34.1 320 28-390 1-337 (344)
45 KOG1052 Glutamate-gated kainat 100.0 2.6E-36 5.7E-41 331.8 35.5 358 210-612 5-370 (656)
46 cd06346 PBP1_ABC_ligand_bindin 100.0 2.7E-36 5.8E-41 302.8 30.2 304 28-396 1-310 (312)
47 cd06348 PBP1_ABC_ligand_bindin 100.0 1.6E-35 3.6E-40 301.9 34.6 333 28-395 1-342 (344)
48 cd06340 PBP1_ABC_ligand_bindin 100.0 3.6E-35 7.9E-40 299.1 31.2 324 28-392 1-342 (347)
49 cd06355 PBP1_FmdD_like Peripla 100.0 2.9E-34 6.2E-39 292.2 35.2 337 28-407 1-344 (348)
50 COG0683 LivK ABC-type branched 100.0 4.8E-34 1.1E-38 291.2 34.0 338 24-402 8-355 (366)
51 cd06344 PBP1_ABC_ligand_bindin 100.0 2.2E-34 4.8E-39 291.8 31.0 320 28-392 1-327 (332)
52 TIGR03669 urea_ABC_arch urea A 100.0 1.5E-33 3.2E-38 287.3 35.2 341 27-412 1-349 (374)
53 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 8.6E-34 1.9E-38 287.9 32.7 315 28-413 1-322 (328)
54 cd06329 PBP1_SBP_like_3 Peripl 100.0 8.8E-34 1.9E-38 288.5 31.8 315 28-387 1-332 (342)
55 cd06331 PBP1_AmiC_like Type I 100.0 1.6E-33 3.5E-38 285.8 33.0 322 28-392 1-328 (333)
56 cd06347 PBP1_ABC_ligand_bindin 100.0 2.2E-33 4.7E-38 285.6 34.1 320 28-392 1-329 (334)
57 KOG1055 GABA-B ion channel rec 100.0 2.4E-35 5.2E-40 299.3 18.5 370 23-415 38-431 (865)
58 cd06343 PBP1_ABC_ligand_bindin 100.0 7.2E-33 1.6E-37 284.6 35.5 339 23-401 3-359 (362)
59 TIGR03407 urea_ABC_UrtA urea A 100.0 1.2E-32 2.7E-37 281.3 35.8 330 27-399 1-337 (359)
60 cd06327 PBP1_SBP_like_1 Peripl 100.0 4.6E-33 9.9E-38 282.5 30.9 318 28-390 1-328 (334)
61 cd06336 PBP1_ABC_ligand_bindin 100.0 4.5E-33 9.8E-38 283.7 30.0 323 28-392 1-342 (347)
62 cd06349 PBP1_ABC_ligand_bindin 100.0 2.8E-32 6E-37 277.6 34.8 328 28-401 1-337 (340)
63 cd06330 PBP1_Arsenic_SBP_like 100.0 1.4E-32 3.1E-37 280.6 31.4 322 28-388 1-335 (346)
64 cd06359 PBP1_Nba_like Type I p 100.0 2.7E-32 5.9E-37 276.6 33.0 324 28-397 1-331 (333)
65 cd06357 PBP1_AmiC Periplasmic 100.0 2.4E-31 5.1E-36 271.9 36.4 339 28-408 1-346 (360)
66 PF13458 Peripla_BP_6: Peripla 100.0 4.3E-32 9.4E-37 277.1 30.8 334 26-402 1-341 (343)
67 cd06360 PBP1_alkylbenzenes_lik 100.0 2E-31 4.3E-36 271.3 33.9 325 28-394 1-332 (336)
68 cd06328 PBP1_SBP_like_2 Peripl 100.0 1.8E-31 3.9E-36 270.1 32.7 314 28-386 1-322 (333)
69 cd06335 PBP1_ABC_ligand_bindin 100.0 3.6E-31 7.8E-36 269.7 32.5 319 28-388 1-337 (347)
70 cd06356 PBP1_Amide_Urea_BP_lik 100.0 5.6E-31 1.2E-35 266.6 32.8 317 28-388 1-325 (334)
71 cd06358 PBP1_NHase Type I peri 100.0 6.1E-31 1.3E-35 266.7 32.7 315 28-388 1-324 (333)
72 cd06334 PBP1_ABC_ligand_bindin 100.0 7.7E-31 1.7E-35 266.3 31.5 329 28-386 1-345 (351)
73 PF13433 Peripla_BP_5: Peripla 100.0 4.8E-30 1E-34 248.2 31.2 318 27-388 1-326 (363)
74 cd06332 PBP1_aromatic_compound 100.0 4.8E-30 1E-34 260.9 32.8 320 28-392 1-327 (333)
75 cd06337 PBP1_ABC_ligand_bindin 100.0 4.3E-29 9.3E-34 255.2 28.7 314 28-386 1-342 (357)
76 cd06269 PBP1_glutamate_recepto 100.0 7.7E-29 1.7E-33 247.8 28.1 223 28-258 1-234 (298)
77 cd06326 PBP1_STKc_like Type I 100.0 9.2E-28 2E-32 244.3 33.5 318 27-386 1-327 (336)
78 cd06339 PBP1_YraM_LppC_lipopro 100.0 1.9E-28 4.1E-33 247.9 24.3 302 28-389 1-329 (336)
79 TIGR03863 PQQ_ABC_bind ABC tra 100.0 7.8E-28 1.7E-32 241.6 25.6 292 40-390 10-307 (347)
80 cd04509 PBP1_ABC_transporter_G 100.0 9.4E-27 2E-31 232.8 26.7 280 28-320 1-290 (299)
81 cd06341 PBP1_ABC_ligand_bindin 99.9 1.1E-25 2.3E-30 229.5 29.8 308 28-379 1-318 (341)
82 cd06369 PBP1_GC_C_enterotoxin_ 99.9 1.5E-25 3.3E-30 216.0 28.9 323 42-415 19-366 (380)
83 cd06333 PBP1_ABC-type_HAAT_lik 99.9 2.5E-25 5.4E-30 223.7 30.0 279 28-322 1-293 (312)
84 cd06268 PBP1_ABC_transporter_L 99.9 5.3E-24 1.2E-28 212.7 28.5 280 28-322 1-287 (298)
85 cd01391 Periplasmic_Binding_Pr 99.6 7.2E-14 1.6E-18 136.7 24.1 215 28-256 1-219 (269)
86 PRK11917 bifunctional adhesin/ 99.3 9.9E-12 2.1E-16 120.6 11.4 102 460-570 36-138 (259)
87 PRK10797 glutamate and asparta 99.3 1.4E-11 3E-16 122.1 10.1 100 461-570 39-143 (302)
88 PF04348 LppC: LppC putative l 99.3 7.5E-10 1.6E-14 117.1 22.5 303 25-394 218-528 (536)
89 PF10613 Lig_chan-Glu_bd: Liga 99.2 6.1E-12 1.3E-16 90.0 3.6 47 483-531 14-65 (65)
90 PRK15437 histidine ABC transpo 99.2 6.3E-11 1.4E-15 115.4 9.9 98 461-570 25-122 (259)
91 PRK09495 glnH glutamine ABC tr 99.2 7.7E-11 1.7E-15 114.0 10.3 97 461-570 24-120 (247)
92 PRK15010 ABC transporter lysin 99.2 6.5E-11 1.4E-15 115.4 9.5 99 460-570 24-122 (260)
93 PF00497 SBP_bac_3: Bacterial 99.1 9.9E-11 2.1E-15 111.5 7.8 94 464-569 1-94 (225)
94 TIGR02995 ectoine_ehuB ectoine 99.1 1.3E-10 2.8E-15 114.2 7.9 98 460-570 31-129 (275)
95 PRK15007 putative ABC transpor 99.1 2.5E-10 5.5E-15 110.2 9.6 97 461-569 20-116 (243)
96 TIGR03870 ABC_MoxJ methanol ox 99.0 4.2E-10 9.1E-15 108.5 7.0 88 463-570 1-91 (246)
97 PRK11260 cystine transporter s 99.0 1E-09 2.2E-14 107.4 9.0 99 460-570 39-137 (266)
98 TIGR01096 3A0103s03R lysine-ar 99.0 1.8E-09 4E-14 104.7 10.3 97 462-570 24-120 (250)
99 PRK10859 membrane-bound lytic 99.0 1.7E-09 3.6E-14 114.5 9.5 98 460-570 41-138 (482)
100 cd01537 PBP1_Repressors_Sugar_ 98.9 1.5E-07 3.3E-12 91.8 20.1 205 28-252 1-211 (264)
101 TIGR02285 conserved hypothetic 98.9 5.6E-09 1.2E-13 102.2 8.5 95 461-569 17-113 (268)
102 COG0834 HisJ ABC-type amino ac 98.8 2.3E-08 4.9E-13 98.5 9.7 103 461-571 33-135 (275)
103 PRK09959 hybrid sensory histid 98.8 1.8E-08 4E-13 120.1 10.3 100 461-570 55-154 (1197)
104 cd01536 PBP1_ABC_sugar_binding 98.8 2.1E-06 4.6E-11 83.9 22.9 198 28-244 1-206 (267)
105 cd06267 PBP1_LacI_sugar_bindin 98.7 1.9E-06 4E-11 84.1 20.1 205 28-252 1-210 (264)
106 PRK09959 hybrid sensory histid 98.7 5.2E-08 1.1E-12 116.2 10.4 97 462-570 302-398 (1197)
107 cd06300 PBP1_ABC_sugar_binding 98.7 4.5E-06 9.8E-11 82.0 21.4 201 28-245 1-210 (272)
108 TIGR03871 ABC_peri_MoxJ_2 quin 98.6 8.1E-08 1.8E-12 91.9 7.9 89 464-570 2-90 (232)
109 cd06325 PBP1_ABC_uncharacteriz 98.5 1.1E-05 2.4E-10 79.6 20.7 201 28-243 1-208 (281)
110 cd06320 PBP1_allose_binding Pe 98.4 6.4E-05 1.4E-09 73.9 23.0 199 28-244 1-207 (275)
111 PRK10653 D-ribose transporter 98.4 0.00011 2.4E-09 73.0 24.9 222 1-243 3-231 (295)
112 cd00134 PBPb Bacterial peripla 98.4 1E-06 2.2E-11 82.8 9.2 95 464-570 1-95 (218)
113 COG2984 ABC-type uncharacteriz 98.4 0.00015 3.3E-09 69.2 23.0 204 22-243 26-240 (322)
114 smart00062 PBPb Bacterial peri 98.4 1.2E-06 2.7E-11 82.2 8.9 96 463-570 1-96 (219)
115 cd06282 PBP1_GntR_like_2 Ligan 98.3 6.7E-05 1.4E-09 73.3 20.5 203 28-252 1-209 (266)
116 COG3107 LppC Putative lipoprot 98.2 0.00013 2.8E-09 73.5 19.3 153 24-189 255-413 (604)
117 cd06323 PBP1_ribose_binding Pe 98.2 0.00035 7.6E-09 68.2 22.2 197 28-243 1-205 (268)
118 cd06273 PBP1_GntR_like_1 This 98.2 0.00022 4.7E-09 69.8 20.5 202 28-251 1-210 (268)
119 cd06317 PBP1_ABC_sugar_binding 98.2 0.00033 7.1E-09 68.8 21.4 201 28-244 1-212 (275)
120 cd06319 PBP1_ABC_sugar_binding 98.1 0.00083 1.8E-08 66.0 22.0 199 28-244 1-210 (277)
121 cd06301 PBP1_rhizopine_binding 98.0 0.0015 3.2E-08 64.1 22.5 209 28-253 1-217 (272)
122 cd06310 PBP1_ABC_sugar_binding 98.0 0.0026 5.6E-08 62.3 24.2 208 28-253 1-216 (273)
123 cd06305 PBP1_methylthioribose_ 98.0 0.0017 3.7E-08 63.6 22.2 199 28-244 1-208 (273)
124 cd06309 PBP1_YtfQ_like Peripla 98.0 0.002 4.4E-08 63.1 22.3 210 28-253 1-219 (273)
125 COG4623 Predicted soluble lyti 98.0 9.2E-06 2E-10 78.0 5.2 106 461-579 22-127 (473)
126 cd01545 PBP1_SalR Ligand-bindi 98.0 0.0013 2.9E-08 64.2 20.9 201 28-247 1-207 (270)
127 cd06312 PBP1_ABC_sugar_binding 98.0 0.0028 6.1E-08 62.0 23.1 199 28-244 1-208 (271)
128 PF13407 Peripla_BP_4: Peripla 97.9 0.0014 3E-08 63.6 20.1 201 29-245 1-208 (257)
129 PRK10936 TMAO reductase system 97.9 0.0064 1.4E-07 61.8 25.4 208 24-253 44-262 (343)
130 cd06298 PBP1_CcpA_like Ligand- 97.8 0.0023 4.9E-08 62.5 19.9 202 28-249 1-207 (268)
131 PRK09701 D-allose transporter 97.8 0.023 4.9E-07 56.9 27.2 203 28-244 26-241 (311)
132 cd06289 PBP1_MalI_like Ligand- 97.8 0.0025 5.5E-08 62.1 19.9 205 28-251 1-210 (268)
133 cd06284 PBP1_LacI_like_6 Ligan 97.8 0.0037 8E-08 60.9 21.0 198 29-247 2-204 (267)
134 cd06303 PBP1_LuxPQ_Quorum_Sens 97.7 0.014 3.1E-07 57.4 23.3 212 28-252 1-222 (280)
135 TIGR01481 ccpA catabolite cont 97.7 0.0089 1.9E-07 60.4 21.5 206 24-249 57-266 (329)
136 cd06321 PBP1_ABC_sugar_binding 97.6 0.015 3.3E-07 56.7 22.5 205 28-253 1-213 (271)
137 PF00532 Peripla_BP_1: Peripla 97.6 0.0058 1.3E-07 60.0 19.3 203 28-249 3-211 (279)
138 cd01539 PBP1_GGBP Periplasmic 97.6 0.019 4.2E-07 57.2 23.3 208 28-246 1-228 (303)
139 cd06288 PBP1_sucrose_transcrip 97.6 0.0067 1.5E-07 59.2 19.7 205 28-253 1-211 (269)
140 cd06275 PBP1_PurR Ligand-bindi 97.6 0.01 2.3E-07 57.8 20.9 206 28-252 1-211 (269)
141 PRK15395 methyl-galactoside AB 97.6 0.028 6.2E-07 56.7 24.3 210 22-243 20-249 (330)
142 cd06271 PBP1_AglR_RafR_like Li 97.6 0.01 2.2E-07 57.8 20.6 203 29-252 2-214 (268)
143 cd01540 PBP1_arabinose_binding 97.6 0.02 4.4E-07 56.5 22.7 213 28-252 1-227 (289)
144 cd01575 PBP1_GntR Ligand-bindi 97.6 0.013 2.7E-07 57.2 20.7 205 28-252 1-210 (268)
145 cd06311 PBP1_ABC_sugar_binding 97.6 0.026 5.6E-07 55.3 22.9 203 28-244 1-210 (274)
146 cd01542 PBP1_TreR_like Ligand- 97.6 0.013 2.9E-07 56.7 20.7 200 29-253 2-207 (259)
147 PRK10355 xylF D-xylose transpo 97.6 0.029 6.4E-07 56.6 23.5 203 23-244 22-236 (330)
148 cd06293 PBP1_LacI_like_11 Liga 97.5 0.026 5.7E-07 55.0 21.9 205 28-252 1-210 (269)
149 cd01574 PBP1_LacI Ligand-bindi 97.5 0.031 6.8E-07 54.3 22.3 203 28-252 1-207 (264)
150 cd06285 PBP1_LacI_like_7 Ligan 97.5 0.018 3.9E-07 56.0 20.6 198 28-247 1-203 (265)
151 cd06308 PBP1_sensor_kinase_lik 97.5 0.037 8.1E-07 54.0 22.9 207 28-254 1-216 (270)
152 cd06316 PBP1_ABC_sugar_binding 97.5 0.048 1.1E-06 54.0 23.9 203 28-243 1-210 (294)
153 cd06270 PBP1_GalS_like Ligand 97.5 0.024 5.1E-07 55.3 21.4 202 28-249 1-207 (268)
154 cd06324 PBP1_ABC_sugar_binding 97.5 0.029 6.2E-07 56.0 22.3 208 29-251 2-234 (305)
155 cd06322 PBP1_ABC_sugar_binding 97.5 0.065 1.4E-06 52.1 24.4 195 28-243 1-203 (267)
156 cd06281 PBP1_LacI_like_5 Ligan 97.5 0.011 2.4E-07 57.7 18.8 202 28-250 1-207 (269)
157 cd06283 PBP1_RegR_EndR_KdgR_li 97.5 0.029 6.4E-07 54.5 21.6 205 28-252 1-211 (267)
158 cd06306 PBP1_TorT-like TorT-li 97.4 0.035 7.6E-07 54.2 21.8 194 28-243 1-207 (268)
159 COG1879 RbsB ABC-type sugar tr 97.4 0.079 1.7E-06 53.3 25.0 216 22-252 29-250 (322)
160 PRK10014 DNA-binding transcrip 97.4 0.027 5.8E-07 57.2 21.8 204 24-246 62-270 (342)
161 cd06295 PBP1_CelR Ligand bindi 97.4 0.022 4.8E-07 55.8 20.5 207 26-252 3-219 (275)
162 PRK15408 autoinducer 2-binding 97.4 0.093 2E-06 53.0 25.2 198 28-243 25-233 (336)
163 cd06299 PBP1_LacI_like_13 Liga 97.4 0.022 4.7E-07 55.4 20.2 205 28-252 1-208 (265)
164 cd01538 PBP1_ABC_xylose_bindin 97.4 0.049 1.1E-06 53.8 22.6 199 28-245 1-216 (288)
165 PRK10703 DNA-binding transcrip 97.4 0.026 5.6E-07 57.3 21.1 209 25-252 58-272 (341)
166 cd06278 PBP1_LacI_like_2 Ligan 97.4 0.028 6.1E-07 54.6 20.6 191 28-241 1-196 (266)
167 PRK11303 DNA-binding transcrip 97.4 0.041 8.9E-07 55.5 22.3 205 25-251 60-270 (328)
168 COG1609 PurR Transcriptional r 97.4 0.035 7.7E-07 55.9 21.2 203 23-247 55-265 (333)
169 cd06296 PBP1_CatR_like Ligand- 97.4 0.026 5.7E-07 55.0 19.8 202 28-249 1-208 (270)
170 cd06274 PBP1_FruR Ligand bindi 97.3 0.042 9.1E-07 53.4 21.0 206 28-252 1-211 (264)
171 cd06286 PBP1_CcpB_like Ligand- 97.3 0.027 5.9E-07 54.6 19.3 202 28-251 1-207 (260)
172 PRK10423 transcriptional repre 97.3 0.069 1.5E-06 53.8 22.4 208 24-252 54-268 (327)
173 cd06290 PBP1_LacI_like_9 Ligan 97.3 0.048 1E-06 53.0 20.5 201 28-248 1-205 (265)
174 cd06292 PBP1_LacI_like_10 Liga 97.3 0.064 1.4E-06 52.4 21.4 207 28-252 1-214 (273)
175 TIGR02417 fruct_sucro_rep D-fr 97.2 0.065 1.4E-06 54.0 21.7 204 25-251 59-269 (327)
176 cd06294 PBP1_ycjW_transcriptio 97.2 0.05 1.1E-06 53.0 19.9 200 28-249 1-213 (270)
177 cd06354 PBP1_BmpA_PnrA_like Pe 97.2 0.066 1.4E-06 52.2 20.5 200 28-242 1-206 (265)
178 cd01541 PBP1_AraR Ligand-bindi 97.2 0.056 1.2E-06 52.8 19.9 207 28-252 1-216 (273)
179 cd06318 PBP1_ABC_sugar_binding 97.2 0.14 3.1E-06 50.2 23.0 200 28-244 1-215 (282)
180 PF04392 ABC_sub_bind: ABC tra 97.1 0.032 6.9E-07 55.3 17.8 185 28-228 1-194 (294)
181 cd06280 PBP1_LacI_like_4 Ligan 97.1 0.081 1.8E-06 51.3 20.5 200 28-252 1-205 (263)
182 cd06272 PBP1_hexuronate_repres 97.1 0.059 1.3E-06 52.2 19.3 200 28-252 1-205 (261)
183 cd06313 PBP1_ABC_sugar_binding 97.1 0.11 2.3E-06 50.9 21.2 171 63-243 29-207 (272)
184 cd06291 PBP1_Qymf_like Ligand 97.1 0.079 1.7E-06 51.4 20.2 199 28-251 1-205 (265)
185 cd06307 PBP1_uncharacterized_s 97.1 0.26 5.7E-06 48.1 23.8 201 28-244 1-210 (275)
186 cd06304 PBP1_BmpA_like Peripla 97.1 0.055 1.2E-06 52.5 18.7 199 28-242 1-202 (260)
187 PRK10727 DNA-binding transcrip 97.1 0.1 2.3E-06 52.9 21.4 208 24-252 57-270 (343)
188 TIGR02955 TMAO_TorT TMAO reduc 97.1 0.17 3.7E-06 50.1 22.4 203 28-253 1-215 (295)
189 cd06277 PBP1_LacI_like_1 Ligan 97.1 0.092 2E-06 51.1 20.2 198 29-247 2-205 (268)
190 cd06314 PBP1_tmGBP Periplasmic 97.0 0.33 7.2E-06 47.3 23.9 196 28-244 1-204 (271)
191 cd01543 PBP1_XylR Ligand-bindi 97.0 0.06 1.3E-06 52.4 18.5 196 28-247 1-199 (265)
192 PRK09526 lacI lac repressor; R 97.0 0.2 4.4E-06 50.8 23.0 204 25-252 62-273 (342)
193 cd06302 PBP1_LsrB_Quorum_Sensi 97.0 0.31 6.7E-06 48.4 23.5 199 28-244 1-210 (298)
194 cd06297 PBP1_LacI_like_12 Liga 96.9 0.13 2.9E-06 50.1 20.1 201 28-252 1-213 (269)
195 cd06279 PBP1_LacI_like_3 Ligan 96.8 0.2 4.4E-06 49.2 20.2 198 28-249 1-225 (283)
196 PRK10401 DNA-binding transcrip 96.8 0.25 5.5E-06 50.2 21.3 207 25-252 58-270 (346)
197 PRK09492 treR trehalose repres 96.8 0.31 6.7E-06 48.8 21.6 192 25-243 61-256 (315)
198 PRK11041 DNA-binding transcrip 96.7 0.24 5.3E-06 49.3 20.5 210 23-252 32-246 (309)
199 PRK14987 gluconate operon tran 96.7 0.37 8E-06 48.6 21.6 207 25-252 62-272 (331)
200 TIGR01098 3A0109s03R phosphate 96.4 0.0085 1.8E-07 58.0 7.3 92 461-570 31-131 (254)
201 cd01544 PBP1_GalR Ligand-bindi 96.2 0.59 1.3E-05 45.5 18.9 198 28-252 1-212 (270)
202 cd06353 PBP1_BmpA_Med_like Per 96.2 0.43 9.4E-06 46.1 17.5 198 28-242 1-200 (258)
203 TIGR02405 trehalos_R_Ecol treh 96.1 1.3 2.9E-05 44.1 21.6 191 25-243 58-253 (311)
204 TIGR02634 xylF D-xylose ABC tr 96.1 1.3 2.8E-05 44.1 21.0 171 63-244 28-209 (302)
205 cd06315 PBP1_ABC_sugar_binding 94.9 4.2 9.2E-05 39.7 22.1 204 28-246 2-216 (280)
206 TIGR02637 RhaS rhamnose ABC tr 94.6 5.1 0.00011 39.6 24.5 162 73-244 38-210 (302)
207 PRK00489 hisG ATP phosphoribos 94.4 0.042 9.2E-07 54.0 4.2 51 520-570 51-103 (287)
208 TIGR02990 ectoine_eutA ectoine 93.9 0.7 1.5E-05 43.8 10.9 93 147-242 108-206 (239)
209 cd06287 PBP1_LacI_like_8 Ligan 93.5 7.8 0.00017 37.6 18.9 154 89-252 54-211 (269)
210 COG1744 Med Uncharacterized AB 93.4 6.7 0.00015 39.6 17.7 209 23-243 31-244 (345)
211 PRK10339 DNA-binding transcrip 92.0 15 0.00032 36.9 18.8 149 90-251 113-266 (327)
212 COG4213 XylF ABC-type xylose t 92.0 13 0.00027 36.1 19.5 205 21-244 20-242 (341)
213 PF03808 Glyco_tran_WecB: Glyc 91.9 3.8 8.1E-05 36.7 12.2 99 145-255 35-135 (172)
214 TIGR00035 asp_race aspartate r 91.0 3.3 7.2E-05 39.1 11.6 87 76-191 59-146 (229)
215 PF13377 Peripla_BP_3: Peripla 90.1 1.6 3.4E-05 38.4 8.1 98 151-252 1-101 (160)
216 TIGR03431 PhnD phosphonate ABC 88.8 0.87 1.9E-05 44.9 6.0 67 493-570 48-125 (288)
217 cd06353 PBP1_BmpA_Med_like Per 88.3 2.5 5.4E-05 40.8 8.6 87 27-122 121-207 (258)
218 PRK09860 putative alcohol dehy 87.1 3.7 8E-05 42.3 9.4 87 148-236 20-108 (383)
219 cd06276 PBP1_FucR_like Ligand- 87.0 29 0.00062 33.1 18.6 148 83-251 44-194 (247)
220 COG1454 EutG Alcohol dehydroge 86.6 5 0.00011 40.7 9.8 92 147-240 17-110 (377)
221 PRK10200 putative racemase; Pr 86.3 13 0.00028 35.1 11.9 87 76-191 59-147 (230)
222 PRK15454 ethanol dehydrogenase 85.8 4.5 9.7E-05 41.8 9.3 80 148-229 38-117 (395)
223 cd06533 Glyco_transf_WecG_TagA 85.8 16 0.00034 32.7 11.7 99 144-254 32-132 (171)
224 COG3473 Maleate cis-trans isom 85.4 29 0.00062 31.6 13.5 90 148-240 107-201 (238)
225 cd08190 HOT Hydroxyacid-oxoaci 85.0 5.4 0.00012 41.6 9.5 80 147-228 11-90 (414)
226 PRK10624 L-1,2-propanediol oxi 84.8 5.7 0.00012 40.9 9.6 80 147-228 18-97 (382)
227 cd08192 Fe-ADH7 Iron-containin 84.6 5.9 0.00013 40.6 9.5 88 148-237 13-102 (370)
228 cd08193 HVD 5-hydroxyvalerate 84.0 6.4 0.00014 40.5 9.5 87 148-236 15-103 (376)
229 cd08551 Fe-ADH iron-containing 82.9 8.3 0.00018 39.5 9.8 88 147-236 11-100 (370)
230 PF12683 DUF3798: Protein of u 82.7 46 0.00099 31.8 16.3 208 25-242 1-223 (275)
231 cd08189 Fe-ADH5 Iron-containin 82.1 8.4 0.00018 39.6 9.5 89 147-237 14-104 (374)
232 TIGR02638 lactal_redase lactal 82.0 8.2 0.00018 39.7 9.4 80 147-228 17-96 (379)
233 cd08194 Fe-ADH6 Iron-containin 81.6 9.4 0.0002 39.2 9.6 79 148-228 12-90 (375)
234 KOG3857 Alcohol dehydrogenase, 81.6 12 0.00026 36.7 9.3 96 131-228 38-137 (465)
235 COG1794 RacX Aspartate racemas 81.4 19 0.00041 33.3 10.1 86 76-191 59-146 (230)
236 PF00465 Fe-ADH: Iron-containi 79.8 5.5 0.00012 40.8 7.2 89 148-240 12-102 (366)
237 cd08185 Fe-ADH1 Iron-containin 78.8 13 0.00028 38.3 9.5 85 148-235 15-102 (380)
238 cd08188 Fe-ADH4 Iron-containin 78.0 14 0.00031 37.9 9.6 80 147-228 16-95 (377)
239 cd08181 PPD-like 1,3-propanedi 77.3 16 0.00034 37.3 9.5 79 148-229 15-94 (357)
240 PF02608 Bmp: Basic membrane p 77.2 80 0.0017 31.3 18.5 205 27-243 2-212 (306)
241 PF13685 Fe-ADH_2: Iron-contai 77.0 11 0.00024 36.0 7.7 99 149-254 9-108 (250)
242 COG0078 ArgF Ornithine carbamo 76.5 79 0.0017 30.9 16.4 162 26-224 44-212 (310)
243 cd08176 LPO Lactadehyde:propan 75.9 15 0.00032 37.8 9.0 79 148-228 17-95 (377)
244 TIGR00696 wecB_tagA_cpsF bacte 75.7 58 0.0013 29.2 11.6 86 144-239 34-121 (177)
245 cd08191 HHD 6-hydroxyhexanoate 75.6 19 0.00042 37.1 9.8 86 148-236 12-99 (386)
246 PF13407 Peripla_BP_4: Peripla 75.4 8.1 0.00018 37.0 6.7 78 162-243 1-81 (257)
247 PRK15116 sulfur acceptor prote 75.2 61 0.0013 31.3 12.3 115 39-169 81-208 (268)
248 cd08170 GlyDH Glycerol dehydro 73.9 14 0.00031 37.5 8.3 77 148-229 12-88 (351)
249 PRK07475 hypothetical protein; 73.7 28 0.00061 33.2 9.7 82 76-189 62-146 (245)
250 PRK03692 putative UDP-N-acetyl 73.3 29 0.00062 33.0 9.5 87 145-240 92-179 (243)
251 cd08182 HEPD Hydroxyethylphosp 73.2 22 0.00047 36.4 9.4 85 148-237 12-98 (367)
252 COG1744 Med Uncharacterized AB 73.1 59 0.0013 32.9 12.2 76 25-106 160-235 (345)
253 PF02608 Bmp: Basic membrane p 72.5 18 0.00039 35.9 8.4 88 28-122 128-220 (306)
254 cd00755 YgdL_like Family of ac 71.0 71 0.0015 30.2 11.5 116 38-169 61-182 (231)
255 PRK09756 PTS system N-acetylga 70.9 39 0.00085 29.7 9.1 80 146-236 17-97 (158)
256 cd08186 Fe-ADH8 Iron-containin 70.7 25 0.00054 36.2 9.2 87 148-236 12-104 (383)
257 cd08171 GlyDH-like2 Glycerol d 70.7 22 0.00048 36.0 8.7 84 148-235 12-97 (345)
258 cd07766 DHQ_Fe-ADH Dehydroquin 70.1 28 0.00061 35.0 9.4 87 148-238 12-100 (332)
259 cd08187 BDH Butanol dehydrogen 70.1 26 0.00055 36.1 9.2 78 148-228 18-96 (382)
260 PF06506 PrpR_N: Propionate ca 69.8 83 0.0018 28.2 12.3 128 75-244 17-145 (176)
261 PF01177 Asp_Glu_race: Asp/Glu 69.7 94 0.002 28.7 13.0 121 89-240 63-198 (216)
262 cd00001 PTS_IIB_man PTS_IIB, P 69.5 38 0.00082 29.5 8.7 81 146-236 12-92 (151)
263 TIGR00854 pts-sorbose PTS syst 68.9 41 0.00088 29.3 8.7 81 146-236 13-93 (151)
264 PRK07377 hypothetical protein; 68.1 15 0.00033 32.5 5.8 63 462-541 75-137 (184)
265 PRK00865 glutamate racemase; P 67.6 1.2E+02 0.0026 29.2 12.8 59 61-120 28-96 (261)
266 PRK11425 PTS system N-acetylga 67.1 51 0.0011 28.9 9.0 80 146-236 15-94 (157)
267 PRK09423 gldA glycerol dehydro 66.4 29 0.00063 35.5 8.6 76 148-228 19-94 (366)
268 cd06305 PBP1_methylthioribose_ 65.7 30 0.00065 33.3 8.4 77 162-243 2-81 (273)
269 PF13380 CoA_binding_2: CoA bi 65.4 9.6 0.00021 31.5 4.0 86 160-254 1-88 (116)
270 cd08183 Fe-ADH2 Iron-containin 65.3 39 0.00084 34.7 9.3 81 148-235 12-94 (374)
271 TIGR00315 cdhB CO dehydrogenas 65.2 69 0.0015 28.2 9.4 46 85-130 21-70 (162)
272 PF07302 AroM: AroM protein; 64.5 65 0.0014 30.0 9.5 75 160-240 126-202 (221)
273 PRK00945 acetyl-CoA decarbonyl 63.9 60 0.0013 28.9 8.8 48 83-130 26-78 (171)
274 cd01537 PBP1_Repressors_Sugar_ 63.1 25 0.00054 33.4 7.3 76 162-242 2-79 (264)
275 TIGR02122 TRAP_TAXI TRAP trans 62.9 15 0.00033 36.6 5.8 71 492-570 48-131 (320)
276 cd06301 PBP1_rhizopine_binding 62.1 31 0.00068 33.2 7.8 78 161-243 1-82 (272)
277 PF00625 Guanylate_kin: Guanyl 61.9 73 0.0016 28.6 9.6 127 91-239 3-133 (183)
278 cd02071 MM_CoA_mut_B12_BD meth 61.7 77 0.0017 26.3 8.9 68 168-243 8-79 (122)
279 cd06267 PBP1_LacI_sugar_bindin 61.2 35 0.00075 32.4 7.9 76 162-243 2-79 (264)
280 PF03830 PTSIIB_sorb: PTS syst 60.6 21 0.00047 31.0 5.5 82 147-238 14-95 (151)
281 cd08550 GlyDH-like Glycerol_de 60.5 44 0.00095 33.9 8.6 76 148-228 12-87 (349)
282 cd06312 PBP1_ABC_sugar_binding 60.4 37 0.0008 32.7 7.9 79 161-243 1-83 (271)
283 TIGR00067 glut_race glutamate 60.3 1.3E+02 0.0029 28.7 11.4 36 85-120 54-90 (251)
284 cd08175 G1PDH Glycerol-1-phosp 59.4 48 0.001 33.6 8.7 86 148-235 12-99 (348)
285 cd06304 PBP1_BmpA_like Peripla 59.3 1.4E+02 0.003 28.5 11.7 129 25-162 119-247 (260)
286 COG1464 NlpA ABC-type metal io 58.5 30 0.00066 33.0 6.3 47 25-82 29-75 (268)
287 KOG0025 Zn2+-binding dehydroge 57.9 60 0.0013 31.4 8.1 94 134-242 162-257 (354)
288 cd06306 PBP1_TorT-like TorT-li 57.3 43 0.00094 32.2 7.8 80 161-243 1-82 (268)
289 COG1179 Dinucleotide-utilizing 57.3 71 0.0015 30.1 8.3 87 38-140 80-167 (263)
290 PRK03515 ornithine carbamoyltr 57.0 2.2E+02 0.0048 28.7 16.2 134 27-193 46-187 (336)
291 cd01536 PBP1_ABC_sugar_binding 56.7 50 0.0011 31.4 8.1 77 161-242 1-80 (267)
292 cd06289 PBP1_MalI_like Ligand- 56.6 50 0.0011 31.5 8.1 77 162-243 2-80 (268)
293 PRK00002 aroB 3-dehydroquinate 56.5 1.3E+02 0.0028 30.6 11.3 93 148-242 20-118 (358)
294 PRK15408 autoinducer 2-binding 56.1 60 0.0013 32.7 8.7 82 158-243 22-106 (336)
295 cd06310 PBP1_ABC_sugar_binding 55.5 50 0.0011 31.7 7.9 79 161-242 1-82 (273)
296 cd01538 PBP1_ABC_xylose_bindin 54.9 66 0.0014 31.3 8.7 77 162-243 2-81 (288)
297 cd08177 MAR Maleylacetate redu 54.7 43 0.00092 33.8 7.3 85 147-236 11-97 (337)
298 cd08178 AAD_C C-terminal alcoh 54.6 60 0.0013 33.6 8.6 78 157-236 19-98 (398)
299 cd01545 PBP1_SalR Ligand-bindi 54.3 60 0.0013 31.1 8.2 77 162-242 2-80 (270)
300 PRK11553 alkanesulfonate trans 54.0 20 0.00044 35.6 4.9 67 495-570 46-119 (314)
301 COG0563 Adk Adenylate kinase a 53.9 32 0.00069 31.0 5.6 29 93-121 3-31 (178)
302 cd06282 PBP1_GntR_like_2 Ligan 53.5 58 0.0013 31.0 8.0 77 162-243 2-80 (266)
303 TIGR02667 moaB_proteo molybden 52.6 98 0.0021 27.4 8.4 77 159-239 4-89 (163)
304 PF13379 NMT1_2: NMT1-like fam 51.8 31 0.00068 33.0 5.7 88 461-569 5-99 (252)
305 cd01391 Periplasmic_Binding_Pr 51.7 62 0.0013 30.4 7.9 78 161-243 1-83 (269)
306 cd08415 PBP2_LysR_opines_like 51.7 92 0.002 27.4 8.6 69 489-569 13-81 (196)
307 cd06277 PBP1_LacI_like_1 Ligan 51.6 76 0.0016 30.4 8.5 74 162-242 2-80 (268)
308 cd06299 PBP1_LacI_like_13 Liga 51.4 74 0.0016 30.3 8.3 76 162-243 2-79 (265)
309 PRK14805 ornithine carbamoyltr 51.1 2.6E+02 0.0056 27.7 15.9 133 27-193 39-177 (302)
310 TIGR02370 pyl_corrinoid methyl 50.8 1.5E+02 0.0033 27.1 9.7 85 161-253 86-174 (197)
311 PRK00856 pyrB aspartate carbam 50.2 2.7E+02 0.0058 27.6 12.8 136 26-192 45-187 (305)
312 PRK11063 metQ DL-methionine tr 50.1 32 0.00069 33.4 5.4 57 23-96 29-85 (271)
313 PF00205 TPP_enzyme_M: Thiamin 49.9 19 0.0004 30.7 3.4 56 82-138 2-61 (137)
314 TIGR00249 sixA phosphohistidin 49.7 1.1E+02 0.0023 26.7 8.2 95 140-239 24-120 (152)
315 cd08468 PBP2_Pa0477 The C-term 49.7 85 0.0018 28.1 8.1 72 489-569 13-84 (202)
316 cd06303 PBP1_LuxPQ_Quorum_Sens 49.7 61 0.0013 31.4 7.5 80 162-242 2-84 (280)
317 PRK15424 propionate catabolism 49.6 3.7E+02 0.0081 29.1 13.8 128 76-245 48-176 (538)
318 cd06302 PBP1_LsrB_Quorum_Sensi 49.4 74 0.0016 31.2 8.1 78 162-243 2-82 (298)
319 cd08486 PBP2_CbnR The C-termin 49.3 58 0.0013 29.2 6.9 68 489-568 14-81 (198)
320 cd06322 PBP1_ABC_sugar_binding 49.1 79 0.0017 30.2 8.2 77 162-243 2-81 (267)
321 COG4126 Hydantoin racemase [Am 48.8 2.3E+02 0.0049 26.4 13.8 45 75-121 49-97 (230)
322 cd01994 Alpha_ANH_like_IV This 48.7 2.1E+02 0.0046 26.1 11.6 102 103-228 46-147 (194)
323 COG1880 CdhB CO dehydrogenase/ 48.7 1.8E+02 0.0039 25.3 10.2 121 85-214 29-167 (170)
324 cd06316 PBP1_ABC_sugar_binding 48.7 67 0.0014 31.4 7.6 79 161-243 1-82 (294)
325 cd08412 PBP2_PAO1_like The C-t 48.2 94 0.002 27.5 8.1 69 489-569 13-81 (198)
326 PRK09189 uroporphyrinogen-III 47.9 84 0.0018 29.8 7.9 86 146-239 103-190 (240)
327 PRK15395 methyl-galactoside AB 47.6 2.2E+02 0.0048 28.4 11.3 124 24-156 160-293 (330)
328 cd08180 PDD 1,3-propanediol de 47.5 62 0.0013 32.6 7.2 71 155-228 18-88 (332)
329 CHL00073 chlN photochlorophyll 47.5 87 0.0019 32.9 8.3 140 92-244 195-339 (457)
330 PRK11242 DNA-binding transcrip 47.4 91 0.002 30.4 8.4 82 462-569 91-172 (296)
331 cd01540 PBP1_arabinose_binding 47.2 67 0.0015 31.2 7.4 76 162-243 2-80 (289)
332 cd08425 PBP2_CynR The C-termin 47.2 1.2E+02 0.0026 26.8 8.7 69 489-569 14-82 (197)
333 cd06300 PBP1_ABC_sugar_binding 47.0 92 0.002 29.8 8.3 80 161-243 1-86 (272)
334 cd00423 Pterin_binding Pterin 46.8 2.5E+02 0.0055 26.9 11.0 19 148-167 110-128 (258)
335 cd05466 PBP2_LTTR_substrate Th 46.7 72 0.0016 27.8 7.1 70 489-570 13-82 (197)
336 cd00886 MogA_MoaB MogA_MoaB fa 45.4 1.3E+02 0.0029 26.0 8.1 64 161-228 2-71 (152)
337 cd08197 DOIS 2-deoxy-scyllo-in 45.3 2.6E+02 0.0057 28.4 11.2 102 148-254 12-119 (355)
338 cd08179 NADPH_BDH NADPH-depend 45.2 62 0.0013 33.2 6.9 71 156-228 20-91 (375)
339 PRK15088 PTS system mannose-sp 45.0 1.4E+02 0.0031 29.8 9.1 81 146-236 176-256 (322)
340 cd08549 G1PDH_related Glycerol 44.9 1E+02 0.0022 31.0 8.2 85 148-236 12-100 (332)
341 cd01539 PBP1_GGBP Periplasmic 44.7 1.1E+02 0.0023 30.2 8.4 78 161-243 1-83 (303)
342 cd06281 PBP1_LacI_like_5 Ligan 44.5 1.1E+02 0.0025 29.2 8.4 76 162-242 2-79 (269)
343 cd06323 PBP1_ribose_binding Pe 44.2 1E+02 0.0022 29.4 8.0 76 162-242 2-80 (268)
344 cd06318 PBP1_ABC_sugar_binding 43.8 92 0.002 30.0 7.7 77 162-243 2-81 (282)
345 cd03364 TOPRIM_DnaG_primases T 43.8 59 0.0013 24.5 4.9 41 150-191 35-75 (79)
346 cd06317 PBP1_ABC_sugar_binding 43.7 98 0.0021 29.6 7.9 77 162-243 2-82 (275)
347 cd02067 B12-binding B12 bindin 43.2 1.7E+02 0.0037 23.9 8.2 66 169-242 9-78 (119)
348 PRK13805 bifunctional acetalde 43.2 2.5E+02 0.0054 32.6 12.0 76 158-235 479-558 (862)
349 cd06295 PBP1_CelR Ligand bindi 43.1 1.3E+02 0.0029 28.8 8.7 77 159-243 3-88 (275)
350 PRK09701 D-allose transporter 43.1 1.3E+02 0.0028 29.8 8.7 84 157-243 22-108 (311)
351 PF00448 SRP54: SRP54-type pro 43.0 2.6E+02 0.0057 25.5 10.3 65 159-228 29-93 (196)
352 cd08173 Gro1PDH Sn-glycerol-1- 42.8 1.3E+02 0.0029 30.3 8.8 81 149-235 14-97 (339)
353 cd06270 PBP1_GalS_like Ligand 42.5 1.2E+02 0.0026 28.9 8.3 75 162-242 2-78 (268)
354 cd06319 PBP1_ABC_sugar_binding 42.5 1E+02 0.0022 29.6 7.8 76 162-242 2-80 (277)
355 PRK00779 ornithine carbamoyltr 42.4 3.5E+02 0.0076 26.8 13.5 134 26-193 43-182 (304)
356 cd06167 LabA_like LabA_like pr 42.3 2.2E+02 0.0047 24.3 11.4 93 149-242 28-123 (149)
357 cd01972 Nitrogenase_VnfE_like 42.0 1.1E+02 0.0024 32.1 8.2 147 91-245 162-320 (426)
358 COG1638 DctP TRAP-type C4-dica 42.0 97 0.0021 31.1 7.5 60 26-95 29-88 (332)
359 PRK11303 DNA-binding transcrip 42.0 1.6E+02 0.0035 29.2 9.4 80 158-242 60-141 (328)
360 PRK10355 xylF D-xylose transpo 41.8 1.4E+02 0.0031 29.8 8.9 79 159-242 25-106 (330)
361 cd01574 PBP1_LacI Ligand-bindi 41.6 1.5E+02 0.0032 28.2 8.7 76 162-242 2-79 (264)
362 cd00758 MoCF_BD MoCF_BD: molyb 41.6 1.2E+02 0.0027 25.5 7.1 49 175-228 20-68 (133)
363 PRK10014 DNA-binding transcrip 41.3 1.4E+02 0.0031 29.8 8.9 78 160-242 65-144 (342)
364 cd06320 PBP1_allose_binding Pe 41.0 1.1E+02 0.0025 29.2 7.9 80 161-243 1-83 (275)
365 PF02310 B12-binding: B12 bind 41.0 1.4E+02 0.003 24.4 7.3 45 174-226 15-59 (121)
366 TIGR01729 taurine_ABC_bnd taur 40.9 46 0.00099 32.8 5.1 65 497-569 20-89 (300)
367 TIGR01744 XPRTase xanthine pho 40.6 89 0.0019 28.5 6.4 69 51-120 5-78 (191)
368 PRK10936 TMAO reductase system 40.5 1.3E+02 0.0029 30.2 8.5 80 160-243 47-129 (343)
369 TIGR00290 MJ0570_dom MJ0570-re 40.4 3.2E+02 0.0068 25.7 10.0 97 105-228 48-144 (223)
370 cd01324 cbb3_Oxidase_CcoQ Cyto 40.1 37 0.00081 22.9 2.8 25 585-609 12-36 (48)
371 PRK13054 lipid kinase; Reviewe 40.1 1.9E+02 0.0041 28.6 9.2 75 160-240 4-78 (300)
372 PRK10653 D-ribose transporter 39.9 1.4E+02 0.0031 29.0 8.5 80 159-243 26-108 (295)
373 COG0134 TrpC Indole-3-glycerol 39.9 88 0.0019 29.8 6.3 87 148-244 69-158 (254)
374 cd06273 PBP1_GntR_like_1 This 39.8 1.5E+02 0.0033 28.2 8.5 75 162-242 2-78 (268)
375 TIGR00177 molyb_syn molybdenum 39.8 1.6E+02 0.0035 25.3 7.6 49 175-228 28-76 (144)
376 cd06296 PBP1_CatR_like Ligand- 39.6 1.4E+02 0.003 28.5 8.2 75 162-242 2-78 (270)
377 cd08184 Fe-ADH3 Iron-containin 39.5 1.9E+02 0.0041 29.3 9.2 75 148-228 12-91 (347)
378 cd06278 PBP1_LacI_like_2 Ligan 39.5 1.4E+02 0.003 28.3 8.2 75 162-243 2-78 (266)
379 PF00072 Response_reg: Respons 39.2 1.9E+02 0.0041 22.8 8.0 57 175-242 10-69 (112)
380 PLN02821 1-hydroxy-2-methyl-2- 39.1 1.3E+02 0.0029 31.3 7.8 57 64-120 334-393 (460)
381 TIGR02634 xylF D-xylose ABC tr 39.0 1.1E+02 0.0024 30.1 7.5 71 168-243 9-80 (302)
382 cd06315 PBP1_ABC_sugar_binding 39.0 1.9E+02 0.0041 27.9 9.1 79 160-243 1-82 (280)
383 PF13396 PLDc_N: Phospholipase 38.7 29 0.00064 22.9 2.3 29 579-607 17-45 (46)
384 PF00731 AIRC: AIR carboxylase 38.7 2.7E+02 0.0057 24.3 8.6 73 161-237 2-74 (150)
385 TIGR02329 propionate_PrpR prop 38.6 5.4E+02 0.012 27.8 13.8 134 75-253 37-171 (526)
386 PRK01713 ornithine carbamoyltr 38.5 4.3E+02 0.0093 26.6 16.5 133 27-192 47-186 (334)
387 COG1922 WecG Teichoic acid bio 38.3 2E+02 0.0042 27.5 8.3 96 145-254 95-194 (253)
388 cd06321 PBP1_ABC_sugar_binding 38.3 1.6E+02 0.0034 28.2 8.3 76 162-242 2-82 (271)
389 cd08445 PBP2_BenM_CatM_CatR Th 38.3 1.2E+02 0.0025 27.2 7.1 68 489-568 14-81 (203)
390 TIGR02637 RhaS rhamnose ABC tr 38.2 1.3E+02 0.0028 29.4 7.9 71 169-243 10-82 (302)
391 COG2247 LytB Putative cell wal 38.2 4.1E+02 0.0089 26.3 13.5 120 93-243 30-155 (337)
392 PF08194 DIM: DIM protein; In 38.1 27 0.00059 21.8 1.7 10 22-31 21-30 (36)
393 CHL00180 rbcR LysR transcripti 37.8 1.5E+02 0.0033 29.1 8.3 85 462-569 95-179 (305)
394 PRK10481 hypothetical protein; 37.6 2.4E+02 0.0052 26.4 8.8 68 158-231 128-195 (224)
395 cd06309 PBP1_YtfQ_like Peripla 37.6 1.1E+02 0.0023 29.4 7.0 71 168-243 10-81 (273)
396 PRK12562 ornithine carbamoyltr 37.5 4.4E+02 0.0096 26.5 16.6 133 27-192 46-186 (334)
397 PHA02650 hypothetical protein; 37.5 63 0.0014 24.1 3.8 29 580-608 45-73 (81)
398 cd08421 PBP2_LTTR_like_1 The C 37.5 1.5E+02 0.0032 26.1 7.7 68 490-569 14-81 (198)
399 PF03466 LysR_substrate: LysR 37.3 1.2E+02 0.0025 27.2 7.0 70 489-570 19-88 (209)
400 cd01542 PBP1_TreR_like Ligand- 37.3 1.4E+02 0.0031 28.2 7.8 75 162-242 2-78 (259)
401 cd08195 DHQS Dehydroquinate sy 36.9 4.4E+02 0.0095 26.6 11.5 91 150-242 14-111 (345)
402 PRK13010 purU formyltetrahydro 36.8 4.2E+02 0.0091 26.0 14.2 92 91-188 10-119 (289)
403 cd06324 PBP1_ABC_sugar_binding 36.8 1.3E+02 0.0027 29.7 7.5 77 162-243 2-83 (305)
404 cd08169 DHQ-like Dehydroquinat 36.6 3.5E+02 0.0076 27.3 10.6 100 148-253 12-117 (344)
405 TIGR00640 acid_CoA_mut_C methy 36.6 2.5E+02 0.0055 23.7 8.1 62 174-243 17-82 (132)
406 cd06274 PBP1_FruR Ligand bindi 36.4 1.6E+02 0.0034 28.0 8.0 75 162-242 2-78 (264)
407 TIGR03884 sel_bind_Methan sele 36.4 1E+02 0.0022 22.9 4.7 43 61-103 9-54 (74)
408 cd01575 PBP1_GntR Ligand-bindi 36.3 1.5E+02 0.0033 28.1 7.9 75 162-242 2-78 (268)
409 PRK00843 egsA NAD(P)-dependent 36.2 1.7E+02 0.0038 29.6 8.4 82 148-235 22-106 (350)
410 PF08357 SEFIR: SEFIR domain; 36.1 77 0.0017 27.3 5.2 35 160-194 1-37 (150)
411 PRK07239 bifunctional uroporph 35.9 2.9E+02 0.0062 28.4 10.2 96 146-242 127-224 (381)
412 cd06285 PBP1_LacI_like_7 Ligan 35.8 1.8E+02 0.0039 27.6 8.3 75 162-242 2-78 (265)
413 PF13362 Toprim_3: Toprim doma 35.8 1.2E+02 0.0025 23.8 5.7 52 157-213 39-92 (96)
414 PF02401 LYTB: LytB protein; 35.7 88 0.0019 30.5 5.8 53 69-121 187-241 (281)
415 PF12974 Phosphonate-bd: ABC t 35.2 54 0.0012 31.1 4.4 41 493-541 18-58 (243)
416 COG0796 MurI Glutamate racemas 34.8 2.9E+02 0.0063 26.7 8.9 60 61-121 28-97 (269)
417 cd06314 PBP1_tmGBP Periplasmic 34.6 1.4E+02 0.0031 28.5 7.4 75 162-240 2-78 (271)
418 cd03522 MoeA_like MoeA_like. T 34.6 2.4E+02 0.0053 28.0 8.8 78 157-238 157-240 (312)
419 cd06283 PBP1_RegR_EndR_KdgR_li 34.6 1.9E+02 0.0042 27.3 8.3 75 162-242 2-78 (267)
420 PRK12680 transcriptional regul 34.5 1.8E+02 0.0039 29.1 8.2 84 461-569 92-175 (327)
421 COG2984 ABC-type uncharacteriz 34.4 2.8E+02 0.0061 27.5 8.8 54 63-120 188-244 (322)
422 PRK04284 ornithine carbamoyltr 34.2 5E+02 0.011 26.1 16.7 134 27-193 46-186 (332)
423 cd06292 PBP1_LacI_like_10 Liga 34.2 1.9E+02 0.0042 27.5 8.3 77 162-243 2-84 (273)
424 TIGR02417 fruct_sucro_rep D-fr 34.2 2.6E+02 0.0056 27.7 9.4 79 159-242 60-140 (327)
425 COG1058 CinA Predicted nucleot 34.2 1.1E+02 0.0025 29.1 6.1 48 174-226 21-68 (255)
426 PF04273 DUF442: Putative phos 34.0 2.6E+02 0.0056 22.8 9.3 82 153-236 22-104 (110)
427 cd08429 PBP2_NhaR The C-termin 33.9 1.7E+02 0.0038 26.3 7.6 70 489-567 13-82 (204)
428 cd06271 PBP1_AglR_RafR_like Li 33.9 1.7E+02 0.0037 27.7 7.8 75 162-242 2-82 (268)
429 cd06307 PBP1_uncharacterized_s 33.6 1.6E+02 0.0035 28.2 7.6 80 161-243 1-84 (275)
430 cd08448 PBP2_LTTR_aromatics_li 33.5 2.1E+02 0.0046 25.0 8.0 69 489-569 13-81 (197)
431 PRK05752 uroporphyrinogen-III 33.4 1.7E+02 0.0037 28.0 7.6 86 145-238 111-201 (255)
432 PF10661 EssA: WXG100 protein 33.3 46 0.00099 28.7 3.1 58 546-607 85-142 (145)
433 PF01902 ATP_bind_4: ATP-bindi 33.3 1.7E+02 0.0037 27.3 7.1 70 147-227 74-143 (218)
434 PF00218 IGPS: Indole-3-glycer 33.2 4.2E+02 0.009 25.5 9.8 88 147-244 70-160 (254)
435 PRK13808 adenylate kinase; Pro 33.1 2E+02 0.0043 28.9 8.0 29 93-121 3-31 (333)
436 PRK01215 competence damage-ind 33.0 4.5E+02 0.0097 25.4 10.2 64 160-228 4-72 (264)
437 PRK00278 trpC indole-3-glycero 33.0 3.6E+02 0.0077 26.0 9.6 87 148-244 73-162 (260)
438 PF00532 Peripla_BP_1: Peripla 33.0 1.1E+02 0.0023 29.9 6.2 65 160-230 2-68 (279)
439 cd08453 PBP2_IlvR The C-termin 33.0 2.1E+02 0.0046 25.2 7.9 72 489-569 13-84 (200)
440 cd08451 PBP2_BudR The C-termin 33.0 1.7E+02 0.0036 25.8 7.3 69 490-569 15-83 (199)
441 PRK10386 curli assembly protei 32.9 1.2E+02 0.0027 25.4 5.4 47 1-48 1-49 (130)
442 cd08446 PBP2_Chlorocatechol Th 32.7 1.7E+02 0.0037 25.8 7.2 69 489-569 14-82 (198)
443 TIGR01357 aroB 3-dehydroquinat 32.6 4.2E+02 0.009 26.7 10.5 89 150-242 13-107 (344)
444 PF14503 YhfZ_C: YhfZ C-termin 32.6 41 0.00088 31.6 2.9 94 484-586 23-126 (232)
445 PLN02342 ornithine carbamoyltr 32.2 5.5E+02 0.012 26.0 13.0 132 28-193 87-224 (348)
446 cd06354 PBP1_BmpA_PnrA_like Pe 31.9 4.6E+02 0.0099 25.0 13.6 125 25-155 120-244 (265)
447 cd08443 PBP2_CysB The C-termin 31.9 3.4E+02 0.0073 24.0 9.1 70 489-569 13-82 (198)
448 cd08485 PBP2_ClcR The C-termin 31.7 2.2E+02 0.0048 25.3 7.8 68 489-568 14-81 (198)
449 cd08465 PBP2_ToxR The C-termin 31.5 1.9E+02 0.0041 25.8 7.3 69 489-569 13-81 (200)
450 PRK05928 hemD uroporphyrinogen 31.5 2.3E+02 0.005 26.7 8.2 77 158-242 124-200 (249)
451 cd08452 PBP2_AlsR The C-termin 31.5 2.5E+02 0.0054 24.8 8.2 68 490-569 14-81 (197)
452 cd06313 PBP1_ABC_sugar_binding 31.5 1.8E+02 0.0038 28.0 7.4 70 169-243 11-81 (272)
453 cd00885 cinA Competence-damage 31.3 3.8E+02 0.0082 23.8 8.8 46 176-226 21-66 (170)
454 TIGR03316 ygeW probable carbam 31.0 5.8E+02 0.013 25.9 17.6 138 28-193 44-207 (357)
455 PF05393 Hum_adeno_E3A: Human 30.9 66 0.0014 24.6 3.1 23 585-607 34-56 (94)
456 cd06578 HemD Uroporphyrinogen- 30.8 3.2E+02 0.0068 25.4 9.0 88 145-241 106-195 (239)
457 TIGR00670 asp_carb_tr aspartat 30.8 5.4E+02 0.012 25.5 14.0 136 27-193 40-182 (301)
458 cd06298 PBP1_CcpA_like Ligand- 30.7 2.3E+02 0.0049 26.9 8.1 75 162-242 2-78 (268)
459 cd08466 PBP2_LeuO The C-termin 30.7 2.2E+02 0.0047 25.1 7.6 69 489-569 13-81 (200)
460 PRK02842 light-independent pro 30.7 3.1E+02 0.0067 28.7 9.4 142 91-244 167-316 (427)
461 KOG2792 Putative cytochrome C 30.7 1E+02 0.0022 29.2 5.0 68 42-116 157-224 (280)
462 cd02070 corrinoid_protein_B12- 30.6 4.2E+02 0.0092 24.2 10.3 75 160-242 83-161 (201)
463 cd08440 PBP2_LTTR_like_4 TThe 30.6 2.2E+02 0.0047 24.8 7.5 69 489-569 13-81 (197)
464 cd02069 methionine_synthase_B1 30.5 4.5E+02 0.0097 24.4 9.5 85 160-254 89-177 (213)
465 TIGR03702 lip_kinase_YegS lipi 30.4 3.1E+02 0.0067 26.9 9.0 73 162-240 2-74 (293)
466 PRK11914 diacylglycerol kinase 30.4 3.3E+02 0.0071 26.9 9.2 76 158-239 7-85 (306)
467 cd08172 GlyDH-like1 Glycerol d 30.3 2E+02 0.0043 29.1 7.7 82 148-236 13-96 (347)
468 PRK01045 ispH 4-hydroxy-3-meth 30.3 78 0.0017 31.1 4.5 51 70-120 189-241 (298)
469 PF01936 NYN: NYN domain; Int 30.3 2.3E+02 0.005 23.9 7.3 99 147-253 22-126 (146)
470 cd08434 PBP2_GltC_like The sub 30.3 2E+02 0.0044 25.0 7.3 69 489-569 13-81 (195)
471 PF13607 Succ_CoA_lig: Succiny 29.7 3.6E+02 0.0077 23.0 8.1 76 162-244 4-81 (138)
472 PRK12360 4-hydroxy-3-methylbut 29.7 76 0.0016 30.9 4.3 50 70-119 188-239 (281)
473 cd01569 PBEF_like pre-B-cell c 29.6 6.1E+02 0.013 26.3 10.7 101 145-250 239-359 (407)
474 PF02310 B12-binding: B12 bind 29.6 3.1E+02 0.0067 22.3 10.5 71 147-227 17-88 (121)
475 cd06291 PBP1_Qymf_like Ligand 29.4 4.9E+02 0.011 24.5 11.2 120 27-155 113-240 (265)
476 PRK14804 ornithine carbamoyltr 29.4 5.8E+02 0.013 25.4 14.6 132 27-193 44-183 (311)
477 PRK02261 methylaspartate mutas 29.3 3.6E+02 0.0078 23.0 9.9 85 161-254 5-93 (137)
478 PRK15138 aldehyde reductase; P 29.2 2.5E+02 0.0055 28.9 8.3 75 148-228 20-95 (387)
479 PF13155 Toprim_2: Toprim-like 29.2 74 0.0016 24.9 3.6 41 147-187 35-75 (96)
480 cd08413 PBP2_CysB_like The C-t 29.2 2.4E+02 0.0052 25.0 7.6 70 489-569 13-82 (198)
481 cd08463 PBP2_DntR_like_4 The C 29.0 1.9E+02 0.0042 25.9 7.0 70 489-569 13-82 (203)
482 cd08438 PBP2_CidR The C-termin 28.9 2.1E+02 0.0045 25.0 7.1 69 489-569 13-81 (197)
483 PF13671 AAA_33: AAA domain; P 28.9 58 0.0013 27.6 3.2 30 92-121 1-30 (143)
484 cd06268 PBP1_ABC_transporter_L 28.8 3.2E+02 0.007 26.0 9.0 79 162-243 2-91 (298)
485 PRK14987 gluconate operon tran 28.7 4.2E+02 0.0091 26.2 9.9 78 160-243 64-143 (331)
486 cd08442 PBP2_YofA_SoxR_like Th 28.7 2.7E+02 0.0059 24.2 7.8 69 489-569 13-81 (193)
487 cd08430 PBP2_IlvY The C-termin 28.6 2.5E+02 0.0054 24.6 7.6 69 489-568 13-81 (199)
488 PRK13337 putative lipid kinase 28.5 3.8E+02 0.0082 26.4 9.3 74 160-240 2-79 (304)
489 cd03770 SR_TndX_transposase Se 28.4 3.7E+02 0.008 22.8 10.3 22 204-225 54-75 (140)
490 COG1587 HemD Uroporphyrinogen- 28.3 3.2E+02 0.007 26.0 8.4 91 144-242 106-198 (248)
491 PRK11070 ssDNA exonuclease Rec 28.2 3.9E+02 0.0084 29.3 9.7 95 148-244 57-153 (575)
492 TIGR00216 ispH_lytB (E)-4-hydr 28.1 81 0.0017 30.7 4.2 51 70-120 187-239 (280)
493 cd08456 PBP2_LysR The C-termin 28.1 2.2E+02 0.0048 24.9 7.2 68 489-568 13-80 (196)
494 TIGR00147 lipid kinase, YegS/R 27.8 3.6E+02 0.0078 26.3 9.0 75 160-240 2-79 (293)
495 cd01541 PBP1_AraR Ligand-bindi 27.7 3E+02 0.0065 26.2 8.4 76 162-242 2-83 (273)
496 cd00338 Ser_Recombinase Serine 27.6 3.6E+02 0.0078 22.4 10.6 25 142-166 15-39 (137)
497 PF02602 HEM4: Uroporphyrinoge 27.5 1.2E+02 0.0025 28.4 5.3 102 144-254 101-203 (231)
498 PF13207 AAA_17: AAA domain; P 27.5 55 0.0012 26.8 2.7 32 92-123 1-32 (121)
499 PF00070 Pyr_redox: Pyridine n 27.3 2.2E+02 0.0047 21.2 5.8 49 147-196 11-63 (80)
500 cd08462 PBP2_NodD The C-termin 27.2 2E+02 0.0043 25.6 6.6 66 490-568 14-79 (200)
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=5.1e-65 Score=494.10 Aligned_cols=536 Identities=17% Similarity=0.291 Sum_probs=431.7
Q ss_pred CCCceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCC-CcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCC
Q 006918 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLG-GRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQ 99 (625)
Q Consensus 22 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~-g~~l~~~~~D~~-~~~~~a~~~~~~l~~~~v~aviG~~ 99 (625)
+.+..|.||++||.+.. +...|+++|+...|....--+ -.+|.+++.... .++...+.++|+.+++||.||+|-+
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 46789999999999763 667899999988876432110 134444443222 4778888999999999999999999
Q ss_pred ChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHH
Q 006918 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTAL 179 (625)
Q Consensus 100 ~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l 179 (625)
.-.....+..+|+..++|.|+++. | ++...++..++.|+ +..++++++.||+|.++.++| |.+.|...++.+
T Consensus 99 d~ks~~~ltsfc~aLh~~~vtpsf--p--~~~~~~Fviq~RP~---l~~al~s~i~hy~W~~fv~ly-D~~rg~s~Lqai 170 (897)
T KOG1054|consen 99 DKKSVNTLTSFCGALHVSFVTPSF--P--TDGDNQFVIQMRPA---LKGALLSLIDHYKWEKFVYLY-DTDRGLSILQAI 170 (897)
T ss_pred cccchhhhhhhccceeeeeecccC--C--cCCCceEEEEeCch---HHHHHHHHHHhcccceEEEEE-cccchHHHHHHH
Confidence 999999999999999999998644 2 22334667788876 458999999999999999999 566788899999
Q ss_pred HHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhc
Q 006918 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTF 259 (625)
Q Consensus 180 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 259 (625)
.+.+.++++.|...-.-.+ .+...++.+++.+...+.+.+++.|..+....++.++.+.+-...+|+|++.+.....
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 MEAAAQNNWQVTAINVGNI---NDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFTD 247 (897)
T ss_pred HHHHHhcCceEEEEEcCCc---ccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCch
Confidence 9999999999986543322 3566699999999988899999999999999999999998888899999999866544
Q ss_pred ccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcC------CCCCCCchhhhHhHHHHHHHHHHHHHHhcCC
Q 006918 260 IDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSN------GSIGLNPYGLYAYDTVWMIARALKLFLDQGN 333 (625)
Q Consensus 260 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~ 333 (625)
.+. ..+.....++.+++....+.|-.++|.++|++... ...++...++..|||+.++++|+..+.++..
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 444 34556667899999999999999999999987543 2245667789999999999999999887754
Q ss_pred cccccCCCccCCCCCCccccC--cccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEe
Q 006918 334 TISFSNDTKLNGLGGGTLNLG--ALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYW 411 (625)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~~c~--~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w 411 (625)
+... -|...+|. +..+|..|..+-++|++++++|+||+|.||..|.|.+.+.+|+++..++- .++|.|
T Consensus 323 ~~~r---------RG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~-rk~~~W 392 (897)
T KOG1054|consen 323 DISR---------RGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGS-RKVGYW 392 (897)
T ss_pred chhc---------cCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCc-ceeeee
Confidence 3211 12222453 35689999999999999999999999999999999999999999998887 999999
Q ss_pred eCCCCCcccCcccccCCCCCCCCCCCccceeEeCCCCCCCCcceecCCCCceEEEEecCCCCccccEEe---eCCcceee
Q 006918 412 SNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFK---VNGTDIVH 488 (625)
Q Consensus 412 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~W~~~~~~~P~~~~~~~~~~~l~v~~~~~~~~~~~~~~---~~~~~~~~ 488 (625)
+...++....... +. +..+ . ...++++.|.+..+.||..+... ..|+++++
T Consensus 393 ~e~~~fv~~~t~a-------------~~-------~~d~--~----~~~n~tvvvttiL~spyvm~kkn~~~~egn~ryE 446 (897)
T KOG1054|consen 393 NEGEGFVPGSTVA-------------QS-------RNDQ--A----SKENRTVVVTTILESPYVMLKKNHEQLEGNERYE 446 (897)
T ss_pred cccCceeeccccc-------------cc-------cccc--c----ccccceEEEEEecCCchhHHHhhHHHhcCCcccc
Confidence 9987754321100 00 0000 0 12357777777766665443322 23788999
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCC-----CCCC-HHHHHHHHHcCcccEEEeeeeeecccccceEecccccccce
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGH-----KNPT-YSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGL 562 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~-----~~~~-~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~ 562 (625)
||||||+.+||++.+.+ |++..++|++ .+++ |+||+|+|..|+||+|++++|||.+|+++||||.|||++|+
T Consensus 447 GyCvdLa~~iAkhi~~~--Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGI 524 (897)
T KOG1054|consen 447 GYCVDLAAEIAKHIGIK--YKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGI 524 (897)
T ss_pred eeHHHHHHHHHHhcCce--EEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCe
Confidence 99999999999999998 6665555544 6666 99999999999999999999999999999999999999999
Q ss_pred EEEEecCC-CCcCcchhccCccHHHHHHHHHHHHHHHHHHHhhhcccCCCCCC
Q 006918 563 VVVAPVRK-LNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRG 614 (625)
Q Consensus 563 ~~l~~~~~-~~~~~~~~l~pf~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~ 614 (625)
+||+++|. .+++.|+||+|+..++|+||+.+++.|++++|+++|++|+||+.
T Consensus 525 SIMIKKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~ 577 (897)
T KOG1054|consen 525 SIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHT 577 (897)
T ss_pred EEEEeCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheec
Confidence 99999998 78899999999999999999999999999999999999998853
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=1.1e-59 Score=459.26 Aligned_cols=514 Identities=22% Similarity=0.387 Sum_probs=408.3
Q ss_pred cCCCceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEec--CCCChHHHHHHHHH-HHhcCcEEEEc
Q 006918 21 ALKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHD--AKFNGFLSIMGALQ-FMETDTLAIVG 97 (625)
Q Consensus 21 ~~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D--~~~~~~~a~~~~~~-l~~~~v~aviG 97 (625)
+..++++.||+++... ..+.-|.-++..+|++.+ ..++.+.-.. ...++.+.+-.+|+ +++..|.+|+-
T Consensus 30 ~~np~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~---s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~v 101 (993)
T KOG4440|consen 30 ACNPKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHG---SWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLV 101 (993)
T ss_pred CCCccceeeeeeeech-----hHHHHHHHHHHHhhcccc---ceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEe
Confidence 3567899999998864 356778889999997653 3455442221 23467777777885 56778877764
Q ss_pred -C-CChH---HHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCC
Q 006918 98 -P-QSAV---MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ 171 (625)
Q Consensus 98 -~-~~s~---~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~ 171 (625)
+ ..|. .-.+++..++.++||++.....+..+++ .-++.|+|++|+..+|+.+..++|.+|.|++|.++.+||.-
T Consensus 102 Sh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~~ 181 (993)
T KOG4440|consen 102 SHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDHE 181 (993)
T ss_pred cCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEccccc
Confidence 2 2222 2234556678899999999899999999 56999999999999999999999999999999999999988
Q ss_pred CcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEE
Q 006918 172 GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (625)
Q Consensus 172 g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (625)
|+....+++..+++..-+++....+.++ ..++.+.|-++|...+|||++..+.+++..+++.|-+++|++.+|+||
T Consensus 182 gra~~~r~qt~~e~~~~~~e~v~~f~p~----~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnmTG~G~VWi 257 (993)
T KOG4440|consen 182 GRAAQKRLQTLLEERESKAEKVLQFDPG----TKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNMTGSGYVWI 257 (993)
T ss_pred chhHHhHHHHHHHHHhhhhhhheecCcc----cchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcccCceEEEE
Confidence 8887778887777665555555566665 567888999999999999999999999999999999999999999999
Q ss_pred eeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhc
Q 006918 252 ATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQ 331 (625)
Q Consensus 252 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~ 331 (625)
.+...... .....|+++.+.....+ ..+..-|+|.++|.|+|++++.
T Consensus 258 V~E~a~~~-----------nn~PdG~LGlqL~~~~~----------------------~~~hirDsv~vlasAv~e~~~~ 304 (993)
T KOG4440|consen 258 VGERAISG-----------NNLPDGILGLQLINGKN----------------------ESAHIRDSVGVLASAVHELLEK 304 (993)
T ss_pred Eecccccc-----------CCCCCceeeeEeecCcc----------------------ccceehhhHHHHHHHHHHHHhh
Confidence 98754322 13467899987753222 2346789999999999999876
Q ss_pred CCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcc-cccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeE
Q 006918 332 GNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGY 410 (625)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~-f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~ 410 (625)
..-.. .+..||++...|..+..|.+.+...+ ..|.||+|.||++|+|....|+|+|+..+...+-+|.
T Consensus 305 e~I~~-----------~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~ 373 (993)
T KOG4440|consen 305 ENITD-----------PPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGI 373 (993)
T ss_pred ccCCC-----------CCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhcc
Confidence 43211 13347888889988888888877644 6899999999999999999999999964443366666
Q ss_pred eeCCCCCcccCcccccCCCCCCCCCCCccceeEeCCCCCCCCcceecCCCCceEEEEecCCCCccccEEee----C----
Q 006918 411 WSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFKV----N---- 482 (625)
Q Consensus 411 w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~W~~~~~~~P~~~~~~~~~~~l~v~~~~~~~~~~~~~~~----~---- 482 (625)
|+... + ..+...|+|||+.++.|+...+| +||||.+.+.+||. +.. +
T Consensus 374 yd~~r-~------------------~~nd~~IiWpGg~~~KP~gi~~p---thLrivTi~~~PFV---Yv~p~~sd~~c~ 428 (993)
T KOG4440|consen 374 YDGTR-V------------------IPNDRKIIWPGGETEKPRGIQMP---THLRIVTIHQEPFV---YVKPTLSDGTCK 428 (993)
T ss_pred cccee-e------------------ccCCceeecCCCCcCCCcccccc---ceeEEEEeccCCeE---EEecCCCCcchh
Confidence 65542 1 12346899999999999999887 67999999887753 221 0
Q ss_pred -----------------------C------cceeeeeeHHHHHHHHHHCCCCccEEEEeCCC-CC---------CCC-CH
Q 006918 483 -----------------------G------TDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGD-GH---------KNP-TY 522 (625)
Q Consensus 483 -----------------------~------~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~-~~---------~~~-~~ 522 (625)
+ ..||.||||||+-++++..||+|+..++..+. +. .++ +|
T Consensus 429 eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew 508 (993)
T KOG4440|consen 429 EEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEW 508 (993)
T ss_pred hhccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeeccccccccee
Confidence 0 23789999999999999999996655555321 11 233 69
Q ss_pred HHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEecCCCCcCcchhccCccHHHHHHHHHHHHHHHHHHH
Q 006918 523 SELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVW 602 (625)
Q Consensus 523 ~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~~~~~~~~~l~pf~~~vW~~~~~~~~~~~~~~~ 602 (625)
+||||+|..|+|||+++++||++||+++++||.||...|+.||.+++.+...+-+||+||+.++|+++++++.+|++++|
T Consensus 509 ~G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lY 588 (993)
T KOG4440|consen 509 NGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLY 588 (993)
T ss_pred hhhhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999989999999999999999999999999999999
Q ss_pred hhhcccCCC-CCCC
Q 006918 603 ILEHRLNDE-FRGP 615 (625)
Q Consensus 603 ~~~~~~~~~-~~~~ 615 (625)
+++|++|.+ |+..
T Consensus 589 lLDrfSPFgRFk~~ 602 (993)
T KOG4440|consen 589 LLDRFSPFGRFKVN 602 (993)
T ss_pred HHHhcCcccceeec
Confidence 999999986 4433
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=4.8e-53 Score=427.82 Aligned_cols=480 Identities=20% Similarity=0.335 Sum_probs=364.4
Q ss_pred CChHHHHHHHHHHHhc-CcEEEEcCCChH---HHHHHHHhhhcCCCcEEeeccCC-CCCCCC-CCCceEEccCchHHHHH
Q 006918 75 FNGFLSIMGALQFMET-DTLAIVGPQSAV---MAHVLSHLANELQVPLLSFTALD-PTLSPL-QYPFFVQTAPNDLYLMS 148 (625)
Q Consensus 75 ~~~~~a~~~~~~l~~~-~v~aviG~~~s~---~~~~va~~~~~~~iP~Is~~~~~-~~ls~~-~~~~~~r~~ps~~~~~~ 148 (625)
.||...+...|+++.. +|.+++-...|. .+..+--+....+||+|+..+.+ ..++++ ....|+++.|+-++|++
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 6899999999999976 898888655554 22233345578899999975544 445553 34579999999999999
Q ss_pred HHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc--ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 149 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 149 al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
++.++|..|+|..+++|....+.....+..+++..... |+++.......+. ..+.......++|+-++.||+++|
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 99999999999999999988776667777777776654 6666655555554 122223334455556689999999
Q ss_pred chhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCCCC
Q 006918 227 YSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIG 306 (625)
Q Consensus 227 ~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 306 (625)
+.+++..|+..|.++||++++|+||.+...... + ..-.+...|.+.+.... |+.
T Consensus 240 ~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~-~------~~pa~~P~GLisv~~~~------------w~~------- 293 (1258)
T KOG1053|consen 240 SREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL-E------PRPAEFPLGLISVSYDT------------WRY------- 293 (1258)
T ss_pred cHHHHHHHHHHHHhcCCcCCceEEEeehhccCC-C------CCCccCccceeeeeccc------------hhh-------
Confidence 999999999999999999999999997654331 0 11134566776665422 221
Q ss_pred CCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCCCCCCccccCccc--ccCchHHHHHHHHhcccccceeeEEEc
Q 006918 307 LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALS--IFDGGKKFLANILQTNMTGLSGPIHFN 384 (625)
Q Consensus 307 ~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~--~~~~~~~l~~~l~~~~f~g~tG~v~Fd 384 (625)
...+.+-|+|-++|.|.+.++...+..+ ....+|.... ....+..+..+|.|+.|+| ++++|+
T Consensus 294 --~l~~rVrdgvaiva~aa~s~~~~~~~lp-----------~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf~ 358 (1258)
T KOG1053|consen 294 --SLEARVRDGVAIVARAASSMLRIHGFLP-----------EPKMDCREQEETRLTSGETLHRFLANVTWDG--RDLSFN 358 (1258)
T ss_pred --hHHHHHhhhHHHHHHHHHHHHhhcccCC-----------CcccccccccCccccchhhhhhhhheeeecc--cceeec
Confidence 1245678999999999999987654422 1223554332 2235889999999999999 789999
Q ss_pred cCCCccCCcEEEEEEeeCceeEEEeEeeCCCCCcccCcccccCCCCCCCCCCCccceeEeCCCCCCCCcceecCCCCceE
Q 006918 385 QDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQL 464 (625)
Q Consensus 385 ~~G~r~~~~~~I~~~~~~~~~~~vG~w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~W~~~~~~~P~~~~~~~~~~~l 464 (625)
++|..++...-++.+.+...|++||.|...+ |.|. -.+||...+ ...+.| +..||
T Consensus 359 ~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L~M~--------------------y~vWPr~~~---~~q~~~-d~~HL 413 (1258)
T KOG1053|consen 359 EDGYLVHPNLVVIDLNRDRTWERVGSWENGT-LVMK--------------------YPVWPRYHK---FLQPVP-DKLHL 413 (1258)
T ss_pred CCceeeccceEEEecCCCcchheeceecCCe-EEEe--------------------ccccccccC---ccCCCC-Cccee
Confidence 9998889999999888888999999998764 4443 346874322 222222 34689
Q ss_pred EEEecCCCCccccEEee-------------------------CC----cceeeeeeHHHHHHHHHHCCCCccEEEEeCCC
Q 006918 465 RIGVPNRVSYRDFVFKV-------------------------NG----TDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGD 515 (625)
Q Consensus 465 ~v~~~~~~~~~~~~~~~-------------------------~~----~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~ 515 (625)
+|+|.+++||.-....| ++ +.||+|||||||++|++..||+ |+++.+++
T Consensus 414 ~VvTLeE~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~Ft--YDLYlVtn 491 (1258)
T KOG1053|consen 414 TVVTLEERPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFT--YDLYLVTN 491 (1258)
T ss_pred EEEEeccCCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcc--eEEEEecC
Confidence 99998887753211111 01 2489999999999999999999 88888887
Q ss_pred CC----CCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEecCCCCcCcchhccCccHHHHHHHH
Q 006918 516 GH----KNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTG 591 (625)
Q Consensus 516 ~~----~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~~~~~~~~~l~pf~~~vW~~~~ 591 (625)
++ .||.|+|||++|..++||||++.++|++||.++||||.||.++|+++||++.+...+..+||.||+++||++||
T Consensus 492 GKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWVmmF 571 (1258)
T KOG1053|consen 492 GKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWVMMF 571 (1258)
T ss_pred CcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHHHHH
Confidence 66 89999999999999999999999999999999999999999999999999999889999999999999999999
Q ss_pred HHHHHH-HHHHHhhhcccCCCCCC---------CcccccccccC
Q 006918 592 VFFLVV-GTVVWILEHRLNDEFRG---------PPRKQIVTVLW 625 (625)
Q Consensus 592 ~~~~~~-~~~~~~~~~~~~~~~~~---------~~~~~~~~~~w 625 (625)
+++++| ++.+|+||+++|..++. .+.+.|+.++|
T Consensus 572 Vm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~Ftigkaiw 615 (1258)
T KOG1053|consen 572 VMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIW 615 (1258)
T ss_pred HHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHH
Confidence 999855 45677999999865422 23455666655
No 4
>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=2.8e-52 Score=438.35 Aligned_cols=369 Identities=22% Similarity=0.332 Sum_probs=306.5
Q ss_pred ceEEEEEEeecCC----------------------CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHH
Q 006918 25 EVLNVGAIFSFGT----------------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIM 82 (625)
Q Consensus 25 ~~i~IG~l~~~~~----------------------~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~ 82 (625)
++|.||++||.|. ..|.+...||.+|+|+||+++.+|||++|++.++|+|+++..|++
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 5799999999972 125677899999999999999999999999999999999999999
Q ss_pred HHHHHHh--------------cCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHH
Q 006918 83 GALQFME--------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLM 147 (625)
Q Consensus 83 ~~~~l~~--------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~ 147 (625)
.+.+++. ++++|||||.+|..+.+++++++.++||+|+++++++.+++ .+||||||+.|++..++
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 HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
.|+++++++|+|++|++|+.|++||....+.|.+.+++.|+||+..+.++........++...+++++++++|+||+++.
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 99999999999999999999999999999999999999999999998887652112347889999999999999999999
Q ss_pred hhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHH-----------
Q 006918 228 SRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSR----------- 296 (625)
Q Consensus 228 ~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~----------- 296 (625)
.+.+..++.++.+.+ +.+++||+++.|....... ....+.++|++++.++.++.+++++|+++
T Consensus 241 ~~~~~~l~~~~~~~~--~~~~~wi~s~~w~~~~~~~----~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw 314 (469)
T cd06365 241 TDSLLEVSFRLWQYL--LIGKVWITTSQWDVTTSPK----DFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIF 314 (469)
T ss_pred cHHHHHHHHHHHHhc--cCceEEEeecccccccccc----ccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccH
Confidence 988888877766655 3579999998775433221 23456789999999999888888887654
Q ss_pred ----HHhhcCCC-----------------CC----------CCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCC
Q 006918 297 ----WNTLSNGS-----------------IG----------LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNG 345 (625)
Q Consensus 297 ----~~~~~~~~-----------------~~----------~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~ 345 (625)
|+..|++. .. ....++++|||||++|||||+++++++..
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 55554311 00 12246789999999999999999886431
Q ss_pred CCCCccccCcccccCchHHHHHHHHhcccccceee-EEEccCCCccCCcEEEEEEee----CceeEEEeEeeCC
Q 006918 346 LGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGP-IHFNQDRSLLHPSYDIINVIE----HGYPQQIGYWSNY 414 (625)
Q Consensus 346 ~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~-v~Fd~~G~r~~~~~~I~~~~~----~~~~~~vG~w~~~ 414 (625)
....+|.. ... ++++|+++|++++|.|.+|. |.||+||++ ...|+|+|++. ...+++||+|+..
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 11123432 233 58999999999999999995 999999995 68999999983 2336999999763
No 5
>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=7.3e-52 Score=433.38 Aligned_cols=365 Identities=22% Similarity=0.338 Sum_probs=309.7
Q ss_pred ceEEEEEEeecCC-------------CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh--
Q 006918 25 EVLNVGAIFSFGT-------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-- 89 (625)
Q Consensus 25 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~-- 89 (625)
+++.||++||.|. ..|.+...||.+|||+||+++++|||++|++.++|+|+++..|++.+.+++.
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 5899999999983 2477889999999999999999999999999999999999999999988773
Q ss_pred -----------------------cCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHH
Q 006918 90 -----------------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLY 145 (625)
Q Consensus 90 -----------------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~ 145 (625)
++|.|||||.+|..+.+++++++.++||+|+++++++.|++ .+||||||+.|++..
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 579999999999999
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhc-CCceEEEE
Q 006918 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVV 224 (625)
Q Consensus 146 ~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl 224 (625)
++.|+++++++|||+||++|+++++||....+.|.+.+++.|+||+..+.++.. ....++..+++++++ +++||||+
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 999999999999999999999999999999999999999999999998888754 346799999999875 68999999
Q ss_pred EcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHH--------
Q 006918 225 HGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSR-------- 296 (625)
Q Consensus 225 ~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~-------- 296 (625)
++..+++..++++|.++|+. +.||+++.|....... .......+|++++.+.....++|++|++.
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 99999999999999999975 7999998775321111 12335688999999999888888887753
Q ss_pred -------HHhhcCCCC----------------------CCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCCCC
Q 006918 297 -------WNTLSNGSI----------------------GLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLG 347 (625)
Q Consensus 297 -------~~~~~~~~~----------------------~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~ 347 (625)
|+..|++.. .......++|||||++|||||+++++.+..
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 666664211 113467889999999999999999765431
Q ss_pred CCccccCcccccCchHHHH-HHHHhcccc-----ccee-eEEEccCCCccCCcEEEEEEee--C---ceeEEEeEeeC
Q 006918 348 GGTLNLGALSIFDGGKKFL-ANILQTNMT-----GLSG-PIHFNQDRSLLHPSYDIINVIE--H---GYPQQIGYWSN 413 (625)
Q Consensus 348 ~~~~~c~~~~~~~~~~~l~-~~l~~~~f~-----g~tG-~v~Fd~~G~r~~~~~~I~~~~~--~---~~~~~vG~w~~ 413 (625)
....|...... ++++|+ ++|++++|. |.+| +|.||++|+ ....|+|+|++. + ..+++||.|+.
T Consensus 380 -~~~~c~~~~~~-~~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd-~~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 380 -TTKLCDAMKPL-DGKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGD-GLGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred -CCCCCCCCCCC-CHHHHHHHHHHhccccccccCCCCCCeeEECCCCC-CCcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 11247665555 489999 599999999 9988 599999999 568999999983 2 23589999964
No 6
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=1.8e-51 Score=434.35 Aligned_cols=376 Identities=20% Similarity=0.305 Sum_probs=310.9
Q ss_pred CCCceEEEEEEeecCCC-----------------CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHH
Q 006918 22 LKPEVLNVGAIFSFGTV-----------------NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGA 84 (625)
Q Consensus 22 ~~~~~i~IG~l~~~~~~-----------------~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~ 84 (625)
..++++.||++||.|.. .|.+...|+.+|+|+||++++||||++|++.++|+|+++..|++.+
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 46899999999999831 2567789999999999999999999999999999999999999999
Q ss_pred HHHHh--------------------------cCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceE
Q 006918 85 LQFME--------------------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFV 137 (625)
Q Consensus 85 ~~l~~--------------------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~ 137 (625)
.+++. .+|.|||||.+|..+.+++++++.+++|+|+++++++.+++ ..|||||
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 99885 27999999999999999999999999999999999999998 5799999
Q ss_pred EccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC
Q 006918 138 QTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM 217 (625)
Q Consensus 138 r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~ 217 (625)
|+.|++..++.++++++++|+|++|++|+++++||....+.|.+.+++.|+||+..+.++.. ....++..++.+|++.
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 99999999999999999999999999999999999999999999999999999988877543 3467999999999965
Q ss_pred --CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHH-
Q 006918 218 --EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFV- 294 (625)
Q Consensus 218 --~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~- 294 (625)
+++||++++....+..++++++++||. .+++||.++.|....... ....+..+|.+++.+..+..++|++|+
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 566777778888899999999999985 568999998775421111 223466799999999888888887754
Q ss_pred --------------HHHHhhcCCCC------------------------CCCchhhhHhHHHHHHHHHHHHHHhcCCccc
Q 006918 295 --------------SRWNTLSNGSI------------------------GLNPYGLYAYDTVWMIARALKLFLDQGNTIS 336 (625)
Q Consensus 295 --------------~~~~~~~~~~~------------------------~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~ 336 (625)
+.|++.|++.. ....+++++|||||++|+|||+++.+.+..
T Consensus 318 ~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~- 396 (472)
T cd06374 318 KLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPG- 396 (472)
T ss_pred hCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCC-
Confidence 34666554210 001345689999999999999998654321
Q ss_pred ccCCCccCCCCCCccccCcccccCchHHHHHHHHhccccccee-eEEEccCCCccCCcEEEEEEee----CceeEEEeEe
Q 006918 337 FSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIE----HGYPQQIGYW 411 (625)
Q Consensus 337 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG-~v~Fd~~G~r~~~~~~I~~~~~----~~~~~~vG~w 411 (625)
....|..... .++++|.++|++++|+|++| +|.||++|++. ..|+|+|++. ...+++||.|
T Consensus 397 ------------~~~~c~~~~~-~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w 462 (472)
T cd06374 397 ------------HVGLCDAMKP-IDGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSW 462 (472)
T ss_pred ------------CCCCCcCCCC-CCHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEE
Confidence 1113554333 36999999999999999999 69999999975 6899999994 2235999999
Q ss_pred eCCCCCccc
Q 006918 412 SNYSGLSVV 420 (625)
Q Consensus 412 ~~~~~l~~~ 420 (625)
++. +|.++
T Consensus 463 ~~~-~l~~~ 470 (472)
T cd06374 463 HEG-DLGID 470 (472)
T ss_pred eCC-ccccc
Confidence 753 55543
No 7
>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=3.2e-51 Score=432.79 Aligned_cols=373 Identities=22% Similarity=0.311 Sum_probs=311.7
Q ss_pred CCCceEEEEEEeecCC----------------------CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHH
Q 006918 22 LKPEVLNVGAIFSFGT----------------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFL 79 (625)
Q Consensus 22 ~~~~~i~IG~l~~~~~----------------------~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~ 79 (625)
..++++.||++||.|. ..|.+...|+++|+|+||+++++|||++|+++++|+|+++..
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 5689999999999984 236778999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhc-------------------CcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEc
Q 006918 80 SIMGALQFMET-------------------DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQT 139 (625)
Q Consensus 80 a~~~~~~l~~~-------------------~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~ 139 (625)
|++.+.+++.+ ++.|||||.+|..+.+++++++.++||+|+++++++.+++ ..||+|||+
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 99999999754 2469999999999999999999999999999999999998 679999999
Q ss_pred cCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCc
Q 006918 140 APNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEA 219 (625)
Q Consensus 140 ~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~ 219 (625)
.|++..++.++++++++|+|+||++|+.|++||+...+.|.+.+++.|+||+..+.++.. ....++..++.+++++++
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 999999999999999999999999999999999999999999999999999988877653 347789999999999999
Q ss_pred eEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHH---
Q 006918 220 RVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSR--- 296 (625)
Q Consensus 220 ~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~--- 296 (625)
|+||+++...++..+++++.++|+. +++||.++.|........ ....+.+.|++++.+.....++|++|++.
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 9999999999999999999999975 479999987754322211 23346788999999988777777666543
Q ss_pred ------------HHhhcCCCC------------------------------C--------------------CCchhhhH
Q 006918 297 ------------WNTLSNGSI------------------------------G--------------------LNPYGLYA 314 (625)
Q Consensus 297 ------------~~~~~~~~~------------------------------~--------------------~~~~~~~~ 314 (625)
|+..|++.. . ....++++
T Consensus 321 ~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v 400 (510)
T cd06364 321 KKSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNV 400 (510)
T ss_pred ccCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHH
Confidence 555554210 0 11235679
Q ss_pred hHHHHHHHHHHHHHHhcCCcc-cccCCCccCCCCCCccccCcccccCchHHHHHHHHhccccccee-eEEEccCCCccCC
Q 006918 315 YDTVWMIARALKLFLDQGNTI-SFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHP 392 (625)
Q Consensus 315 YDAv~~la~Al~~~~~~~~~~-~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG-~v~Fd~~G~r~~~ 392 (625)
|||||++|||||+++.|.... ++ ....|...... ++++|+++|++++|.|.+| +|.||++|+ ...
T Consensus 401 ~~AVyAvAhaLh~~~~c~~~~~~~-----------~~~~c~~~~~~-~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd-~~~ 467 (510)
T cd06364 401 YLAVYSIAHALQDIYTCTPGKGLF-----------TNGSCADIKKV-EAWQVLKHLRHLNFTDNMGEQVRFDEGGD-LVG 467 (510)
T ss_pred HHHHHHHHHHHHHHhcCCCCCCCc-----------cCCCCCCCCCC-CHHHHHHHHHhcEEecCCCCEEEEecCCC-Ccc
Confidence 999999999999999875321 11 01247665445 4899999999999999988 599999999 468
Q ss_pred cEEEEEEee---Cc--eeEEEeEeeCC
Q 006918 393 SYDIINVIE---HG--YPQQIGYWSNY 414 (625)
Q Consensus 393 ~~~I~~~~~---~~--~~~~vG~w~~~ 414 (625)
.|+|+||+. ++ .+++||.|++.
T Consensus 468 ~YdI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 468 NYSIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred ceeEEEeeecCCCCcEEEEEEEEEcCC
Confidence 999999994 22 35899999763
No 8
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=100.00 E-value=1e-50 Score=428.48 Aligned_cols=371 Identities=22% Similarity=0.332 Sum_probs=309.1
Q ss_pred ceEEEEEEeecCC-------------CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh--
Q 006918 25 EVLNVGAIFSFGT-------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-- 89 (625)
Q Consensus 25 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~-- 89 (625)
+++.||++||.|. ..|.....|+++|+|+||+++++|||++|+++++|+|+++..|++.+.+++.
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 5799999999983 2466779999999999999999999999999999999999999999988874
Q ss_pred ---------------------cCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHH
Q 006918 90 ---------------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLM 147 (625)
Q Consensus 90 ---------------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~ 147 (625)
++|.+||||.+|..+.++++++..+++|+|+++++++.+++ ..||||||+.|++..++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~ 160 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQA 160 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHH
Confidence 38999999999999999999999999999999999999987 57999999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhc-CCceEEEEEc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHG 226 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~ 226 (625)
.++++++++|+|++|++|+++++||....+.|.+.+++.|+||+..+.++.. ....++..++++|++ +++++||+++
T Consensus 161 ~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~--~~~~d~~~~l~~l~~~~~a~viil~~ 238 (452)
T cd06362 161 QAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEKLAAERGICIAGSEKIPSS--ATEEEFDNIIRKLLSKPNARVVVLFC 238 (452)
T ss_pred HHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEEEEEEcCCC--CCHHHHHHHHHHHhhcCCCeEEEEEc
Confidence 9999999999999999999999999999999999999999999988888754 347899999999987 5799999999
Q ss_pred chhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHH------------
Q 006918 227 YSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFV------------ 294 (625)
Q Consensus 227 ~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------------ 294 (625)
...++..++++|+++|+. ..++||.++.|....... ........|++++.+.....+.|++|+
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 999999999999999987 568999998765432111 223466888888888777666665544
Q ss_pred ---HHHHhhcCCC----------------------CCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCCCCCC
Q 006918 295 ---SRWNTLSNGS----------------------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGG 349 (625)
Q Consensus 295 ---~~~~~~~~~~----------------------~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~ 349 (625)
+.|+..+++. .....+++++|||||++|+|||+++++++... .
T Consensus 314 ~~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~------------~ 381 (452)
T cd06362 314 WFREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGT------------T 381 (452)
T ss_pred HHHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCC------------C
Confidence 2344444311 01234678899999999999999987653210 1
Q ss_pred ccccCcccccCchHHHHHHHHhccccccee-eEEEccCCCccCCcEEEEEEee---CceeEEEeEeeCCCCC
Q 006918 350 TLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIE---HGYPQQIGYWSNYSGL 417 (625)
Q Consensus 350 ~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG-~v~Fd~~G~r~~~~~~I~~~~~---~~~~~~vG~w~~~~~l 417 (625)
..|.... +.++++|.++|++++|.|++| .|.||++|++ ...|+|++++. ...+++||+|+++.||
T Consensus 382 -~~c~~~~-~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~-~~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 382 -GLCDAMK-PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDG-PGRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred -CCCcCcc-CCCHHHHHHHHHhCCcCCCCCceEEECCCCCC-CCceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 1355433 446999999999999999998 7999999997 46999999984 2335999999887654
No 9
>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=3e-50 Score=414.16 Aligned_cols=348 Identities=21% Similarity=0.289 Sum_probs=294.5
Q ss_pred EEEEEeecCCC---------------------CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHH
Q 006918 28 NVGAIFSFGTV---------------------NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQ 86 (625)
Q Consensus 28 ~IG~l~~~~~~---------------------~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~ 86 (625)
.||++||.|.. .|.+...||.+|+|+||+++ +|||++|+++++|+|+++..|++.+.+
T Consensus 1 ~lgglf~vh~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~ 79 (403)
T cd06361 1 IIGGLFAIHEAMLSVEDTPSRPQIQECVGFEIKGFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLR 79 (403)
T ss_pred CEEEEEECcccccccccccCCCCCCcccccChhHHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHH
Confidence 38999999852 26678899999999999998 678999999999999999999999999
Q ss_pred HHhc-------------------CcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHH
Q 006918 87 FMET-------------------DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYL 146 (625)
Q Consensus 87 l~~~-------------------~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~ 146 (625)
++++ +|.|||||.+|..+.+++++++.++||+||++++++.+++ .+||||||+.|+|..|
T Consensus 80 li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~q 159 (403)
T cd06361 80 FLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQ 159 (403)
T ss_pred HHhhcccccccccccccCCCCCCCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhH
Confidence 9873 7999999999999999999999999999999999999998 6799999999999999
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCC---hhHHHHHHHHHhcCCceEEE
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVT---ETDVRNELVKVRMMEARVIV 223 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~---~~~~~~~l~~i~~~~~~vIv 223 (625)
+.++++++++|||+||++|+++++||+...+.|++.+++.|+||+..+.++...... ..++..+++.++++++|+||
T Consensus 160 a~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVv 239 (403)
T cd06361 160 TKAMAHLIKKSGWNWVGIIITDDDYGRSALETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIV 239 (403)
T ss_pred HHHHHHHHHHcCCcEEEEEEecCchHHHHHHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEE
Confidence 999999999999999999999999999999999999999999999998887641111 24566677778889999999
Q ss_pred EEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCC
Q 006918 224 VHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG 303 (625)
Q Consensus 224 l~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~ 303 (625)
+.+...++..++++|+++|+ +++||.++.|........ ........|.+++.+..+..++|.+|++.. +
T Consensus 240 v~~~~~~~~~l~~~a~~~g~---~~~wigs~~w~~~~~~~~---~~~~~~~~g~ig~~~~~~~~~~F~~~~~~~---~-- 308 (403)
T cd06361 240 VFARQFHVFLLFNKAIERNI---NKVWIASDNWSTAKKILT---DPNVKKIGKVVGFTFKSGNISSFHQFLKNL---L-- 308 (403)
T ss_pred EEeChHHHHHHHHHHHHhCC---CeEEEEECcccCcccccc---CCcccccceEEEEEecCCccchHHHHHHHh---h--
Confidence 99999999999999999997 689999998865322211 112256778999998877777666655443 2
Q ss_pred CCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEE
Q 006918 304 SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHF 383 (625)
Q Consensus 304 ~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~F 383 (625)
...+||||+++|+|||+++.+. .|...... ++++|+++|++++|+|.+|++.|
T Consensus 309 -------~~~v~~AVyaiA~Al~~~~~~~-------------------~c~~~~~~-~~~~l~~~L~~~~f~g~~~~v~F 361 (403)
T cd06361 309 -------IHSIQLAVFALAHAIRDLCQER-------------------QCQNPNAF-QPWELLGQLKNVTFEDGGNMYHF 361 (403)
T ss_pred -------HHHHHHHHHHHHHHHHHhccCC-------------------CCCCCCCc-CHHHHHHHHheeEEecCCceEEE
Confidence 3468999999999999975431 25443333 59999999999999999889999
Q ss_pred ccCCCccCCcEEEEEEee---CceeEEEeEeeCCC
Q 006918 384 NQDRSLLHPSYDIINVIE---HGYPQQIGYWSNYS 415 (625)
Q Consensus 384 d~~G~r~~~~~~I~~~~~---~~~~~~vG~w~~~~ 415 (625)
|++|+. ...|+|++++. ...+++||.|++.+
T Consensus 362 d~~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~ 395 (403)
T cd06361 362 DANGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQN 395 (403)
T ss_pred CCCCCC-CcceEEEEeEecCCcEEEEEEEEEeCCC
Confidence 999984 68899999984 23479999998865
No 10
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=2.5e-50 Score=425.02 Aligned_cols=367 Identities=21% Similarity=0.350 Sum_probs=301.1
Q ss_pred ceEEEEEEeecCC-------------CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHH----
Q 006918 25 EVLNVGAIFSFGT-------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQF---- 87 (625)
Q Consensus 25 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l---- 87 (625)
++|+||++||.|. ..|.+...|+++|+|+||+++++|||++|+++++|+|+++..+++.+..+
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 5799999999981 14667789999999999999999999999999999999876555555443
Q ss_pred Hh-------------------cCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHH
Q 006918 88 ME-------------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLM 147 (625)
Q Consensus 88 ~~-------------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~ 147 (625)
++ ++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..||||||+.|++..++
T Consensus 81 ~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~ 160 (463)
T cd06376 81 IQKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQA 160 (463)
T ss_pred hhcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHH
Confidence 32 37999999999999999999999999999999999999987 57999999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhc-CCceEEEEE
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVH 225 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~ 225 (625)
.++++++++|+|++|++|+.+++||....+.|.+.+++. ++||...+.++.. ....++..++++|++ +++++||++
T Consensus 161 ~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~--~~~~d~~~~l~~ik~~~~~~vIvl~ 238 (463)
T cd06376 161 QAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQISREAGGVCIAQSIKIPRE--PRPGEFDKIIKRLLETPNARAVIIF 238 (463)
T ss_pred HHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHHHHHHcCCceEEEEEecCCC--CCHHHHHHHHHHHhccCCCeEEEEe
Confidence 999999999999999999999999999999999999987 5788766656544 447899999999986 799999999
Q ss_pred cchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHH----------
Q 006918 226 GYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVS---------- 295 (625)
Q Consensus 226 ~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~---------- 295 (625)
+..+++..++++|+++|+.+ .|+||.++.|....... ........|.+++.+.....++|++|+.
T Consensus 239 ~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~----~~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~ 313 (463)
T cd06376 239 ANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPI----LQQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRN 313 (463)
T ss_pred cChHHHHHHHHHHHhcCCcC-ceEEEEecccccccccc----ccCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCC
Confidence 99999999999999999864 59999999875432221 1123567899999988888887777654
Q ss_pred -----HHHhhcCCCCC--------------------------CCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccC
Q 006918 296 -----RWNTLSNGSIG--------------------------LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLN 344 (625)
Q Consensus 296 -----~~~~~~~~~~~--------------------------~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~ 344 (625)
.|+..|++..+ ....++++|||||++|+|||+++++.+..
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 57665542210 01257799999999999999998664321
Q ss_pred CCCCCccccCcccccCchHHHHHHHHhccccccee-eEEEccCCCccCCcEEEEEEee----CceeEEEeEeeC
Q 006918 345 GLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIE----HGYPQQIGYWSN 413 (625)
Q Consensus 345 ~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG-~v~Fd~~G~r~~~~~~I~~~~~----~~~~~~vG~w~~ 413 (625)
....|.... |.++++|+++|++++|+|.+| +|.||++|++ ...|+|.+++. ...+++||.|++
T Consensus 385 ----~~~~C~~~~-~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~-~~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 385 ----YTGVCPEME-PADGKKLLKYIRAVNFNGSAGTPVMFNENGDA-PGRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred ----CCCCCccCC-CCCHHHHHHHHHhCCccCCCCCeEEeCCCCCC-CCceEEEEEEecCCCceeEEEEEEECC
Confidence 111465544 446999999999999999999 6999999996 46799999983 223499999975
No 11
>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=2.1e-49 Score=400.11 Aligned_cols=362 Identities=20% Similarity=0.332 Sum_probs=289.6
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEE-ecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITM-HDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~-~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
.||+||+..+. ..+.||++||+++|.+..++++.+|.+.+ +++.+|++.+..++|+++++||.|||||.++.++..
T Consensus 1 ~iG~if~~~~~---~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~gV~AI~Gp~s~~~a~~ 77 (400)
T cd06392 1 HIGAIFEENAA---KDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQGILALVTSTGCASANA 77 (400)
T ss_pred CeeeccCCCch---HHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhcCeEEEECCCchhHHHH
Confidence 48999998653 57899999999999999999999999999 899999999999999999999999999999999999
Q ss_pred HHHhhhcCCCcEEeecc-----------CCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcch
Q 006918 107 LSHLANELQVPLLSFTA-----------LDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNG 175 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~-----------~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~ 175 (625)
++++|+.++||+|+++. ++|.++..+|+++.|+ + ..+.+|+++++.+|+|++|++|| |+++|...
T Consensus 78 v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lrp--~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~ 153 (400)
T cd06392 78 LQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAARP--P-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRG 153 (400)
T ss_pred HHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEecC--c-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHH
Confidence 99999999999999855 2344444556666665 4 46788999999999999999999 78899999
Q ss_pred HHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC-------ceEEEEEcchhhHHHHHHHHHHcCCCCCCe
Q 006918 176 VTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-------ARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 248 (625)
Q Consensus 176 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~-------~~vIvl~~~~~~~~~il~~a~~~g~~~~~~ 248 (625)
++.+.+.+.+.+.+|.... +... ....+.+.++.++... .++||+.|+++.+..+|++|.++||+..+|
T Consensus 154 lq~L~~~~~~~~~~I~~~~-v~~~---~~~~~~~~l~~~~~~~L~~~~~~~r~iVv~~s~~~~~~il~qA~~lgM~~~~y 229 (400)
T cd06392 154 LQSFLDQASRLGLDVSLQK-VDRN---ISRVFTNLFTTMKTEELNRYRDTLRRAILLLSPRGAQTFINEAVETNLASKDS 229 (400)
T ss_pred HHHHHHHHhhcCceEEEEE-cccC---cchhhhhHHHHHHHhhhhhccccceEEEEEcCcHHHHHHHHHHHHhCcccCCe
Confidence 9999999999999988554 3211 0112333344333322 489999999999999999999999999999
Q ss_pred EEEeeCcchhcccCCCCCChhhhhccc-ceEEEeeeCCCChhHHHHH----HHHHhhcCC---CC--CCCchhhhHhHHH
Q 006918 249 VWIATTWLSTFIDSKSPLSLKTAKSIL-GALTLRQHTPDSKRRRDFV----SRWNTLSNG---SI--GLNPYGLYAYDTV 318 (625)
Q Consensus 249 ~~i~~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~f~----~~~~~~~~~---~~--~~~~~~~~~YDAv 318 (625)
+||++++.....+. ........ ++++++.+.+......+|. .+|++.... .. .+..+++++||||
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 23333343 5677998877776555553 667644322 11 3567899999999
Q ss_pred HHHHHHHHHHHhcCCcccccCCCccCCCCCCcccc--CcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEE
Q 006918 319 WMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNL--GALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDI 396 (625)
Q Consensus 319 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c--~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I 396 (625)
+++|+|+++++...... ....+.| ....+|+.|..|+++|++++|+|+||+|.||++|+|.+..|+|
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 LMLANAFHRKLEDRKWH-----------SMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEI 373 (400)
T ss_pred HHHHHHHHHHhhccccC-----------CCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEE
Confidence 99999999865432111 1123467 4567999999999999999999999999999999999999999
Q ss_pred EEEe-----eCceeEEEeEeeCCCCC
Q 006918 397 INVI-----EHGYPQQIGYWSNYSGL 417 (625)
Q Consensus 397 ~~~~-----~~~~~~~vG~w~~~~~l 417 (625)
+|++ +.+. ++||+|++..|+
T Consensus 374 i~l~~~~~~g~g~-~~iG~W~~~~gl 398 (400)
T cd06392 374 LGTSYSETFGKDV-RRLATWDSEKGL 398 (400)
T ss_pred EeccccccCCCCc-eEeEEecCCCCC
Confidence 9965 5668 999999998775
No 12
>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=6.4e-49 Score=404.81 Aligned_cols=365 Identities=21% Similarity=0.321 Sum_probs=307.0
Q ss_pred eEEEEEEee-cC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCCC
Q 006918 26 VLNVGAIFS-FG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQFMETDTLAIVGPQS 100 (625)
Q Consensus 26 ~i~IG~l~~-~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~-~~~~a~~~~~~l~~~~v~aviG~~~ 100 (625)
.|+||++|| ++ +..|...+.|+++||++||+++++||+.+|.+.+.+.++ ++..+.+.+|+++.++|.|||||.+
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 44 445778899999999999999999999999999998665 6768889999988889999999999
Q ss_pred hHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHH
Q 006918 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALG 180 (625)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~ 180 (625)
|..+.+++++++.++||+|+++++++.+++. .++++|+.|++..++.++++++++|+|++|++||+++. |...++.+.
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 9999999999999999999999998888764 35778888999889999999999999999999997654 666667888
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcc
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (625)
+.+++.|++|.. +.++.. ..|++.+|++||..++++||+.+..+++..+++||+++||..+.|+|++++......
T Consensus 160 ~~~~~~g~~v~~-~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~ 234 (384)
T cd06393 160 MAPSRYNIRLKI-RQLPTD----SDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYAL 234 (384)
T ss_pred HhhhccCceEEE-EECCCC----chHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCccccc
Confidence 888889999886 346544 679999999999999999999999999999999999999999999999887654333
Q ss_pred cCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhh-cCCCC---------CCCchhhhHhHHHHHHHHHHHHHHh
Q 006918 261 DSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL-SNGSI---------GLNPYGLYAYDTVWMIARALKLFLD 330 (625)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~---------~~~~~~~~~YDAv~~la~Al~~~~~ 330 (625)
+. ........+++++....+..+.+++|.++|+++ ++... .....++++||||+++++|++++.+
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 32 111112233578888888889999999999754 54211 1245799999999999999997533
Q ss_pred cCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEcc-CCCccCCcEEEEEEeeCceeEEEe
Q 006918 331 QGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLLHPSYDIINVIEHGYPQQIG 409 (625)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~-~G~r~~~~~~I~~~~~~~~~~~vG 409 (625)
.. ...+.|....+|..|.+|+++|++++|+|+||++.||+ +|.|.+..++|+|+.+++. ++||
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 12346888889999999999999999999999999996 6889999999999999898 9999
Q ss_pred EeeCCCCCc
Q 006918 410 YWSNYSGLS 418 (625)
Q Consensus 410 ~w~~~~~l~ 418 (625)
+|++..|++
T Consensus 374 ~W~~~~g~~ 382 (384)
T cd06393 374 VWNPNTGLN 382 (384)
T ss_pred EEcCCCCcC
Confidence 999988764
No 13
>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=3.9e-48 Score=391.50 Aligned_cols=355 Identities=19% Similarity=0.265 Sum_probs=295.7
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
+||+||+..+ ...+.||++|++++|.+..++|.+. +-+..|++.+.+++|+++++||.|||||.++.++..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~~~~-----~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLPQID-----IVNISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCcccccceE-----EeccccHHHHHHHHHHHhhcCceEEEccCChhHHHHH
Confidence 4899999864 3678999999999999875554221 1234588999999999999999999999999999999
Q ss_pred HHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccc
Q 006918 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIR 187 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g 187 (625)
+++|+..+||+|++.. |..+ ..++++++.|+ +++|+++++++|+|++|++||+++ ||...++.|.+.+++.|
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 9999999999998744 3222 23568999998 799999999999999999999655 99999999999999999
Q ss_pred eEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCC
Q 006918 188 CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLS 267 (625)
Q Consensus 188 ~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~ 267 (625)
+||.....++.. ..+++..|++++++++++||++|+++.+..+|+++.+.+|+..+|+||+++......+.
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 999877665533 56899999999999999999999999999999999888888999999999854332222
Q ss_pred hhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCC------CCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCC
Q 006918 268 LKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (625)
Q Consensus 268 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~ 341 (625)
........|+++++++.+..+.+++|..+|++..... ..+..+++++||||+++|+|++++...+.....
T Consensus 216 ~~~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~---- 291 (364)
T cd06390 216 TKFRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISR---- 291 (364)
T ss_pred HHHhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCccc----
Confidence 3455678899999999999999999999998765411 245678999999999999999998654332211
Q ss_pred ccCCCCCCccccCc--ccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEeeCCCCC
Q 006918 342 KLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (625)
Q Consensus 342 ~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w~~~~~l 417 (625)
.+....|.. ..+|..|..|+++|++++|+|+||+|.||++|+|.+..|+|+|+.+++. ++||+|++..|+
T Consensus 292 -----~~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~-~~vG~W~~~~g~ 363 (364)
T cd06390 292 -----RGNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGI-RKIGYWNEDEKL 363 (364)
T ss_pred -----CCCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcc-eEEEEECCCCCc
Confidence 112224543 3479999999999999999999999999999999999999999999998 999999987764
No 14
>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=3.5e-48 Score=406.33 Aligned_cols=393 Identities=22% Similarity=0.383 Sum_probs=337.5
Q ss_pred CCCceEEEEEEeecCC-------------CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH
Q 006918 22 LKPEVLNVGAIFSFGT-------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFM 88 (625)
Q Consensus 22 ~~~~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~ 88 (625)
..++++.||++||.|. ..|.+...||.+|+|+||+ +.+|||++|++.++|+|..+..|.++..+++
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 4678999999999872 2366778999999999999 9999999999999999999999999999888
Q ss_pred hc-----------------CcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHH
Q 006918 89 ET-----------------DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAI 150 (625)
Q Consensus 89 ~~-----------------~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al 150 (625)
.+ .|.++||+..|+.+.+++.++..++||||+|+++++.|++ .+|+||.|++|+|..|++||
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 52 5899999999999999999999999999999999999999 68999999999999999999
Q ss_pred HHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhc-CCceEEEEEcchh
Q 006918 151 AEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYSR 229 (625)
Q Consensus 151 ~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~~~~ 229 (625)
++++++|+|++|..++++++||+.+.++|.++.++.|+||++.+.++.. ..+..+...++++.+ .++++||+++..+
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 9999999999999999999999999999999999999999998777655 668889999999887 8899999999999
Q ss_pred hHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHH-------------
Q 006918 230 TGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSR------------- 296 (625)
Q Consensus 230 ~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~------------- 296 (625)
+++.++++|.++++++ .++|+.++.|....+.. .......+|++++.+..+..+.|++|.+.
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-EFLWIASDGWASQNSPT----EAPEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFA 338 (878)
T ss_pred hHHHHHHHHHHhCCCc-ceEEEecchhhccCChh----hhhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccc
Confidence 9999999999999865 69999999887643332 22334788999999999988888887654
Q ss_pred --HHhhcCCCC--------------------------CCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCCCCC
Q 006918 297 --WNTLSNGSI--------------------------GLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGG 348 (625)
Q Consensus 297 --~~~~~~~~~--------------------------~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~ 348 (625)
|++.|++.. ........++||||++|+|||.+.++.+. +
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 555554110 01124567999999999999999887543 1
Q ss_pred CccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCc---eeEEEeEeeCCCCCcccCcccc
Q 006918 349 GTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHG---YPQQIGYWSNYSGLSVVPPEKL 425 (625)
Q Consensus 349 ~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~---~~~~vG~w~~~~~l~~~~~~~~ 425 (625)
....|+..... +|+.|.+++++++|.+..|.+.||++|| ....|+|++++..+ ...++|+|+....
T Consensus 406 ~~~~C~~m~~~-dg~~L~~~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~--------- 474 (878)
T KOG1056|consen 406 TSGLCSAMKAI-DGSLLLKYLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLS--------- 474 (878)
T ss_pred ccccCcCcccc-CHHHHHhhhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeeccccc---------
Confidence 23357777765 5999999999999999999999999999 57999999998554 4599999988653
Q ss_pred cCCCCCCCCCCCccceeEeCCCCCCCCcceec
Q 006918 426 YRKPANRSSSNQHLYSVVWPGGVTSKPRGWVF 457 (625)
Q Consensus 426 ~~~~~~~~~~~~~~~~i~W~~~~~~~P~~~~~ 457 (625)
.+...+.|.++..++|.|+|.
T Consensus 475 -----------l~i~~~~w~~~~~~v~~S~CS 495 (878)
T KOG1056|consen 475 -----------LNIEDLDWTTKPSGVPKSVCS 495 (878)
T ss_pred -----------ccceeeeeccCCCCCcccccc
Confidence 234578999999999999985
No 15
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=100.00 E-value=2.5e-47 Score=392.88 Aligned_cols=338 Identities=21% Similarity=0.315 Sum_probs=277.5
Q ss_pred CCCceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHH-HHHhcCcEEEEc-CC
Q 006918 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGAL-QFMETDTLAIVG-PQ 99 (625)
Q Consensus 22 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~-~l~~~~v~aviG-~~ 99 (625)
..+.+|+||++||.+ ..+.|+++|++++|++.+.+++.+|+....+.+.++..++.++| +|++++|+|||| +.
T Consensus 15 ~~~~~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~~V~aii~~~~ 89 (377)
T cd06379 15 CSPKTVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLISNQVYAVIVSHP 89 (377)
T ss_pred CCCcEEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhhcceEEEEEeCC
Confidence 346789999999843 57899999999999966544444444332222356777666666 567889999974 33
Q ss_pred -ChH---HHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcc
Q 006918 100 -SAV---MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRN 174 (625)
Q Consensus 100 -~s~---~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~ 174 (625)
+|. .+.+++.+++.++||+|+++++++.+++ ..||++||+.|++..++.++++++++|+|++|++|+++++||..
T Consensus 90 ~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~ 169 (377)
T cd06379 90 PTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEGRA 169 (377)
T ss_pred CCCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcchhH
Confidence 332 4677888999999999999999998887 46999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHhccce----EEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEE
Q 006918 175 GVTALGDKLAEIRC----KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 250 (625)
Q Consensus 175 ~~~~l~~~l~~~g~----~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~ 250 (625)
..+.+++.+++.|+ |++..+.++.. ..++...++++++.++|+||+++..+++..+++++.++||++.+|+|
T Consensus 170 ~~~~~~~~~~~~g~~~~~~v~~~~~~~~~----~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~~~w 245 (377)
T cd06379 170 AQKRFETLLEEREIEFKIKVEKVVEFEPG----EKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEGYVW 245 (377)
T ss_pred HHHHHHHHHHhcCCccceeeeEEEecCCc----hhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCEEE
Confidence 99999999999999 88887777654 67899999999999999999999999999999999999999999999
Q ss_pred EeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHh
Q 006918 251 IATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLD 330 (625)
Q Consensus 251 i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~ 330 (625)
|.++.+... .....|++++++..+. ..++++||||+++|+|++++.+
T Consensus 246 i~t~~~~~~-----------~~~~~g~~g~~~~~~~----------------------~~~~~~yDAV~~~A~Al~~~~~ 292 (377)
T cd06379 246 IVSEQAGAA-----------RNAPDGVLGLQLINGK----------------------NESSHIRDAVAVLASAIQELFE 292 (377)
T ss_pred EEecccccc-----------ccCCCceEEEEECCCC----------------------CHHHHHHHHHHHHHHHHHHHHc
Confidence 999876321 1345788888875421 2467899999999999999876
Q ss_pred cCCcccccCCCccCCCCCCccccCccc-ccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEe
Q 006918 331 QGNTISFSNDTKLNGLGGGTLNLGALS-IFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIG 409 (625)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~c~~~~-~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG 409 (625)
+... ......|.... .|.+++.++++|++++|+|++|+|.||++|+|....|+|+++++.++ ++||
T Consensus 293 ~~~~------------~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~-~~VG 359 (377)
T cd06379 293 KENI------------TEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKL-VQVG 359 (377)
T ss_pred CCCC------------CCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCc-eEee
Confidence 3221 11122465433 58889999999999999999999999999998888999999998777 9999
Q ss_pred EeeCC
Q 006918 410 YWSNY 414 (625)
Q Consensus 410 ~w~~~ 414 (625)
+|++.
T Consensus 360 ~w~~~ 364 (377)
T cd06379 360 LYNGD 364 (377)
T ss_pred EEcCc
Confidence 99874
No 16
>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=4e-47 Score=382.74 Aligned_cols=360 Identities=16% Similarity=0.233 Sum_probs=299.1
Q ss_pred EEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCC-cEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 29 VGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGG-RKLSITMHDA-KFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 29 IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g-~~l~~~~~D~-~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
||+||+.++ .+.+.||++|++++|.+..+++. .+|.+.+... ..|++.+.+++|+++++||.||+||.++.++.+
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 899999754 35789999999999999877765 5888766543 458999999999999999999999999999999
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~ 186 (625)
++++|+..+||+|.+... .+...++.+++.|+ +..|+++++++|+|++|.+|| |+++|...++.+.+.++..
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 999999999999987332 12334677899998 789999999999999999999 6788988899999999998
Q ss_pred ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCC
Q 006918 187 RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPL 266 (625)
Q Consensus 187 g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 266 (625)
++.|......+. ....+++.+++++++++.++||+.|+++.+..+|++|.++||+..+|+||+++......+.
T Consensus 151 ~~~V~~~~v~~~---~~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl---- 223 (372)
T cd06387 151 NWQVTARSVGNI---KDVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISL---- 223 (372)
T ss_pred CceEEEEEeccC---CchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccH----
Confidence 988876543332 2356889999999999999999999999999999999999999999999999865544443
Q ss_pred ChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCC------CCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCC
Q 006918 267 SLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (625)
Q Consensus 267 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 340 (625)
.+......+++++++..+..+..++|.++|++.+... .++..+++++||||+++|+|++++.........
T Consensus 224 -~~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~--- 299 (372)
T cd06387 224 -ERVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSR--- 299 (372)
T ss_pred -HHhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCccc---
Confidence 2334445559999999999999999999998765311 234578999999999999999998654322110
Q ss_pred CccCCCCCCccccCc--ccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEeeCCCCC
Q 006918 341 TKLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (625)
Q Consensus 341 ~~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w~~~~~l 417 (625)
.+....|.. ..+|..|..|+++|++++|+|+||++.|+++|+|.+..|+|+|+.+++. ++||+|++..|+
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 112335643 4579999999999999999999999999999999999999999999998 999999988764
No 17
>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=8.4e-47 Score=385.76 Aligned_cols=365 Identities=22% Similarity=0.337 Sum_probs=291.7
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEE--EEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSI--TMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~--~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~ 105 (625)
+||+||+.++.. .+.|+++|+++||++..+||+.+|.+ ...|++ |+..+..++|++++++|.|||||.++..+.
T Consensus 1 ~IGaif~~~s~~---~~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~~-d~f~a~~~~c~l~~~gv~ai~Gp~~~~~~~ 76 (400)
T cd06391 1 HIGAIFDESAKK---DDEVFRMAVADLNQNNEILQTEKITVSVTFVDGN-NPFQAVQEACELMNQGILALVSSIGCTSAG 76 (400)
T ss_pred CcceeeccCCch---HHHHHHHHHHHhcCCccccCCCcceEEEEEeeCC-CcHHHHHHHHHHHhCCeEEEECCCcchHHH
Confidence 489999998753 46799999999999999999995555 888985 899999999999999999999998888889
Q ss_pred HHHHhhhcCCCcEEee----ccCC-----CCCCC--CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcc
Q 006918 106 VLSHLANELQVPLLSF----TALD-----PTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRN 174 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~----~~~~-----~~ls~--~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~ 174 (625)
.++++|+.++||+|++ ++++ +.+++ .+||+++| |+ ..++.|+++++++|+|+++++++ |+++|..
T Consensus 77 ~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~~-d~~~~~~ 152 (400)
T cd06391 77 SLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIFY-DTDYDIR 152 (400)
T ss_pred HHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEEE-eCCccHH
Confidence 9999999999999974 4432 33443 46888888 44 67899999999999999999765 6678888
Q ss_pred hHHHHHHHHhccceEEEEeeecCCCCC-CChhHHHH-HHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEE
Q 006918 175 GVTALGDKLAEIRCKISYKSALPPDQS-VTETDVRN-ELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 250 (625)
Q Consensus 175 ~~~~l~~~l~~~g~~v~~~~~~~~~~~-~~~~~~~~-~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~ 250 (625)
.++.+.+.+++.|+||.... +..... .....++. .+++|++ ++.++||++++++.+..+|++|+++||++.+|+|
T Consensus 153 ~l~~l~~~~~~~~i~I~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y~w 231 (400)
T cd06391 153 GIQEFLDKVSQQGMDVALQK-VENNINKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLVAFDCHW 231 (400)
T ss_pred HHHHHHHHHHHcCCeEEEEe-cCcchhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCCCCCeEE
Confidence 99999999999999998643 221100 00112222 4556665 6679999999999999999999999999999999
Q ss_pred EeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCC---------CCCCchhhhHhHHHHHH
Q 006918 251 IATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS---------IGLNPYGLYAYDTVWMI 321 (625)
Q Consensus 251 i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~---------~~~~~~~~~~YDAv~~l 321 (625)
|++++.....+..+ .....+.|+.+++++.+......+|..+|..++... ..++.+++++||||+++
T Consensus 232 i~t~~~~~~~dl~~----~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDaV~~~ 307 (400)
T cd06391 232 IIINEEISDMDVQE----LVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDTVLLL 307 (400)
T ss_pred EEeCccccccccch----HHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHHHHHH
Confidence 99998877766532 223455677888888887778888888887765310 12457899999999999
Q ss_pred HHHHHHHHhcCCcccccCCCccCCCCCCccccCc--ccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEE
Q 006918 322 ARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 399 (625)
Q Consensus 322 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~ 399 (625)
|+|++++....... .....+|.. ..+|..|..|+++|++++|+|+||++.|+++|+|.+..|+|+|+
T Consensus 308 A~A~~~l~~~~~~~-----------~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~ 376 (400)
T cd06391 308 ANAFHKKLEDRKWH-----------SMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGT 376 (400)
T ss_pred HHHHHHHHhhcccc-----------CCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEe
Confidence 99999875332111 112335643 45899999999999999999999999999999999999999999
Q ss_pred e-----eCceeEEEeEeeCCCCC
Q 006918 400 I-----EHGYPQQIGYWSNYSGL 417 (625)
Q Consensus 400 ~-----~~~~~~~vG~w~~~~~l 417 (625)
. ++|. ++||+|++..|+
T Consensus 377 ~~~~~~~~g~-rkiG~Ws~~~gl 398 (400)
T cd06391 377 NYGEDLGRGV-RKLGCWNPITGL 398 (400)
T ss_pred eccccCCCcc-eEEEEEcCCcCC
Confidence 6 7888 999999998765
No 18
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=7.1e-46 Score=383.28 Aligned_cols=370 Identities=18% Similarity=0.266 Sum_probs=297.6
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~-~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||+||+.+. ...+.|+++|+++||.+..++++.+|.+.+.++. +|+..+++++|++++++|+|||||.+|..+.+
T Consensus 1 ~iG~if~~~~---~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~ 77 (382)
T cd06380 1 PIGGLFDVDE---DQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSRGVFAIFGSYDKSSVNT 77 (382)
T ss_pred CceeEECCCC---hHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhcCcEEEEecCcHHHHHH
Confidence 4899999983 5789999999999999877778888888887765 79999999999999999999999999999999
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~ 186 (625)
++++++.++||+|+++++.+.++ ..++|+||+.|+. ..++++++++++|++|++||++++ |...++.+.+.+++.
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 99999999999999988887774 4579999998863 458999999999999999997664 667778888888888
Q ss_pred c--eEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCC
Q 006918 187 R--CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKS 264 (625)
Q Consensus 187 g--~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 264 (625)
| +.+... .+... ....|+..+|++||+.++|+||+.+..+++..++++|+++||..++|+||++++.....+.
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 23321 2357999999999999999999999999999999999999999999999998765433322
Q ss_pred CCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCC------CCCCchhhhHhHHHHHHHHHHHHHHhcCCccccc
Q 006918 265 PLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (625)
Q Consensus 265 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 338 (625)
........++.++....+..+.+++|.++|++.++.. ..+..+++++||||+++|+|++++.+.+......
T Consensus 228 ---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~ 304 (382)
T cd06380 228 ---SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHR 304 (382)
T ss_pred ---HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhccccccc
Confidence 1112223356677766667788999999999887521 1356688999999999999999986543211000
Q ss_pred CCCccCCCCCCccccCc--ccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEeeCCCC
Q 006918 339 NDTKLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSG 416 (625)
Q Consensus 339 ~~~~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w~~~~~ 416 (625)
. ......+...|.. ...|.+|.+|.++|++++|+|++|++.||++|+|.+..++|+++++++. ++||+|++..|
T Consensus 305 ~---~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~-~~vg~w~~~~g 380 (382)
T cd06380 305 I---DISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGL-RKVGYWNEDDG 380 (382)
T ss_pred c---ccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCc-eEEEEECCCcC
Confidence 0 0000123345643 3468889999999999999999999999999999889999999998887 99999998765
Q ss_pred C
Q 006918 417 L 417 (625)
Q Consensus 417 l 417 (625)
+
T Consensus 381 ~ 381 (382)
T cd06380 381 L 381 (382)
T ss_pred c
Confidence 3
No 19
>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=2.8e-46 Score=383.31 Aligned_cols=339 Identities=18% Similarity=0.257 Sum_probs=289.4
Q ss_pred eEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH-
Q 006918 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM- 103 (625)
Q Consensus 26 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~- 103 (625)
.++||+++|.+. .+.+++.|+..+|.+..+..+++++++..|+.+||..++.++|+++.+ +|.+|+||.+|..
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 589999999873 358899999999988766578999999999999999999999999864 7889999999988
Q ss_pred --HHHHHHhhhcCCCcEEeeccCCCCC-CC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHH
Q 006918 104 --AHVLSHLANELQVPLLSFTALDPTL-SP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTAL 179 (625)
Q Consensus 104 --~~~va~~~~~~~iP~Is~~~~~~~l-s~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l 179 (625)
+.+++.+++.++||+|+++++++.+ ++ ..||||||+.|++..++.++++++++|+|++|++||+++++|....+.+
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 8999999999999999999999888 77 6799999999999999999999999999999999999999999999999
Q ss_pred HHHHhccceE--EEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcch
Q 006918 180 GDKLAEIRCK--ISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (625)
Q Consensus 180 ~~~l~~~g~~--v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (625)
++.+++.|+| ++....++.. ...++...+.++++.++|+||++++..++..++++|.++||+.++|+||+++.+.
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 7666666543 1227788899999999999999999999999999999999999999999999875
Q ss_pred hcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccc
Q 006918 258 TFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISF 337 (625)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~ 337 (625)
.... .......|++++++..+ ..+.+++||||+++|+|++++.++....
T Consensus 234 ~~~~-------~~~~~~~G~~g~~~~~~----------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~~-- 282 (362)
T cd06367 234 GSGL-------APEGLPVGLLGVGLDTW----------------------YSLEARVRDAVAIVARAAESLLRDKGAL-- 282 (362)
T ss_pred cccC-------CccCCCCeeEEEEeccc----------------------ccHHHHHHHHHHHHHHHHHHHHHhcCCC--
Confidence 3211 12355678999987542 2346789999999999999998753221
Q ss_pred cCCCccCCCCCCccccCcccc--cCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEe-eCceeEEEeEeeC
Q 006918 338 SNDTKLNGLGGGTLNLGALSI--FDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI-EHGYPQQIGYWSN 413 (625)
Q Consensus 338 ~~~~~~~~~~~~~~~c~~~~~--~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~-~~~~~~~vG~w~~ 413 (625)
......|..... |.+|..|.++|++++|+|.+|+|.||++|+|.+..|+|+|++ +.++ ++||.|++
T Consensus 283 ---------~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~-~~VG~W~~ 351 (362)
T cd06367 283 ---------PEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKW-ERVGSWEN 351 (362)
T ss_pred ---------CCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcc-eEEEEEcC
Confidence 112235766542 778999999999999999999999999999988999999998 5555 99999975
No 20
>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=7.9e-46 Score=385.27 Aligned_cols=353 Identities=25% Similarity=0.359 Sum_probs=294.9
Q ss_pred CCceEEEEEEeecCCC---------------------CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHH
Q 006918 23 KPEVLNVGAIFSFGTV---------------------NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSI 81 (625)
Q Consensus 23 ~~~~i~IG~l~~~~~~---------------------~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~ 81 (625)
.++++.||++||.|.. .|.....|+++|+|+||+++++|||++|+++++|+|+ +..++
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 5789999999999741 2556789999999999999999999999999999977 66799
Q ss_pred HHHHHHHh----------------cCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchH
Q 006918 82 MGALQFME----------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDL 144 (625)
Q Consensus 82 ~~~~~l~~----------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~ 144 (625)
+.+.+++. ++|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..||++||+.|++.
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 99999874 58999999999999999999999999999999999998887 57899999999999
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEE
Q 006918 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVV 224 (625)
Q Consensus 145 ~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl 224 (625)
.++.++++++++++|++|++|+++++||....+.+++.+++.|++++..+.++... ....|+..++.+|+++++|+||+
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 99999999999999999999999999999999999999999999999888776421 24679999999999999999999
Q ss_pred EcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCC
Q 006918 225 HGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS 304 (625)
Q Consensus 225 ~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~ 304 (625)
.+..+++..+++++.++||.. ..|+.++.+........ ........+++++....+..+.+++|.++
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 999999999999999999853 47888765432211110 11113344677777777777888888876
Q ss_pred CCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEc
Q 006918 305 IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFN 384 (625)
Q Consensus 305 ~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd 384 (625)
+++.+||||+++|+|+++++.++.. .|.... ..+++.|.++|++++|+|++|++.||
T Consensus 308 -----~~~~~YDaV~~~a~Al~~a~~~~~~-----------------~~~~~~-~~~~~~l~~~L~~~~~~g~~g~i~fd 364 (410)
T cd06363 308 -----FAFSVYAAVYAVAHALHNVLQCGSG-----------------GCPKRV-PVYPWQLLEELKKVNFTLLGQTVRFD 364 (410)
T ss_pred -----HHHHHHHHHHHHHHHHHHHhCCCCC-----------------CCCCCC-CCCHHHHHHHHhccEEecCCcEEEeC
Confidence 3567999999999999999765422 233212 22588999999999999999999999
Q ss_pred cCCCccCCcEEEEEEeeC---ceeEEEeEeeCC
Q 006918 385 QDRSLLHPSYDIINVIEH---GYPQQIGYWSNY 414 (625)
Q Consensus 385 ~~G~r~~~~~~I~~~~~~---~~~~~vG~w~~~ 414 (625)
++|++ ...|+|++++.+ ..+++||+|++.
T Consensus 365 ~~G~~-~~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 365 ENGDP-NFGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred CCCCC-ccceEEEEEEEcCCceeEEEEEEEECC
Confidence 99985 567999999643 235999999874
No 21
>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=1e-45 Score=380.80 Aligned_cols=351 Identities=16% Similarity=0.236 Sum_probs=286.1
Q ss_pred EEeecCCC---CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 31 AIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 31 ~l~~~~~~---~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
+|+|.+.. .+...+.|+++|+|+||+++++++|++|+++++|++|++..+...+..+..++|.|||||.||..+.++
T Consensus 4 ~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~~~v~aiiGp~~s~~~~~v 83 (387)
T cd06386 4 VLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCARKPDLILGPVCEYAAAPV 83 (387)
T ss_pred EECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHhhCCCEEECCCCccHHHHH
Confidence 45665422 235678999999999999999989999999999999988767777766667799999999999999999
Q ss_pred HHhhhcCCCcEEeeccCCCCCCC--CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcch---HHHHHHH
Q 006918 108 SHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNG---VTALGDK 182 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~--~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~---~~~l~~~ 182 (625)
+++++.++||+|+++++++.+++ ..||++||+.|++..++.++++++++|+|++|++||+++++++.. .+.+.+.
T Consensus 84 a~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~~~~~~~~~~l~~~ 163 (387)
T cd06386 84 ARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQERNCYFTLEGVHHV 163 (387)
T ss_pred HHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCCccceehHHHHHHH
Confidence 99999999999999999998886 359999999999999999999999999999999999999998776 8899999
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcch-hc--
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS-TF-- 259 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~-~~-- 259 (625)
+++.|++|+..+..+.. ..++..+++++++.+ |+||++++.+.+..++++|+++||+..+|+||..+... ..
T Consensus 164 ~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~~ 238 (387)
T cd06386 164 FQEEGYHMSIYPFDETK----DLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSYG 238 (387)
T ss_pred HHhcCceEEEEecCCCC----cccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEecccccccC
Confidence 99999999876544332 568999999999877 99999999999999999999999999999999998653 11
Q ss_pred ---ccCCCCCC---hhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCC------CCCCCchhhhHhHHHHHHHHHHHH
Q 006918 260 ---IDSKSPLS---LKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG------SIGLNPYGLYAYDTVWMIARALKL 327 (625)
Q Consensus 260 ---~~~~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~YDAv~~la~Al~~ 327 (625)
+...+..+ ....+...|+.++.+ ..+.+++|.+++++++.. ...++.+++.+||||+++|+|+++
T Consensus 239 ~~~w~~~~~~~~~~~~a~~~~~~v~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~A~Al~~ 315 (387)
T cd06386 239 DGSWKRGDKHDFEAKQAYSSLNTVTLLRT---VKPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLYALALHE 315 (387)
T ss_pred CCCCccCCCcCHHHHHHHHhheEEeccCC---CChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHHHHHHHH
Confidence 11001111 122334445544444 357788888888744431 112347789999999999999999
Q ss_pred HHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEe--eCcee
Q 006918 328 FLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI--EHGYP 405 (625)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~--~~~~~ 405 (625)
++..+.. +.+|..|.++|++++|+|++|++.||++|+|. ..|.++.++ +++.+
T Consensus 316 ~~~~g~~------------------------~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~~ 370 (387)
T cd06386 316 VLKNGYS------------------------KKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGTY 370 (387)
T ss_pred HhhCCCC------------------------CCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCccE
Confidence 8754321 23699999999999999999999999999984 699999996 44556
Q ss_pred EEEeEeeCC
Q 006918 406 QQIGYWSNY 414 (625)
Q Consensus 406 ~~vG~w~~~ 414 (625)
+.||+|...
T Consensus 371 ~~~~~~~~~ 379 (387)
T cd06386 371 EVVGNYFGK 379 (387)
T ss_pred EEEeEEccc
Confidence 999999764
No 22
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.9e-45 Score=373.78 Aligned_cols=361 Identities=17% Similarity=0.243 Sum_probs=290.4
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCC-CcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCCChHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLG-GRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~-g~~l~~~~~D~~-~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~ 105 (625)
+||+||+..+ .+...||++|++.+|.+..+++ +.+|.+++.... .|++.+.+++|+++++||.||+||.+|..+.
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 4899999654 3568999999999998875543 257777665443 5899999999999999999999999999999
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhc
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE 185 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~ 185 (625)
+++++|+.++||+|+++.+ +...+.+.+++.|+ +..++++++++|+|++|++||+ .++|...++.|.+.+++
T Consensus 78 ~v~~i~~~~~IP~I~~~~~----~~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd-~~~~~~~lq~l~~~~~~ 149 (371)
T cd06388 78 TLTSFCSALHISLITPSFP----TEGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYD-TDRGYSILQAIMEKAGQ 149 (371)
T ss_pred HHHHHhhCCCCCeeecCcc----ccCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEec-CCccHHHHHHHHHhhHh
Confidence 9999999999999997543 22334555666666 4688888999999999999995 44566779999999999
Q ss_pred cceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCC
Q 006918 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSP 265 (625)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 265 (625)
.|++|...+..+.. ..|++.+|++|+++++++||+.|+++.+..+++||.++||+.++|+||+++......+.
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 99998875544332 55999999999999999999999999999999999999999999999998753322221
Q ss_pred CChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCC-----CCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCC
Q 006918 266 LSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG-----SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (625)
Q Consensus 266 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 340 (625)
........++.+++...+..+..++|.++|.+.+.. ...+...++++||||+++|+|++++........
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 222233445888888888888899999999876531 124677899999999999999999754322110
Q ss_pred CccCCCCCCccccC--cccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEeeCCCCCc
Q 006918 341 TKLNGLGGGTLNLG--ALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLS 418 (625)
Q Consensus 341 ~~~~~~~~~~~~c~--~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w~~~~~l~ 418 (625)
..+.+..|. ...+|..|..|.++|++++|+|+||++.||++|+|.+..++|+++.+++. ++||+|++..|++
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 012233563 35589999999999999999999999999999999998999999999998 9999999987753
No 23
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=3.8e-45 Score=372.73 Aligned_cols=359 Identities=18% Similarity=0.284 Sum_probs=291.6
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHD-AKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D-~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||+||+..+ .+.+.||++|++.+|.. +.+|...+.. ...|++.+.+++|+++++||.||+||.+|..+.+
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~-----~~~l~~~~~~~~~~dsf~~~~~~C~~~~~GV~AI~Gp~ss~~~~~ 72 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTS-----EFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNT 72 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhccc-----CceeeeeeEEecccchHHHHHHHHHHhhcCcEEEEecCCHHHHHH
Confidence 4899999765 35789999999999986 3577765543 3458999999999999999999999999999999
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~ 186 (625)
++++|+.++||+|++.++ ++..+++.+++.|+ +..++++++++|+|++|++||+ +++|...++.+.+.+++.
T Consensus 73 v~~i~~~~~IP~I~~~~~----~~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~gl~~lq~l~~~~~~~ 144 (370)
T cd06389 73 ITSFCGTLHVSFITPSFP----TDGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRGLSTLQAVLDSAAEK 144 (370)
T ss_pred HHHhhccCCCCeeeecCC----CCCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchHHHHHHHHHHhhccC
Confidence 999999999999987554 23457888899988 5799999999999999999997 569999999999999999
Q ss_pred ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCC
Q 006918 187 RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPL 266 (625)
Q Consensus 187 g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 266 (625)
|++|...............+++.+|++|+++++++||+.++.+.+..++++|.++||+.+.|+||+++......+.
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 9887644321111012356999999999999999999999999999999999999999999999998754332222
Q ss_pred ChhhhhcccceEEEeeeCCCChhHHHHHHHHHh----hcCC--CCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCC
Q 006918 267 SLKTAKSILGALTLRQHTPDSKRRRDFVSRWNT----LSNG--SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (625)
Q Consensus 267 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----~~~~--~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 340 (625)
........++.+++...+..+..++|.++|++ .+.. ...+...++++||||++++.|++++........ +
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 11112344678888888888899999999986 3311 134667899999999999999999854432110 0
Q ss_pred CccCCCCCCccccCc--ccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEeeCCCCC
Q 006918 341 TKLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (625)
Q Consensus 341 ~~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w~~~~~l 417 (625)
.++...|.. ..+|.+|..|.++|++++|+|+||++.||++|+|.+..++|+++++++. ++||+|++..|+
T Consensus 297 ------~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~-~kvG~W~~~~~~ 368 (370)
T cd06389 297 ------RGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGP-RKIGYWSEVDKM 368 (370)
T ss_pred ------CCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcc-eEEEEEcCCCCc
Confidence 122335643 4579999999999999999999999999999999988999999998898 999999998765
No 24
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=100.00 E-value=2.6e-45 Score=381.66 Aligned_cols=358 Identities=17% Similarity=0.228 Sum_probs=286.4
Q ss_pred EEEEEeecCCC---Cc-hhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHH-----HHHH-HhcCcEEEEc
Q 006918 28 NVGAIFSFGTV---NG-QVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMG-----ALQF-METDTLAIVG 97 (625)
Q Consensus 28 ~IG~l~~~~~~---~g-~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~-----~~~l-~~~~v~aviG 97 (625)
+||+++|++.. .| .....|+++|+|+||+++++|+|++|++++.|+++++..+... +.++ ..+++.+|||
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 58999998744 34 5778999999999999999999999999999987655533332 2222 3569999999
Q ss_pred CCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEE-EEecCCC-Ccc
Q 006918 98 PQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIA-IFNDDDQ-GRN 174 (625)
Q Consensus 98 ~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~i-i~~d~~~-g~~ 174 (625)
|.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++|+|+++++ ++.++.. ++.
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 999999999999999999999999999999988 6799999999999999999999999999999984 5554432 233
Q ss_pred ---hHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEE
Q 006918 175 ---GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (625)
Q Consensus 175 ---~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (625)
..+.+.+.+++.|++|+..+..+. +..++..+|+++++. .|+||+++..+.+..++++|.++||+.+.|+||
T Consensus 161 ~~~~~~~l~~~~~~~gi~v~~~~~~~~----~~~d~~~~l~~ik~~-~~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i 235 (405)
T cd06385 161 CYFAMEGLYMELKKNNITVVDLVFEED----DLINYTTLLQDIKQK-GRVIYVCCSPDIFRRLMLQFWREGLPSEDYVFF 235 (405)
T ss_pred hHHHHHHHHHHHHhCCeEEEEeeccCC----chhhHHHHHHHHhhc-ceEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 468889999999999987653322 267899999999875 499999999999999999999999999999999
Q ss_pred eeCcchhcccC---------CCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhh----cCCCCC---CCchhhhHh
Q 006918 252 ATTWLSTFIDS---------KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNGSIG---LNPYGLYAY 315 (625)
Q Consensus 252 ~~~~~~~~~~~---------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~~---~~~~~~~~Y 315 (625)
.++++...... .+..+......+++++......+..+.+++|.++|+++ ++.... ++.+++++|
T Consensus 236 ~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~Y 315 (405)
T cd06385 236 YIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFY 315 (405)
T ss_pred EeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHH
Confidence 98764322111 01111234456788887776677778899999999885 432111 457888999
Q ss_pred HHHHHHHHHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEE
Q 006918 316 DTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYD 395 (625)
Q Consensus 316 DAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~ 395 (625)
|||+++|.||+++.+..+. +.+|.+|.++|++++|+|++|.|.||++|+| ...|.
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 9999999999998664321 3369999999999999999999999999998 47888
Q ss_pred EEEEe--eCceeEEEeEeeCCC
Q 006918 396 IINVI--EHGYPQQIGYWSNYS 415 (625)
Q Consensus 396 I~~~~--~~~~~~~vG~w~~~~ 415 (625)
+++++ .++.++.||+|+..+
T Consensus 371 ~~~~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 371 LWDMTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred EEEccCCCCCcEEEEEEEcccC
Confidence 88663 234459999998654
No 25
>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=6.1e-45 Score=377.31 Aligned_cols=358 Identities=18% Similarity=0.288 Sum_probs=283.3
Q ss_pred EEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||++.|.+. ..+.....|+++|+++||+++++|+|++|++++.|++|++..++..+++++.+ +|.+||||.||..
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 5899999752 24556679999999999999999999999999999999999999999999865 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC---CCCc--chHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD---DQGR--NGVT 177 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~---~~g~--~~~~ 177 (625)
+.+++++++.+++|+|+++++++.+++ ..||+++|+.|++..++.++++++++|+|++|++|+.++ .++. ...+
T Consensus 81 ~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~~~ 160 (391)
T cd06372 81 AEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDELWK 160 (391)
T ss_pred HHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHHHH
Confidence 999999999999999999999999987 579999999999999999999999999999999998643 2331 1234
Q ss_pred HHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcch
Q 006918 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (625)
Q Consensus 178 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (625)
.+.+.++ .++++...+.++.. ..++...+.+.+++++|+||+++..+++..++++|+++||..++|+||.+....
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 4455553 57888887777654 455555554555688999999999999999999999999988889999964221
Q ss_pred hc-ccCCCC--CChhhhhcccceEEEeeeCCC-ChhHHHHHHHHHhhcCCCC---------CCCchhhhHhHHHHHHHHH
Q 006918 258 TF-IDSKSP--LSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGSI---------GLNPYGLYAYDTVWMIARA 324 (625)
Q Consensus 258 ~~-~~~~~~--~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~---------~~~~~~~~~YDAv~~la~A 324 (625)
.. +..... ......+...|++++.+..+. .+..++|.++|++++.... ..+.+++++||||+++|+|
T Consensus 236 ~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~A 315 (391)
T cd06372 236 DNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYALA 315 (391)
T ss_pred CccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHHH
Confidence 11 111000 012233467788877776542 3556778888877664211 2356789999999999999
Q ss_pred HHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHH---hcccccceeeEEEccCCCccCCcEEEEEEee
Q 006918 325 LKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANIL---QTNMTGLSGPIHFNQDRSLLHPSYDIINVIE 401 (625)
Q Consensus 325 l~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~---~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~ 401 (625)
++++++++.. |.+|..+.++|+ +++|+|++|+|.||++|+| ...|.|++++.
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 9998765321 336899999999 6899999999999999997 68999999985
Q ss_pred --C-ceeEEEeEeeCCC
Q 006918 402 --H-GYPQQIGYWSNYS 415 (625)
Q Consensus 402 --~-~~~~~vG~w~~~~ 415 (625)
+ ...++||+|+..+
T Consensus 371 ~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 371 SGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred cCCccceeeEEEecchh
Confidence 2 2359999998753
No 26
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=100.00 E-value=1.1e-44 Score=375.84 Aligned_cols=347 Identities=17% Similarity=0.284 Sum_probs=288.5
Q ss_pred EEEEEEeecCC----CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChH
Q 006918 27 LNVGAIFSFGT----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (625)
Q Consensus 27 i~IG~l~~~~~----~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~ 102 (625)
|+||++.|++. ..|.....|+++|+|+||+++++|+|++|++++.|++|++..+++.+++++.++|.+||||.+|.
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 44888899999999999999999899999999999999999999999999999999999999984
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~ 181 (625)
. +++.+++.++||+|+++++++.+++ ..||+|||+.|++..++.++++++++++|++|++|+++++||....+.+++
T Consensus 81 ~--~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g~~~~~~~~~ 158 (404)
T cd06370 81 T--TEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKYSSVFETLKE 158 (404)
T ss_pred H--HHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCcccHHHHHHHHH
Confidence 4 4567999999999999999998887 579999999999999999999999999999999999999999999999999
Q ss_pred HHhccceEEEEeeecCCCCC---CChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCC-CCCeEEEeeCcch
Q 006918 182 KLAEIRCKISYKSALPPDQS---VTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMM-DSGYVWIATTWLS 257 (625)
Q Consensus 182 ~l~~~g~~v~~~~~~~~~~~---~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~-~~~~~~i~~~~~~ 257 (625)
.+++.|++|+..+.++.... ....++..++++++.. ++++|+++...++..++++|+++||. ..+|+||..+...
T Consensus 159 ~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~~~~~y~~i~~~~~~ 237 (404)
T cd06370 159 EAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLLESGDYMVLGVDIEY 237 (404)
T ss_pred HHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCCCCCcEEEEEEchhh
Confidence 99999999998888875410 1246888888888764 67888888778899999999999998 5789999866321
Q ss_pred hc---------------ccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCC------------CCCCCch
Q 006918 258 TF---------------IDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG------------SIGLNPY 310 (625)
Q Consensus 258 ~~---------------~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------------~~~~~~~ 310 (625)
.. +...........++++|++.+....+ .+.+++|.+.|++.+.. ...++.+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (404)
T cd06370 238 YDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIE 316 (404)
T ss_pred ccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccccccccccee
Confidence 10 01011111344567888887765544 66778999999876431 1235567
Q ss_pred hhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhccccccee-eEEEccCCCc
Q 006918 311 GLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSL 389 (625)
Q Consensus 311 ~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG-~v~Fd~~G~r 389 (625)
++++||||+++|+|++++++++.. ..++.+|.++|++++|+|++| +|.||++|+|
T Consensus 317 aa~~yDAv~~~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~ 372 (404)
T cd06370 317 AAYLYDAVMLYAKALDETLLEGGD------------------------IYNGTAIVSHILNRTYRSITGFDMYIDENGDA 372 (404)
T ss_pred eehhHHHHHHHHHHHHHHHHhcCC------------------------CCCHHHHHHHHhCcccccccCceEEEcCCCCc
Confidence 889999999999999998765321 015899999999999999999 8999999997
Q ss_pred cCCcEEEEEEeeC
Q 006918 390 LHPSYDIINVIEH 402 (625)
Q Consensus 390 ~~~~~~I~~~~~~ 402 (625)
...|.+++++..
T Consensus 373 -~~~y~v~~~~~~ 384 (404)
T cd06370 373 -EGNYSVLALQPI 384 (404)
T ss_pred -ccceEEEEeccc
Confidence 588999999744
No 27
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=100.00 E-value=3.8e-44 Score=366.39 Aligned_cols=337 Identities=39% Similarity=0.710 Sum_probs=297.7
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~~~ 105 (625)
+||+++|++ +..|.....|+++|+++||+++++++|++|+++++|+++++..+++.+++|+.+ +|.+||||.+|..+.
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 778899999999999999999977789999999999999999999999999987 999999999999999
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHh
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~ 184 (625)
+++++++.+++|+|+++++++.+++ ..+|++||+.|++..++.++++++++++|++|++|+.++++|....+.+++.++
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 9999999999999999999988865 568999999999999999999999999999999999999999999999999999
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccC-C
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS-K 263 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~-~ 263 (625)
+.|++|+..+.++.. ....|+...+++|+++++|+|++++...++..+++++.++||....++|+.++.+...++. .
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 999999988888764 2367999999999999999999999999999999999999998888999998765543311 0
Q ss_pred CCCChhhhhcccceEEEeeeCCC-ChhHHHHHHHHHhhcCCCC----CCCchhhhHhHHHHHHHHHHHHHHhcCCccccc
Q 006918 264 SPLSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGSI----GLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (625)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~----~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 338 (625)
...........+|++++.++.+. .+.+++|.++|+++++... .+..+++++|||+++
T Consensus 239 ~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~p~~~a~~~YDav~~------------------ 300 (350)
T cd06366 239 DCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPELTEPSIYALYAYDAVWA------------------ 300 (350)
T ss_pred CCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcCcCCCCcccchhhhheee------------------
Confidence 11113445678899999988877 7889999999999986321 467788999999987
Q ss_pred CCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEeeCCCCC
Q 006918 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (625)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w~~~~~l 417 (625)
+++|+|++|+++||++|++.+..|+++++.++++ ++||.|++..|+
T Consensus 301 --------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~-~~vg~~~~~~~~ 346 (350)
T cd06366 301 --------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGY-RKIGFWSSESGL 346 (350)
T ss_pred --------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCce-EEEEEEeCCCCc
Confidence 1268899999999999998889999999987777 999999987664
No 28
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=5.3e-44 Score=370.89 Aligned_cols=359 Identities=17% Similarity=0.266 Sum_probs=294.3
Q ss_pred EEEEEeecCC----CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC----ChHHHHHHHHHHH-hcCcEEEEcC
Q 006918 28 NVGAIFSFGT----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF----NGFLSIMGALQFM-ETDTLAIVGP 98 (625)
Q Consensus 28 ~IG~l~~~~~----~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~----~~~~a~~~~~~l~-~~~v~aviG~ 98 (625)
+||.++|.+. ..|.....|+++|+|+||+++++++|++|++++.|+++ ++..++..+.+++ .++|.+||||
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 4899999984 23557789999999999999998899999999999999 8899998888876 5699999999
Q ss_pred CChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCC----c
Q 006918 99 QSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQG----R 173 (625)
Q Consensus 99 ~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g----~ 173 (625)
.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|+++++|+.+++++ .
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 99999999999999999999999999998987 679999999999999999999999999999999999887764 4
Q ss_pred chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEee
Q 006918 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 174 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (625)
...+.+.+.+++.|++|+.. .+... ....++..+++++++.. |+||+++...++..++++++++||...+|+||..
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 46788889999999998754 34332 11368999999999865 9999999999999999999999999999999997
Q ss_pred Ccchhcc------c--CCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhh----cCCC---CCCCchhhhHhHHH
Q 006918 254 TWLSTFI------D--SKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNGS---IGLNPYGLYAYDTV 318 (625)
Q Consensus 254 ~~~~~~~------~--~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~---~~~~~~~~~~YDAv 318 (625)
+...... . ..........+..+|++.+....+..+.+++|.++|+++ ++.. ..+..+++.+||||
T Consensus 237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav 316 (396)
T cd06373 237 DLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAV 316 (396)
T ss_pred ccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHH
Confidence 6542211 1 011111233455678888887777788899999999875 3211 12456788999999
Q ss_pred HHHHHHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEE
Q 006918 319 WMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIIN 398 (625)
Q Consensus 319 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~ 398 (625)
+++++|++++.++... +.++++|.++|++++|+|++|++.||++|+| ...|.|++
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 9999999998654321 1258999999999999999999999999997 47788877
Q ss_pred Ee--eCceeEEEeEeeCCC
Q 006918 399 VI--EHGYPQQIGYWSNYS 415 (625)
Q Consensus 399 ~~--~~~~~~~vG~w~~~~ 415 (625)
+. .++.++.+|.|+..+
T Consensus 372 ~~~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 372 MTDTETGTFEVVANYNGSN 390 (396)
T ss_pred ccCCCCceEEEEeeccccc
Confidence 63 345569999998854
No 29
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=100.00 E-value=1.4e-43 Score=367.72 Aligned_cols=360 Identities=20% Similarity=0.367 Sum_probs=308.4
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||+++|++ +..|.....|+++|+|+||+++++++|++|++++.|+++++..+++.+.+++.+ +|.+||||.+|..
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 599999997 445778899999999999999977789999999999999999999999999865 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC-CCcchHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGD 181 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~-~g~~~~~~l~~ 181 (625)
+.++++++..+++|+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++++++++++. ||....+.+.+
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 999999999999999999999888886 5789999999999999999999999999999999998887 89999999999
Q ss_pred HHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhccc
Q 006918 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (625)
Q Consensus 182 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (625)
.+++.|++|+....++.. ....++..+++++++++ ++||+++.+.++..+++++.++||...+++|+..+.+.....
T Consensus 161 ~~~~~G~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~ 237 (389)
T cd06352 161 ALREFNLTVSHVVFMEDN--SGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLFNYSLP 237 (389)
T ss_pred HHHhcCCeEEEEEEecCC--ccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehhccccc
Confidence 999999999988888754 12578999999999877 999999999999999999999999878899999876544321
Q ss_pred C--------CCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCC--------CCCCchhhhHhHHHHHHHHHH
Q 006918 262 S--------KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS--------IGLNPYGLYAYDTVWMIARAL 325 (625)
Q Consensus 262 ~--------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------~~~~~~~~~~YDAv~~la~Al 325 (625)
. .........+..+|++++.+..+..+.+++|.++|+++++.. ..+..+++.+||||+++++|+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 317 (389)
T cd06352 238 YQNSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHAL 317 (389)
T ss_pred cCCCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHH
Confidence 0 111123345667888888887777888999999999888521 235678899999999999999
Q ss_pred HHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeC-ce
Q 006918 326 KLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEH-GY 404 (625)
Q Consensus 326 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~-~~ 404 (625)
+++..++.. +.++..+.+.|++++|.|++|++.||++|+|. ..|+|++++.. +.
T Consensus 318 ~~~~~~~~~------------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~-~~~~v~~~~~~~~~ 372 (389)
T cd06352 318 NETLAEGGD------------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDRE-GDYSLLDLDSTGGQ 372 (389)
T ss_pred HHHHHhCCC------------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCee-eeEEEEEecCCCce
Confidence 998765321 22588999999999999999999999999974 78999999864 55
Q ss_pred eEEEeEeeCCC
Q 006918 405 PQQIGYWSNYS 415 (625)
Q Consensus 405 ~~~vG~w~~~~ 415 (625)
...++.++..+
T Consensus 373 ~~~~~~~~~~~ 383 (389)
T cd06352 373 LEVVYLYDTSS 383 (389)
T ss_pred EEEEEeccccc
Confidence 58888876654
No 30
>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=4.8e-43 Score=359.89 Aligned_cols=343 Identities=19% Similarity=0.277 Sum_probs=276.6
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~ 104 (625)
+||++.|++ +..|...+.|+++|+|+||+++++++|++|++++.|++|++..++..+.++ .++|.+||||.||..+
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 589999985 344667889999999999999999889999999999999987766444332 4699999999999999
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l 183 (625)
.+++++++.++||+|+++++++.+++ ..||+|+|+.|++ ..++++++++|+|++|++|++++++|....+.+.+.+
T Consensus 80 ~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~~~~~~~l~~~l 156 (382)
T cd06371 80 EAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIWVETAQKLASAL 156 (382)
T ss_pred HHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccchHHHHHHHHHHH
Confidence 99999999999999999999999987 6799999999886 4678899999999999999999999988999999999
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC-ceEEEEEcch-----hhHHHHHHHHHHcCCCCCCeEEEeeCcch
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYS-----RTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~-~~vIvl~~~~-----~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (625)
++.|++|+..+.++.. ..|+..+|++||+.+ +|+||+++.. .++..++++|+++||+..+|+||.++...
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 9999999988777754 679999999999887 6999998775 67889999999999999999999987432
Q ss_pred hcc----cCCC--CCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhh-cC---CCCCCCchhhhHhHHHHHHHHHHHH
Q 006918 258 TFI----DSKS--PLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL-SN---GSIGLNPYGLYAYDTVWMIARALKL 327 (625)
Q Consensus 258 ~~~----~~~~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~---~~~~~~~~~~~~YDAv~~la~Al~~ 327 (625)
... .... ..+....++.++++.+....+..+.+++|.+.|+.. .. +......+++.+|||++++|+|+++
T Consensus 233 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~ 312 (382)
T cd06371 233 YSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGEIPSDLEPEQVSPLFGTIYNSIYLLAHAVEN 312 (382)
T ss_pred ccCCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCCCCCCCccccchhHHHHHHHHHHHHHHHHH
Confidence 111 0000 011333356788777766544444445565554321 11 0112234556799999999999999
Q ss_pred HHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCce
Q 006918 328 FLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGY 404 (625)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~ 404 (625)
+.+.+.. .++.++.++|++++|+|++|++.||++|++ ...|.|+++++++.
T Consensus 313 a~~~g~~-------------------------~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~ 363 (382)
T cd06371 313 ARAAGGG-------------------------VSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGD 363 (382)
T ss_pred HHHhCCC-------------------------ccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCC
Confidence 8764321 158999999999999999999999999996 69999999987665
No 31
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=100.00 E-value=6.8e-44 Score=353.74 Aligned_cols=323 Identities=20% Similarity=0.303 Sum_probs=262.9
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChH-HHHHHHHHHHhcCcEEEEcCCChHH-HH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGF-LSIMGALQFMETDTLAIVGPQSAVM-AH 105 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~-~a~~~~~~l~~~~v~aviG~~~s~~-~~ 105 (625)
+||+||+..+..|...+.|+++|+++||++++++++.+|++++.|+..++. .+..++|++++++|.|||||.+|.. +.
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 489999999999999999999999999999999877799999999988664 8888999999999999999999965 67
Q ss_pred HHHHhhhcCCCcEEeeccCC-CCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHh
Q 006918 106 VLSHLANELQVPLLSFTALD-PTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~-~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~ 184 (625)
+++++|+..+||+|+++... +.+...+|++ .++.|++..++.|+++++++|+|++|++||+++++ +..|++.++
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 3333334444 89999999999999999999999999999998875 566666666
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCC
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKS 264 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 264 (625)
...+ ....++........+++.+|++|+++++++||+.++++.+..++++|.++||+.+.|+|++++......+.
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 5432 11222222112366899999999999999999999999999999999999999999999999876554333
Q ss_pred CCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCC------CCCCchhhhHhHHHHHHHHHHHHHHhcCCccccc
Q 006918 265 PLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (625)
Q Consensus 265 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 338 (625)
.+......++++++...++.+..++|.+.|++++... ......++++||||+++
T Consensus 231 ---~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~----------------- 290 (333)
T cd06394 231 ---DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV----------------- 290 (333)
T ss_pred ---HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE-----------------
Confidence 2333345568899999999999999999887755211 11123456666666432
Q ss_pred CCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEeeCCCCCc
Q 006918 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLS 418 (625)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w~~~~~l~ 418 (625)
|+||+|.||++|+|.+.+++|+++..+|. ++||+|++..|++
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 89999999999999999999999999999 9999999988764
No 32
>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=1.9e-42 Score=358.93 Aligned_cols=357 Identities=15% Similarity=0.217 Sum_probs=281.1
Q ss_pred EEEEEeecCCC---Cc-hhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCCh----HHHHHHHHHH-HhcCcEEEEcC
Q 006918 28 NVGAIFSFGTV---NG-QVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNG----FLSIMGALQF-METDTLAIVGP 98 (625)
Q Consensus 28 ~IG~l~~~~~~---~g-~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~----~~a~~~~~~l-~~~~v~aviG~ 98 (625)
+||+++|.+.. .+ .....|+++|+|+||+++++++|++|+++++|+++++ ..+...+... +.+++.+||||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~a~~lAieeiN~~g~il~g~~l~~~~~D~~~~~~~~~~~~~~~~~~~~~~~~v~aviGp 80 (399)
T cd06384 1 TLAVVLPDNNLKYAWAWPRVGPAIRMAVERIQNKGKLLRGYTITLLNKSSELNGGCSESLAPLHAVDLKLYSDPDVFFGP 80 (399)
T ss_pred CeEEECCCCCCCCeeehhhhHHHHHHHHHHHhccCCcCCCceEEEEEeccCCccccchhhhHHHHHHHHhhcCCCEEECC
Confidence 47888886532 12 2456899999999999999888999999999986553 3333222222 34688999999
Q ss_pred CChHHHHHHHHhhhcCCCcEEeeccCCCCCCC--CCCCceEEccCchHHHHHHHHHHHHHcCCc-EEEEEEecCCCCc--
Q 006918 99 QSAVMAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWG-EVIAIFNDDDQGR-- 173 (625)
Q Consensus 99 ~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~--~~~~~~~r~~ps~~~~~~al~~ll~~~~W~-~v~ii~~d~~~g~-- 173 (625)
.||..+.+++++++.++||+|+++++++.+++ ..||++||+.|++..++.++..++++|+|+ ++++||.++..+.
T Consensus 81 ~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~~~ 160 (399)
T cd06384 81 GCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDDRP 160 (399)
T ss_pred CCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccCCc
Confidence 99999999999999999999999999988886 379999999999999999998999999999 6889986542221
Q ss_pred --chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEE
Q 006918 174 --NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (625)
Q Consensus 174 --~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (625)
...+.+.+.+++.|++|+....+..+ ..|+..+|++++. ++|+|++++...++..++++++++||..+.|+||
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 23566778888899999876554433 6789999999996 8999999999999999999999999999999999
Q ss_pred eeCcchhccc------C----CCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhh----cCCCCCC---CchhhhH
Q 006918 252 ATTWLSTFID------S----KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNGSIGL---NPYGLYA 314 (625)
Q Consensus 252 ~~~~~~~~~~------~----~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~~~---~~~~~~~ 314 (625)
..+.....+. . .+...+...+.+++++.+....+..+.+++|.++|+++ ++....+ +.+++++
T Consensus 236 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~ 315 (399)
T cd06384 236 YLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCF 315 (399)
T ss_pred EehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhh
Confidence 8775432111 0 00112445567888988888888788899999999875 4432223 5668899
Q ss_pred hHHHHHHHHHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcE
Q 006918 315 YDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSY 394 (625)
Q Consensus 315 YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~ 394 (625)
||||+++|.|++++.+.++. |.++.+|.++|++++|+|++|++.||++|+| ...|
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 4468999999999999999999999999997 4567
Q ss_pred EEEE---EeeCceeEEEeEeeCCC
Q 006918 395 DIIN---VIEHGYPQQIGYWSNYS 415 (625)
Q Consensus 395 ~I~~---~~~~~~~~~vG~w~~~~ 415 (625)
.++. ++++. ++.+|+|+..+
T Consensus 371 ~~~~~~~~~~g~-~~~v~~~~~~~ 393 (399)
T cd06384 371 DLWAMTDHETGK-YEVVAHYNGIT 393 (399)
T ss_pred EEEEeecCCCCe-EEEEEEEcCCC
Confidence 7743 34544 49999998754
No 33
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=1.3e-42 Score=351.51 Aligned_cols=316 Identities=22% Similarity=0.350 Sum_probs=267.8
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~-~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||++|++ ..|...+.|+++|+|+||+++++|+|++|++++.|++ +++..+++.+|++++++|.+||||.+|..+.+
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~~V~aiiG~~~S~~~~a 78 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQGVAAIFGPSSSEASSI 78 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhcCcEEEECCCChhHHHH
Confidence 59999997 4578899999999999999999999999999999999 89999999999999889999999999999999
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~ 186 (625)
++++++.+++|+|+++++++.++ .++++||+.|++..++.++++++++++|++|++|+++++++ ..+.+.+++.
T Consensus 79 v~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~----~~l~~~~~~~ 152 (327)
T cd06382 79 VQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGL----LRLQELLQAF 152 (327)
T ss_pred HHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHH----HHHHHHHHhh
Confidence 99999999999999888877766 46789999999999999999999999999999999987743 4455566655
Q ss_pred ce---EEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCC
Q 006918 187 RC---KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (625)
Q Consensus 187 g~---~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (625)
+. .+.. +.++.. . |++.++.+|+++++++|++.+...++..++++|+++||..+.|+|+.++......+..
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 3443 455544 4 8999999999999999999999999999999999999999999999987655433221
Q ss_pred CCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCC------CCCCchhhhHhHHHHHHHHHHHHHHhcCCcccc
Q 006918 264 SPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISF 337 (625)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~ 337 (625)
.......+++++.+..++.+.+++|.++|+++++.. ..+...++.+|||++++
T Consensus 227 -----~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~---------------- 285 (327)
T cd06382 227 -----DYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF---------------- 285 (327)
T ss_pred -----hhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe----------------
Confidence 122233467788888888889999999999998631 12566777888887553
Q ss_pred cCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEeeCCCCC
Q 006918 338 SNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (625)
Q Consensus 338 ~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w~~~~~l 417 (625)
|+||.|.||++|+|.+..|+|+|+.+++. ++||+|++..|+
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 78999999999999999999999998888 999999987653
No 34
>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=1.7e-41 Score=347.53 Aligned_cols=335 Identities=26% Similarity=0.464 Sum_probs=278.1
Q ss_pred hHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCCChHHHHHHHHhhhcCCCcEEe
Q 006918 42 VSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQFMETDTLAIVGPQSAVMAHVLSHLANELQVPLLS 120 (625)
Q Consensus 42 ~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~-~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is 120 (625)
++..|+++|+++||+++++++|++|++.+.|+|+ +........|.+..+++.+||||.|+..+.+++++++.++||+|+
T Consensus 1 ~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is 80 (348)
T PF01094_consen 1 RVLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQIS 80 (348)
T ss_dssp HHHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEE
T ss_pred CHHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCCcccccchhhhccCCCcEEEECCCcccccchhheeecccccceee
Confidence 3578999999999999999999999999999985 445555555666677999999999999999999999999999999
Q ss_pred eccCCCCCCC--CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc-ceEEEEeeecC
Q 006918 121 FTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI-RCKISYKSALP 197 (625)
Q Consensus 121 ~~~~~~~ls~--~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v~~~~~~~ 197 (625)
++++++.+++ ..||+|+|+.|++..+++++++++++|+|++|++|++++++|....+.+.+.+++. +.++.......
T Consensus 81 ~~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (348)
T PF01094_consen 81 PGSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISVVI 160 (348)
T ss_dssp SSGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEE
T ss_pred ccccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccccccchhhhhhhcccccceeccccccc
Confidence 9999999988 47999999999999999999999999999999999999999888999999999996 45555412222
Q ss_pred CCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhccc
Q 006918 198 PDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSIL 275 (625)
Q Consensus 198 ~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~ 275 (625)
.. ..+....++.+++ .++++||+++....+..++++|.++||...+|+||.++.+...... ..........
T Consensus 161 ~~----~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~---~~~~~~~~~~ 233 (348)
T PF01094_consen 161 SS----DSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQ---NNEDFREAFQ 233 (348)
T ss_dssp TT----TSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTS---THCHHHCCHT
T ss_pred cc----ccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeeccccccccc---cccccccccc
Confidence 22 3344455555554 8999999999999999999999999999999999999986554211 1145667889
Q ss_pred ceEEEeeeCCCChhHHHHHHHHHhhc------CCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCCCCCC
Q 006918 276 GALTLRQHTPDSKRRRDFVSRWNTLS------NGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGG 349 (625)
Q Consensus 276 g~~~~~~~~~~~~~~~~f~~~~~~~~------~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~ 349 (625)
|++++.+..+..+.+++|.++|.... .....+..+++++||||+++++|++++.++++...
T Consensus 234 ~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~------------- 300 (348)
T PF01094_consen 234 GVLGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVT------------- 300 (348)
T ss_dssp TEEEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTT-------------
T ss_pred ceeeeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCC-------------
Confidence 99999999999999999999998752 12345677899999999999999999987643311
Q ss_pred ccccCcccccCchHHHHHHHHhcccccceeeEEEcc-CCCccCCcEEEEEEe
Q 006918 350 TLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLLHPSYDIINVI 400 (625)
Q Consensus 350 ~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~-~G~r~~~~~~I~~~~ 400 (625)
.....|.+|..+.++|++++|+|++|++.||+ +|+|.+..|+|+|+|
T Consensus 301 ----~~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 301 ----NGRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp ----SSSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred ----CCccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 01144778999999999999999999999999 999989999999985
No 35
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=4.2e-39 Score=325.73 Aligned_cols=315 Identities=21% Similarity=0.358 Sum_probs=264.5
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDA-KFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~-~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||+|||.++ .....|+++|+|+||++++++++.+|++.+.|+ .+++..+++.+|++++++|.+||||.+|..+.+
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 5999999986 678999999999999999999878999999997 489999999999999999999999999999999
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~ 186 (625)
++++++.++||+|+++++++.++ ..++ +++.|++..++.++++++++++|++|++|+++++ +...++.+.+.+++.
T Consensus 78 v~~i~~~~~ip~is~~~~~~~~~-~~~~--~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~-~~~~l~~~~~~~~~~ 153 (324)
T cd06368 78 VQSICDALEIPHITTSWSPNPKP-RQFT--INLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDE-GLLRLQELLDALSPK 153 (324)
T ss_pred HHHHHhccCCCcEEecCCcCCCC-Ccce--EEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcH-hHHHHHHHHHhhccC
Confidence 99999999999999998888776 2344 4445777789999999999999999999997765 445667777778888
Q ss_pred ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCC
Q 006918 187 RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPL 266 (625)
Q Consensus 187 g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 266 (625)
|++++.....+ . .++++.++.++++.++++||+.+...++..+++++.++||..+.|+||+++......+.
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 99988765433 2 23899999999999999999999999999999999999999899999998754432211
Q ss_pred ChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCC------CCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCC
Q 006918 267 SLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (625)
Q Consensus 267 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 340 (625)
........++.++....+..+.+++|.++|+++++.. ..+..+++.+||||+++
T Consensus 225 -~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~------------------- 284 (324)
T cd06368 225 -ELFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF------------------- 284 (324)
T ss_pred -hhhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe-------------------
Confidence 1222233456777777778889999999999988631 25677888999998643
Q ss_pred CccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEeeCCCC
Q 006918 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSG 416 (625)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w~~~~~ 416 (625)
||++.||++|+|.+..++|+++..++. .++|.|++..+
T Consensus 285 -------------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~-~~~g~W~~~~~ 322 (324)
T cd06368 285 -------------------------------------TGRIQFDENGQRSNFTLDILELKEGGL-RKVGTWNPEDG 322 (324)
T ss_pred -------------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCc-eEEEEECCCCC
Confidence 788999999999999999999998888 99999988654
No 36
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=2.5e-38 Score=323.47 Aligned_cols=342 Identities=12% Similarity=0.161 Sum_probs=289.8
Q ss_pred cccCCCceEEEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE
Q 006918 19 QGALKPEVLNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAI 95 (625)
Q Consensus 19 ~~~~~~~~i~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~av 95 (625)
.+...+++|+||++.|++ +..|.....++++|+++||+.+|+. |++|++++.|++++|..+.+.+.++++++|.+|
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 334556799999999998 4458888999999999999999985 899999999999999999999999999899999
Q ss_pred EcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH-HHcCCcEEEEEEecCCCCcc
Q 006918 96 VGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRN 174 (625)
Q Consensus 96 iG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll-~~~~W~~v~ii~~d~~~g~~ 174 (625)
||+.+|..+.+++++++..++|+|++.++++.+++..++|+||+.+.+..++.++++++ ++++|+++++|++|+.||+.
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 99999999999999999999999999998988887678999999999999999999976 55799999999999999999
Q ss_pred hHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeC
Q 006918 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (625)
Q Consensus 175 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (625)
..+.+.+.+++.|++++....++.+ ..|+..++.+++++++++|++.....+...+++++++.|+.. .|+.+.
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 9999999999999999988888865 678999999999999999998887788889999999999743 366554
Q ss_pred cchhcccCCCCCChhhhhcccceEEEeee-CCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCC
Q 006918 255 WLSTFIDSKSPLSLKTAKSILGALTLRQH-TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGN 333 (625)
Q Consensus 255 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~ 333 (625)
+.... ... ....+..+|++...+. ....+..++|.+.|+++++ .++..++...||++++++.|++++...
T Consensus 250 ~~~~~-~~~----~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~Y~~~~~l~~Al~~aG~~-- 320 (369)
T PRK15404 250 GVGNK-SLS----NIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQ--DPSGPFVWTTYAAVQSLAAGINRAGSD-- 320 (369)
T ss_pred cCCCH-HHH----HhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcC--CCCccchHHHHHHHHHHHHHHHhhCCC--
Confidence 32211 000 1223566787765443 2345678899999998864 344566788999999999999985211
Q ss_pred cccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCce
Q 006918 334 TISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGY 404 (625)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~ 404 (625)
++..|.++|++.+|+|++|++.|+++|++....|.|.+|++++.
T Consensus 321 ---------------------------~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~~ 364 (369)
T PRK15404 321 ---------------------------DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADGT 364 (369)
T ss_pred ---------------------------CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCCe
Confidence 48899999999999999999999999988789999999987776
No 37
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=100.00 E-value=4.4e-38 Score=318.11 Aligned_cols=332 Identities=17% Similarity=0.193 Sum_probs=250.3
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
+||+||+.++.. ....-++.+|++++|+++++ .++.+.++.+|+.+|+..++.++|++++++|.|||||.+|..+.++
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 599999987532 23444455555677877765 3667888889999999999999999999999999999999999999
Q ss_pred HHhhhcCCCcEEeeccCC---CC-----CCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHH
Q 006918 108 SHLANELQVPLLSFTALD---PT-----LSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTA 178 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~---~~-----ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~ 178 (625)
+++++..+||+|++.+.. +. +.+ ...+|.|++.|++ .+..++++++++|||++|+++|++++ |...++.
T Consensus 79 ~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~-g~~~l~~ 156 (363)
T cd06381 79 QSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDY-DIRGLQE 156 (363)
T ss_pred HHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCc-hHHHHHH
Confidence 999999999999965321 11 111 1223445555664 68899999999999999999998775 6667788
Q ss_pred HHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHh-------cCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEE
Q 006918 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVR-------MMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (625)
Q Consensus 179 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~-------~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (625)
+.+.+++.|+.+... ..... ....+...++.++ ..+.++||+.|+++.+..++++|.++||+..+|+|+
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 888888889866643 22211 1223333333332 445668899999999999999999999999999998
Q ss_pred eeCcchhc-ccCCCCCChhhhhcccceEEEeeeCCCChhHH----HHHHHHHhhcCCC----CCCCchhhhHhHHHHHHH
Q 006918 252 ATTWLSTF-IDSKSPLSLKTAKSILGALTLRQHTPDSKRRR----DFVSRWNTLSNGS----IGLNPYGLYAYDTVWMIA 322 (625)
Q Consensus 252 ~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~----~f~~~~~~~~~~~----~~~~~~~~~~YDAv~~la 322 (625)
+++.+... .+. ........|++++++..+..+..+ +|.+.|+..+.+. ..+...++++||||+++
T Consensus 233 ~~~~l~~~~~~l-----~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~yDaV~~~- 306 (363)
T cd06381 233 LINEEISDTEID-----ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDGYLQMLEISNLYIYDSVLLL- 306 (363)
T ss_pred Eeccccccchhh-----HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCCCCCChhHHHHHHHHHHHHH-
Confidence 87755442 222 345677889999999987766666 4556665433211 13355689999999998
Q ss_pred HHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeC
Q 006918 323 RALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEH 402 (625)
Q Consensus 323 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~ 402 (625)
+++|++++|+|+||+|.||++|.|.+.+++|+++..+
T Consensus 307 -------------------------------------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~ 343 (363)
T cd06381 307 -------------------------------------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYS 343 (363)
T ss_pred -------------------------------------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccC
Confidence 1357888999999999999999999999999999844
Q ss_pred c-----eeEEEeEeeCCCCC
Q 006918 403 G-----YPQQIGYWSNYSGL 417 (625)
Q Consensus 403 ~-----~~~~vG~w~~~~~l 417 (625)
+ . +.+|+|++..|+
T Consensus 344 ~~~~~~~-~~~~~w~~~~~~ 362 (363)
T cd06381 344 ETLGKDG-RWLATWNPSKGL 362 (363)
T ss_pred Cccccce-EEeeeccCCCCC
Confidence 4 5 889999987654
No 38
>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=1.1e-37 Score=317.23 Aligned_cols=328 Identities=17% Similarity=0.210 Sum_probs=282.1
Q ss_pred EEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHH
Q 006918 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (625)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~ 104 (625)
+||++.|++. ..|.....|+++|+++||+++++ +|++|++++.|+++++..+.+.+.++++++|.+|+||.+|..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~i~~~~~D~~~~~~~~~~~~~~li~~~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGG-KGVKLELVVEDDQADPKQAVAVAQKLVDDGVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCChHHHHHHHHHHHhCCceEEECCCccHhH
Confidence 5999999974 55778899999999999999877 5999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH-HHcCCcEEEEEEecCCCCcchHHHHHHHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll-~~~~W~~v~ii~~d~~~g~~~~~~l~~~l 183 (625)
.+++++++..+||+|+++++++.+++..||++||+.|++..++.++++++ ++++|++|++++.++++|....+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999998877776766678999999999999999999986 57899999999999999999999999999
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCC
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (625)
++.|++|+....++.. ..++...+++++++++++|++.+...++..+++++.+.|+. ..|+..+.+... ..
T Consensus 160 ~~~g~~v~~~~~~~~~----~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~~~-~~- 230 (334)
T cd06342 160 KAAGGKVVAREGTTDG----ATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLK---APFMGGDGLCDP-EF- 230 (334)
T ss_pred HHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCC---CcEEecCccCCH-HH-
Confidence 9999999998888765 67899999999999999999999999999999999999974 346665432211 00
Q ss_pred CCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCC
Q 006918 264 SPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (625)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~ 341 (625)
........+|++....+.+ ..+..++|.++|+++++ ..++.++..+||+++++++|++++..
T Consensus 231 ---~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~al~~~~~----------- 294 (334)
T cd06342 231 ---IKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFG--DPPGAYAPYAYDAANVLAEAIKKAGS----------- 294 (334)
T ss_pred ---HHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhC--CCCchhHHHHHHHHHHHHHHHHHhCC-----------
Confidence 0122345678877766554 46788999999998886 34567889999999999999998611
Q ss_pred ccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEE
Q 006918 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 399 (625)
Q Consensus 342 ~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~ 399 (625)
.++..+.++|++.+|+|++|++.|+++|++.+..|+|+||
T Consensus 295 ------------------~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 ------------------TDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred ------------------CCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 1488999999999999999999999999999999999886
No 39
>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=8.1e-38 Score=319.82 Aligned_cols=309 Identities=31% Similarity=0.508 Sum_probs=260.4
Q ss_pred EEEEEeecCCC-------------CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc----
Q 006918 28 NVGAIFSFGTV-------------NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET---- 90 (625)
Q Consensus 28 ~IG~l~~~~~~-------------~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~---- 90 (625)
+||++||++.. .|.....++.+|+++||+++++++|++|++++.|+|+++..+++.+++++.+
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 48999999853 2456678999999999999999999999999999999999999999999975
Q ss_pred ----------CcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCC
Q 006918 91 ----------DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGW 159 (625)
Q Consensus 91 ----------~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W 159 (625)
++.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..||++||+.|++..++.++++++++++|
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 8999999999999999999999999999999999998876 57999999999999999999999999999
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 160 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
++|++|+.+++||....+.+.+.+++.|+||+..+.++.. ....++...+++|+++++|+|++++...++..++++++
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 9999999999999999999999999999999998888764 23679999999999999999999999999999999999
Q ss_pred HcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHH
Q 006918 240 RLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVW 319 (625)
Q Consensus 240 ~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~ 319 (625)
++|+ ...+ |+..+.+....... ....+..+|++++..+.+.....++|.+.+++ +++.+||||+
T Consensus 239 ~~g~-~~~~-~i~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----------~~~~~YDav~ 302 (348)
T cd06350 239 KLGM-TGKY-WIISTDWDTSTCLL----LFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK----------YAYNVYDAVY 302 (348)
T ss_pred HhCC-CCeE-EEEEccccCccccc----cCCcceeeeEEEEEEEeecCCcCCChHHHHHH----------HHHHHHhhee
Confidence 9998 4444 44544333221111 22345678888888877654444555555544 5678899986
Q ss_pred HHHHHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEE
Q 006918 320 MIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 399 (625)
Q Consensus 320 ~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~ 399 (625)
+ .+.|+++|+| ...|+|.++
T Consensus 303 ~-----------------------------------------------------------~v~f~~~gd~-~~~~~i~~~ 322 (348)
T cd06350 303 A-----------------------------------------------------------EVKFDENGDR-LASYDIINW 322 (348)
T ss_pred E-----------------------------------------------------------EEEecCCCCc-ccceeEEEE
Confidence 5 5889999996 577899998
Q ss_pred ee---CceeEEEeEeeCC
Q 006918 400 IE---HGYPQQIGYWSNY 414 (625)
Q Consensus 400 ~~---~~~~~~vG~w~~~ 414 (625)
+. +..+++||.|++.
T Consensus 323 ~~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 323 QIFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EEcCCcEEEEEEEEEcCC
Confidence 75 3555999999873
No 40
>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=4e-38 Score=319.02 Aligned_cols=330 Identities=16% Similarity=0.152 Sum_probs=243.5
Q ss_pred CCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecC------C-CChHHHHHHHHHHHhcCc--EEEEcCCChHHHHH
Q 006918 36 GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDA------K-FNGFLSIMGALQFMETDT--LAIVGPQSAVMAHV 106 (625)
Q Consensus 36 ~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~------~-~~~~~a~~~~~~l~~~~v--~aviG~~~s~~~~~ 106 (625)
+...|...+.|+++|++++|++. |.+|.+.+.++ . .+...+.+++|+++++++ .|||||.++..+..
T Consensus 7 ~~~~~~~~~~A~~~Av~~~N~~~----~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~gv~~~AIiGp~ss~~a~~ 82 (368)
T cd06383 7 TEDDNDVYKQIIDDALSYINRNI----GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADSAIVPHLVLDTTTCGDASE 82 (368)
T ss_pred cccchHHHHHHHHHHHHHHhcCC----CCceEEEEecccccccccCCcHHHHHHHHHHHHHccCCcEEEECCCcchhHHH
Confidence 44467889999999999999986 66777777666 4 467777788999999988 89999999999999
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHH-HHhc
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD-KLAE 185 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~-~l~~ 185 (625)
++++|+.++||+|+++.. ..++.+||+|+|+.|++..++.|++++++||+|++|++||++++........+.+ ...+
T Consensus 83 V~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~~ 160 (368)
T cd06383 83 IKSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTR 160 (368)
T ss_pred HHHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhc
Confidence 999999999999997443 2344579999999999999999999999999999999999766543223333333 3334
Q ss_pred cceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc-hhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCC
Q 006918 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKS 264 (625)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 264 (625)
.+.++. +.. ..++...+++|++++.+.||+.+. ++.+..+|++|.++||++.+|+||++++.....+.
T Consensus 161 ~~~~v~-----~~~----~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl-- 229 (368)
T cd06383 161 HVITII-----NSI----IDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDD-- 229 (368)
T ss_pred CCEEEE-----ecc----chhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhh--
Confidence 455543 111 346889999999988856666666 59999999999999999999999999987654433
Q ss_pred CCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhc--CC-CCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCC
Q 006918 265 PLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLS--NG-SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (625)
Q Consensus 265 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~--~~-~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~ 341 (625)
........++.++++..+.....+++.++|.+.. +. .......++++||||++++.|++++....... .+
T Consensus 230 ---~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~-~~--- 302 (368)
T cd06383 230 ---LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPTLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVED-GS--- 302 (368)
T ss_pred ---hhhccccCcEEEeeccccchhhhccceeeccCCccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccC-CC---
Confidence 2233445689999997666555577777663211 00 01123458899999999999999873211110 00
Q ss_pred ccCCCCCCccccCccc---cc-CchHHHHHHHHhcccccceeeEEEccCCCccCCc
Q 006918 342 KLNGLGGGTLNLGALS---IF-DGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPS 393 (625)
Q Consensus 342 ~~~~~~~~~~~c~~~~---~~-~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~ 393 (625)
. ......|.... +| ..|..+.++|+.++|+|+||+|.||++|.|.+.+
T Consensus 303 ---~-~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~ 354 (368)
T cd06383 303 ---T-GTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKT 354 (368)
T ss_pred ---c-CccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeee
Confidence 0 00112343321 45 5666999999999999999999999999886443
No 41
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=6.3e-36 Score=296.25 Aligned_cols=343 Identities=16% Similarity=0.158 Sum_probs=250.7
Q ss_pred CCceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHH-HhcCcEEEEcC-C
Q 006918 23 KPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK-FNGFLSIMGALQF-METDTLAIVGP-Q 99 (625)
Q Consensus 23 ~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~-~~~~~a~~~~~~l-~~~~v~aviG~-~ 99 (625)
.++.|+||+||+.. ...+.||++|++.+|.+..++++.+|++++.... .|++.+.+.+|++ +++||.||+|+ .
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 45679999999976 2579999999999999998888999999887654 4999999999999 59999999994 7
Q ss_pred ChHHHHHHHHhhhcCCCcEEeeccCCCCC-CCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHH
Q 006918 100 SAVMAHVLSHLANELQVPLLSFTALDPTL-SPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTA 178 (625)
Q Consensus 100 ~s~~~~~va~~~~~~~iP~Is~~~~~~~l-s~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~ 178 (625)
++.++..+..+|+.++||+|++...++.. ++..+...+++.|+...++.|++++|++|+|++|++||+.+. |.. .
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 TRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRER-DPT---G 166 (382)
T ss_pred CHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCc-CHH---H
Confidence 77888999999999999999986654333 333344445779999999999999999999999999998775 433 3
Q ss_pred HHHHHhcc---ce-EEEEeeecCCCCCCChhHH-HHHHHHHhcCC-ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 179 LGDKLAEI---RC-KISYKSALPPDQSVTETDV-RNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 179 l~~~l~~~---g~-~v~~~~~~~~~~~~~~~~~-~~~l~~i~~~~-~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
|++.++.. ++ .+......+..+ .+..++ +..|++++++. +++|+++|+.+.+..+|+++.+ +|+||+
T Consensus 167 lq~l~~~~~~~~~~~~i~v~~~~~~~-~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~------~y~wIv 239 (382)
T cd06377 167 LLLLWTNHARFHLGSVLNLSRNDPST-ADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP------GPHWIL 239 (382)
T ss_pred HHHHHHHhcccccCceEEEEeccCcc-CChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc------ceEEEE
Confidence 44444433 21 112122232210 123455 99999999999 9999999999999999987754 499999
Q ss_pred eCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcC
Q 006918 253 TTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQG 332 (625)
Q Consensus 253 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~ 332 (625)
++. .+..+. .....-.|+++. .. .......+++||||+++|.|++.+....
T Consensus 240 ~~~----~~le~~---~~~g~nigLl~~--~~--------------------~~~~~l~ali~DAV~lvA~a~~~l~~~~ 290 (382)
T cd06377 240 GDP----LPPEAL---RTEGLPPGLLAH--GE--------------------TTQPPLEAYVQDALELVARAVGSATLVQ 290 (382)
T ss_pred cCC----cChhhc---cCCCCCceEEEE--ee--------------------cccccHHHHHHHHHHHHHHHHHHhhhcc
Confidence 871 121110 001122233321 00 0011237899999999999999863111
Q ss_pred CcccccCCCccCCCCCCccccCcc--c-ccCchHHHHHHHHhcccccceeeEEEccCCCc--cCCcEEEEEEe--eCc--
Q 006918 333 NTISFSNDTKLNGLGGGTLNLGAL--S-IFDGGKKFLANILQTNMTGLSGPIHFNQDRSL--LHPSYDIINVI--EHG-- 403 (625)
Q Consensus 333 ~~~~~~~~~~~~~~~~~~~~c~~~--~-~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r--~~~~~~I~~~~--~~~-- 403 (625)
....+ .....+|.+. . .|.+|..|.++|++++|+|.||+|.|+ .|.| .+..++|++++ ..|
T Consensus 291 ~~~~l---------~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~-~g~R~~~~~~l~I~~L~~~~~G~~ 360 (382)
T cd06377 291 PELAL---------IPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVT-GSSQVHSSRHFKVWSLRRDPVGQP 360 (382)
T ss_pred ccccc---------CCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEc-cCeeecccceEEEEEeccccCCCc
Confidence 11001 1223478755 5 899999999999999999999999994 5888 78999999998 333
Q ss_pred eeEEEeEeeCCCCCcc
Q 006918 404 YPQQIGYWSNYSGLSV 419 (625)
Q Consensus 404 ~~~~vG~w~~~~~l~~ 419 (625)
.|++||+|++...+.|
T Consensus 361 ~W~kVG~W~~~~~~~~ 376 (382)
T cd06377 361 TWTTVGSWQGGRKIVM 376 (382)
T ss_pred cceEEEEecCCCceec
Confidence 5799999998644433
No 42
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=4.1e-37 Score=310.54 Aligned_cols=304 Identities=15% Similarity=0.229 Sum_probs=237.0
Q ss_pred CCCChHHHHHHHHHHHhc-CcEEEE-cCCChH--HHHHHHHhhhcCCCcEEeeccCCC-CCCC-CCCCceEEccCchHHH
Q 006918 73 AKFNGFLSIMGALQFMET-DTLAIV-GPQSAV--MAHVLSHLANELQVPLLSFTALDP-TLSP-LQYPFFVQTAPNDLYL 146 (625)
Q Consensus 73 ~~~~~~~a~~~~~~l~~~-~v~avi-G~~~s~--~~~~va~~~~~~~iP~Is~~~~~~-~ls~-~~~~~~~r~~ps~~~~ 146 (625)
...||...+.++|+++.+ +|.|+| ||.++. .+..++.+++.++||+|++.+.++ .+++ ..+|+|+|+.|++..|
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 346899999999999977 699766 999886 445677777889999999876654 5666 6799999999999999
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
+.|+++++++|+|++|++|+++++.+....+.+++.+...++|+.....++... .........++++++.++++||++|
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 999999999999999999999887766777788887777667765544343321 1223467888999999999999999
Q ss_pred chhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCCCC
Q 006918 227 YSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIG 306 (625)
Q Consensus 227 ~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 306 (625)
+.+.+..+|++|.++||++.+|+||++++.....+. ...+...|++++.. ++|+.
T Consensus 202 s~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~------~~~~~~~G~i~v~~------------~~w~~------- 256 (362)
T cd06378 202 SKEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDL------GPSEFPVGLISVSY------------DGWRY------- 256 (362)
T ss_pred CHHHHHHHHHHHHHcCCcCCCeEEEecccccCCCcc------ccccCCcceEeecc------------ccccc-------
Confidence 999999999999999999999999999976544221 11234567666542 22321
Q ss_pred CCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCCCCCCccccCc-cc-ccCchHHHHHHHHhcccccceeeEEEc
Q 006918 307 LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGA-LS-IFDGGKKFLANILQTNMTGLSGPIHFN 384 (625)
Q Consensus 307 ~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~-~~-~~~~~~~l~~~l~~~~f~g~tG~v~Fd 384 (625)
...+..||||+++|+|++.+.+.....+ ....+|.. .. .|..|..|+++|++++|+|+ +|+||
T Consensus 257 --~~~a~~~DaV~vva~Al~~l~~~~~~~~-----------~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~ 321 (362)
T cd06378 257 --SLRARVRDGVAIIATGASAMLRQHGFIP-----------EAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFT 321 (362)
T ss_pred --cHHHHHHHHHHHHHHHHHHHHhccCCCC-----------CCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeEC
Confidence 1255789999999999998875433221 12335644 33 48889999999999999996 99999
Q ss_pred cCCCccCCcEEEEEEeeC-ceeEEEeEeeCCCCCcc
Q 006918 385 QDRSLLHPSYDIINVIEH-GYPQQIGYWSNYSGLSV 419 (625)
Q Consensus 385 ~~G~r~~~~~~I~~~~~~-~~~~~vG~w~~~~~l~~ 419 (625)
++|+|.++.|+|+|+++. ++ ++||+|+++ +|.|
T Consensus 322 ~~G~r~~~~ldIinl~~~~g~-~kVG~W~~~-~L~~ 355 (362)
T cd06378 322 EDGYLVNPKLVVISLNKERVW-EEVGKWENG-SLRL 355 (362)
T ss_pred CCCeEccceEEEEEecCCCCc-eEEEEEcCC-eEEE
Confidence 999999999999999964 66 999999854 4444
No 43
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.9e-36 Score=309.16 Aligned_cols=328 Identities=14% Similarity=0.207 Sum_probs=275.3
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCC---CCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVL---GGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQS 100 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL---~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~ 100 (625)
+||+++|++ +..|.....++++|+++||+++|+. .|++|+++.+|+++++..+++.+.+++++ +|.+||||.+
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 4557788999999999999988763 47999999999999999999999999986 9999999999
Q ss_pred hHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcC--CcEEEEEEecCCCCcchHHH
Q 006918 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG--WGEVIAIFNDDDQGRNGVTA 178 (625)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~--W~~v~ii~~d~~~g~~~~~~ 178 (625)
|..+.+++++++..++|+|+++++++.++...+|++||+.|++..+..++++++++++ |+++++++.++++|....+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999998888777766689999999999999999999999988 99999999999999999999
Q ss_pred HHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchh
Q 006918 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLST 258 (625)
Q Consensus 179 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~ 258 (625)
+.+.+++.|++|+....++.. .+|+..++++|++.++++|++.+...++..+++++.+.|+..+ .++........
T Consensus 161 ~~~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~ 235 (345)
T cd06338 161 AREKAEAAGLEVVYDETYPPG----TADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-ALYMTVGPAFP 235 (345)
T ss_pred HHHHHHHcCCEEEEEeccCCC----ccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EEEEecCCCcH
Confidence 999999999999987777755 5789999999999999999999999999999999999998643 33322221111
Q ss_pred cccCCCCCChhhhhcccceEEEeeeCCC-------ChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhc
Q 006918 259 FIDSKSPLSLKTAKSILGALTLRQHTPD-------SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQ 331 (625)
Q Consensus 259 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~ 331 (625)
... .......+|++....+.+. .+..++|.++|+++++. .+..++...||+++++++|++++...
T Consensus 236 ~~~------~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--~p~~~~~~~y~a~~~~~~a~~~ag~~ 307 (345)
T cd06338 236 AFV------KALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYGK--APDYHAAGAYAAGQVLQEAVERAGSL 307 (345)
T ss_pred HHH------HHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhCC--CCCcccHHHHHHHHHHHHHHHHhCCC
Confidence 000 1223445787776655443 36689999999999873 36667888999999999999985211
Q ss_pred CCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEE
Q 006918 332 GNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIIN 398 (625)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~ 398 (625)
++..+.++|++++|+|++|++.|+++|++.. .+.+++
T Consensus 308 -----------------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~ 344 (345)
T cd06338 308 -----------------------------DPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQ 344 (345)
T ss_pred -----------------------------CHHHHHHHHHhCCCcccccCeeECCCCCcCC-Cceeee
Confidence 4889999999999999999999999998654 444554
No 44
>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=2.5e-36 Score=307.74 Aligned_cols=320 Identities=17% Similarity=0.240 Sum_probs=269.6
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||++.|++ +..|.....|+++|+++||+++++ +|++|+++++|+++++..+++.+++++++ +|.+||||.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi-~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 79 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGI-LGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEV 79 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCC-CCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHH
Confidence 589999997 456889999999999999999987 58999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCC----CCCCceEEccCchHHHHHHHHHHHHH-----cCCcEEEEEEecCCCCcc
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSP----LQYPFFVQTAPNDLYLMSAIAEMVSY-----FGWGEVIAIFNDDDQGRN 174 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~----~~~~~~~r~~ps~~~~~~al~~ll~~-----~~W~~v~ii~~d~~~g~~ 174 (625)
+.+++++++.+++|+|+++++++.+++ ..+|++||+.|++..+..++++++.+ ++|++|++++.+++||..
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~ 159 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKG 159 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhH
Confidence 999999999999999999888887763 46899999999999999999999876 899999999999999999
Q ss_pred hHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeC
Q 006918 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (625)
Q Consensus 175 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (625)
..+.+++.+++.|++|+....++.. ..++..++.+|+++++++|++.+...+...+++++.+.|+..+ ++..+
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 9999999999999999988777754 6689999999999999999999999899999999999997432 22222
Q ss_pred cchhcccCCCCCChhhhhcccceEEEeeeCC----CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHh
Q 006918 255 WLSTFIDSKSPLSLKTAKSILGALTLRQHTP----DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLD 330 (625)
Q Consensus 255 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~ 330 (625)
......... .......+|.+....+.+ ..+..++|.++|+++++ ..++.+++..||+++++++|++++..
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 111000000 112234556554444332 46678999999999887 45777888999999999999998532
Q ss_pred cCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCcc
Q 006918 331 QGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLL 390 (625)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~ 390 (625)
. ++..+.++|++++|+|++|+++||++|++.
T Consensus 307 ~-----------------------------~~~~i~~al~~~~~~g~~G~i~f~~~g~~~ 337 (344)
T cd06345 307 T-----------------------------DGDALVEALEKTDFVGTAGRIQFYGDDSAF 337 (344)
T ss_pred C-----------------------------CHHHHHHHHHhCCCcCCceeEEECCCCCcC
Confidence 1 478999999999999999999999999964
No 45
>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=2.6e-36 Score=331.80 Aligned_cols=358 Identities=34% Similarity=0.625 Sum_probs=296.5
Q ss_pred HHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChh
Q 006918 210 ELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKR 289 (625)
Q Consensus 210 ~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 289 (625)
.+.+++....+++++.+.+..+..++.++.++||...+|+|+.++......+..+. ....+..+|.+....+.+....
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~s~~ 82 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDEL--YSLIDVMNGVLGLRGHIPRSEL 82 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhccccc--ccchhheeeEEeeccCCCccHH
Confidence 34455557788999998899999999999999999999999999977665554332 2334567788888888888888
Q ss_pred HHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHH
Q 006918 290 RRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANI 369 (625)
Q Consensus 290 ~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l 369 (625)
.+.|..+|+.. .......+..+||+++++|.|+++.... ......|.....|.++..+.+.+
T Consensus 83 ~~~~~~~~~~~---~~~~~~~~~~~~D~~~~~a~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~ 144 (656)
T KOG1052|consen 83 LQNFVTRWQTS---NVELLVYALWAYDAIQALARAVESLLNI---------------GNLSLSCGRNNSWLDALGVFNFG 144 (656)
T ss_pred HHHHHHHHhhc---cccccchhhHHHHHHHHHHHHHHHhhcC---------------CCCceecCCCCcccchhHHHHHH
Confidence 88999888765 1345667889999999999999997641 12234666666677888999988
Q ss_pred Hhccccc---ceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEeeCCCCCcccCcccccCCCCCCCCCCCccceeEeCC
Q 006918 370 LQTNMTG---LSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPG 446 (625)
Q Consensus 370 ~~~~f~g---~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~W~~ 446 (625)
+.....+ .+|.+.++.++.+....|+|++..+++. ..||.|++..| ..|.||+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~-~~ig~W~~~~~-----------------------~~i~~~~ 200 (656)
T KOG1052|consen 145 KKLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGE-RRIGYWYPRGG-----------------------ENISWPG 200 (656)
T ss_pred HhhhhhccccceeEEEecCCCccccceEEEEEecCcCc-eeEEEecCCCC-----------------------ceeeccC
Confidence 8876544 4577888888888999999999998888 78999988642 3678999
Q ss_pred CCCCCCcceecCCCCceEEEEecCCCCccccEEee---CCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCC--CCCC
Q 006918 447 GVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFKV---NGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGH--KNPT 521 (625)
Q Consensus 447 ~~~~~P~~~~~~~~~~~l~v~~~~~~~~~~~~~~~---~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~--~~~~ 521 (625)
.....|.++-.|.++++++|+++..+||..+.... .++..+.|||+||++++++.+||++++..++.+.+. ++|+
T Consensus 201 ~~~~~~~~~~~~~~~~~l~v~~~~~~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~ 280 (656)
T KOG1052|consen 201 KDYFVPKGWFFPTNGKPLRVGVVTEPPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGN 280 (656)
T ss_pred CcccCcCCccccCCCceEEEEEeccCCceeeeecccccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCC
Confidence 98889998887778999999999888876555431 145689999999999999999999666666654433 5589
Q ss_pred HHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEecCCCCcCcchhccCccHHHHHHHHHHHHHHHHHH
Q 006918 522 YSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVV 601 (625)
Q Consensus 522 ~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~~~~~~~~~l~pf~~~vW~~~~~~~~~~~~~~ 601 (625)
|+||+++|.+|++|++ ++++++++|+++||||.||+..+++++++++......+.|+.||+++||++++++++++++++
T Consensus 281 ~~g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~ 359 (656)
T KOG1052|consen 281 WDGLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLL 359 (656)
T ss_pred hhHHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999 999999999999999999999999999999885555899999999999999999999999999
Q ss_pred HhhhcccCCCC
Q 006918 602 WILEHRLNDEF 612 (625)
Q Consensus 602 ~~~~~~~~~~~ 612 (625)
|+++|+.|.+|
T Consensus 360 ~~~~~~~~~~~ 370 (656)
T KOG1052|consen 360 WILERLSPYEL 370 (656)
T ss_pred HHHhccccccC
Confidence 99999999999
No 46
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.7e-36 Score=302.85 Aligned_cols=304 Identities=18% Similarity=0.255 Sum_probs=260.0
Q ss_pred EEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||++.|++. ..|.....++++|+++||+++++ .|++|+++++|++++|..+++.+.+|+.+ +|.+|+||.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi-~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~ 79 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGV-LGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGV 79 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCC-CCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchh
Confidence 6999999984 45778899999999999999998 59999999999999999999999999986 9999999999999
Q ss_pred HHHH-HHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHH
Q 006918 104 AHVL-SHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (625)
Q Consensus 104 ~~~v-a~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~ 181 (625)
+.++ ++++...++|+|+++++++.+++ ..++++||+.|++..++.++++++.+++|+++++|+.+++||+...+.+++
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 99999999999999999988887 457899999999999999999999999999999999999999999999999
Q ss_pred HHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhccc
Q 006918 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (625)
Q Consensus 182 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (625)
.+++.|++|+....++.. ..|+...+.++++.++++|++.+.+.++..+++++++.|+.. .|+.++......-
T Consensus 160 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~~~~~ 232 (312)
T cd06346 160 AFEALGGTVTNVVAHEEG----KSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFD---KFLLTDGMKSDSF 232 (312)
T ss_pred HHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCC---ceEeeccccChHH
Confidence 999999999988888866 778999999999999999999999999999999999999743 3565543221100
Q ss_pred CCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCC
Q 006918 262 SKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (625)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~ 341 (625)
. ........+|+++..+..+ .+..++|.++|+++|+ ..++.+++..||+++++++|
T Consensus 233 ~----~~~~~~~~~g~~~~~~~~~-~~~~~~f~~~~~~~~g--~~p~~~~~~~Yd~~~~l~~A----------------- 288 (312)
T cd06346 233 L----PADGGYILAGSYGTSPGAG-GPGLEAFTSAYKAAYG--ESPSAFADQSYDAAALLALA----------------- 288 (312)
T ss_pred H----HhhhHHHhCCcEEccCCCC-chhHHHHHHHHHHHhC--CCCCccchhhHHHHHHHHHH-----------------
Confidence 0 0111245678777655443 3778999999999997 45778889999999998864
Q ss_pred ccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEE
Q 006918 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDI 396 (625)
Q Consensus 342 ~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I 396 (625)
|.|++|++.||++|++.. .|+-
T Consensus 289 --------------------------------~~g~~g~~~f~~~g~~~~-~~~~ 310 (312)
T cd06346 289 --------------------------------YQGASGVVDFDENGDVAG-SYDE 310 (312)
T ss_pred --------------------------------hCCCccceeeCCCCCccc-ceee
Confidence 568899999999998643 5554
No 47
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.6e-35 Score=301.90 Aligned_cols=333 Identities=19% Similarity=0.255 Sum_probs=270.3
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||++.|++ +..|.....++++|+++||++++++ |++|+++++|++++|..+.+.+++|+++ +|.+|+||.+|..
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 4568889999999999999999985 8999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHH-HHHHHHHHHc-CCcEEEEEEecCC-CCcchHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLM-SAIAEMVSYF-GWGEVIAIFNDDD-QGRNGVTALG 180 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~-~al~~ll~~~-~W~~v~ii~~d~~-~g~~~~~~l~ 180 (625)
+.++.++++..++|+|+++++++.+. ..++++||+.+++..+. .++..+++++ +|+++++||.+++ ||....+.++
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 99999999999999999877766553 34689999987766544 4555677788 9999999997554 9999999999
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcc
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (625)
+.+++.|++++....++.. ..|+..++.+|+++++++|++.+.+.++..+++++.+.|+.. .++........
T Consensus 159 ~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~- 230 (344)
T cd06348 159 KALRDQGLNLVTVQTFQTG----DTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNG---LIVGGNGFNTP- 230 (344)
T ss_pred HHHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC---ceeccccccCH-
Confidence 9999999999988888765 678999999999999999999999999999999999999854 24443322111
Q ss_pred cCCCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCccccc
Q 006918 261 DSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (625)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 338 (625)
... ....+..+|++....+.+ ..+..++|.+.|+++++ ..++.++..+||+++++++|++++..+....
T Consensus 231 ~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--~~p~~~~~~~yda~~~~~~A~~~a~~~~~~~--- 301 (344)
T cd06348 231 NVF----PVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYG--KAPPQFSAQAFDAVQVVAEALKRLNQKQKLA--- 301 (344)
T ss_pred HHH----HhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHC--CCccHHHHHHHHHHHHHHHHHHHhcCCCccc---
Confidence 110 223356678877666544 34668999999999886 4566778899999999999999986432110
Q ss_pred CCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEE
Q 006918 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYD 395 (625)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~ 395 (625)
.|.. -..+..|.++|++++|+|++|++.||++|++....|-
T Consensus 302 -------------~~~~---~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~ 342 (344)
T cd06348 302 -------------ELPL---PELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFY 342 (344)
T ss_pred -------------cchh---hhHHHHHHHHHhccCCccceeeeEECCCCCcccCcee
Confidence 0100 0136789999999999999999999999998766653
No 48
>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=3.6e-35 Score=299.08 Aligned_cols=324 Identities=18% Similarity=0.261 Sum_probs=270.8
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCC--CCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCh
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRV--LGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSA 101 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~i--L~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s 101 (625)
+||++.|++ +..|.....|+++|+++||+++|+ ++|++|+++++|+++++..+++.+++++++ +|.+|+|+.+|
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 599999997 356788899999999999999973 579999999999999999999999999988 99999999999
Q ss_pred HHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcC------CcEEEEEEecCCCCcch
Q 006918 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG------WGEVIAIFNDDDQGRNG 175 (625)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~------W~~v~ii~~d~~~g~~~ 175 (625)
..+.+++++++..++|+|+++++++.+++..+||+||+.|++..++.++++++.+++ |+++++|+.|+.||...
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 999999999999999999988888878776789999999999999999999998864 59999999999999999
Q ss_pred HHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006918 176 VTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW 255 (625)
Q Consensus 176 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 255 (625)
.+.+++.+++.|++|+..+.++.. ..++..++++++++++++|++.+...++..+++++++.|+..+ .++.....
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 999999999999999988888765 6789999999999999999999999999999999999998543 22222221
Q ss_pred chhcccCCCCCChhhhhcccceEEEeeeCCC-ChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCc
Q 006918 256 LSTFIDSKSPLSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNT 334 (625)
Q Consensus 256 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~ 334 (625)
.... ... ....+..+|++...++.+. .+..++|.++|+++++ ..++..+...||+++++++|++++...
T Consensus 236 ~~~~-~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~--~~~~~~~~~~Y~a~~~l~~A~~~ag~~--- 305 (347)
T cd06340 236 AEDP-SFV----KALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFG--VDLSGNSARAYTAVLVIADALERAGSA--- 305 (347)
T ss_pred cCcH-HHH----HHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhC--CCCChHHHHHHHHHHHHHHHHHHhcCC---
Confidence 1110 000 1233456788877665554 6778999999999987 347788899999999999999986321
Q ss_pred ccccCCCccCCCCCCccccCcccccCchHHHH--HHHHhcccc---cceeeEEEccCCCccCC
Q 006918 335 ISFSNDTKLNGLGGGTLNLGALSIFDGGKKFL--ANILQTNMT---GLSGPIHFNQDRSLLHP 392 (625)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~--~~l~~~~f~---g~tG~v~Fd~~G~r~~~ 392 (625)
++..+. .+|+...+. +..|.++||++|+..+.
T Consensus 306 --------------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 306 --------------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred --------------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 477787 488887765 46789999999985443
No 49
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=100.00 E-value=2.9e-34 Score=292.23 Aligned_cols=337 Identities=15% Similarity=0.120 Sum_probs=272.2
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||++.|++ +..|.....|+++|+++||+++|++ |++|+++.+|++++|..+++.+.+|+++ +|.+|+|+.+|..
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 699999997 4568888999999999999999997 8999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHH-cCCcEEEEEEecCCCCcchHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGDK 182 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~-~~W~~v~ii~~d~~~g~~~~~~l~~~ 182 (625)
+.++.++++..++|++++..... ...+|++||+.+++..+...+++++.. .+++++++|+.|++||....+.+++.
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 99999999999999997643221 134689999999999888888888765 57999999999999999999999999
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccC
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (625)
+++.|++|+....++.+ ..|+..++.++++.++++|++...+.++..+++++++.|+......++..........
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 99999999998888866 7899999999999999999999998999999999999998654444554332211111
Q ss_pred CCCCChhhhhcccceEEEeee--CCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCC
Q 006918 263 KSPLSLKTAKSILGALTLRQH--TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (625)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 340 (625)
........|++....+ ....+..++|.++|+++++....+..++...||++++++.|++++...
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 1112345676654433 234677899999999998744344566788999999999999986321
Q ss_pred CccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEE
Q 006918 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQ 407 (625)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~ 407 (625)
++.+|.++|++++|++..|.++|+++++.....+.|.+++.++.++.
T Consensus 298 --------------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~ 344 (348)
T cd06355 298 --------------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEI 344 (348)
T ss_pred --------------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEE
Confidence 58899999999999999999999985443445556666654443333
No 50
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=4.8e-34 Score=291.22 Aligned_cols=338 Identities=20% Similarity=0.264 Sum_probs=278.0
Q ss_pred CceEEEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCC
Q 006918 24 PEVLNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQ 99 (625)
Q Consensus 24 ~~~i~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~-~~v~aviG~~ 99 (625)
.++|+||++.|++ +.+|.....++++|+|+||+.+|++ |++|++++.|+.++|..+++.+.+|+. ++|.+|||+.
T Consensus 8 a~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~-G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~ 86 (366)
T COG0683 8 ADTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGIL-GRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPT 86 (366)
T ss_pred cCceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcC-CceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEec
Confidence 4589999999997 5678899999999999999999986 777999999999999999999999887 5999999999
Q ss_pred ChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCC-CceEEccCchHHHHHHHHHHHHH-cCCcEEEEEEecCCCCcchHH
Q 006918 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQY-PFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNGVT 177 (625)
Q Consensus 100 ~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~-~~~~r~~ps~~~~~~al~~ll~~-~~W~~v~ii~~d~~~g~~~~~ 177 (625)
+|..+.++.+++++.++|+|+++++++.+....+ +++||+.|++..++.++++++.. .+.+++++|+.|+.||+...+
T Consensus 87 ~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~ 166 (366)
T COG0683 87 TSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYGEGLAD 166 (366)
T ss_pred cCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcchhHHH
Confidence 9999999999999999999999999998776444 45999999999999999999865 556699999999999999999
Q ss_pred HHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcch
Q 006918 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (625)
Q Consensus 178 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (625)
.+++.+++.|+++...+.+.+. ..++..++.+++++++++|++.+...+...+++++.+.|+... ..++......
T Consensus 167 ~~~~~l~~~G~~~~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~-~~~~~~~~~~ 241 (366)
T COG0683 167 AFKAALKALGGEVVVEEVYAPG----DTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK-LIGGDGAGTA 241 (366)
T ss_pred HHHHHHHhCCCeEEEEEeeCCC----CCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc-cccccccCch
Confidence 9999999999986655666655 4449999999999999999999999999999999999997543 2222221111
Q ss_pred hcccCCCCCChhhhhcccc-eEEEee-eC-CCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCc
Q 006918 258 TFIDSKSPLSLKTAKSILG-ALTLRQ-HT-PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNT 334 (625)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~g-~~~~~~-~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~ 334 (625)
... ........+ .+.... .. ...|..+.|.++|+++++....++.++...||++++++.|++++.. .
T Consensus 242 ~~~-------~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~y~a~~~~~~ai~~a~~-~-- 311 (366)
T COG0683 242 EFE-------EIAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDPAAPSYFAAAAYDAVKLLAKAIEKAGK-S-- 311 (366)
T ss_pred hhh-------hhcccCccccEEEEecccccccCcchHHHHHHHHHHhCCCCCcccchHHHHHHHHHHHHHHHHHhc-C--
Confidence 111 011112222 222222 22 2355677899999999985566677899999999999999999753 1
Q ss_pred ccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcc-cccceeeEEEccCCCccCCcEEEEEEeeC
Q 006918 335 ISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQDRSLLHPSYDIINVIEH 402 (625)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~-f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~ 402 (625)
. ++.++.++|+... +.+.+|.+.||++|++....+.|.+++..
T Consensus 312 ------------------------~-d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~ 355 (366)
T COG0683 312 ------------------------S-DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKG 355 (366)
T ss_pred ------------------------C-CHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEec
Confidence 1 4888999999987 68999999999999999999999988743
No 51
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.2e-34 Score=291.75 Aligned_cols=320 Identities=17% Similarity=0.147 Sum_probs=263.5
Q ss_pred EEEEEeecC--CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHHH
Q 006918 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVMA 104 (625)
Q Consensus 28 ~IG~l~~~~--~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~~ 104 (625)
+||++.|++ +..|.....++++|+++||+.+|+ +|++|++++.|++++|..+++.+.+|+.+ +|.+|+|+.+|..+
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi-~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~ 79 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGI-NGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDAT 79 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCC-CCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 489999998 456778899999999999999998 49999999999999999999999999976 99999999999999
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcC-CcEEEEEEecCC-CCcchHHHHHHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDD-QGRNGVTALGDK 182 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~-W~~v~ii~~d~~-~g~~~~~~l~~~ 182 (625)
.+++++++..++|+|+++++++.++ ..+||+||+.|++..+..++++++++.+ |+++++|+.++. ||+...+.+.+.
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 9999999999999999887777776 4579999999999999999999999886 999999998876 999999999999
Q ss_pred Hhc-cceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhccc
Q 006918 183 LAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (625)
Q Consensus 183 l~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (625)
+++ .|+++.....++.. ..++...+.++++.++++|++.+.......+++++.+.+. ...++.++..... +
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 58888765444432 4567789999999999999999988888888999887663 2334444332211 1
Q ss_pred CCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCC
Q 006918 262 SKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (625)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~ 341 (625)
.. .......+|+++..++.+..+..++|.+.|+++++ ..++..+...||+++++++|++++...
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 10 11234567888888777777778999999999987 457778999999999999999985321
Q ss_pred ccCCCCCCccccCcccccCchHHHH-HHHHhcccccceeeEEEccCCCccCC
Q 006918 342 KLNGLGGGTLNLGALSIFDGGKKFL-ANILQTNMTGLSGPIHFNQDRSLLHP 392 (625)
Q Consensus 342 ~~~~~~~~~~~c~~~~~~~~~~~l~-~~l~~~~f~g~tG~v~Fd~~G~r~~~ 392 (625)
++..+. ..+++..|+|..|+++||++|++...
T Consensus 295 -------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~ 327 (332)
T cd06344 295 -------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNGQ 327 (332)
T ss_pred -------------------hhhhhhhhhcccccccCCCceeEeCCCCcccCc
Confidence 244444 67888889999999999999997543
No 52
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=100.00 E-value=1.5e-33 Score=287.33 Aligned_cols=341 Identities=9% Similarity=0.075 Sum_probs=270.0
Q ss_pred EEEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChH
Q 006918 27 LNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (625)
Q Consensus 27 i~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~ 102 (625)
|+||++.|++ +..|.....++++|+++||+++|++ |++|++++.|++++|..+++.+.+|+++ +|.+|||+.+|.
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 6899999998 4568889999999999999999997 8999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHH-cCCcEEEEEEecCCCCcchHHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGD 181 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~-~~W~~v~ii~~d~~~g~~~~~~l~~ 181 (625)
.+.++.+++.+.++|+|...... .....+|+||+.|++..++.++++++.. .+ +++++|+.|++||+...+.+++
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~~~---~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g-~~va~l~~d~~~g~~~~~~~~~ 155 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQYE---GGVCDEYTFAVGATARQQLGTVVPYMVEEYG-KKIYTIAADYNFGQLSADWVRV 155 (374)
T ss_pred HHHHHHHHHHhcCceEEcCcccc---cccCCCCEEEcCCChHHHHHHHHHHHHHcCC-CeEEEEcCCcHHHHHHHHHHHH
Confidence 99999999999999999642111 1123589999999999999999999865 46 6899999999999999999999
Q ss_pred HHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhccc
Q 006918 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (625)
Q Consensus 182 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (625)
.+++.|++++....++.+ ..|+..++.+|+++++++|++.....+...+++++.++|+..+ ++..........
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 999999999988888866 7899999999999999999998888888999999999998543 121111111000
Q ss_pred CCCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccC
Q 006918 262 SKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (625)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~ 339 (625)
.. ........|++....+.+ ..+..++|.++|+++|+....++.++...||+++++++|++++...
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 011134556665555443 4577899999999998633333566788999999999999986321
Q ss_pred CCccCCCCCCccccCcccccCchHHHHHHHHh-cccccceeeEEEccCCCccCCcEEEEEEeeCceeEEEeEee
Q 006918 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQ-TNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWS 412 (625)
Q Consensus 340 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~-~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~vG~w~ 412 (625)
++.++.++|++ ..|.|..|+++||++++.....+.|.+++..+.+..+..|+
T Consensus 297 ---------------------d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 297 ---------------------DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred ---------------------CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 58999999997 57999999999998765444455566665444334444444
No 53
>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=8.6e-34 Score=287.89 Aligned_cols=315 Identities=24% Similarity=0.368 Sum_probs=249.2
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHH-hcCcEEEEcCCChHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK-FNGFLSIMGALQFM-ETDTLAIVGPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~-~~~~~a~~~~~~l~-~~~v~aviG~~~s~~~~ 105 (625)
+||++|+... ...+.|+++|++++|.+++++++..+.+.+.+.+ +++..+++.+|+++ .++|.+|+||.++..+.
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 4899999865 5778999999999999999888777777776655 79999999999999 77999999999999999
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHh
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~ 184 (625)
+++++++.++||+|+++++.+.+++ ..+++++|+.|++..++.++++++.+++|++|++||+++++. ..++.+.+...
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~-~~l~~~~~~~~ 156 (328)
T cd06351 78 AVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGL-SRLQELLDESG 156 (328)
T ss_pred HHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHH-HHHHHHHHhhc
Confidence 9999999999999999888887776 568999999999999999999999999999999999988743 23333333333
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCc-eEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCC
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEA-RVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~-~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (625)
..+..+... .+... .++++..++++++.++ ++|++++..+.+..++++|.++||+.++|+||+++......+.
T Consensus 157 ~~~~~v~~~-~~~~~----~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~- 230 (328)
T cd06351 157 IKGIQVTVR-RLDLD----DDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDIDL- 230 (328)
T ss_pred ccCceEEEE-EecCC----chhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCccccch-
Confidence 334444433 44433 3379999999999888 5665555559999999999999999999999999976554332
Q ss_pred CCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCC--CCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCC
Q 006918 264 SPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG--SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (625)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~--~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~ 341 (625)
........|+++++...+..+.+++|..+|...... ...+...++.+||++++
T Consensus 231 ----~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~--------------------- 285 (328)
T cd06351 231 ----EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEESPGVNLRAPIYDAALLYDAVLL--------------------- 285 (328)
T ss_pred ----hhhccCCcceEEEEEeCCCchHHHHHHHhhhhccCCCCcCccchhhHhhhcEEEE---------------------
Confidence 234566789999999999999999999998433221 11112223333333211
Q ss_pred ccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEe-eCceeEEEeEeeC
Q 006918 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI-EHGYPQQIGYWSN 413 (625)
Q Consensus 342 ~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~-~~~~~~~vG~w~~ 413 (625)
. ||.+.||++|+|.+..++|++++ ..+. ++||.|+.
T Consensus 286 -------------------~----------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~-~~vg~W~~ 322 (328)
T cd06351 286 -------------------L----------------TGTVSFDEDGVRSNFTLDIIELNRSRGW-RKVGTWNG 322 (328)
T ss_pred -------------------E----------------EeeEEECCCCcccceEEEEEEecCCCCc-eEEEEecC
Confidence 1 99999999999999999999998 5665 99999984
No 54
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=8.8e-34 Score=288.48 Aligned_cols=315 Identities=18% Similarity=0.185 Sum_probs=266.6
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~ 104 (625)
+||++.|++ +..|.....++++|+++||+.+|++ |++|+++++|+++++..+++.++++++++|++|||+.+|..+
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 589999997 4567888999999999999999985 899999999999999999999999999999999999999999
Q ss_pred HHH-------HHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcC-CcEEEEEEecCCCCcch
Q 006918 105 HVL-------SHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDDQGRNG 175 (625)
Q Consensus 105 ~~v-------a~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~-W~~v~ii~~d~~~g~~~ 175 (625)
.++ ++++..+++|+|+++++++.+++ ..+|++||+.|++..++.++++++.+.+ |+++++++.|+.||+..
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~ 159 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDV 159 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHH
Confidence 988 78888999999998888887776 5679999999999999999999998876 99999999999999999
Q ss_pred HHHHHHHHhc--cceEEEEeeecCCCCCCCh-hHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 176 VTALGDKLAE--IRCKISYKSALPPDQSVTE-TDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 176 ~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~-~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
.+.+++.+++ .|++|+....++.. . +|+..++.++++.++++|++...+.++..+++++++.|+.. .++.
T Consensus 160 ~~~~~~~~~~~~~G~~vv~~~~~~~~----~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~ 232 (342)
T cd06329 160 AAAFKAMLAAKRPDIQIVGEDLHPLG----KVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKL---PFYT 232 (342)
T ss_pred HHHHHHHHHhhcCCcEEeceeccCCC----CCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCc---eEEe
Confidence 9999999999 99999987777754 5 78999999999999999999888888999999999999743 2444
Q ss_pred eCcchhcccCCCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHh
Q 006918 253 TTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLD 330 (625)
Q Consensus 253 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~ 330 (625)
....... .. ....+..+|++....+.+ ..+..++|.++|+++++ ..++.++..+||+++++++|+++...
T Consensus 233 ~~~~~~~--~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~y~~~~~~~~a~~~ag~ 304 (342)
T cd06329 233 PYLDQPG--NP----AALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYG--RVPDYYEGQAYNGIQMLADAIEKAGS 304 (342)
T ss_pred ccccchh--HH----HhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhC--CCCCchHHHHHHHHHHHHHHHHHhCC
Confidence 3322211 10 223345677766655433 35778999999999886 45667788999999999999998421
Q ss_pred cCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCC
Q 006918 331 QGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDR 387 (625)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G 387 (625)
. ++..+.++|++++|+|..|++.|++.+
T Consensus 305 ~-----------------------------~~~~v~~al~~~~~~~~~g~~~~~~~~ 332 (342)
T cd06329 305 T-----------------------------DPEAVAKALEGMEVDTPVGPVTMRASD 332 (342)
T ss_pred C-----------------------------CHHHHHHHHhCCccccCCCCeEEcccC
Confidence 1 488999999999999999999999643
No 55
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=100.00 E-value=1.6e-33 Score=285.76 Aligned_cols=322 Identities=15% Similarity=0.131 Sum_probs=266.7
Q ss_pred EEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||+++|++. ..|.....++++|+++||+++|+ .|++|+++++|++++|..+.+.+++|+++ +|.+|+|+.+|..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi-~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGI-LGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSAS 79 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHH
Confidence 5999999973 45778899999999999999998 49999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l 183 (625)
+.++.++++..++|+|++.+... ....|++||+.|++..+..++++++...+|++|++|+.|+.||+...+.+++.+
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 99999999999999998644322 123589999999999999999998877669999999999999999999999999
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCC
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (625)
++.|.+|+....++.. ..|+..++.++++.++++|++.+...+...+++++.+.|+..... ++........ ...
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~-~~~~~~~~~~-~~~ 230 (333)
T cd06331 157 EELGGEVVGEEYLPLG----TSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRI-PILSLTLDEN-ELA 230 (333)
T ss_pred HHcCCEEEEEEEecCC----cccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCC-eeEEcccchh-hhh
Confidence 9999999988888865 688999999999999999999999999999999999999863333 3333221111 111
Q ss_pred CCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCC
Q 006918 264 SPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (625)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~ 341 (625)
.......+|++...++.+ ..+..++|.++|+++++....++.+++..||++++++.|++++..
T Consensus 231 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~ag~----------- 295 (333)
T cd06331 231 ----AIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDAVINSPAEAAYEAVYLWAAAVEKAGS----------- 295 (333)
T ss_pred ----ccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCcCCCchhHHHHHHHHHHHHHHHHcCC-----------
Confidence 111234678777665543 356789999999988864334677889999999999999998421
Q ss_pred ccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCC
Q 006918 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHP 392 (625)
Q Consensus 342 ~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~ 392 (625)
.++..|.++|++++|+|++|.+.|++++++...
T Consensus 296 ------------------~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~~~ 328 (333)
T cd06331 296 ------------------TDPEAVRAALEGVSFDAPQGPVRIDPDNHHTWL 328 (333)
T ss_pred ------------------CCHHHHHHHhhcCcccCCCCceEecCCCCcccc
Confidence 148899999999999999999999998876533
No 56
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.2e-33 Score=285.60 Aligned_cols=320 Identities=16% Similarity=0.277 Sum_probs=266.5
Q ss_pred EEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||+++|++. ..|.....|+++|+++||+++|+ +|++|++++.|+++++..+++.+++++++ +|.+||||.++..
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~ 79 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGV-LGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGA 79 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCC-CCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHh
Confidence 5999999984 45677889999999999999987 59999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH-HHcCCcEEEEEEecC-CCCcchHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDD-DQGRNGVTALGD 181 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll-~~~~W~~v~ii~~d~-~~g~~~~~~l~~ 181 (625)
+.+++++++..+||+|++.++.+.+++. .+++||+.|++..++.++++++ ++++|++|++|+.++ +|+....+.+++
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~~~~~-~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~ 158 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPKVTQG-KDYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKE 158 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCCcccC-CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHH
Confidence 9999999999999999998877766653 2489999999998999999986 668999999999875 899888899999
Q ss_pred HHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhccc
Q 006918 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (625)
Q Consensus 182 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (625)
.+++.|++++....++.. ..++...++++++.++++|++.+.......+++++.+.|+. ..|+.++.+.....
T Consensus 159 ~~~~~g~~v~~~~~~~~~----~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~---~~i~~~~~~~~~~~ 231 (334)
T cd06347 159 AFKKLGGEIVAEETFNAG----DTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIK---VPILGGDGWDSPKL 231 (334)
T ss_pred HHHHcCCEEEEEEEecCC----CCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCC---CcEEecccccCHHH
Confidence 999999999988777755 56799999999999999999999999999999999998863 35666554432110
Q ss_pred CCCCCChhhhhcccceEEEeeeCCC--ChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccC
Q 006918 262 SKSPLSLKTAKSILGALTLRQHTPD--SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (625)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~ 339 (625)
. ........|+....++.+. .+..++|.+.|+++++ ..++.++...||+++++++|++++...
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 0 1223567787776665443 5778999999998886 456777889999999999999874211
Q ss_pred CCccCCCCCCccccCcccccCchHHHHHHHHhc-ccccceeeEEEccCCCccCC
Q 006918 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQT-NMTGLSGPIHFNQDRSLLHP 392 (625)
Q Consensus 340 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~-~f~g~tG~v~Fd~~G~r~~~ 392 (625)
++..+.+.|++. .|+|++|++.|+++|+..+.
T Consensus 297 ---------------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~ 329 (334)
T cd06347 297 ---------------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVKS 329 (334)
T ss_pred ---------------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCCC
Confidence 478899888765 69999999999999885433
No 57
>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=2.4e-35 Score=299.35 Aligned_cols=370 Identities=19% Similarity=0.292 Sum_probs=296.3
Q ss_pred CCceEEEEEEeecCC-----CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CcEEE
Q 006918 23 KPEVLNVGAIFSFGT-----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET--DTLAI 95 (625)
Q Consensus 23 ~~~~i~IG~l~~~~~-----~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~--~v~av 95 (625)
...+.+|++++|+.. ..|.....|+++|++++|+++.||||++|+++..|++|++..+.+...+++.. ..+.+
T Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~ml 117 (865)
T KOG1055|consen 38 SRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLML 117 (865)
T ss_pred CCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchhee
Confidence 445788999999852 33667899999999999999999999999999999999999999999999876 45677
Q ss_pred EcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcc
Q 006918 96 VGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRN 174 (625)
Q Consensus 96 iG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~ 174 (625)
+|+ |+..+..++.-+..|+.-+++|++++|.+++ ++||+|||++||+......+.+++++|+|++|+.++++..-...
T Consensus 118 l~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f~~ 196 (865)
T KOG1055|consen 118 LGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVFSS 196 (865)
T ss_pred ccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhhcc
Confidence 787 9999999999999999999999999999999 78999999999999999999999999999999999998877777
Q ss_pred hHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeC
Q 006918 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (625)
Q Consensus 175 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (625)
-.+.+...+.+.+++++....+. .|....+++++...+|+|+-..+...++..++++++.+|.+..|+|++..
T Consensus 197 ~~~dl~~~~~~~~ieiv~~qsf~-------~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~g 269 (865)
T KOG1055|consen 197 TLNDLEARLKEAGIEIVFRQSFS-------SDPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLIG 269 (865)
T ss_pred hHHHHHHhhhccccEEEEeeccc-------cCHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEEE
Confidence 88889899999999998776554 34566789999999999999999999999999999999999999999988
Q ss_pred cchhccc-----CCCCCChhhhhcccceEEEeeeCCCCh--------hHHHHHHHHHhhcC---CCCCCCchhhhHhHHH
Q 006918 255 WLSTFID-----SKSPLSLKTAKSILGALTLRQHTPDSK--------RRRDFVSRWNTLSN---GSIGLNPYGLYAYDTV 318 (625)
Q Consensus 255 ~~~~~~~-----~~~~~~~~~~~~~~g~~~~~~~~~~~~--------~~~~f~~~~~~~~~---~~~~~~~~~~~~YDAv 318 (625)
+....+. ..+|.-++...+++|.+++.....+.. .-++|...+..... ........+.++|||+
T Consensus 270 ~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~~~~~~~~~~ayd~I 349 (865)
T KOG1055|consen 270 WYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEETGGFQEAPLAYDAI 349 (865)
T ss_pred eeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccccccCcccCchHHHHH
Confidence 6654332 213334667788889887755322111 12455555443322 2233456688999999
Q ss_pred HHHHHHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEE
Q 006918 319 WMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIIN 398 (625)
Q Consensus 319 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~ 398 (625)
|++|+|++++...++.... ...+....... -..+|+++|.+++|+|++|.|.|.. |+|. ..-.|.|
T Consensus 350 wa~ala~n~t~e~l~~~~~-----------~l~~f~y~~k~-i~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t~ieQ 415 (865)
T KOG1055|consen 350 WALALALNKTMEGLGRSHV-----------RLEDFNYNNKT-IADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTLIEQ 415 (865)
T ss_pred HHHHHHHHHHHhcCCccce-----------eccccchhhhH-HHHHHHHHhhcccccccccceEecc-hhhH-HHHHHHH
Confidence 9999999998765431100 00011111111 2578999999999999999999988 9985 5568888
Q ss_pred EeeCceeEEEeEeeCCC
Q 006918 399 VIEHGYPQQIGYWSNYS 415 (625)
Q Consensus 399 ~~~~~~~~~vG~w~~~~ 415 (625)
++++.. +++|+|+...
T Consensus 416 ~qdg~y-~k~g~Yds~~ 431 (865)
T KOG1055|consen 416 FQDGKY-KKIGYYDSTK 431 (865)
T ss_pred HhCCce-Eeeccccccc
Confidence 888888 9999998865
No 58
>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=7.2e-33 Score=284.55 Aligned_cols=339 Identities=14% Similarity=0.191 Sum_probs=277.6
Q ss_pred CCceEEEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcC
Q 006918 23 KPEVLNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGP 98 (625)
Q Consensus 23 ~~~~i~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~ 98 (625)
.+++|+||+++|++ +..|.....++++|++++|+.+|++ |++|+++++|+++++..+++.+.+++.+ +|.+|||+
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 4457888999999999999999985 8999999999999999999999999974 99999999
Q ss_pred CChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHH-HHcCCcEEEEEEecCCCCcchH
Q 006918 99 QSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGV 176 (625)
Q Consensus 99 ~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll-~~~~W~~v~ii~~d~~~g~~~~ 176 (625)
.+|..+.+++++++..+||+|++.++++.+++ ..+|++||+.|++..++.++++++ ++++|+++++|+.++.||....
T Consensus 82 ~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~ 161 (362)
T cd06343 82 LGTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYL 161 (362)
T ss_pred CCcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHH
Confidence 99999999999999999999998777777776 478999999999999999999965 5689999999999999999999
Q ss_pred HHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 006918 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 256 (625)
Q Consensus 177 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 256 (625)
+.+++.+++.|++++....++.. ..++..++.++++.++++|++.+...+...+++++++.|+... ++.....
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 99999999999999988888765 6789999999999999999999999999999999999997642 4444432
Q ss_pred hhccc-CCCCCChhhhhcccceEEEeeeC-------CCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHH
Q 006918 257 STFID-SKSPLSLKTAKSILGALTLRQHT-------PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLF 328 (625)
Q Consensus 257 ~~~~~-~~~~~~~~~~~~~~g~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~ 328 (625)
..... .. ........|++....+. ...+..++|.+.|+++++....++.+....||++.++++|++++
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 21100 10 11224567776665442 23567889999999988643357778889999999999999986
Q ss_pred HhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhccc---cc-ceeeEEEccCCCccCCcEEEEEEee
Q 006918 329 LDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNM---TG-LSGPIHFNQDRSLLHPSYDIINVIE 401 (625)
Q Consensus 329 ~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f---~g-~tG~v~Fd~~G~r~~~~~~I~~~~~ 401 (625)
... .+++.+.++|+++++ .+ ..|++.|++++++....+.|.++++
T Consensus 311 g~~----------------------------~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~ 359 (362)
T cd06343 311 GDD----------------------------LTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEG 359 (362)
T ss_pred CCC----------------------------CCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEec
Confidence 211 148899999999997 33 3358999976655555666666653
No 59
>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=1.2e-32 Score=281.28 Aligned_cols=330 Identities=13% Similarity=0.106 Sum_probs=263.4
Q ss_pred EEEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChH
Q 006918 27 LNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (625)
Q Consensus 27 i~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~ 102 (625)
|+||++.|++ +..|.....++++|+++||+++|++ |++|+++++|++++|..+++.+.+|+++ +|.+|+|+.+|.
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 6899999997 3557788999999999999999997 8999999999999999999999999974 899999999999
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHH-cCCcEEEEEEecCCCCcchHHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGD 181 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~-~~W~~v~ii~~d~~~g~~~~~~l~~ 181 (625)
.+.++.++++..++|++++.... .+...|++||+.+++..+..++++++.. .|.+++++++.|++||....+.+++
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 99999999999999999754221 1234689999999999999999998776 5999999999999999998899999
Q ss_pred HHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhccc
Q 006918 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (625)
Q Consensus 182 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (625)
.+++.|++++....++.+ ..|+..++.+|+++++++|++.........+++++++.|+......++..........
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 999999999988888766 7899999999999999999988788788889999999998543333343322211111
Q ss_pred CCCCCChhhhhcccceEEEeee--CCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccC
Q 006918 262 SKSPLSLKTAKSILGALTLRQH--TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (625)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~ 339 (625)
.......+|+.....+ ....+..++|.++|+++++....+...++..||++++++.|++++...
T Consensus 233 ------~~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~A~~~ag~~-------- 298 (359)
T TIGR03407 233 ------GIGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDRVTNDPMEAAYLGVYLWKAAVEKAGSF-------- 298 (359)
T ss_pred ------hcChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC--------
Confidence 1112346776654322 234577899999999988643333445667899999999999986221
Q ss_pred CCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEE
Q 006918 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 399 (625)
Q Consensus 340 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~ 399 (625)
++..+.++|++++|+++.|+++|+++++.....+.+.++
T Consensus 299 ---------------------~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~ 337 (359)
T TIGR03407 299 ---------------------DVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEI 337 (359)
T ss_pred ---------------------CHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEE
Confidence 488999999999999999999999844323333333333
No 60
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=100.00 E-value=4.6e-33 Score=282.53 Aligned_cols=318 Identities=16% Similarity=0.138 Sum_probs=266.6
Q ss_pred EEEEEeecCCC----CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChH
Q 006918 28 NVGAIFSFGTV----NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (625)
Q Consensus 28 ~IG~l~~~~~~----~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~ 102 (625)
+||+++|++.. .|.....|+++|+++|| +|+ .|++|+++++|++++|..+++.+.+++++ +|.+|||+.+|.
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN--ggi-~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~ 77 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG--GGV-LGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSA 77 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc--CCc-cCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHH
Confidence 58999999744 47788999999999999 777 48999999999999999999999999986 999999999999
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~ 181 (625)
.+.+++++++..++|+|+++++++.+++ ..+||+||+.|++..++.++++++...+++++++++.++.||+...+.+++
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~ 157 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARK 157 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHH
Confidence 9999999999999999999888888876 348999999999999999999998877899999999999999999999999
Q ss_pred HHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhccc
Q 006918 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (625)
Q Consensus 182 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (625)
.+++.|++++....++.. .+|+..++.++++.++++|++.+...++..+++++++.|+.. ...++..........
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 999999999988888765 678999999999999999999999999999999999999752 223333222211100
Q ss_pred CCCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccC
Q 006918 262 SKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (625)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~ 339 (625)
....+..+|++...++.+ +.+..++|.++|+++++ ..++.++...||+++++++|++++...
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 112245678777666543 36778999999999987 347778889999999999999997322
Q ss_pred CCccCCCCCCccccCcccccCchHHHHHHHHhcc-cccceeeEEEcc-CCCcc
Q 006918 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQ-DRSLL 390 (625)
Q Consensus 340 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~-f~g~tG~v~Fd~-~G~r~ 390 (625)
++..+.++|+++. +++..|.++|+. +|+..
T Consensus 297 ---------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~ 328 (334)
T cd06327 297 ---------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMV 328 (334)
T ss_pred ---------------------ChHHHHHhccccceeccCCCCceeeccccchh
Confidence 4677999999986 588889999987 66543
No 61
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=4.5e-33 Score=283.68 Aligned_cols=323 Identities=17% Similarity=0.188 Sum_probs=265.7
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCC-CC--cEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVL-GG--RKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQS 100 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL-~g--~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~ 100 (625)
+||++.|++ +..|.....++++|++++|+++|++ +| ++|+++++|++++|..+.+.+.+++++ +|.+|+|+.+
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 589999997 4457888999999999999999986 45 489999999999999999999999977 9999999999
Q ss_pred hHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHH
Q 006918 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALG 180 (625)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~ 180 (625)
|..+.. +++++..++|+|++.+.++.++...++++||+.|++..++.++++++++.+|++|++|+.|+.||+...+.++
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 988888 9999999999999988888877556799999999999999999999988999999999999999999999999
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHHHHHHHcCCCCCCeEEEeeCcchhc
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVAQRLGMMDSGYVWIATTWLSTF 259 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~-~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 259 (625)
+.+++.|++++....++.. ..|+..++.+++++++++|++.+... +...+++++++.|+..+ ..++........
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 9999999999988888765 78999999999999999999998888 99999999999997642 222221111110
Q ss_pred ccCCCCCChhhhhcccceEEEeeeCC----CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcc
Q 006918 260 IDSKSPLSLKTAKSILGALTLRQHTP----DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTI 335 (625)
Q Consensus 260 ~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~ 335 (625)
.. .......+|++...+..+ ..+..++|.++|+++++. .+..+....||++.++++|++++...
T Consensus 235 ~~------~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--~p~~~~~~~y~~~~~~~~Al~~ag~~---- 302 (347)
T cd06336 235 LV------ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYGE--PPNSEAAVSYDAVYILKAAMEAAGSV---- 302 (347)
T ss_pred HH------HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHCC--CCcHHHHHHHHHHHHHHHHHHhcCCC----
Confidence 10 112345678887776544 467789999999999863 46778889999999999999986321
Q ss_pred cccCCCccCCCCCCccccCcccccCchHHHHHHHH-------hcccccceeeEEEccCCCccCC
Q 006918 336 SFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANIL-------QTNMTGLSGPIHFNQDRSLLHP 392 (625)
Q Consensus 336 ~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~-------~~~f~g~tG~v~Fd~~G~r~~~ 392 (625)
+....+.+.++ ...|.+..|.+.||++|++..+
T Consensus 303 ------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 342 (347)
T cd06336 303 ------------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGP 342 (347)
T ss_pred ------------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccC
Confidence 01333333333 2568899999999999997544
No 62
>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=2.8e-32 Score=277.65 Aligned_cols=328 Identities=18% Similarity=0.231 Sum_probs=266.3
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||.+.|++ +..|.....++++|++++|+++++ +|++|+++++|+++++..+.+.+.+|+.+ +|.+|+|+.+|..
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 699999997 456889999999999999999998 59999999999999999999999999976 7999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH-HHcCCcEEEEEEecCCCCcchHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll-~~~~W~~v~ii~~d~~~g~~~~~~l~~~ 182 (625)
+.+++++++..++|+|+++++.+.+++ ..+|+||+.|++..+..++++++ ++++|+++++++.+++||....+.+++.
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 999999999999999998877776654 35899999999999999999986 6789999999999999999999999999
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccC
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (625)
+++.|++++....+++. ..|+...+.+++.+++++|++.+...+...+++++.+.|+..+ ++...........
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 99999999988777765 6789999999999999999999999999999999999997542 3333221111000
Q ss_pred CCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCC
Q 006918 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (625)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 340 (625)
.......+|++....+.+ ..+..++|.++|+++++ ..++.++..+||++.++++|++++...
T Consensus 232 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~p~~~~~~~y~~~~~~~~a~~~ag~~--------- 295 (340)
T cd06349 232 -----ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYG--AQPDAFAAQAYDAVGILAAAVRRAGTD--------- 295 (340)
T ss_pred -----HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--CCcchhhhhHHHHHHHHHHHHHHhCCC---------
Confidence 112345678877666544 35678999999998886 346778899999999999999985211
Q ss_pred CccCCCCCCccccCcccccCchHHHHHH-HHhcccccceeeEEEccC-CCccCCcEEEEEEee
Q 006918 341 TKLNGLGGGTLNLGALSIFDGGKKFLAN-ILQTNMTGLSGPIHFNQD-RSLLHPSYDIINVIE 401 (625)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~-l~~~~f~g~tG~v~Fd~~-G~r~~~~~~I~~~~~ 401 (625)
+...+... +.+..+.+.+|.++|+++ |+. ...|.++.+++
T Consensus 296 --------------------~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~-~~~~~~~~~~~ 337 (340)
T cd06349 296 --------------------RRAARDGFAKAEDVYSGVTGSTKFDPNTRRV-IKRFVPLVVRN 337 (340)
T ss_pred --------------------CHHHHHHHHHhccCcccceEeEEECCCCCCc-cCceEEEEEeC
Confidence 12222222 244557899999999997 554 44676666543
No 63
>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-32 Score=280.59 Aligned_cols=322 Identities=17% Similarity=0.161 Sum_probs=264.1
Q ss_pred EEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||+++|++. ..|.....++++|+++||+++++ +|++|+++++|+++++..+++.+++++.+ +|.+|||+.++..
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi-~G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~ 79 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGI-GGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGV 79 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCc-CCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHH
Confidence 5999999984 44778899999999999999987 58999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcC--CcEEEEEEecCCCCcchHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFG--WGEVIAIFNDDDQGRNGVTALG 180 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~--W~~v~ii~~d~~~g~~~~~~l~ 180 (625)
+.+++++++..++|+|++.+.++.+.+ ..++++||+.|++..+..++++++++++ |++|++|+.++++|....+.++
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~ 159 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFK 159 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHH
Confidence 999999999999999998888777776 5689999999999999999999998874 9999999999999999999999
Q ss_pred HHHhccc--eEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchh
Q 006918 181 DKLAEIR--CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLST 258 (625)
Q Consensus 181 ~~l~~~g--~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~ 258 (625)
+.+++.| +.++....++.. .+++..++.+|++.++++|++.+.+.+...+++++.+.|+.. +..|+.+.....
T Consensus 160 ~~~~~~g~~~~~v~~~~~~~~----~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~ 234 (346)
T cd06330 160 AALKRLRPDVEVVSEQWPKLG----APDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAP 234 (346)
T ss_pred HHHHHhCCCCeecccccCCCC----CcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeeccchh
Confidence 9999985 445444434333 678999999999999999999988889999999999999854 556776654322
Q ss_pred cccCCCCCChhhhhcccceEEEeee--CC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCc
Q 006918 259 FIDSKSPLSLKTAKSILGALTLRQH--TP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNT 334 (625)
Q Consensus 259 ~~~~~~~~~~~~~~~~~g~~~~~~~--~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~ 334 (625)
... .......+|++..... .. ..+..++|.++|+++++ ..++..+...||++.++++|++++......
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 210 1122445666544321 11 46778999999999986 456677889999999999999987533110
Q ss_pred ccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCC
Q 006918 335 ISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRS 388 (625)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~ 388 (625)
.+ ..++.++|++++|.|+.|++.|+++.+
T Consensus 307 ------------------------~~-~~~v~~al~~~~~~~~~G~~~f~~~~~ 335 (346)
T cd06330 307 ------------------------AP-PEQIAAALEGLSFETPGGPITMRAADH 335 (346)
T ss_pred ------------------------Cc-HHHHHHHHcCCCccCCCCceeeecCCC
Confidence 11 267999999999999999999998543
No 64
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=100.00 E-value=2.7e-32 Score=276.57 Aligned_cols=324 Identities=14% Similarity=0.189 Sum_probs=262.7
Q ss_pred EEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||+++|++. ..|.....++++|+++|| +++ .|++|+++++|++++|..+++.+.+|+.+ +|.+|+|+.+|..
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 5999999984 457788999999999998 555 59999999999999999999999999976 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~ 182 (625)
+.++++++...++|+|++++..+.+.+ ..+||+||+.|++..+..++++++...+|+++++++.|+++|+...+.+++.
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~ 157 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRT 157 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHH
Confidence 999999999999999998766666665 3589999999999999999999999999999999999999999888888887
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccC
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (625)
++ .++.....++.. .+|+..++.+++++++++|++......+..+++++++.|+.. ...++.+...... +.
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 64 355555555544 678999999999999999999888888999999999999743 3334544322211 01
Q ss_pred CCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCC
Q 006918 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (625)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 340 (625)
. ....+..+|++....+.+ ..+..++|.++|+++++ ..++.++...||+++++++|++++...
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 122345678877766655 46788999999999986 357788889999999999999986321
Q ss_pred CccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEE
Q 006918 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDII 397 (625)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~ 397 (625)
..++..+.++|+++.|+|++|.+.|+++|+. ...+.++
T Consensus 294 ------------------~~~~~~v~~al~~~~~~~~~G~~~~~~~~~~-~~~~~~~ 331 (333)
T cd06359 294 ------------------LSDKDALRAALRAADFKSVRGAFRFGTNHFP-IQDFYLR 331 (333)
T ss_pred ------------------CCCHHHHHHHHhcCccccCccceEECCCCCc-ceeEEEE
Confidence 0147899999999999999999999998873 3334343
No 65
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=100.00 E-value=2.4e-31 Score=271.94 Aligned_cols=339 Identities=17% Similarity=0.123 Sum_probs=268.0
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCChHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~-~~v~aviG~~~s~~ 103 (625)
+||++.|++ +..|.....|+++|+++||+++|++ |++|+++++|++++|..++..+.+|++ ++|.+|+|+.+|..
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 5568899999999999999999986 899999999999999999999999997 58999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l 183 (625)
+.++.++++..++|++++++... + ...+++|++.++...+..++++++...+-+++++|+.|++||+...+.+.+.+
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 99999999999999997654221 1 22367788888777778889998876555899999999999999999999999
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCc-chhcccC
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW-LSTFIDS 262 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~-~~~~~~~ 262 (625)
++.|++++....++.+ ....|+..++.+++++++++|++.+....+..++++++++|+.... ..+.+.. ......
T Consensus 157 ~~~G~~vv~~~~~~~~--~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~-~~~~~~~~~~~~~~- 232 (360)
T cd06357 157 EQRGGEVLGERYLPLG--ASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPAR-MPIASLTTSEAEVA- 232 (360)
T ss_pred HHcCCEEEEEEEecCC--CchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccC-ceeEEeeccHHHHh-
Confidence 9999999876555543 3478999999999999999999999999999999999999986432 2333321 111111
Q ss_pred CCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCC
Q 006918 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (625)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 340 (625)
....+..+|+++...+.+ ..+..++|.+.|+++++....++.++...||+++++++|++++...
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 112345778877765433 4677899999999998743335667889999999999999985211
Q ss_pred CccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeCceeEEE
Q 006918 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQI 408 (625)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~~~~~~v 408 (625)
++..+.++|++++|+|..|.+.|++.++.......+.++..++.++.+
T Consensus 299 --------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~ 346 (360)
T cd06357 299 --------------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIV 346 (360)
T ss_pred --------------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEE
Confidence 478999999999999999999999876544344445555223333444
No 66
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=100.00 E-value=4.3e-32 Score=277.12 Aligned_cols=334 Identities=21% Similarity=0.292 Sum_probs=273.9
Q ss_pred eEEEEEEeecCCC---CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCCh
Q 006918 26 VLNVGAIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQSA 101 (625)
Q Consensus 26 ~i~IG~l~~~~~~---~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~-~~v~aviG~~~s 101 (625)
+|+||++.|++.. .|.....++++|++++|+++|++ |++|+++++|+.+++..+.+.+.++++ ++|.+|+|+.+|
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 5899999999854 46678999999999999999885 899999999999999999999999998 799999999999
Q ss_pred HHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH-HHcCCcEEEEEEecCCCCcchHHHHH
Q 006918 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGVTALG 180 (625)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll-~~~~W~~v~ii~~d~~~g~~~~~~l~ 180 (625)
..+.+++++++..++|+|++++.++ ...++++||+.|++..+..++++++ ++++.+++++|+.++++|....+.++
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 9999999999999999999654332 2557999999999999999999986 45899999999999999999999999
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcc
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (625)
+.+++.|++++....++.+ ..++..+++++++.++++|++.+.+.++..+++++.+.++..+.+.......+...+
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 9999999999888888866 689999999999999999999999999999999999998764434333333222111
Q ss_pred cCCCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCccccc
Q 006918 261 DSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (625)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 338 (625)
. .......+|++....+.+ ..+..++|.++|++.++....++.++...||++.+++.|++++..
T Consensus 233 ~------~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~al~~~g~-------- 298 (343)
T PF13458_consen 233 Q------QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEPPPSLYAAQGYDAARLLAQALERAGS-------- 298 (343)
T ss_dssp H------HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTGGTCHHHHHHHHHHHHHHHHHHHHTS--------
T ss_pred H------HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHHHhCC--------
Confidence 1 122346788888777655 457789999999999975334788899999999999999999621
Q ss_pred CCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEeeC
Q 006918 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEH 402 (625)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~~~ 402 (625)
.++..+.++|++++|+|+.|++.|++.+......+.|++++.+
T Consensus 299 ---------------------~~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~~ 341 (343)
T PF13458_consen 299 ---------------------LDREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKSD 341 (343)
T ss_dssp ---------------------HHHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEETT
T ss_pred ---------------------CCHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEecC
Confidence 1589999999999999999999998655556777788887733
No 67
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=100.00 E-value=2e-31 Score=271.26 Aligned_cols=325 Identities=16% Similarity=0.223 Sum_probs=271.3
Q ss_pred EEEEEeecCCC---CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCChHH
Q 006918 28 NVGAIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~~~---~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~-~~v~aviG~~~s~~ 103 (625)
+||+++|++.. .|.....++++|++++| +++ .|++|+++++|+++++..+.+.+.+++. ++|.+|||+.++..
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 59999999743 45788999999999986 334 6999999999999999999999999997 49999999999888
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~ 182 (625)
+.++.+++...++|+|+++++++.+++ ..+|++||+.|++..++..+++++.+.+|+++++++.++.+|+...+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~ 157 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEA 157 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 888899999999999999888887876 3489999999999999999999999999999999999999999999999999
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccC
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (625)
+++.|+++.....++.. ..|+..++.++++.++++|++.....++..+++++.+.|+.. ...++.++........
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 99999999887777754 679999999999999999999988999999999999999743 2345554433211100
Q ss_pred CCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCC
Q 006918 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (625)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 340 (625)
....+...|++...++.+ ..+..++|.++|+++++ ..++.++...||+++++++|++++....
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 223456778777666544 45778999999999987 4567889999999999999999963210
Q ss_pred CccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcE
Q 006918 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSY 394 (625)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~ 394 (625)
.++..+.++|++..|.|..|+++|+++|++....|
T Consensus 298 -------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~~ 332 (336)
T cd06360 298 -------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDNY 332 (336)
T ss_pred -------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccceE
Confidence 14788999999999999999999999998765543
No 68
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=1.8e-31 Score=270.15 Aligned_cols=314 Identities=15% Similarity=0.120 Sum_probs=255.9
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhc-CCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINS-DPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~-~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~ 102 (625)
+||++.|++ +..|.....++++|+++||+ .+++ +|++|++++.|++++|..++..+.+|+++ +|.+|+|+.+|.
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi-~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~ 79 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQV-DGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSG 79 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCc-CCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcH
Confidence 699999998 44678889999999999954 5666 59999999999999999999999999987 999999999999
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCC-CCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPL-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~-~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~ 181 (625)
.+.++.++++..++|+|++.++++.++.. .++|+||+.+++..+..++++++... +++|++|+.|++||+...+.+++
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 99999999999999999988888887763 46899999988888888888887666 89999999999999999999999
Q ss_pred HHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHHHHHHHcCCCCCCeEEEeeCcchhcc
Q 006918 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (625)
Q Consensus 182 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~-~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (625)
.+++.|++++....++.+ ..|+...+.+|+++++++|++...+. ....+++++...|+... ...........
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 999999999988888865 77899999999999999998876554 56677788777665422 11111111111
Q ss_pred cCCCCCChhhhhcccceEEEeeeC-CCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccC
Q 006918 261 DSKSPLSLKTAKSILGALTLRQHT-PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (625)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~ 339 (625)
.. ........|......+. +..+..+.|.++|+++++ ..++.+++..||++.++++|++++..
T Consensus 232 ~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g--~~p~~~~~~~y~a~~~l~~Ai~~ag~--------- 295 (333)
T cd06328 232 TM-----YKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFG--SPPDLFTAGGMSAAIAVVEALEETGD--------- 295 (333)
T ss_pred cc-----ccccccccceeeeecCCCCCCHHHHHHHHHHHHHhC--CCcchhhHHHHHHHHHHHHHHHHhCC---------
Confidence 10 11223345655544443 567778899999999986 45677889999999999999998631
Q ss_pred CCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccC
Q 006918 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQD 386 (625)
Q Consensus 340 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~ 386 (625)
.++..+.++|++..|+++.|+++|+++
T Consensus 296 --------------------~~~~~v~~aL~~~~~~~~~g~~~f~~~ 322 (333)
T cd06328 296 --------------------TDTEALIAAMEGMSFETPKGTMTFRKE 322 (333)
T ss_pred --------------------CCHHHHHHHHhCCeeecCCCceEECcc
Confidence 158899999999999999999999953
No 69
>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=3.6e-31 Score=269.69 Aligned_cols=319 Identities=18% Similarity=0.233 Sum_probs=258.0
Q ss_pred EEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||.+.|++. ..|.....++++|+++||+++|+. |++|+++++|+++++..+.+.+.+|+++ +|.+|+|+.+|..
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 5999999974 568888999999999999999985 8999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCC--CCCCceEEccCchHHHHHHHHHHH-HHcCCcEEEEEEecCCCCcchHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGVTALG 180 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~--~~~~~~~r~~ps~~~~~~al~~ll-~~~~W~~v~ii~~d~~~g~~~~~~l~ 180 (625)
+.++..+++..+||+|++.++.+.+++ ..++|+||+.|++..++.++++++ ++.+|++|++++.+++||+...+.++
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 999999999999999998777766664 346899999999999999999987 45669999999999999999999999
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcc
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (625)
+.+++.|++++....++.. ..|+...+++|+++++++|++.+...+...+++++++.|+..+ +...+.....
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 9999999999988888765 6789999999999999999999999999999999999997432 2221111111
Q ss_pred cCCCCCChhhhhcccceEEEeeeC---CCChhHHHHHHHHHhhcCCCC----CCCchhhhHhHHHHHHHHHHHHHHhcCC
Q 006918 261 DSKSPLSLKTAKSILGALTLRQHT---PDSKRRRDFVSRWNTLSNGSI----GLNPYGLYAYDTVWMIARALKLFLDQGN 333 (625)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~----~~~~~~~~~YDAv~~la~Al~~~~~~~~ 333 (625)
... ........|++....+. +..+..++|.++|+++++... .++..+..+||+++++++|++++...
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 110 11223456766554332 256788999999999986432 34556678999999999999985321
Q ss_pred cccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcc--cccceee--EEEccCCC
Q 006918 334 TISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN--MTGLSGP--IHFNQDRS 388 (625)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~--f~g~tG~--v~Fd~~G~ 388 (625)
....+.++|+++. +.|+.|. +.|++..+
T Consensus 306 ---------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h 337 (347)
T cd06335 306 ---------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSKEDH 337 (347)
T ss_pred ---------------------------CHHHHHHHHHhccCCceeeecccCCCCChhhc
Confidence 2468889998764 6677764 45765443
No 70
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=100.00 E-value=5.6e-31 Score=266.64 Aligned_cols=317 Identities=13% Similarity=0.097 Sum_probs=257.3
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||++.|++ +..|.....++++|+++||+.+|++ |++|+++.+|++++|..+.+.+.+|+.+ +|.+|||+.+|..
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 599999998 4568889999999999999999985 8999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l 183 (625)
+.++.++++..++|+|+...... ....+++||+.+++..++.++++++...+-+++++|+.|++||....+.+++.+
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 99999999999999997533221 123589999999999999999999877544889999999999999999999999
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC-CCCCeEEEeeCcchhcccC
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM-MDSGYVWIATTWLSTFIDS 262 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~-~~~~~~~i~~~~~~~~~~~ 262 (625)
++.|++++....++.+ ..|+...+.++++.++++|++.....+...+++++.+.|+ ..+ .+...........
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 9999999988888866 7899999999999999999998888888899999999997 211 2221111000000
Q ss_pred CCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCC
Q 006918 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (625)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 340 (625)
. .......+|++....+.+ ..+..++|.++|+++++....++..+...||+++++++|++++...
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 011244677776655433 3566899999999998642223567899999999999999986321
Q ss_pred CccCCCCCCccccCcccccCchHHHHHHHHh-cccccceeeEEEccCCC
Q 006918 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQ-TNMTGLSGPIHFNQDRS 388 (625)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~-~~f~g~tG~v~Fd~~G~ 388 (625)
++..|.++|++ ..|+|+.|++.|+++++
T Consensus 297 --------------------~~~~v~~aL~~~~~~~~~~g~~~~~~~~h 325 (334)
T cd06356 297 --------------------DRDAVIEALESGLVCDGPEGKVCIDGKTH 325 (334)
T ss_pred --------------------CHHHHHHHHHhCCceeCCCceEEEecCCC
Confidence 48899999997 57899999999997554
No 71
>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=6.1e-31 Score=266.73 Aligned_cols=315 Identities=15% Similarity=0.160 Sum_probs=257.5
Q ss_pred EEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||++.|++. ..|.....++++|+++||+.+|+. |++|+++++|++++|..+++.+.+|+++ +|.+|||+.+|..
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 5999999974 468888999999999999999985 8999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH-HHcCCcEEEEEEecCCCCcchHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll-~~~~W~~v~ii~~d~~~g~~~~~~l~~~ 182 (625)
+.++.++++ .++|+|++.+.+. ...++++||+.+++..++.++++++ +..+|++|++++.|+.||+...+.+++.
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~ 155 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEG---GECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRY 155 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCC---CCCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999 9999998644322 1236899999999888887777765 5579999999999999999999999999
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEee-Ccchhccc
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT-TWLSTFID 261 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~-~~~~~~~~ 261 (625)
+++.|++|+....++.. ..|+...+.++++.++++|++.........+++++++.|+..+ ++.. ..+.....
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 99999999988888765 7899999999999999999998888888899999999998653 2221 11111100
Q ss_pred CCCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCC-CCCCchhhhHhHHHHHHHHHHHHHHhcCCccccc
Q 006918 262 SKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGS-IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (625)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 338 (625)
. .......+|++....+.+ ..+..++|.++|+++++.. ..++.++...||+++++++|+++...
T Consensus 229 ~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~~~~~~~~~~yda~~~~~~A~~~ag~-------- 295 (333)
T cd06358 229 L-----ASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDAPPLNSLSESCYEAVHALAAAAERAGS-------- 295 (333)
T ss_pred H-----hcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHhCC--------
Confidence 0 011234577766554433 5678899999999998743 23566788899999999999987421
Q ss_pred CCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCC
Q 006918 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRS 388 (625)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~ 388 (625)
. ++..|.++|++++|+|.+|.+.|++++.
T Consensus 296 --------------------~-~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 296 --------------------L-DPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred --------------------C-CHHHHHHHhccCeeeCCCcceEEccccc
Confidence 1 4889999999999999999999998864
No 72
>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=7.7e-31 Score=266.34 Aligned_cols=329 Identities=15% Similarity=0.182 Sum_probs=261.8
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||++.|++ +..|.....++++|+++||+.+|++ |++|+++++|++++|..+++.+.+|+++ +|.+|+ +.+|..
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 589999997 4567889999999999999999985 8999999999999999999999999987 677765 578888
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcC-----CcEEEEEEecCCCCcchHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFG-----WGEVIAIFNDDDQGRNGVT 177 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~-----W~~v~ii~~d~~~g~~~~~ 177 (625)
+.++++++...++|+|+++++++.+++ ..++|+||+.|++..+..++++++.+.+ .++|++|+.|+.||+...+
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~ 158 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIE 158 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHH
Confidence 999999999999999998777766664 5689999999999999999999987755 7999999999999999999
Q ss_pred HHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcch
Q 006918 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (625)
Q Consensus 178 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (625)
.+.+.+++.|++|+....++.+ ..|+..++.++++.++++|++.....++..++++++++|+.. .++......
T Consensus 159 ~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~ 231 (351)
T cd06334 159 ALKALAEKLGFEVVLEPVPPPG----PNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDD---KFIGNWWSG 231 (351)
T ss_pred HHHHHHHHcCCeeeeeccCCCC----cccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCc---eEEEeeccC
Confidence 9999999999999988888765 679999999999999999999999999999999999999742 244433221
Q ss_pred hcccCCCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCC----CCCchhhhHhHHHHHHHHHHHHHHhc
Q 006918 258 TFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSI----GLNPYGLYAYDTVWMIARALKLFLDQ 331 (625)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~----~~~~~~~~~YDAv~~la~Al~~~~~~ 331 (625)
.. ... .......+|++...++.+ ..|..++|.+.|+++++... .++.++...||++++++.|++++.+.
T Consensus 232 ~~-~~~----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~~~~~~~~~~~gy~a~~~l~~Al~~ag~~ 306 (351)
T cd06334 232 DE-EDV----KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGNDKEIGSVYYNRGVVNAMIMVEAIRRAQEK 306 (351)
T ss_pred cH-HHH----HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHh
Confidence 11 010 223355678776665543 56788999999999886322 33567889999999999999999766
Q ss_pred CCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccC
Q 006918 332 GNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQD 386 (625)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~ 386 (625)
.....+... ....+-+.-.+.+++....|+.|+++|...
T Consensus 307 ~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 345 (351)
T cd06334 307 GGETTIAGE----------------EQLENLKLDAARLEELGAEGLGPPVSVSCD 345 (351)
T ss_pred cCCCCCcHH----------------HHHHhhhhhhhhhhhcCcccccCCceeccc
Confidence 432110000 000011233456666778889999999864
No 73
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.98 E-value=4.8e-30 Score=248.17 Aligned_cols=318 Identities=15% Similarity=0.125 Sum_probs=229.3
Q ss_pred EEEEEEeecCCCC---chhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCChH
Q 006918 27 LNVGAIFSFGTVN---GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQSAV 102 (625)
Q Consensus 27 i~IG~l~~~~~~~---g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~-~~v~aviG~~~s~ 102 (625)
|+||+|++++... +.....|..+||+|||++||+| |++|+.+++|.++|+....+.+.+|+. ++|.+|+|.+.|.
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 6899999998654 4466899999999999999998 899999999999999999999999986 6999999999999
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHH-HHHcCCcEEEEEEecCCCCcchHHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM-VSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~l-l~~~~W~~v~ii~~d~~~g~~~~~~l~~ 181 (625)
+-+++.++.+.++-.+..+.... .+ ...|+.+-+......+..-++++ +.+||-+++.+|.+|+.|++..-..+++
T Consensus 80 sRKaVlPvvE~~~~LL~Yp~~YE-G~--E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~r~ 156 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYPTQYE-GF--ECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRIIRD 156 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE-S-----------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCceEEeccccc-cc--cCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHHHH
Confidence 99999999999999988542211 11 34588899887777777777766 5778999999999999999999999999
Q ss_pred HHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeC-cchhcc
Q 006918 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT-WLSTFI 260 (625)
Q Consensus 182 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~-~~~~~~ 260 (625)
.+++.|++|..+..+|.+ .+++..++++|++.++++|+-...++....|+++..+.|+.... +=|.+. ......
T Consensus 157 ~l~~~GgevvgE~Y~plg----~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~~-~Pi~S~~~~E~E~ 231 (363)
T PF13433_consen 157 LLEARGGEVVGERYLPLG----ATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPER-IPIASLSTSEAEL 231 (363)
T ss_dssp HHHHTT-EEEEEEEE-S-----HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HHHH
T ss_pred HHHHcCCEEEEEEEecCC----chhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCccc-CeEEEEecCHHHH
Confidence 999999999999999987 79999999999999999999999999999999999999987543 444443 222222
Q ss_pred cCCCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCccccc
Q 006918 261 DSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (625)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 338 (625)
.. ...+...|.++...+.. ++|..++|+++|+++|+.....+.....+|.+|+++|+|++++...
T Consensus 232 ~~------~g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~v~s~~~eaaY~~v~l~a~Av~~ags~------- 298 (363)
T PF13433_consen 232 AA------MGAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDRVTSDPMEAAYFQVHLWAQAVEKAGSD------- 298 (363)
T ss_dssp TT------S-HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----HHHHHHHHHHHHHHHHHHHHTS--------
T ss_pred hh------cChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC-------
Confidence 22 12346789888877654 5788999999999999876666777778999999999999997322
Q ss_pred CCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCC
Q 006918 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRS 388 (625)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~ 388 (625)
+..+++++|.+++|+...|.|++|+..+
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 74
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=99.98 E-value=4.8e-30 Score=260.89 Aligned_cols=320 Identities=17% Similarity=0.250 Sum_probs=260.9
Q ss_pred EEEEEeecCCC---CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~~~---~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||+++|++.. .|.....++++|++++| +++ .|++++++++|+.+++..+.+.+.+++.+ +|.+|||+.+|..
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 59999999844 46688999999999997 444 69999999999999999999999999987 9999999998888
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCC-CCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPL-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~-~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~ 182 (625)
..++.+.+...++|+|++++..+.+++. .+|++||+.|++..++..+++++...+|+++++|+.++.+|....+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~ 157 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRT 157 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHh
Confidence 8888899999999999988777777764 489999999999999999999999999999999999999999888999888
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccC
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (625)
++ ..+.....++.. ..|+..+++++++.++++|++......+..+++++++.|+.. ...++.+..+......
T Consensus 158 ~~---~~~~~~~~~~~~----~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~ 229 (333)
T cd06332 158 FK---GEVVEEVYTPLG----QLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQDTL 229 (333)
T ss_pred hc---EEEeeEEecCCC----CcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCHHHH
Confidence 87 355555555544 557888999999999999999888788999999999999743 3345554433221000
Q ss_pred CCCCChhhhhcccceEEEeeeCC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCC
Q 006918 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (625)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~ 340 (625)
.......+|++...++.+ ..+..++|.++|+++++ ..+..++...||++++++.|++++...
T Consensus 230 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~a~~~ag~~--------- 293 (333)
T cd06332 230 -----PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYG--RVPSVYAAQGYDAAQLLDAALRAVGGD--------- 293 (333)
T ss_pred -----HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHHHHHHHHHHhcCC---------
Confidence 223356778877766654 35778999999999987 346778889999999999999986321
Q ss_pred CccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCC
Q 006918 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHP 392 (625)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~ 392 (625)
..++..+.++|++.+|+|++|.+.|+++|+....
T Consensus 294 ------------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~~ 327 (333)
T cd06332 294 ------------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPIQD 327 (333)
T ss_pred ------------------CCCHHHHHHHHhcCceecCccceeECCCCCcccc
Confidence 1147889999999999999999999999885433
No 75
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.97 E-value=4.3e-29 Score=255.17 Aligned_cols=314 Identities=13% Similarity=0.112 Sum_probs=247.3
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCC--cEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCh
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGG--RKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSA 101 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g--~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s 101 (625)
+||.+.|++ +..|.....++++|+++||..+++ .| ++|+++++|++++|..+++.+.+|+++ +|.+|||+.+|
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 589999997 456778889999999999955444 35 589999999999999999999999987 99999999999
Q ss_pred HHHHHHHHhhhcCCCcEEeeccCCCC--C----C-CCCCCceEEccCchHHHHHHHHHHHHHcC-CcEEEEEEecCCCCc
Q 006918 102 VMAHVLSHLANELQVPLLSFTALDPT--L----S-PLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDDQGR 173 (625)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~--l----s-~~~~~~~~r~~ps~~~~~~al~~ll~~~~-W~~v~ii~~d~~~g~ 173 (625)
..+.+++++++..+||+|++.+..+. + . ...++|+||..+++..+..++++++++.+ ++++++++.|+.||.
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~ 159 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGN 159 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhH
Confidence 99999999999999999986543221 1 1 13478999999988888889998888887 999999999999998
Q ss_pred chHHHHH---HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEE
Q 006918 174 NGVTALG---DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 250 (625)
Q Consensus 174 ~~~~~l~---~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~ 250 (625)
...+.+. +.+++.|++++..+.++.+ ..|+..++.+|+++++++|++.+.+.++..++++++++|+..+ +
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 7666544 5667789999988888876 7789999999999999999999999999999999999997543 2
Q ss_pred Eee-Ccc--hhcccCCCCCChhhhhcccceEEEeeeCCC--------ChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHH
Q 006918 251 IAT-TWL--STFIDSKSPLSLKTAKSILGALTLRQHTPD--------SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVW 319 (625)
Q Consensus 251 i~~-~~~--~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--------~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~ 319 (625)
+.. ... .... ....+..+|++....+.+. ++..++|.++|+++++ ..+.....+.|++++
T Consensus 233 ~~~~~~~~~~~~~-------~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g--~~~~~~~~~~~~~~~ 303 (357)
T cd06337 233 VTIAKALLFPEDV-------EALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATG--RQWTQPLGYAHALFE 303 (357)
T ss_pred EEEeccccCHHHH-------HHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhC--CCccCcchHHHHHHH
Confidence 221 111 1111 1122334566554333332 2347899999999986 334455677999999
Q ss_pred HHHHHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccC
Q 006918 320 MIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQD 386 (625)
Q Consensus 320 ~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~ 386 (625)
+++.|++++... .++..|.++|++++++++.|++.|+++
T Consensus 304 ~l~~Ai~~Ags~----------------------------~d~~~v~~aL~~~~~~~~~G~~~f~~~ 342 (357)
T cd06337 304 VGVKALVRADDP----------------------------DDPAAVADAIATLKLDTVVGPVDFGNS 342 (357)
T ss_pred HHHHHHHHcCCC----------------------------CCHHHHHHHHHcCCcccceeeeecCCC
Confidence 999999985321 147899999999999999999999865
No 76
>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=99.97 E-value=7.7e-29 Score=247.82 Aligned_cols=223 Identities=30% Similarity=0.506 Sum_probs=203.8
Q ss_pred EEEEEeecCC-----CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-----CcEEEEc
Q 006918 28 NVGAIFSFGT-----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-----DTLAIVG 97 (625)
Q Consensus 28 ~IG~l~~~~~-----~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-----~v~aviG 97 (625)
+||++|+.+. ..+.....++..|++++|+. ++|++|++.+.|+++++..+...+.+++++ ++.+|+|
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 23556789999999999998 579999999999999999988888888864 8999999
Q ss_pred CCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchH
Q 006918 98 PQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGV 176 (625)
Q Consensus 98 ~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~ 176 (625)
|.++..+.+++++++.+++|+|+++++++.+++ ..+|+++|+.|++..++.++++++++++|++|+++|++++++....
T Consensus 78 ~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~~~~~ 157 (298)
T cd06269 78 PSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYGRRLL 157 (298)
T ss_pred CCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhhHHHH
Confidence 999999999999999999999999999888887 5789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 006918 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 256 (625)
Q Consensus 177 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 256 (625)
+.+++.+++.|+|+.....++.. ..++...+++++++++++||+++..+.+..+++++.++||. .+++||.++.+
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 99999999999999988887755 57899999999999999999999999999999999999998 89999999877
Q ss_pred hh
Q 006918 257 ST 258 (625)
Q Consensus 257 ~~ 258 (625)
..
T Consensus 233 ~~ 234 (298)
T cd06269 233 LT 234 (298)
T ss_pred hc
Confidence 54
No 77
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.97 E-value=9.2e-28 Score=244.32 Aligned_cols=318 Identities=14% Similarity=0.174 Sum_probs=253.7
Q ss_pred EEEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChH
Q 006918 27 LNVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (625)
Q Consensus 27 i~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~ 102 (625)
|+||++.|++. ..|.....++++|+++||+.+++ .|++|++...|+++++..+.+.+.+++++ +|.+|||+.++.
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi-~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~ 79 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGV-NGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTP 79 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCc-CCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCch
Confidence 68999999984 44778899999999999999987 59999999999999999999999999986 999999998887
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~ 182 (625)
.+.++.+++...++|+|++++.++.++....+++||+.+++...+..+++++.+.||+++++|+.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~ 159 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKA 159 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHH
Confidence 78888899999999999986665555443468999999999999999999999999999999999888999999999999
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccC
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (625)
+++.|+++.....++.. ..++...+.++++.++++|++..+...+..+++++++.|+.. ............ ..
T Consensus 160 ~~~~G~~~~~~~~~~~~----~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~-~~~~~~~~~~~~-~~- 232 (336)
T cd06326 160 LAARGLKPVATASYERN----TADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGA-QFYNLSFVGADA-LA- 232 (336)
T ss_pred HHHcCCCeEEEEeecCC----cccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCC-cEEEEeccCHHH-HH-
Confidence 99999998776666654 567889999999888999999988888999999999999753 222221111111 00
Q ss_pred CCCCChhhhhcccceEEEee----eCCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCccccc
Q 006918 263 KSPLSLKTAKSILGALTLRQ----HTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (625)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~----~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 338 (625)
.......+|++.... .....+..++|.+.|+++++. ..++.+....||+++++++|++++...
T Consensus 233 -----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~y~~~~~~~~a~~~~g~~------- 299 (336)
T cd06326 233 -----RLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPG-APPSYVSLEGYIAAKVLVEALRRAGPD------- 299 (336)
T ss_pred -----HHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCC-CCCCeeeehhHHHHHHHHHHHHHcCCC-------
Confidence 122345567664322 122356788999999888752 356677888999999999999985211
Q ss_pred CCCccCCCCCCccccCcccccCchHHHHHHHHhcccccce-eeEEEccC
Q 006918 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLS-GPIHFNQD 386 (625)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~t-G~v~Fd~~ 386 (625)
.+++.+.++|++++..+.. +.+.|++.
T Consensus 300 ---------------------~~~~~v~~al~~~~~~~~~g~~~~~~~~ 327 (336)
T cd06326 300 ---------------------PTRESLLAALEAMGKFDLGGFRLDFSPG 327 (336)
T ss_pred ---------------------CCHHHHHHHHHhcCCCCCCCeEEecCcc
Confidence 1589999999998865444 48999763
No 78
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=99.96 E-value=1.9e-28 Score=247.88 Aligned_cols=302 Identities=15% Similarity=0.127 Sum_probs=239.1
Q ss_pred EEEEEeecCCC---CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHH
Q 006918 28 NVGAIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (625)
Q Consensus 28 ~IG~l~~~~~~---~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~ 104 (625)
+||+++|++.. .|.....++++|+++|| |++++++++|+.+ +..+.+.+.++++++|.+||||.+|..+
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 58999999854 57788999999999999 6889999999999 9999999999998899999999999999
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHh
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~ 184 (625)
.++++++...++|+|+++++.+ +.. .+++||+.+++..++.++++++...|++++++|+.+++||....+.|.+.++
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 9999999999999998764443 222 5889999999999999999999888999999999999999999999999999
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcC---------------------CceEEEEEcchh-hHHHHHHHHHHcC
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM---------------------EARVIVVHGYSR-TGLMVFDVAQRLG 242 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~---------------------~~~vIvl~~~~~-~~~~il~~a~~~g 242 (625)
+.|++|+..+.++.+ ..|+...+.+|+.. +++.|++.+.+. .+..+.+++...+
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 999999988888866 88999999999987 899999888876 6666767766554
Q ss_pred CCCCCeEEEeeCcchhcccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCCCCC-CchhhhHhHHHHHH
Q 006918 243 MMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGL-NPYGLYAYDTVWMI 321 (625)
Q Consensus 243 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~YDAv~~l 321 (625)
....+-.++.++.+...... .......+|++....... ...+|.++|+++++ ..| ..+++..|||+.++
T Consensus 226 ~~~~~~~~~g~~~~~~~~~~-----~~~g~~~~g~~~~~~~~~---~~~~f~~~y~~~~~--~~p~~~~~a~~YDa~~l~ 295 (336)
T cd06339 226 GVPGDVPLYGTSRWYSGTPA-----PLRDPDLNGAWFADPPWL---LDANFELRYRAAYG--WPPLSRLAALGYDAYALA 295 (336)
T ss_pred cCcCCCCEEEeccccCCCCC-----cccCcccCCcEEeCCCcc---cCcchhhhHHHHhc--CCCCchHHHHHHhHHHHH
Confidence 21123346666554432111 122345677665444221 23378899999886 456 78899999999998
Q ss_pred HHHHHHHHhcCCcccccCCCccCCCCCCccccCcccccCchHHHHHHH-HhcccccceeeEEEccCCCc
Q 006918 322 ARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANI-LQTNMTGLSGPIHFNQDRSL 389 (625)
Q Consensus 322 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l-~~~~f~g~tG~v~Fd~~G~r 389 (625)
+.++++... +. +| +...|+|++|.++|+++|+.
T Consensus 296 ~~~~~~~~~------------------------------~~-----al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 296 AALAQLGQG------------------------------DA-----ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred HHHHHcccc------------------------------cc-----ccCCCCccccCcceEEECCCCeE
Confidence 877665310 12 33 33469999999999999973
No 79
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=99.96 E-value=7.8e-28 Score=241.64 Aligned_cols=292 Identities=15% Similarity=0.135 Sum_probs=225.7
Q ss_pred chhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHHHHhhhcCCCcEE
Q 006918 40 GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVLSHLANELQVPLL 119 (625)
Q Consensus 40 g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~va~~~~~~~iP~I 119 (625)
+.....|+++|+|+||+.+|++ |++|+++..|. ++|..+++.+.++++++|.+|+|+.+|..+.++.+++...++|+|
T Consensus 10 ~~~~~~ga~lAveeiNaaGGv~-G~~ielv~~D~-~~p~~a~~~a~~Li~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i 87 (347)
T TIGR03863 10 EDRGLDGARLAIEDNNTTGRFL-GQTFTLDEVAV-RTPEDLVAALKALLAQGVRFFVLDLPAAALLALADAAKAKGALLF 87 (347)
T ss_pred cchHHHHHHHHHHHHHhhCCcC-CceEEEEEccC-CCHHHHHHHHHHHHHCCCCEEEecCChHHHHHHHHHHHhCCcEEE
Confidence 4567899999999999999997 89999999985 689999999999998899999999999999999999999999999
Q ss_pred eeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCC
Q 006918 120 SFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPP 198 (625)
Q Consensus 120 s~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~ 198 (625)
+++++++.++. ..++|+||+.|++..++.++++++...+.+++++|+.|++||+...+.+++.+++.|++|+..+.++.
T Consensus 88 ~~~a~~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~ 167 (347)
T TIGR03863 88 NAGAPDDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQGPLPADALYADAFRRSAKRFGAKIVAERPFTF 167 (347)
T ss_pred eCCCCChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEEeEEecc
Confidence 99888888886 45799999999999999999999988899999999999999999999999999999999998888875
Q ss_pred CCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCCCCCChhhhhcccceE
Q 006918 199 DQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGAL 278 (625)
Q Consensus 199 ~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~ 278 (625)
.......++.......+.+++|+|++.....+....+... .++. . . .....|+.
T Consensus 168 ~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~----------~~~~-~------~---------~~g~~G~~ 221 (347)
T TIGR03863 168 SGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYA----------TWLP-R------P---------VAGSAGLV 221 (347)
T ss_pred CCchhhhhcccCceeecCCCCCEEEEecchhhHhhhcccc----------cccc-c------c---------cccccCcc
Confidence 4212233443222223347899999875543321111000 0000 0 0 00112222
Q ss_pred EEee-eCCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCcccccCCCccCCCCCCccccCccc
Q 006918 279 TLRQ-HTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALS 357 (625)
Q Consensus 279 ~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~ 357 (625)
.... +..+.+..++|.++|+++|+ ..|...++.+||++++++.|++++.+.
T Consensus 222 ~~~~~~~~~~~~~~~f~~~f~~~~g--~~p~~~~a~aY~av~~~a~Ai~~AGs~-------------------------- 273 (347)
T TIGR03863 222 PTAWHRAWERWGATQLQSRFEKLAG--RPMTELDYAAWLAVRAVGEAVTRTRSA-------------------------- 273 (347)
T ss_pred ccccCCcccchhHHHHHHHHHHHhC--CCCChHHHHHHHHHHHHHHHHHHhcCC--------------------------
Confidence 1111 12234567899999999986 456677889999999999999997432
Q ss_pred ccCchHHHHHHHHhccc--cccee-eEEEcc-CCCcc
Q 006918 358 IFDGGKKFLANILQTNM--TGLSG-PIHFNQ-DRSLL 390 (625)
Q Consensus 358 ~~~~~~~l~~~l~~~~f--~g~tG-~v~Fd~-~G~r~ 390 (625)
++.++.++|+++.+ .+..| +++|++ +|+..
T Consensus 274 ---d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~ 307 (347)
T TIGR03863 274 ---DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLR 307 (347)
T ss_pred ---CHHHHHHHHcCCCceecccCCCcceeeCCCcccc
Confidence 69999999999887 46777 699996 66643
No 80
>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=9.4e-27 Score=232.79 Aligned_cols=280 Identities=23% Similarity=0.348 Sum_probs=232.5
Q ss_pred EEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||+++|++. ..|.....++++|++++|+++++ +|+++++++.|+++++..+.+.+.+++.+ +|.+|||+.++..
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 5999999984 46778899999999999999865 69999999999999999999999999998 9999999999988
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~ 182 (625)
+.+++.++...+||+|++.+.++.+++ ..+|++|++.|++..++.++++++.+++|+++++++.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~ 159 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAA 159 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHH
Confidence 888999999999999998877776665 4689999999999999999999999999999999999988898899999999
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccC
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (625)
+++.|+++.....++.. .+++...++++++.++++|++++....+..+++++++.|+. .++.|+..+.+......
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 99999998876666543 36788899999888899999988889999999999999987 78899988765433211
Q ss_pred CCCCChhhhhcccceEEEeeeCCCChh--HHHHH---HHHHhhcCCCCCCCchhhhHhHHHHH
Q 006918 263 KSPLSLKTAKSILGALTLRQHTPDSKR--RRDFV---SRWNTLSNGSIGLNPYGLYAYDTVWM 320 (625)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~~~~~--~~~f~---~~~~~~~~~~~~~~~~~~~~YDAv~~ 320 (625)
....+...|+++..+..+..+. .+.|. +.++..++ ..++.+++.+|||+++
T Consensus 235 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~yda~~~ 290 (299)
T cd04509 235 -----EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYE--DQPDYFAALAYDAVLL 290 (299)
T ss_pred -----HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhC--CCCChhhhhhcceeee
Confidence 1233567788887776554332 23332 34444433 5677889999999988
No 81
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.95 E-value=1.1e-25 Score=229.46 Aligned_cols=308 Identities=12% Similarity=0.087 Sum_probs=243.6
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||+++|++ +..|.....++++|++++|+.+|+. |+++++++.|+++++..+.+.+.+++++ +|.+|||+.++..
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 599999997 3568889999999999999999984 8999999999999999999999999988 9999999988877
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC-CCcchHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDK 182 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~-~g~~~~~~l~~~ 182 (625)
..++ +++...++|+|++.+.++.++. .++.|++.+++..+..++++++...+.+++++++.++. +|....+.+++.
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 6666 8888999999998766655543 57788988888889999999999989999999987665 899999999999
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccC
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (625)
+++.|+++.....++.. ..++...++++++.++++|++......+..++++++++|+..+.. +......... .
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 99999998876666543 567889999999999999999988889999999999999865422 2211111110 0
Q ss_pred CCCCChhhhhcccceEEEeeeCC---CChhHHHHHHHHHhhcCC-CCCCCchhhhHhHHHHHHHHHHHHHHhcCCccccc
Q 006918 263 KSPLSLKTAKSILGALTLRQHTP---DSKRRRDFVSRWNTLSNG-SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (625)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~ 338 (625)
....+..+|++....+.+ ..|..+.|.+.+++.... ...++.++..+||+++++++|++++...
T Consensus 230 -----~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~yda~~~~~~a~~~ag~~------- 297 (341)
T cd06341 230 -----AAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQLDPPEQGFALIGYIAADLFLRGLSGAGGC------- 297 (341)
T ss_pred -----HhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHHHHhcCCC-------
Confidence 223456788887766554 456777777655543221 1357788999999999999999996321
Q ss_pred CCCccCCCCCCccccCcccccCchHH-HHHHHHhccccccee
Q 006918 339 NDTKLNGLGGGTLNLGALSIFDGGKK-FLANILQTNMTGLSG 379 (625)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~-l~~~l~~~~f~g~tG 379 (625)
.++.. +.++|++++.....|
T Consensus 298 ---------------------~~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 298 ---------------------PTRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred ---------------------CChHHHHHHHhhcCCCCCCCC
Confidence 13666 999999998655444
No 82
>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=99.95 E-value=1.5e-25 Score=215.97 Aligned_cols=323 Identities=14% Similarity=0.177 Sum_probs=239.8
Q ss_pred hHHHHHHHHHHHHhcCCCCCCCcEEEE----------EEecCCC--ChHHHHHHHHHHHhc--CcEEEEcCCChHHHHHH
Q 006918 42 VSRIAMKAAQDDINSDPRVLGGRKLSI----------TMHDAKF--NGFLSIMGALQFMET--DTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 42 ~~~~a~~~Av~~IN~~~~iL~g~~l~~----------~~~D~~~--~~~~a~~~~~~l~~~--~v~aviG~~~s~~~~~v 107 (625)
..+.|++.|++.+++.. ..+|.++.+ +..+..| +.=+.++...+|..+ .-.+++||.|..++.++
T Consensus 19 ~v~~av~~a~~~~~~~~-~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~~~ 97 (380)
T cd06369 19 FVKEAVEEAIEIVAERL-AEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATFQM 97 (380)
T ss_pred HHHHHHHHHHHHHHhhh-hccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehhhh
Confidence 55799999999887754 335666666 5555444 233566666666654 56899999999999999
Q ss_pred HHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH------HHcCCcEEEEEEecCCCCcc---hHHH
Q 006918 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV------SYFGWGEVIAIFNDDDQGRN---GVTA 178 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll------~~~~W~~v~ii~~d~~~g~~---~~~~ 178 (625)
+++...|++|+||-|+.. ++-...+++.|+.|+...++..+.++. ++++|+... ||.+++-.++ .+++
T Consensus 98 ~~~~~~~~~P~ISaGsfg--lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i~a 174 (380)
T cd06369 98 VDDEFNLSLPIISAGSFG--LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWYINA 174 (380)
T ss_pred hhhhhcCCCceEeccccc--cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeEhHh
Confidence 999999999999966643 333445689999999999999999999 489998665 9987643332 2455
Q ss_pred HHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchh
Q 006918 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLST 258 (625)
Q Consensus 179 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~ 258 (625)
+....+..+..+.+.+.+. ..+++..++++++ .++||||+|+++++.+.++.+ ++...+|++|..+....
T Consensus 175 l~a~~~~f~~~~~~~~~l~-----~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDlF~~ 244 (380)
T cd06369 175 LEAGVAYFSSALKFKELLR-----TEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDLFND 244 (380)
T ss_pred hhhhhhhhhhcccceeeec-----CchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEecccc
Confidence 5555555554544433332 2467888888876 568999999999999999986 34457999999987654
Q ss_pred cccCCCCCChhhhhcccceEEEeeeCCCChhHHHHHHHHHhhcCCCCCCC-chhhhHhHHHHHHHHHHHHHHhcCCcccc
Q 006918 259 FIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLN-PYGLYAYDTVWMIARALKLFLDQGNTISF 337 (625)
Q Consensus 259 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~YDAv~~la~Al~~~~~~~~~~~~ 337 (625)
.... +....++++.++.+++..|+.+.++++ ..++ .... .+++..||||+++|+||+++++.+++.
T Consensus 245 sy~~----d~~a~~amqsVLvIT~~~p~~~~~~~~-----~~fn--~~l~~~~aa~fyDaVLLYa~AL~EtL~~G~~~-- 311 (380)
T cd06369 245 VYYE----NTTSPPYMRNVLVLTLPPRNSTNNSSF-----TTDN--SLLKDDYVAAYHDGVLLFGHVLKKFLESQEGV-- 311 (380)
T ss_pred hhcc----CcchHHHHhceEEEecCCCCCcccccC-----CCCC--cchHHHHHHHHHHHHHHHHHHHHHHHHhCCCC--
Confidence 4321 123456789999999888876554431 1121 1222 678899999999999999999876431
Q ss_pred cCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcEEEEEEe-eCceeEEEeEeeCCC
Q 006918 338 SNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI-EHGYPQQIGYWSNYS 415 (625)
Q Consensus 338 ~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~~I~~~~-~~~~~~~vG~w~~~~ 415 (625)
.+.++.+.|+|++|+|++|.|.+|++||| ...|.++.+. .++.++.||+|+...
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 24889999999999999999999999997 6999999886 345559999998753
No 83
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.95 E-value=2.5e-25 Score=223.74 Aligned_cols=279 Identities=20% Similarity=0.287 Sum_probs=222.9
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||+++|++ +..|.....|+++|+++||+ +++ +|+++++++.|+++++..+.+.+.+++++ +|.+|||+.++..
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi-~g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~ 78 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGI-GGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPA 78 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCc-CCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHH
Confidence 599999998 45577889999999999999 877 59999999999999999999999999975 9999999988877
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l 183 (625)
+.++.+++...++|+|+++++++.++ ..++++||+.+++..++..+++++.+.||++|++++.++.++....+.+++.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~ 157 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALA 157 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHH
Confidence 77888899999999999876554333 34678999999999999999999999999999999998889988899999999
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCC
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (625)
++.|+++.....++.. ..++...+.+++..++++|++......+..+++++++.|+..+ ++...........
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 9999999876667644 3467888888888889999998877778889999999987543 3322222111110
Q ss_pred CCCChhhhhcccceEEEee------eCC----CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHH
Q 006918 264 SPLSLKTAKSILGALTLRQ------HTP----DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIA 322 (625)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~------~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la 322 (625)
....+..+|++.... ..| ..+..++|.++|+++++. ..+..+++..|||+++++
T Consensus 230 ----~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~-~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 230 ----RLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGA-GSVSTFGGHAYDALLLLA 293 (312)
T ss_pred ----HHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCC-CCCCchhHHHHHHHHHHH
Confidence 222345677665432 122 235689999999999862 236778999999999998
No 84
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=99.93 E-value=5.3e-24 Score=212.72 Aligned_cols=280 Identities=21% Similarity=0.327 Sum_probs=230.9
Q ss_pred EEEEEeecC---CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHH
Q 006918 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (625)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~ 104 (625)
+||+++|++ +..|.....++++|++++|+.+++ +|+++++.++|+++++..+.+.+.+++++++.+|||+.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~-~g~~v~~~~~d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGI-LGRKIELVVEDTQGDPEAAAAAARELVDDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCCHHHHHHHHHHHHhCCceEEEcCCcchhH
Confidence 589999997 456788899999999999999886 5999999999999999999999999999999999999988888
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcC-CcEEEEEEecCCCCcchHHHHHHHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDDQGRNGVTALGDKL 183 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~-W~~v~ii~~d~~~g~~~~~~l~~~l 183 (625)
..+.+.+...+||+|++.+.++.+.+..++++|++.|++..++.++++++...+ |+++++++.++.++....+.+.+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 888999999999999987776655544578999999999999999999999988 9999999999889999999999999
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhcccCC
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (625)
++.|+++.....++.. ..++...++++++.++++|++.+.+..+..+++++++.|+ +..|+..+.+......
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 9999998876666543 4578888999998889999998888899999999999886 3456666544322111
Q ss_pred CCCChhhhhcccceEEEeeeCCC--ChhHHHHH-HHHHhhcCCCCCCCchhhhHhHHHHHHH
Q 006918 264 SPLSLKTAKSILGALTLRQHTPD--SKRRRDFV-SRWNTLSNGSIGLNPYGLYAYDTVWMIA 322 (625)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~-~~~~~~~~~~~~~~~~~~~~YDAv~~la 322 (625)
........|++...++.+. .+....|. +.|++.++ ..++.++...||++++++
T Consensus 232 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 232 ----ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYG--RPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred ----HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHhC--CCcccchHHHHHHHHHHc
Confidence 1223456788777766543 23344554 77777765 567888999999999998
No 85
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=99.63 E-value=7.2e-14 Score=136.71 Aligned_cols=215 Identities=20% Similarity=0.310 Sum_probs=171.6
Q ss_pred EEEEEeecC--CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHH
Q 006918 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~--~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~ 105 (625)
+||+++|.+ ...+.....+++.|++++ |..+++++.|+++++....+.+.++..+++.++||+.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI--------GRGLEVILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh--------CCceEEEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHH
Confidence 589999987 445556678888888886 4678888999999988888888888888999999988887666
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC-CCCcchHHHHHHHHh
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD-DQGRNGVTALGDKLA 184 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~-~~g~~~~~~l~~~l~ 184 (625)
.+...+...++|+|++....+... .+++++++.++....+.++++++.+.+|+++++++.+. ..+....+.+++.++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 578888999999999877665444 57889999999999999999999999999999999877 667777889999999
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcC-CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcc
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM-EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 256 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~-~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 256 (625)
+.|+++......+.. ...++....+.+++. ++++|++... ..+..+++++.+.|+...++.|+..+.+
T Consensus 151 ~~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~ 219 (269)
T cd01391 151 KAGIEVVAIEYGDLD---TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGS 219 (269)
T ss_pred hcCcEEEeccccCCC---ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEecccc
Confidence 988776544333322 224667777777766 6888888776 8889999999999987456667766644
No 86
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.32 E-value=9.9e-12 Score=120.59 Aligned_cols=102 Identities=19% Similarity=0.296 Sum_probs=87.7
Q ss_pred CCceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHC-CCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEE
Q 006918 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLL-PYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAV 538 (625)
Q Consensus 460 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l-~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~ 538 (625)
..++|+||+. .+++||.+.+..++++.||++||++++++++ |..++++++++. |...+..|.+|++|+++
T Consensus 36 ~~g~l~vg~~--~~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~~~-------~~~~~~~l~~g~~D~~~ 106 (259)
T PRK11917 36 SKGQLIVGVK--NDVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVAVN-------AKTRGPLLDNGSVDAVI 106 (259)
T ss_pred hCCEEEEEEC--CCCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEEcC-------hhhHHHHHHCCCccEEE
Confidence 3578999996 4678888865446789999999999999995 765557777633 77888999999999999
Q ss_pred eeeeeecccccceEecccccccceEEEEecCC
Q 006918 539 GDIAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 539 ~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
+++++|++|++.++||.||+.++..+++++.+
T Consensus 107 ~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~ 138 (259)
T PRK11917 107 ATFTITPERKRIYNFSEPYYQDAIGLLVLKEK 138 (259)
T ss_pred ecccCChhhhheeeeccCceeeceEEEEECCC
Confidence 99999999999999999999999999998765
No 87
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.28 E-value=1.4e-11 Score=122.13 Aligned_cols=100 Identities=23% Similarity=0.262 Sum_probs=84.8
Q ss_pred CceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHH----HCCC-CccEEEEeCCCCCCCCCHHHHHHHHHcCccc
Q 006918 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVR----LLPY-AVPYKFIPYGDGHKNPTYSELINQITTGVFD 535 (625)
Q Consensus 461 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~----~l~~-~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D 535 (625)
.+.|+||+. +.|+||.+.++ +++++||++|++++|++ ++|. .++++++++. |..++..|..|++|
T Consensus 39 ~g~L~Vg~~--~~~pP~~f~~~-~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~~-------~~~~i~~L~~G~~D 108 (302)
T PRK10797 39 NGVIVVGHR--ESSVPFSYYDN-QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPIT-------SQNRIPLLQNGTFD 108 (302)
T ss_pred CCeEEEEEc--CCCCCcceECC-CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEEcC-------hHhHHHHHHCCCcc
Confidence 467999996 56788888763 57899999998877765 6653 3458888853 88999999999999
Q ss_pred EEEeeeeeecccccceEecccccccceEEEEecCC
Q 006918 536 AAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 536 ~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
++++++++|++|++.++||.||+.++.++++++.+
T Consensus 109 i~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~ 143 (302)
T PRK10797 109 FECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG 143 (302)
T ss_pred EEecCCccCcchhhcceecccEeeccEEEEEECCC
Confidence 99999999999999999999999999999998754
No 88
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=99.26 E-value=7.5e-10 Score=117.13 Aligned_cols=303 Identities=14% Similarity=0.150 Sum_probs=157.5
Q ss_pred ceEEEEEEeecCCCC---chhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh
Q 006918 25 EVLNVGAIFSFGTVN---GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA 101 (625)
Q Consensus 25 ~~i~IG~l~~~~~~~---g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s 101 (625)
..-+|++++|+++.. |...+.||..|. +... +.+..+.++|+..++. .....+.+.+|+..||||..-
T Consensus 218 ~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~~----~~~~~l~~~Dt~~~~~--~~~~~~a~~~ga~~ViGPL~k 288 (536)
T PF04348_consen 218 PPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YADA----DSRPELRFYDTNADSA--DALYQQAVADGADFVIGPLLK 288 (536)
T ss_dssp ----EEEEE--SSTTHHHHHHHHHHHHHHH------T----T--S-EEEEETTTS-H--HHHHHHHHHTT--EEE---SH
T ss_pred CccCEEEEeCCCCchhHHHHHHHHHHHHhh---cccc----cCCCceEEecCCCCCH--HHHHHHHHHcCCCEEEcCCCH
Confidence 456899999998654 556677777777 1221 3456777889876633 334556677899999999988
Q ss_pred HHHHHHHHhhhc--CCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHH
Q 006918 102 VMAHVLSHLANE--LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTAL 179 (625)
Q Consensus 102 ~~~~~va~~~~~--~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l 179 (625)
.....++..-.. -.||++.....+.. .. -+.++...-+.+..+..+++.+..-|+++..||+.++++|....+.|
T Consensus 289 ~~V~~l~~~~~~~~~~vp~LaLN~~~~~-~~--~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~aF 365 (536)
T PF04348_consen 289 SNVEALAQLPQLQAQPVPVLALNQPDNS-QA--PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEAF 365 (536)
T ss_dssp HHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHHH
T ss_pred HHHHHHHhcCcccccCCceeeccCCCcc-cC--ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHHH
Confidence 888777765442 58999986554433 11 23344444445666899999999999999999999999999999999
Q ss_pred HHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCcchhc
Q 006918 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTF 259 (625)
Q Consensus 180 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 259 (625)
.+.+++.|+.+.....+.. ..++...++.-...+.|.|++.+.+.+++.+--...-. ....--+|-.+......
T Consensus 366 ~~~W~~~gg~~~~~~~~~~-----~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~-~a~~lPvyatS~~~~g~ 439 (536)
T PF04348_consen 366 NQQWQALGGQVAEVSYYGS-----PADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH-FAGDLPVYATSRSYSGS 439 (536)
T ss_dssp HHHHHHHHSS--EEEEESS-----TTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT--T-TT-EEEE-GGG--HH
T ss_pred HHHHHHcCCCceeeEecCC-----HHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc-cCCCCCEEEeccccCCC
Confidence 9999999888766656642 45777777755556789999999998888776555321 11121233333222211
Q ss_pred ccCCCCCChhhhhcccceEEEeeeC---CCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCccc
Q 006918 260 IDSKSPLSLKTAKSILGALTLRQHT---PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTIS 336 (625)
Q Consensus 260 ~~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~ 336 (625)
.+ ......++|+....... +..+..+.+...|.... .......+..|||..++.+ +.
T Consensus 440 ~~------~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~~---~~~~RL~AlG~DA~~L~~~-l~---------- 499 (536)
T PF04348_consen 440 PN------PSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNAS---NSLQRLYALGIDAYRLAPR-LP---------- 499 (536)
T ss_dssp T-------HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT----HHHHHHHHHHHHHHHHHHT-HH----------
T ss_pred CC------cchhhhhcCCEEeccccccCCCchHHHHHHhhccCCc---cHHHHHHHHHHHHHHHHHH-HH----------
Confidence 11 23445688887766532 22333344444442210 0111223455565433321 11
Q ss_pred ccCCCccCCCCCCccccCcccccCchHHHHHHHHhcccccceeeEEEccCCCccCCcE
Q 006918 337 FSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSY 394 (625)
Q Consensus 337 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~Fd~~G~r~~~~~ 394 (625)
-++.+....+.|.||.+++|++|. ....+
T Consensus 500 ----------------------------~l~~~~~~~~~G~TG~L~~~~~g~-i~R~l 528 (536)
T PF04348_consen 500 ----------------------------QLRQFPGYRLDGLTGQLSLDEDGR-IERQL 528 (536)
T ss_dssp ----------------------------HHHHSTT--EEETTEEEEE-TT-B-EEEE-
T ss_pred ----------------------------HHhhCCCCcccCCceeEEECCCCe-EEEee
Confidence 233344557899999999999985 44443
No 89
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=99.24 E-value=6.1e-12 Score=90.03 Aligned_cols=47 Identities=28% Similarity=0.596 Sum_probs=39.4
Q ss_pred CcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCC-----CCCCHHHHHHHHHc
Q 006918 483 GTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGH-----KNPTYSELINQITT 531 (625)
Q Consensus 483 ~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~-----~~~~~~g~~~~l~~ 531 (625)
++.+++||||||+++|++.|||+ |+++.+.|++ .||+|+|||++|.+
T Consensus 14 g~~~~eGyciDll~~la~~l~F~--y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 14 GNDRYEGYCIDLLEELAEELNFT--YEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp GGGGEESHHHHHHHHHHHHHT-E--EEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CCccEEEEHHHHHHHHHHHcCCe--EEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 57899999999999999999999 8887777655 78999999999974
No 90
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.20 E-value=6.3e-11 Score=115.39 Aligned_cols=98 Identities=19% Similarity=0.320 Sum_probs=85.0
Q ss_pred CceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEee
Q 006918 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (625)
Q Consensus 461 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~ 540 (625)
.+.|+|++. +.|+||.+.++ ++++.|+++|+++++++++|.+ ++++.. .|+.++..+.+|++|+++++
T Consensus 25 ~~~l~v~~~--~~~~P~~~~~~-~g~~~G~~vdi~~~ia~~lg~~--i~~~~~-------pw~~~~~~l~~g~~D~~~~~ 92 (259)
T PRK15437 25 PQNIRIGTD--PTYAPFESKNS-QGELVGFDIDLAKELCKRINTQ--CTFVEN-------PLDALIPSLKAKKIDAIMSS 92 (259)
T ss_pred CCeEEEEeC--CCCCCcceeCC-CCCEEeeeHHHHHHHHHHcCCc--eEEEeC-------CHHHHHHHHHCCCCCEEEec
Confidence 477999984 45778887653 5789999999999999999988 555543 29999999999999999999
Q ss_pred eeeecccccceEecccccccceEEEEecCC
Q 006918 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
++.|++|++.++||.||+..+..+++++..
T Consensus 93 ~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~ 122 (259)
T PRK15437 93 LSITEKRQQEIAFTDKLYAADSRLVVAKNS 122 (259)
T ss_pred CCCCHHHhhhccccchhhcCceEEEEECCC
Confidence 999999999999999999999999998765
No 91
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.19 E-value=7.7e-11 Score=113.99 Aligned_cols=97 Identities=30% Similarity=0.526 Sum_probs=84.4
Q ss_pred CceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEee
Q 006918 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (625)
Q Consensus 461 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~ 540 (625)
.++|+|++. .+|+||.+.+ ++.+.|+++||++++++++|.+ +++++. +|.+++..+.+|++|+++++
T Consensus 24 ~~~l~v~~~--~~~~P~~~~~--~g~~~G~~vdl~~~ia~~lg~~--~~~~~~-------~~~~~~~~l~~G~vDi~~~~ 90 (247)
T PRK09495 24 DKKLVVATD--TAFVPFEFKQ--GDKYVGFDIDLWAAIAKELKLD--YTLKPM-------DFSGIIPALQTKNVDLALAG 90 (247)
T ss_pred CCeEEEEeC--CCCCCeeecC--CCceEEEeHHHHHHHHHHhCCc--eEEEeC-------CHHHHHHHHhCCCcCEEEec
Confidence 578999984 4678887754 4678999999999999999988 666653 39999999999999999888
Q ss_pred eeeecccccceEecccccccceEEEEecCC
Q 006918 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
++.|++|++.++||.||+.++..+++++..
T Consensus 91 ~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~ 120 (247)
T PRK09495 91 ITITDERKKAIDFSDGYYKSGLLVMVKANN 120 (247)
T ss_pred CccCHHHHhhccccchheecceEEEEECCC
Confidence 999999999999999999999999998654
No 92
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.19 E-value=6.5e-11 Score=115.37 Aligned_cols=99 Identities=17% Similarity=0.295 Sum_probs=86.2
Q ss_pred CCceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 006918 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (625)
Q Consensus 460 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~ 539 (625)
..++|+|++. +.|+||.+.++ ++.+.|+++||++++++.+|.+ +++++. .|+.++..+..|++|++++
T Consensus 24 ~~~~l~v~~~--~~~pPf~~~~~-~g~~~G~~vdl~~~ia~~lg~~--~~~~~~-------~~~~~~~~l~~g~~Di~~~ 91 (260)
T PRK15010 24 LPETVRIGTD--TTYAPFSSKDA-KGDFVGFDIDLGNEMCKRMQVK--CTWVAS-------DFDALIPSLKAKKIDAIIS 91 (260)
T ss_pred cCCeEEEEec--CCcCCceeECC-CCCEEeeeHHHHHHHHHHhCCc--eEEEeC-------CHHHHHHHHHCCCCCEEEe
Confidence 3578999985 45788888764 5789999999999999999988 565553 3999999999999999999
Q ss_pred eeeeecccccceEecccccccceEEEEecCC
Q 006918 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
+++.|++|++.++||.||+..+..+++++..
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~ 122 (260)
T PRK15010 92 SLSITDKRQQEIAFSDKLYAADSRLIAAKGS 122 (260)
T ss_pred cCcCCHHHHhhcccccceEeccEEEEEECCC
Confidence 9999999999999999999999999998764
No 93
>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=99.13 E-value=9.9e-11 Score=111.47 Aligned_cols=94 Identities=28% Similarity=0.498 Sum_probs=82.1
Q ss_pred EEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeee
Q 006918 464 LRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAI 543 (625)
Q Consensus 464 l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~ 543 (625)
||||+. ..++||.+.+. ++...|+++|+++++++++|+++++...+ |++++..|.+|++|+++++++.
T Consensus 1 l~V~~~--~~~~P~~~~~~-~~~~~G~~~dl~~~i~~~~g~~~~~~~~~---------~~~~~~~l~~g~~D~~~~~~~~ 68 (225)
T PF00497_consen 1 LRVGVD--EDYPPFSYIDE-DGEPSGIDVDLLRAIAKRLGIKIEFVPMP---------WSRLLEMLENGKADIIIGGLSI 68 (225)
T ss_dssp EEEEEE--SEBTTTBEEET-TSEEESHHHHHHHHHHHHHTCEEEEEEEE---------GGGHHHHHHTTSSSEEESSEB-
T ss_pred CEEEEc--CCCCCeEEECC-CCCEEEEhHHHHHHHHhhcccccceeecc---------cccccccccccccccccccccc
Confidence 688884 35778888874 78899999999999999999994444433 9999999999999999999999
Q ss_pred ecccccceEecccccccceEEEEecC
Q 006918 544 VTNRTKAVDFTQPYIESGLVVVAPVR 569 (625)
Q Consensus 544 t~~R~~~vdfs~p~~~~~~~~l~~~~ 569 (625)
|++|.+.++||.||+..+.++++++.
T Consensus 69 ~~~r~~~~~~s~p~~~~~~~~~~~~~ 94 (225)
T PF00497_consen 69 TPERAKKFDFSDPYYSSPYVLVVRKG 94 (225)
T ss_dssp BHHHHTTEEEESESEEEEEEEEEETT
T ss_pred cccccccccccccccchhheeeeccc
Confidence 99999999999999999999999964
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=99.11 E-value=1.3e-10 Score=114.15 Aligned_cols=98 Identities=27% Similarity=0.323 Sum_probs=83.5
Q ss_pred CCceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCC-ccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEE
Q 006918 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYA-VPYKFIPYGDGHKNPTYSELINQITTGVFDAAV 538 (625)
Q Consensus 460 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~-~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~ 538 (625)
..++|+|++. +|+||.+.+ .++++.|+.+||++++++++|.+ +.+...+ |+.++..+.+|++|+.+
T Consensus 31 ~~~~l~v~~~---~~pP~~~~~-~~g~~~G~~~dl~~~i~~~lg~~~~~~~~~~---------w~~~~~~l~~G~~Di~~ 97 (275)
T TIGR02995 31 EQGFARIAIA---NEPPFTYVG-ADGKVSGAAPDVARAIFKRLGIADVNASITE---------YGALIPGLQAGRFDAIA 97 (275)
T ss_pred hCCcEEEEcc---CCCCceeEC-CCCceecchHHHHHHHHHHhCCCceeeccCC---------HHHHHHHHHCCCcCEEe
Confidence 3578999985 467787765 35788999999999999999985 3343333 99999999999999998
Q ss_pred eeeeeecccccceEecccccccceEEEEecCC
Q 006918 539 GDIAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 539 ~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
+++++|++|++.++||.||+.++.++++++.+
T Consensus 98 ~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~ 129 (275)
T TIGR02995 98 AGLFIKPERCKQVAFTQPILCDAEALLVKKGN 129 (275)
T ss_pred ecccCCHHHHhccccccceeecceeEEEECCC
Confidence 88999999999999999999999999998765
No 95
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.11 E-value=2.5e-10 Score=110.17 Aligned_cols=97 Identities=21% Similarity=0.346 Sum_probs=83.3
Q ss_pred CceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEee
Q 006918 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (625)
Q Consensus 461 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~ 540 (625)
.++|+|++. ..|+||.+.+ .++.++|+++|+++++++++|.+ ++++. ..|+.++..+.+|++|++++.
T Consensus 20 ~~~l~v~~~--~~~~P~~~~~-~~g~~~G~~~dl~~~i~~~lg~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~ 87 (243)
T PRK15007 20 AETIRFATE--ASYPPFESID-ANNQIVGFDVDLAQALCKEIDAT--CTFSN-------QAFDSLIPSLKFRRVEAVMAG 87 (243)
T ss_pred CCcEEEEeC--CCCCCceeeC-CCCCEEeeeHHHHHHHHHHhCCc--EEEEe-------CCHHHHhHHHhCCCcCEEEEc
Confidence 467999995 4677888775 36789999999999999999998 55555 239999999999999999888
Q ss_pred eeeecccccceEecccccccceEEEEecC
Q 006918 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (625)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~l~~~~ 569 (625)
++.+++|++.++||.||+..+..++.+..
T Consensus 88 ~~~~~~r~~~~~fs~p~~~~~~~~v~~~~ 116 (243)
T PRK15007 88 MDITPEREKQVLFTTPYYDNSALFVGQQG 116 (243)
T ss_pred CccCHHHhcccceecCccccceEEEEeCC
Confidence 89999999999999999999888877654
No 96
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.03 E-value=4.2e-10 Score=108.49 Aligned_cols=88 Identities=16% Similarity=0.206 Sum_probs=73.7
Q ss_pred eEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHH---HHHHcCcccEEEe
Q 006918 463 QLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELI---NQITTGVFDAAVG 539 (625)
Q Consensus 463 ~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~---~~l~~~~~D~~~~ 539 (625)
+|+||+. +.|+||.+.+ + .||++||+++|++++|++ +++++. .|++++ ..|.+|++|+++
T Consensus 1 ~l~vg~~--~~~pPf~~~~---~--~Gfdvdl~~~ia~~lg~~--~~~~~~-------~~~~~~~~~~~L~~g~~Dii~- 63 (246)
T TIGR03870 1 TLRVCAA--TKEAPYSTKD---G--SGFENKIAAALAAAMGRK--VVFVWL-------AKPAIYLVRDGLDKKLCDVVL- 63 (246)
T ss_pred CeEEEeC--CCCCCCccCC---C--CcchHHHHHHHHHHhCCC--eEEEEe-------ccchhhHHHHHHhcCCccEEE-
Confidence 3788995 6788898864 2 699999999999999998 666663 388877 699999999997
Q ss_pred eeeeecccccceEecccccccceEEEEecCC
Q 006918 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
++++|++| ++||.||+.++..+++++.+
T Consensus 64 ~~~~t~~r---~~fS~PY~~~~~~~v~~k~~ 91 (246)
T TIGR03870 64 GLDTGDPR---VLTTKPYYRSSYVFLTRKDR 91 (246)
T ss_pred eCCCChHH---HhcccCcEEeeeEEEEeCCC
Confidence 58888877 68999999999999998764
No 97
>PRK11260 cystine transporter subunit; Provisional
Probab=99.01 E-value=1e-09 Score=107.42 Aligned_cols=99 Identities=19% Similarity=0.381 Sum_probs=85.5
Q ss_pred CCceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 006918 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (625)
Q Consensus 460 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~ 539 (625)
..++|+|++. ..|+||.+.+ .++++.|+.+|+++++++++|.+ +++++. .|.+++..|.+|++|++++
T Consensus 39 ~~~~l~v~~~--~~~~P~~~~~-~~g~~~G~~~dl~~~i~~~lg~~--~e~~~~-------~~~~~~~~l~~G~~D~~~~ 106 (266)
T PRK11260 39 ERGTLLVGLE--GTYPPFSFQG-EDGKLTGFEVEFAEALAKHLGVK--ASLKPT-------KWDGMLASLDSKRIDVVIN 106 (266)
T ss_pred cCCeEEEEeC--CCcCCceEEC-CCCCEEEehHHHHHHHHHHHCCe--EEEEeC-------CHHHHHHHHhcCCCCEEEe
Confidence 3578999985 4577887765 46789999999999999999988 666663 3999999999999999998
Q ss_pred eeeeecccccceEecccccccceEEEEecCC
Q 006918 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
+++.+++|.+.++||.||+..+..+++++.+
T Consensus 107 ~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~ 137 (266)
T PRK11260 107 QVTISDERKKKYDFSTPYTVSGIQALVKKGN 137 (266)
T ss_pred ccccCHHHHhccccCCceeecceEEEEEcCC
Confidence 8999999999999999999999999988643
No 98
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.00 E-value=1.8e-09 Score=104.67 Aligned_cols=97 Identities=25% Similarity=0.421 Sum_probs=85.6
Q ss_pred ceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 006918 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (625)
Q Consensus 462 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~ 541 (625)
++|+|++. ..|+||.+.++ +++++|+++|+++.+++.+|.+ +++++. +|+.++..+.+|++|++++++
T Consensus 24 ~~l~v~~~--~~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~--~~~~~~-------~~~~~~~~l~~G~~D~~~~~~ 91 (250)
T TIGR01096 24 GSVRIGTE--TGYPPFESKDA-NGKLVGFDVDLAKALCKRMKAK--CKFVEQ-------NFDGLIPSLKAKKVDAIMATM 91 (250)
T ss_pred CeEEEEEC--CCCCCceEECC-CCCEEeehHHHHHHHHHHhCCe--EEEEeC-------CHHHHHHHHhCCCcCEEEecC
Confidence 78999994 46778887753 6789999999999999999988 666663 399999999999999998888
Q ss_pred eeecccccceEecccccccceEEEEecCC
Q 006918 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
+.+++|++.+.||.|++..+..++++..+
T Consensus 92 ~~~~~r~~~~~~s~p~~~~~~~~~~~~~~ 120 (250)
T TIGR01096 92 SITPKRQKQIDFSDPYYATGQGFVVKKGS 120 (250)
T ss_pred ccCHHHhhccccccchhcCCeEEEEECCC
Confidence 99999999999999999999999998765
No 99
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=98.97 E-value=1.7e-09 Score=114.46 Aligned_cols=98 Identities=17% Similarity=0.253 Sum_probs=81.1
Q ss_pred CCceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 006918 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (625)
Q Consensus 460 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~ 539 (625)
..++|+|++... |+.+.+.++ ...||++||++++++++|.+ ++++.. .+|+.++..|.+|++|++++
T Consensus 41 ~~g~LrVg~~~~----P~~~~~~~~-~~~G~~~DLl~~ia~~LGv~--~e~v~~------~~~~~ll~aL~~G~iDi~~~ 107 (482)
T PRK10859 41 ERGELRVGTINS----PLTYYIGND-GPTGFEYELAKRFADYLGVK--LEIKVR------DNISQLFDALDKGKADLAAA 107 (482)
T ss_pred hCCEEEEEEecC----CCeeEecCC-CcccHHHHHHHHHHHHhCCc--EEEEec------CCHHHHHHHHhCCCCCEEec
Confidence 357899999642 333433323 34999999999999999988 666543 45999999999999999999
Q ss_pred eeeeecccccceEecccccccceEEEEecCC
Q 006918 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
++++|++|++.++||.||+..+..+++++..
T Consensus 108 ~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~ 138 (482)
T PRK10859 108 GLTYTPERLKQFRFGPPYYSVSQQLVYRKGQ 138 (482)
T ss_pred cCcCChhhhccCcccCCceeeeEEEEEeCCC
Confidence 9999999999999999999999999998754
No 100
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=98.90 E-value=1.5e-07 Score=91.79 Aligned_cols=205 Identities=10% Similarity=0.050 Sum_probs=139.1
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||+++|.. .........+++.+.++ . |+ ++.+.|+..++....+.+.+++.+++.++|+...+.....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~----~----g~--~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKA----A----GY--QVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHH----c----CC--eEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh
Confidence 589999885 33444556666666666 1 44 4556777777777777778888889998887665544443
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~ 184 (625)
....+...++|+|.+....+. ..++++..+.+...+..+++.+...+-++++++..+.. ++....+.+++.++
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 567778899999987665432 24556677777888999999999889999999987544 55566788999988
Q ss_pred ccc-eEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 185 EIR-CKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 185 ~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.| ..+....... .+..+....++++.+.+ +++|+.. +...+..+++++.+.|+..++.+-+.
T Consensus 146 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~~~~~g~~i~~~i~i~ 211 (264)
T cd01537 146 EAGPIEIVLVQEGD----WDAEKGYQAAEELLTAHPDPTAIFAA-NDDMALGALRALREAGLRVPDDISVI 211 (264)
T ss_pred HcCCcChhhhccCC----CCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCCCeEEE
Confidence 877 3333222222 23556666777776665 4455444 33566678889988887544444444
No 101
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=98.87 E-value=5.6e-09 Score=102.19 Aligned_cols=95 Identities=14% Similarity=0.189 Sum_probs=77.7
Q ss_pred CceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHC-CCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 006918 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLL-PYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (625)
Q Consensus 461 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l-~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~ 539 (625)
.++|++++. +|+||.+.+ +++...|+.+|+++++++.+ ++++++...+ |++++..+ +|+.|+++.
T Consensus 17 ~~~l~~~~~---~~pPf~~~~-~~~~~~G~~~~i~~~i~~~~~~~~~~~~~~p---------w~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFS-GPSKGRGVFDVILQEIRRALPQYEHRFVRVS---------FARSLKEL-QGKGGVCTV 82 (268)
T ss_pred cceeEEEec---ccCCeeEeC-CCCCCCChHHHHHHHHHHHcCCCceeEEECC---------HHHHHHHH-hcCCCeEEe
Confidence 468898884 577787765 35677999999999999998 7774455444 99999999 788888878
Q ss_pred eeeeecccccceEecccccc-cceEEEEecC
Q 006918 540 DIAIVTNRTKAVDFTQPYIE-SGLVVVAPVR 569 (625)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~-~~~~~l~~~~ 569 (625)
++++|+||++.++||.||+. ....+++++.
T Consensus 83 ~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~ 113 (268)
T TIGR02285 83 NLLRTPEREKFLIFSDPTLRALPVGLVLRKE 113 (268)
T ss_pred eccCCcchhhceeecCCccccCCceEEEccc
Confidence 89999999999999999975 5788888764
No 102
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=98.79 E-value=2.3e-08 Score=98.50 Aligned_cols=103 Identities=25% Similarity=0.392 Sum_probs=86.0
Q ss_pred CceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEee
Q 006918 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (625)
Q Consensus 461 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~ 540 (625)
.+.++|++... ..+||.+.+.+.+.+.||++|+++++++.++.....++++ ..|++++..+..|++|+.++.
T Consensus 33 ~~~~~v~~~~~-~~~p~~~~~~~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~~~ 104 (275)
T COG0834 33 RGKLRVGTEAT-YAPPFEFLDAKGGKLVGFDVDLAKAIAKRLGGDKKVEFVP-------VAWDGLIPALKAGKVDIIIAG 104 (275)
T ss_pred cCeEEEEecCC-CCCCcccccCCCCeEEeeeHHHHHHHHHHhCCcceeEEec-------cchhhhhHHHhcCCcCEEEec
Confidence 46788888632 3357888775335899999999999999998753245555 349999999999999999999
Q ss_pred eeeecccccceEecccccccceEEEEecCCC
Q 006918 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRKL 571 (625)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~~ 571 (625)
+++|++|.+.++||.||+..+..+++++.+.
T Consensus 105 ~~~t~er~~~~~fs~py~~~~~~~~~~~~~~ 135 (275)
T COG0834 105 MTITPERKKKVDFSDPYYYSGQVLLVKKDSD 135 (275)
T ss_pred cccCHHHhccccccccccccCeEEEEECCCC
Confidence 9999999999999999999999999987663
No 103
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=98.78 E-value=1.8e-08 Score=120.06 Aligned_cols=100 Identities=16% Similarity=0.211 Sum_probs=85.7
Q ss_pred CceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEee
Q 006918 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (625)
Q Consensus 461 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~ 540 (625)
.++|+||+. +++.|+.+..+.++++.||.+|+++.|++.+|.+ +++++. .+|++++..|.+|++|++++.
T Consensus 55 ~~~l~vgv~--~~~~p~~~~~~~~g~~~G~~~D~l~~ia~~lG~~--~e~v~~------~~~~~~l~~l~~g~iDl~~~~ 124 (1197)
T PRK09959 55 KKNLVIAVH--KSQTATLLHTDSQQRVRGINADYLNLLKRALNIK--LTLREY------ADHQKAMDALEEGEVDIVLSH 124 (1197)
T ss_pred CCeEEEEec--CCCCCCceeecCCCccceecHHHHHHHHHhcCCc--eEEEeC------CCHHHHHHHHHcCCCcEecCc
Confidence 567999995 4455554443347889999999999999999988 888875 469999999999999999898
Q ss_pred eeeecccccceEecccccccceEEEEecCC
Q 006918 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
++.+++|.+.++||.||+.....+++++..
T Consensus 125 ~~~~~~r~~~~~fs~py~~~~~~~v~~~~~ 154 (1197)
T PRK09959 125 LVASPPLNDDIAATKPLIITFPALVTTLHD 154 (1197)
T ss_pred cccccccccchhcCCCccCCCceEEEeCCC
Confidence 999999999999999999999999987644
No 104
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=98.76 E-value=2.1e-06 Score=83.90 Aligned_cols=198 Identities=12% Similarity=0.071 Sum_probs=130.5
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh-HHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s-~~~~ 105 (625)
+||++.|.. ..+......+++.+.++. |+ .+.+.++..++....+...+++.+++.++|+...+ ....
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 334445667777776661 44 44556766677777777778888899988864333 3323
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecC--CCCcchHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD--DQGRNGVTALGD 181 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~--~~g~~~~~~l~~ 181 (625)
.....+...++|+|......+. .+.+....+++...+..+++.+... |-+++++|+.+. .++....+.|++
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 3445566789999987554331 1334556677777788888888777 889999998654 366677889999
Q ss_pred HHhccc-eEEEEeeecCCCCCCChhHHHHHHHHHhcCCceE-EEEEcchhhHHHHHHHHHHcCCC
Q 006918 182 KLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 182 ~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-Ivl~~~~~~~~~il~~a~~~g~~ 244 (625)
.+++.+ .++....... .+..+..+.++++.+..+++ +|++++...+..+++++++.|+.
T Consensus 146 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~ 206 (267)
T cd01536 146 ALKEYPDIEIVAVQDGN----WDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK 206 (267)
T ss_pred HHHhCCCcEEEEEecCC----CcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC
Confidence 999884 6654332222 22445566777765544433 33344446677788999988864
No 105
>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=98.70 E-value=1.9e-06 Score=84.07 Aligned_cols=205 Identities=10% Similarity=0.013 Sum_probs=132.7
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||++.|.. ..+......+++.+.++. |+++. +.+...++....+...+++++++.++|....+.....
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~ 70 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA--------GYSVL--LCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL 70 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH
Confidence 478999875 333334455555555541 44554 5666777777788888888889998887555544444
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~ 184 (625)
...+...++|+|......+. +.+....++....+..+++.+...|.+++++++.+.. ++....+.+++.++
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 56678899999987654332 2344555666777888888888889999999986543 55666788888888
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.+..+......... .+..+....++++...+ .++|+. .+...+..+++++++.|+..++.+.+.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~~~~i~i~ 210 (264)
T cd06267 144 EAGIPLDEELIVEGD--FSEESGYEAARELLASGERPTAIFA-ANDLMAIGALRALRELGLRVPEDVSVV 210 (264)
T ss_pred HcCCCCCcceEEecc--cchhhHHHHHHHHHhcCCCCcEEEE-cCcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 887533222122221 12345566666666555 555554 344566778888888887544444443
No 106
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=98.69 E-value=5.2e-08 Score=116.22 Aligned_cols=97 Identities=14% Similarity=0.120 Sum_probs=83.5
Q ss_pred ceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 006918 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (625)
Q Consensus 462 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~ 541 (625)
++|+|++. +.|+||.+.+ .++++.||.+|++++|++++|.+ +++++. ..|......|.+|++|+.. ++
T Consensus 302 ~~l~v~~~--~~~pP~~~~d-~~g~~~G~~~Dll~~i~~~~g~~--~~~v~~------~~~~~~~~~l~~g~~D~i~-~~ 369 (1197)
T PRK09959 302 PDLKVLEN--PYSPPYSMTD-ENGSVRGVMGDILNIITLQTGLN--FSPITV------SHNIHAGTQLNPGGWDIIP-GA 369 (1197)
T ss_pred CceEEEcC--CCCCCeeEEC-CCCcEeeehHHHHHHHHHHHCCe--EEEEec------CCHHHHHHHHHCCCceEee-cc
Confidence 45888874 6789999986 46889999999999999999988 777775 4488888999999999874 56
Q ss_pred eeecccccceEecccccccceEEEEecCC
Q 006918 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
+.|++|++.++||.||+.+++++++++..
T Consensus 370 ~~t~~r~~~~~fs~py~~~~~~~v~~~~~ 398 (1197)
T PRK09959 370 IYSEDRENNVLFAEAFITTPYVFVMQKAP 398 (1197)
T ss_pred cCCccccccceeccccccCCEEEEEecCC
Confidence 78999999999999999999999987643
No 107
>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=98.65 E-value=4.5e-06 Score=81.97 Aligned_cols=201 Identities=13% Similarity=0.050 Sum_probs=131.7
Q ss_pred EEEEEeecCCC-CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh-HHHH
Q 006918 28 NVGAIFSFGTV-NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~~-~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s-~~~~ 105 (625)
|||+++|.... +-.....+++.+.++. + +.|+.+.+.+.|+..++....+...+++.+++.+||....+ ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~----~-~~g~~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~ 75 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKEL----K-KAGLISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALN 75 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhh----h-ccCCeeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhH
Confidence 58999986432 1123344444444432 1 12677888889998888888888888888899999874443 2223
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEec--CCCCcchHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFND--DDQGRNGVTALGD 181 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d--~~~g~~~~~~l~~ 181 (625)
.....+...++|+|......+ . +.+.+..+++...+..+++.+... |-++++++..+ ...+....+.+++
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 344556678999998754321 1 345667788888888898888776 88899999753 2344566788999
Q ss_pred HHhccc-eEEEEeeecCCCCCCChhHHHHHHHHHhcCCc--eEEEEEcchhhHHHHHHHHHHcCCCC
Q 006918 182 KLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEA--RVIVVHGYSRTGLMVFDVAQRLGMMD 245 (625)
Q Consensus 182 ~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~--~vIvl~~~~~~~~~il~~a~~~g~~~ 245 (625)
.+++.+ +.+......+ .+.++..+.+.++.++++ ++|+.. +.. +..+++++++.|+..
T Consensus 150 a~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~-~d~-A~g~~~al~~~g~~~ 210 (272)
T cd06300 150 VLKEYPGIKIVGEVYGD----WDQAVAQKAVADFLASNPDVDGIWTQ-GGD-AVGAVQAFEQAGRDI 210 (272)
T ss_pred HHHHCCCcEEEeecCCC----CCHHHHHHHHHHHHHhCCCcCEEEec-CCC-cHHHHHHHHHcCCCC
Confidence 998887 7664322111 224455667777765554 444333 333 888999999988743
No 108
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=98.63 E-value=8.1e-08 Score=91.90 Aligned_cols=89 Identities=21% Similarity=0.254 Sum_probs=70.2
Q ss_pred EEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeee
Q 006918 464 LRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAI 543 (625)
Q Consensus 464 l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~ 543 (625)
|+|++. +.|+||.+. +..||++||++++++++|.++++...++ .+.-++..+.+|++|++++
T Consensus 2 l~v~~~--~~~~P~~~~-----~~~G~~~el~~~i~~~~g~~i~~~~~~~-------~~~~~~~~l~~g~~Di~~~---- 63 (232)
T TIGR03871 2 LRVCAD--PNNLPFSNE-----KGEGFENKIAQLLADDLGLPLEYTWFPQ-------RRGFVRNTLNAGRCDVVIG---- 63 (232)
T ss_pred eEEEeC--CCCCCccCC-----CCCchHHHHHHHHHHHcCCceEEEecCc-------chhhHHHHHhcCCccEEEe----
Confidence 788874 557777753 2369999999999999999955554442 1344567899999999865
Q ss_pred ecccccceEecccccccceEEEEecCC
Q 006918 544 VTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 544 t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
+++|.+.++||.||+..++.+++++.+
T Consensus 64 ~~~r~~~~~fs~py~~~~~~lv~~~~~ 90 (232)
T TIGR03871 64 VPAGYEMVLTTRPYYRSTYVFVTRKDS 90 (232)
T ss_pred ccCccccccccCCcEeeeEEEEEeCCC
Confidence 578999999999999999999998764
No 109
>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=98.54 E-value=1.1e-05 Score=79.58 Aligned_cols=201 Identities=15% Similarity=0.133 Sum_probs=130.2
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
+||++.+....+-.....++ .+++++.+..+ |.++.+.+.|+..++....+...++.++++.++|+..++. ....
T Consensus 1 ~igv~~~~~~~~~~~~~~gi---~~~~~~~g~~~-g~~v~l~~~~~~~~~~~~~~~~~~l~~~~vd~iI~~~~~~-~~~~ 75 (281)
T cd06325 1 KVGILQLVEHPALDAARKGF---KDGLKEAGYKE-GKNVKIDYQNAQGDQSNLPTIARKFVADKPDLIVAIATPA-AQAA 75 (281)
T ss_pred CeEEecCCCCcchHHHHHHH---HHHHHHhCccC-CceEEEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCcHH-HHHH
Confidence 58999986543322333444 45666666554 7899999999988888888888888888999999854432 2222
Q ss_pred HHhhhcCCCcEEeeccCCCCCCC----CCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecC-CCCcchHHHHH
Q 006918 108 SHLANELQVPLLSFTALDPTLSP----LQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD-DQGRNGVTALG 180 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~----~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~-~~g~~~~~~l~ 180 (625)
.....++|+|.++..++.... ...+....+..++...+..+++++... |.+++++++.+. .++....+.++
T Consensus 76 --~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 --ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred --HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 255679999987654332111 111111222334455567777887765 999999998654 35666778899
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
+.+++.|+++.... . . ...++...++++.+. +++|++..+ ..+..+++++.+.++
T Consensus 154 ~~~~~~g~~~~~~~-~-~----~~~~~~~~~~~~~~~-~dai~~~~d-~~a~~~~~~~~~~~~ 208 (281)
T cd06325 154 KAAAKLGIEVVEAT-V-S----SSNDVQQAAQSLAGK-VDAIYVPTD-NTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHhCCCEEEEEe-c-C----CHHHHHHHHHHhccc-CCEEEEcCc-hhHHhHHHHHHHHHH
Confidence 99999998876432 1 1 245666777777643 576665444 456677777777664
No 110
>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=98.44 E-value=6.4e-05 Score=73.87 Aligned_cols=199 Identities=9% Similarity=0.016 Sum_probs=121.7
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EcCCChHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAI-VGPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~av-iG~~~s~~~~ 105 (625)
+||++.|.. ..+-.....+++.+.++. |+++.+...+...++....+....++++++.++ +.|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKL--------GVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHh--------CCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH
Confidence 589999853 222223344555555541 677776666666676666667777888888875 4555444333
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecC--CCCcchHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD--DQGRNGVTALGD 181 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~--~~g~~~~~~l~~ 181 (625)
.....+...++|+|...... .....+ ...+++...+..+++.+... |.++++++.... .......+.+.+
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 44556678899999875432 111112 24566666788888888765 899999997533 223455678999
Q ss_pred HHhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEE-EEcchhhHHHHHHHHHHcCCC
Q 006918 182 KLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV-VHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 182 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIv-l~~~~~~~~~il~~a~~~g~~ 244 (625)
.+++. |+.+....... ....+....++++.+..+++-. ++.+...+..+++.+++.|+.
T Consensus 147 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~ 207 (275)
T cd06320 147 AIKKASGIEVVASQPAD----WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ 207 (275)
T ss_pred HHhhCCCcEEEEecCCC----ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC
Confidence 99998 88765422111 1233444566665544444333 334445566788888888864
No 111
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.43 E-value=0.00011 Score=73.00 Aligned_cols=222 Identities=14% Similarity=0.100 Sum_probs=128.6
Q ss_pred CcchhhHHHHHhhhcccccccCCCceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHH
Q 006918 1 MNLWWLVSIFSFCIGTAIQGALKPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFL 79 (625)
Q Consensus 1 m~~~~~l~~~~~~l~~~~~~~~~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~ 79 (625)
|+|+++|++++++-|+- .......-+||+++|.. ..+-.....+++.+.++. |+++. +.++..++..
T Consensus 3 ~~~~~~~~~~~~~~~~~--~~~~~~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~--------G~~~~--~~~~~~d~~~ 70 (295)
T PRK10653 3 MKKLATLVSAVALSATV--SANAMAKDTIALVVSTLNNPFFVSLKDGAQKEADKL--------GYNLV--VLDSQNNPAK 70 (295)
T ss_pred hHHHHHHHHHHHHHHhc--CCccccCCeEEEEecCCCChHHHHHHHHHHHHHHHc--------CCeEE--EecCCCCHHH
Confidence 67777777766654322 22223456899999853 322234456666666652 44444 4566667766
Q ss_pred HHHHHHHHHhcCcEEE-EcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHH-c
Q 006918 80 SIMGALQFMETDTLAI-VGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-F 157 (625)
Q Consensus 80 a~~~~~~l~~~~v~av-iG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~-~ 157 (625)
..+....+.++++.++ +++..+.........+...++|+|....... + ...+....+.+..-+..+++.+.. .
T Consensus 71 ~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~---~--~~~~~~V~~D~~~~g~~~~~~l~~~~ 145 (295)
T PRK10653 71 ELANVQDLTVRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRGAT---K--GEVVSHIASDNVAGGKMAGDFIAKKL 145 (295)
T ss_pred HHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccCCC---C--CceeeEEccChHHHHHHHHHHHHHHh
Confidence 6666667777778644 4555444433445666778999998753321 1 122334555555556777777655 4
Q ss_pred CCc-EEEEEEecC--CCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceE-EEEEcchhhHHH
Q 006918 158 GWG-EVIAIFNDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLM 233 (625)
Q Consensus 158 ~W~-~v~ii~~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-Ivl~~~~~~~~~ 233 (625)
+.+ +++++..+. .......+.+++.+++.|+.+.... ... .+..+....++++.++.++. .|++.+...+..
T Consensus 146 ~~~~~i~~~~~~~~~~~~~~R~~gf~~al~~~g~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g 221 (295)
T PRK10653 146 GEGAKVIQLEGIAGTSAARERGEGFKQAVAAHKFNVLASQ--PAD--FDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALG 221 (295)
T ss_pred CCCceEEEEEccCCCccHHHHHHHHHHHHhhCCCEEEEec--CCC--CCHHHHHHHHHHHHHhCCCcCEEEECCChhHHH
Confidence 543 566655432 2334667889999999988764221 111 12333444555665444432 233444455667
Q ss_pred HHHHHHHcCC
Q 006918 234 VFDVAQRLGM 243 (625)
Q Consensus 234 il~~a~~~g~ 243 (625)
+++++++.|+
T Consensus 222 ~l~al~~~G~ 231 (295)
T PRK10653 222 ALRALQTAGK 231 (295)
T ss_pred HHHHHHHcCC
Confidence 8899999886
No 112
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=98.41 E-value=1e-06 Score=82.79 Aligned_cols=95 Identities=27% Similarity=0.509 Sum_probs=82.2
Q ss_pred EEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeee
Q 006918 464 LRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAI 543 (625)
Q Consensus 464 l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~ 543 (625)
|+|++. +.++||.+.+ +++.+.|+++|+++.+++++|.+ +++++. .|..++..|.+|++|++++....
T Consensus 1 l~i~~~--~~~~p~~~~~-~~g~~~G~~~~~~~~~~~~~g~~--~~~~~~-------~~~~~~~~l~~g~~D~~~~~~~~ 68 (218)
T cd00134 1 LTVGTA--GTYPPFSFRD-ANGELTGFDVDLAKAIAKELGVK--VKFVEV-------DWDGLITALKSGKVDLIAAGMTI 68 (218)
T ss_pred CEEecC--CCCCCeeEEC-CCCCEEeeeHHHHHHHHHHhCCe--EEEEeC-------CHHHHHHHHhcCCcCEEeecCcC
Confidence 467775 4567888775 47889999999999999999977 777763 39999999999999999988888
Q ss_pred ecccccceEecccccccceEEEEecCC
Q 006918 544 VTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 544 t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
+.+|.+.+.|+.|+...+..+++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (218)
T cd00134 69 TPERAKQVDFSDPYYKSGQVILVKKGS 95 (218)
T ss_pred CHHHHhhccCcccceeccEEEEEECCC
Confidence 999999999999999999999998765
No 113
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.40 E-value=0.00015 Score=69.20 Aligned_cols=204 Identities=15% Similarity=0.101 Sum_probs=136.4
Q ss_pred CCCceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCc-EEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC
Q 006918 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGR-KLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQS 100 (625)
Q Consensus 22 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~-~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~ 100 (625)
...+.++||+....+...-.....+++-|+.+. |. .+++...+.++++..+.+.++++..++.++|++-.
T Consensus 26 ~~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~--------G~~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~i~- 96 (322)
T COG2984 26 AAADQITVAITQFVEHPALDAAREGVKEALKDA--------GYKNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVAIA- 96 (322)
T ss_pred ccccceeEEEEEeecchhHHHHHHHHHHHHHhc--------CccCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEecC-
Confidence 455677888888876443345567777777664 22 67777888899999999999999988877777744
Q ss_pred hHHHHHHHHhhhcCCCcEEeeccCCCCCCC--C--CCCceEEccCchHHHHHHHHHHHHH--cCCcEEEEEEecC-CCCc
Q 006918 101 AVMAHVLSHLANELQVPLLSFTALDPTLSP--L--QYPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVIAIFNDD-DQGR 173 (625)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~--~--~~~~~~r~~ps~~~~~~al~~ll~~--~~W~~v~ii~~d~-~~g~ 173 (625)
+..+.++..-. .++|++-.+.+|+.-.. + .-|----|.-||..-...-.++++. -+-++++++|..+ +...
T Consensus 97 tp~Aq~~~s~~--~~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~ 174 (322)
T COG2984 97 TPAAQALVSAT--KTIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSV 174 (322)
T ss_pred CHHHHHHHHhc--CCCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccH
Confidence 44444333322 33999977777664221 1 1122223344555545566667766 4889999999854 4677
Q ss_pred chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch---hhHHHHHHHHHHcCC
Q 006918 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS---RTGLMVFDVAQRLGM 243 (625)
Q Consensus 174 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~---~~~~~il~~a~~~g~ 243 (625)
...+.+.+.+++.|++|... .++. ..|....++.+. .++++|++.++. .....+++.+.+.+.
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 78899999999999998743 3332 345556666665 578999987776 345566677776653
No 114
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=98.38 E-value=1.2e-06 Score=82.17 Aligned_cols=96 Identities=26% Similarity=0.515 Sum_probs=82.3
Q ss_pred eEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeee
Q 006918 463 QLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIA 542 (625)
Q Consensus 463 ~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~ 542 (625)
+|+||+. +.++|+...+ .++.+.|+.+|+++.+.+.+|.+ +++.+. .|..++.++.+|++|++++...
T Consensus 1 ~l~v~~~--~~~~p~~~~~-~~g~~~G~~~~~~~~~~~~~g~~--~~~~~~-------~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 1 TLRVGTN--GDYPPFSFAD-EDGELTGFDVDLAKAIAKELGLK--VEFVEV-------SFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred CEEEEec--CCCCCcEEEC-CCCCcccchHHHHHHHHHHhCCe--EEEEec-------cHHHHHHHHHCCcccEEecccc
Confidence 4788885 5677887765 35679999999999999999977 666663 3999999999999999998877
Q ss_pred eecccccceEecccccccceEEEEecCC
Q 006918 543 IVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (625)
Q Consensus 543 ~t~~R~~~vdfs~p~~~~~~~~l~~~~~ 570 (625)
.+.+|.+.+.|+.|+...+..+++++.+
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (219)
T smart00062 69 ITPERAKQVDFSDPYYKSGQVILVRKDS 96 (219)
T ss_pred CCHHHHhheeeccceeeceeEEEEecCC
Confidence 7889999999999999999999998765
No 115
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=98.35 E-value=6.7e-05 Score=73.28 Aligned_cols=203 Identities=10% Similarity=0.092 Sum_probs=122.4
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||+++|... .+-.....+++.+.++ . |+.+.+ .++..++....+...+++.+++.++|....+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~----~----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 70 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARA----A----GYSLLL--ATTDYDAEREADAVETLLRQRVDGLILTVADAATSP 70 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHH----C----CCEEEE--eeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCchH
Confidence 4788988643 2222334444444433 1 455554 455566666666777777888988886333322233
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEec---CCCCcchHHHHHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND---DDQGRNGVTALGDKL 183 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d---~~~g~~~~~~l~~~l 183 (625)
....+...++|+|......+ ..+++. ..++...+..+++++...|.++++++..+ .+++....+.+.+.+
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 45667788999987644322 223332 35566778888899888899999999743 234556778899999
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHH-hcC-CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKV-RMM-EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i-~~~-~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
++.|+.+......+. ...+....+.++ ++. .+++|+. .+...+..+++++.+.|+..++.+-+.
T Consensus 144 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di~v~ 209 (266)
T cd06282 144 RAAGLAPLPPVEIPF----NTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDLSVV 209 (266)
T ss_pred HHcCCCCCccccCCC----cHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 988876432222221 123333444443 332 3455554 556667789999999997654444333
No 116
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.23 E-value=0.00013 Score=73.53 Aligned_cols=153 Identities=12% Similarity=0.139 Sum_probs=107.0
Q ss_pred CceEEEEEEeecCC---CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHH-HhcCcEEEEcCC
Q 006918 24 PEVLNVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQF-METDTLAIVGPQ 99 (625)
Q Consensus 24 ~~~i~IG~l~~~~~---~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l-~~~~v~aviG~~ 99 (625)
...-+|+.++|++. ..|.....+|..|.. -|.. .++-..++.++|+...+..+ +... -.+|+..|+||.
T Consensus 255 ~~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~---~~~~~~~~~i~dT~~~~l~~---i~aqaqq~G~~~VVGPL 327 (604)
T COG3107 255 ASPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APAT---QTAQVAELKIYDTSAQPLDA---ILAQAQQDGADFVVGPL 327 (604)
T ss_pred CCchheeEEeccCChhHHHHHHHHHHHHHhcc-Cccc---CCccccceeeccCCcccHHH---HHHHHHhcCCcEEeccc
Confidence 35678999999984 335566777766654 1222 13444778888888755443 3333 345999999999
Q ss_pred ChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCc--eEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHH
Q 006918 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPF--FVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVT 177 (625)
Q Consensus 100 ~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~--~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~ 177 (625)
.-...+.+..--. ..||.+....++.. + ..+. .|-.+|.| .++..++.+-.-|.+...++...+++|+...+
T Consensus 328 lK~nVe~L~~~~q-~~i~vLALN~~~n~--r-~~~~~cyfaLSPED--Ea~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~ 401 (604)
T COG3107 328 LKPNVEALLASNQ-QPIPVLALNQPENS--R-NPAQLCYFALSPED--EARDAANHLWDQGKRNPLVLVPRNDLGDRVAN 401 (604)
T ss_pred cchhHHHHHhCcC-CCCceeeecCCccc--c-CcccceeeecChhH--HHHHHHHHHHHccccCceEEecchHHHHHHHH
Confidence 9888776654432 77888865333321 1 1232 35555555 47888889999999999999999999999999
Q ss_pred HHHHHHhccceE
Q 006918 178 ALGDKLAEIRCK 189 (625)
Q Consensus 178 ~l~~~l~~~g~~ 189 (625)
.|.+++++.|..
T Consensus 402 AF~~~Wq~~gg~ 413 (604)
T COG3107 402 AFNQEWQKLGGG 413 (604)
T ss_pred HHHHHHHHhcCC
Confidence 999999998773
No 117
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=98.21 E-value=0.00035 Score=68.24 Aligned_cols=197 Identities=14% Similarity=0.112 Sum_probs=117.6
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EcCCChHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAI-VGPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~av-iG~~~s~~~~ 105 (625)
.||+++|.. ..+......+++.+.++. |+++ .+.++..++....+...+++.+++.++ +++..+....
T Consensus 1 ~I~vv~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~ 70 (268)
T cd06323 1 TIGLSVSTLNNPFFVTLKDGAQKEAKEL--------GYEL--TVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVV 70 (268)
T ss_pred CeeEecccccCHHHHHHHHHHHHHHHHc--------CceE--EecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHH
Confidence 378888853 333334456666666652 4455 356666677777777777788888884 4555444333
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEec--CCCCcchHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFND--DDQGRNGVTALGD 181 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d--~~~g~~~~~~l~~ 181 (625)
.....+...++|+|......+. ...+-....++...+..+++.+... |-++++++..+ ...+....+.+++
T Consensus 71 ~~l~~l~~~~ipvv~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 145 (268)
T cd06323 71 PAVKAANEAGIPVFTIDREANG-----GEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHE 145 (268)
T ss_pred HHHHHHHHCCCcEEEEccCCCC-----CceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 3444456789999987543321 1122334455555677788887776 78999999863 3345566788889
Q ss_pred HHhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceE-EEEEcchhhHHHHHHHHHHcCC
Q 006918 182 KLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 182 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-Ivl~~~~~~~~~il~~a~~~g~ 243 (625)
.+++. |+.+....... .+..+....+.++.+..++. .|++.+...+..+++++.+.|+
T Consensus 146 ~l~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~ 205 (268)
T cd06323 146 VVDKYPGLKVVASQPAD----FDRAKGLNVMENILQAHPDIKGVFAQNDEMALGAIEALKAAGK 205 (268)
T ss_pred HHHhCCCcEEEecccCC----CCHHHHHHHHHHHHHHCCCcCEEEEcCCchHHHHHHHHHHcCC
Confidence 99884 77654321111 12233334455544333322 3344444556678888888886
No 118
>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=98.20 E-value=0.00022 Score=69.76 Aligned_cols=202 Identities=17% Similarity=0.138 Sum_probs=122.3
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc--CCChHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG--PQSAVMA 104 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG--~~~s~~~ 104 (625)
+||+++|.. ..+-.....++..++++. |+.+. +.|+..++....+....++++++.++|- +..+
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 489999863 322233445555555542 45554 4677777777777777888887876653 3222
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC---CCCcchHHHHHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD---DQGRNGVTALGD 181 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~---~~g~~~~~~l~~ 181 (625)
......+...++|+|......+ ....++ ...++...+..+++.+...|.+++++|.... .++....+.|.+
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 2333456778999998754322 112333 3356677788888888878999999997532 235567888999
Q ss_pred HHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEE
Q 006918 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (625)
Q Consensus 182 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (625)
.+++.++.+.....+... .+.++....++++.+. .+++|+. .+...+..+++++.+.|+..++.+-+
T Consensus 142 ~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~i~v 210 (268)
T cd06273 142 ALAEAGLELPELWQVEAP--YSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPEDLSI 210 (268)
T ss_pred HHHHcCCCCCHHHeeeCC--CcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCceEE
Confidence 999888654321111111 1233334455555433 3566554 55566778888888888765544433
No 119
>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=98.18 E-value=0.00033 Score=68.76 Aligned_cols=201 Identities=14% Similarity=0.136 Sum_probs=117.2
Q ss_pred EEEEEeecC--CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHH
Q 006918 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMA 104 (625)
Q Consensus 28 ~IG~l~~~~--~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~ 104 (625)
.||+++|.. ..+......+++.+.++. |+.+ .+.++..++....+....++.+++.++|- +..+...
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~--------g~~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED--------GVEV--IVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAY 70 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc--------CCEE--EEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCcccc
Confidence 378898863 334445566776666661 4444 45667677777777777788888988854 4333333
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEc-cCchHHHHHHHHHHHHHc--CCcEEEEEEecCCC--CcchHHHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQT-APNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTAL 179 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~-~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~~~--g~~~~~~l 179 (625)
......+...++|+|...... .....++.+.. .+.+...+...++.+.+. |-++|+++..+.++ +....+.+
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 334455678899999765432 12223443332 344445666666666554 77899999764333 33456788
Q ss_pred HHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC---CceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 180 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
++.+++.|..+......... .+..+....++++-+. .++.|+. .+...+..+++++++.|+.
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ 212 (275)
T cd06317 148 EDELAEVCPGVEVLDTQPAD--WDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA 212 (275)
T ss_pred HHHHHhhCCCCEEEeccCCC--CCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc
Confidence 89998886433222212111 1122333334443222 3566664 4445577889999998875
No 120
>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=98.08 E-value=0.00083 Score=65.98 Aligned_cols=199 Identities=11% Similarity=0.066 Sum_probs=115.5
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~avi-G~~~s~~~~ 105 (625)
+||++.|... .+-.....+++.+.++ . |+++ .+.++..++....+...+++++++.++| ++..+....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~----~----g~~~--~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKA----L----GYDA--VELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAV 70 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHh----c----CCeE--EEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhH
Confidence 4788888632 2111223444333333 1 4444 3567777777666777777788888774 565544444
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc------CCcEEEEEEecC--CCCcchHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------GWGEVIAIFNDD--DQGRNGVT 177 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~------~W~~v~ii~~d~--~~g~~~~~ 177 (625)
.....+...++|+|...... .+ ..++....+++...+..+++++.+. |-++++++.... ..+....+
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 55566778899999864321 11 1123334455555566666665443 668999997532 34566788
Q ss_pred HHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceE-EEEEcchhhHHHHHHHHHHcCCC
Q 006918 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 178 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-Ivl~~~~~~~~~il~~a~~~g~~ 244 (625)
.+++.+++.|+.+.... .... .+.......++++.++.++. .|++.+...+..+++++++.|+.
T Consensus 146 gf~~~l~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~ 210 (277)
T cd06319 146 GFKEAMKEAGCDLAGIR-QQKD--FSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT 210 (277)
T ss_pred HHHHHHHhcCCceEeec-cCCC--CCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC
Confidence 89999999987654211 1111 12333344555554444443 23334444566788999998875
No 121
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=98.03 E-value=0.0015 Score=64.06 Aligned_cols=209 Identities=14% Similarity=0.114 Sum_probs=120.2
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~avi-G~~~s~~~~~ 106 (625)
+||+++|... ......+..++++.-++ ..|+.+. +.++..++..-.+....+++.++.++| .+..+.....
T Consensus 1 ~igvi~~~~~---~~~~~~~~~gi~~~~~~---~~~~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~ 72 (272)
T cd06301 1 KIGVSMANFD---DNFLTLLRNAMKEHAKV---LGGVELQ--FEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATAP 72 (272)
T ss_pred CeeEeecccC---CHHHHHHHHHHHHHHHH---cCCcEEE--EeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHH
Confidence 5889988632 12333333334333222 0144444 467767777777777778888888876 5554443444
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecC--CCCcchHHHHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD--DQGRNGVTALGDK 182 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~--~~g~~~~~~l~~~ 182 (625)
+...+...++|+|......+.. .+.+.....++...+..+++.|... +-+++++|.... .......+.|.+.
T Consensus 73 ~~~~l~~~~iPvv~~~~~~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~~ 148 (272)
T cd06301 73 IVKAANAAGIPLVYVNRRPENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEEV 148 (272)
T ss_pred HHHHHHHCCCeEEEecCCCCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHHH
Confidence 5555688899999865432211 1223445666667777787777654 457999997643 2334556888899
Q ss_pred Hhccc-eEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEee
Q 006918 183 LAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 183 l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (625)
+++.| +.+... .... .+.......++++.+. .++.| ++.+...+..+++.+.+.|....+...+..
T Consensus 149 l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~~~di~ivg~ 217 (272)
T cd06301 149 LAKYPDIKVVEE--QTAN--WSRAEAMDLMENWLSSGGKIDAV-VANNDEMALGAIMALKAAGKSDKDVPVAGI 217 (272)
T ss_pred HHHCCCcEEEec--CCCC--ccHHHHHHHHHHHHHhCCCCCEE-EECCCchHHHHHHHHHHcCCCCCCcEEEee
Confidence 98887 433221 1111 1222233444554333 34544 445556677889999999976324444443
No 122
>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=98.02 E-value=0.0026 Score=62.31 Aligned_cols=208 Identities=10% Similarity=-0.020 Sum_probs=117.1
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChH-HHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV-MAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~-~~~ 105 (625)
|||++.|.. ..+-.....+++.+.++ .|+++.+...++..++....+....++.+++.++|-..... ...
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE--------LGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH--------cCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhH
Confidence 689998863 21111223344333333 15666655433345666666677777888888887533332 223
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecCCC--CcchHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTALGD 181 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~~~--g~~~~~~l~~ 181 (625)
.....+...++|+|......+. +.. +-....++...+..+++++... |.++++++....++ .....+.+++
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~~--~~~---~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLNS--DIA---VSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCCC--Ccc---eEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 3334445689999986432211 111 1223445555667788887776 89999999754332 3345678888
Q ss_pred HHhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceE-EEEEcchhhHHHHHHHHHHcCCCCCCeEEEee
Q 006918 182 KLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 182 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-Ivl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (625)
.+++. |+.+... .... .+..+-...++++.++.+++ .|++.+...+..+++.+++.|+. .+...+..
T Consensus 148 a~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~ 216 (273)
T cd06310 148 GLKEYPGIEIVAT--QYSD--SDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGF 216 (273)
T ss_pred HHHhCCCcEEEec--ccCC--cCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEe
Confidence 99888 7765431 1111 12233344555554433332 34445556688899999998874 34444443
No 123
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.99 E-value=0.0017 Score=63.55 Aligned_cols=199 Identities=14% Similarity=0.026 Sum_probs=116.8
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcC-CChHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGP-QSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~-~~s~~~~ 105 (625)
+||+++|.. ..+-.....+++-+.++. |+++. +.++..++....+....++..++.++|.. ..+....
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 478888853 222233455555555552 45544 45677777777777777888899988874 3333333
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHH--cCCcEEEEEEecC-CCCcchHHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVIAIFNDD-DQGRNGVTALGDK 182 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~--~~W~~v~ii~~d~-~~g~~~~~~l~~~ 182 (625)
.+...+...++|+|......+. +.+....+++...++.+++.+.. .|.++|+++...+ .......+.+.+.
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 4444567789999987543221 22233555667778878888766 5889999997531 1233445677777
Q ss_pred Hhccc-eEEEEeeecCCCCCCChhHHHHHHHHHhcCCceE---EEEEcchhhHHHHHHHHHHcCCC
Q 006918 183 LAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEARV---IVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 183 l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v---Ivl~~~~~~~~~il~~a~~~g~~ 244 (625)
+++.+ +.+......... .+..+....++++....+++ .|++.+...+..++.++++.|+.
T Consensus 145 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~ 208 (273)
T cd06305 145 LKAYPGIKEVAELGDVSN--NTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRT 208 (273)
T ss_pred HHHCCCcEEecccccccc--cchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCC
Confidence 77776 544322111111 12233444555554334433 33344555677788888888864
No 124
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=97.97 E-value=0.002 Score=63.11 Aligned_cols=210 Identities=12% Similarity=0.051 Sum_probs=121.8
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~~ 106 (625)
+||++.|.-. ......+...+++.-++. |+++.+ .++..+...-.+....++.+++.++|- +........
T Consensus 1 ~~g~~~~~~~---~~~~~~~~~~~~~~a~~~----g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~ 71 (273)
T cd06309 1 TVGFSQVGAE---SPWRTAETKSIKDAAEKR----GFDLKF--ADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWDP 71 (273)
T ss_pred CeeeccCCCC---CHHHHHHHHHHHHHHHhc----CCEEEE--eCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccchH
Confidence 4888888532 133333444444433332 455554 555556666666677777888887764 433332233
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecCC--CCcchHHHHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD--QGRNGVTALGDK 182 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~~--~g~~~~~~l~~~ 182 (625)
....+...++|+|......+. ....+++.+..+.+...+..+++.+... |-++++++..+.. ......+.+.+.
T Consensus 72 ~i~~~~~~~iPvV~~~~~~~~--~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~ 149 (273)
T cd06309 72 VLKEAKAAGIPVILVDRGVDV--KDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAEV 149 (273)
T ss_pred HHHHHHHCCCCEEEEecCcCC--ccCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHHH
Confidence 335567789999987643221 1112456667788888888888888776 8899999976432 223456788888
Q ss_pred Hhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhcCC---ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEee
Q 006918 183 LAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMME---ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 183 l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~---~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (625)
+++. +..+... .... .+..+....++++.++. +++| ++.+...+..+++++.+.|+..++.+-+.+
T Consensus 150 l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~aI-~~~~d~~a~g~~~a~~~~g~~ip~di~iig 219 (273)
T cd06309 150 IKKYPNMKIVAS--QTGD--FTRAKGKEVMEALLKAHGDDIDAV-YAHNDEMALGAIQAIKAAGKKPGKDIKIVS 219 (273)
T ss_pred HHHCCCCEEeec--cCCc--ccHHHHHHHHHHHHHhCCCCccEE-EECCcHHHHHHHHHHHHcCCCCCCCeEEEe
Confidence 8876 4544321 1111 12333344455544333 4444 344445666788888999986555554443
No 125
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=97.97 E-value=9.2e-06 Score=78.01 Aligned_cols=106 Identities=17% Similarity=0.162 Sum_probs=87.2
Q ss_pred CceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEee
Q 006918 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (625)
Q Consensus 461 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~ 540 (625)
.++|+|+|..+| .++.. .++..+|++.++.+++++.||.+ .++++. .+.+.+..+|.+|++|+++++
T Consensus 22 rGvLrV~tinsp----~sy~~-~~~~p~G~eYelak~Fa~yLgV~--Lki~~~------~n~dqLf~aL~ng~~DL~Aag 88 (473)
T COG4623 22 RGVLRVSTINSP----LSYFE-DKGGPTGLEYELAKAFADYLGVK--LKIIPA------DNIDQLFDALDNGNADLAAAG 88 (473)
T ss_pred cCeEEEEeecCc----cceec-cCCCccchhHHHHHHHHHHhCCe--EEEEec------CCHHHHHHHHhCCCcceeccc
Confidence 578999998654 33332 24566799999999999999987 777775 558999999999999999999
Q ss_pred eeeecccccceEecccccccceEEEEecCCCCcCcchhc
Q 006918 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFL 579 (625)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~l~~~~~~~~~~~~~l 579 (625)
+...++|.+.+....-|......++.++....+..+.-|
T Consensus 89 l~~~~~~l~~~~~gP~y~svs~qlVyRkG~~Rp~~l~~L 127 (473)
T COG4623 89 LLYNSERLKNFQPGPTYYSVSQQLVYRKGQYRPRSLGQL 127 (473)
T ss_pred ccCChhHhcccCCCCceecccHHHHhhcCCCCCCCHHHc
Confidence 999999999998888899999999998877555544433
No 126
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=97.97 E-value=0.0013 Score=64.21 Aligned_cols=201 Identities=15% Similarity=0.089 Sum_probs=118.3
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEcCCChHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFM-ETDTLAIVGPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~-~~~v~aviG~~~s~~~~ 105 (625)
.||+++|.. ..+......+++.+.++ .|+.+.+...|... ......+.+.+ ..++.++|.........
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (270)
T cd01545 1 LIGLLYDNPSPGYVSEIQLGALDACRD--------TGYQLVIEPCDSGS--PDLAERVRALLQRSRVDGVILTPPLSDNP 70 (270)
T ss_pred CEEEEEcCCCcccHHHHHHHHHHHHHh--------CCCeEEEEeCCCCc--hHHHHHHHHHHHHCCCCEEEEeCCCCCcc
Confidence 378999863 44455666777777664 25677665544332 22444555544 56899888744332223
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCC--CcchHHHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTALGDKL 183 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~--g~~~~~~l~~~l 183 (625)
.....+...++|+|......+. ..+++ ...+....+..+++.+...|.++++++..+..+ .....+.|.+.+
T Consensus 71 ~~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 144 (270)
T cd01545 71 ELLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDAL 144 (270)
T ss_pred HHHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHH
Confidence 4445567789999987554321 12222 234556667788888888899999999865443 234467788888
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCC
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 247 (625)
++.|+.+......... .+..+-...++++.+ .++++|+ +.+...+..+++++++.|...++
T Consensus 145 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~ 207 (270)
T cd01545 145 AEAGLPLDPELVAQGD--FTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPD 207 (270)
T ss_pred HHcCCCCChhhEEeCC--CChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCC
Confidence 8887754210011111 112222234444433 3456655 45557777899999998875444
No 127
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.96 E-value=0.0028 Score=62.02 Aligned_cols=199 Identities=11% Similarity=0.062 Sum_probs=123.0
Q ss_pred EEEEEeecC--CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCCCh-HH
Q 006918 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQFMETDTLAIVGPQSA-VM 103 (625)
Q Consensus 28 ~IG~l~~~~--~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~-~~~~a~~~~~~l~~~~v~aviG~~~s-~~ 103 (625)
+||++.|.. ..+-.....+++.|.++. |+.+.+. ++.. ++....+....++++++.++|..... ..
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~--------g~~v~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~ 70 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDL--------GVDVEYR--GPETFDVADMARLIEAAIAAKPDGIVVTIPDPDA 70 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHh--------CCEEEEE--CCCCCCHHHHHHHHHHHHHhCCCEEEEeCCChHH
Confidence 588888864 333335566777777662 5566543 4444 66666677777888888888763332 22
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHH-cCCcEEEEEEec--CCCCcchHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFND--DDQGRNGVTALG 180 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~-~~W~~v~ii~~d--~~~g~~~~~~l~ 180 (625)
.......+...++|+|......+... ..+.+.....++...+..+++.+.+ .|-++++++..+ ...+....+.+.
T Consensus 71 ~~~~l~~~~~~~ipvV~~~~~~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~~r~~g~~ 148 (271)
T cd06312 71 LDPAIKRAVAAGIPVISFNAGDPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTLEDRCAGFA 148 (271)
T ss_pred hHHHHHHHHHCCCeEEEeCCCCCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccHHHHHHHHH
Confidence 23333445677999998754322111 1234456677788889999999988 899999998753 233456778888
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
+.+++.++.+.. +... .+..+....++++.+.. ++.|+ +.+...+..+++.+++.|+.
T Consensus 149 ~~~~~~~~~~~~---~~~~--~~~~~~~~~~~~~l~~~~~~~aI~-~~~d~~a~g~~~al~~~g~~ 208 (271)
T cd06312 149 DGLGGAGITEEV---IETG--ADPTEVASRIAAYLRANPDVDAVL-TLGAPSAAPAAKALKQAGLK 208 (271)
T ss_pred HHHHhcCceeeE---eecC--CCHHHHHHHHHHHHHhCCCccEEE-EeCCccchHHHHHHHhcCCC
Confidence 888888765432 1111 12333445555553333 45444 34455677788888888865
No 128
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=97.93 E-value=0.0014 Score=63.59 Aligned_cols=201 Identities=15% Similarity=0.105 Sum_probs=132.4
Q ss_pred EEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChHHHHH
Q 006918 29 VGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (625)
Q Consensus 29 IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~avi-G~~~s~~~~~ 106 (625)
||++.|... .+......+++-|.++. |..+.+. .|...++..-.+.+.+++++++.+|| .|..+.....
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 688888753 34445678888888886 4556655 78888888888888899999998776 5666655556
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCC--cEEEEEEecCCC--CcchHHHHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGW--GEVIAIFNDDDQ--GRNGVTALGDK 182 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W--~~v~ii~~d~~~--g~~~~~~l~~~ 182 (625)
...-+...+||+|+.... .....+......++....+..+++.+....- .+++++.....+ .....+.+.+.
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 666688889999987544 0111234455666778888999988866433 678777654333 22467788888
Q ss_pred Hhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCC
Q 006918 183 LAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMD 245 (625)
Q Consensus 183 l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~ 245 (625)
+++. ++++..... ... .+.+.....+.++.+.++-..|++++...+..+++.+.+.|+..
T Consensus 148 l~~~~~~~~~~~~~-~~~--~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~ 208 (257)
T PF13407_consen 148 LKEYPGVEIVDEYE-YTD--WDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAG 208 (257)
T ss_dssp HHHCTTEEEEEEEE-ECT--TSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTT
T ss_pred Hhhcceeeeeeeee-ccC--CCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCcc
Confidence 8884 666654222 212 23555555555555444333345566667777888889988743
No 129
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=97.92 E-value=0.0064 Score=61.78 Aligned_cols=208 Identities=9% Similarity=-0.009 Sum_probs=115.2
Q ss_pred CceEEEEEEeecCCC-CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCh
Q 006918 24 PEVLNVGAIFSFGTV-NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSA 101 (625)
Q Consensus 24 ~~~i~IG~l~~~~~~-~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s 101 (625)
...-+||++.|.... +-.....+++-+.++. |+++.+...+...+...-.+....++++++.+||= |...
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 357899999987432 2123344555555442 45555432222234444445556677788887763 4333
Q ss_pred HHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc-----CCcEEEEEEecC--CCCcc
Q 006918 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-----GWGEVIAIFNDD--DQGRN 174 (625)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~-----~W~~v~ii~~d~--~~g~~ 174 (625)
....... .+...++|+|.+..... ++.. ......++...+...++.+... |-++++++..+. .....
T Consensus 116 ~~~~~~l-~~~~~giPvV~~~~~~~--~~~~---~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 116 DGLNPDL-ELQAANIPVIALVNGID--SPQV---TTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred HHhHHHH-HHHHCCCCEEEecCCCC--Cccc---eEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 3222222 45678999997633221 1111 1234556666677777776654 478999987532 22334
Q ss_pred hHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 175 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
..+.+++.+++.|+++.... ... .+...-...++++.+. +++.|+ +....+..+++.+++.|+ ++.+.|.
T Consensus 190 R~~Gf~~~l~~~~i~~~~~~-~~~---~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~--~~di~Vv 261 (343)
T PRK10936 190 VEQGFRAAIAGSDVRIVDIA-YGD---NDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNL--TDKIKLV 261 (343)
T ss_pred HHHHHHHHHhcCCCEEEEee-cCC---CcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCC--CCCeEEE
Confidence 56788888888888765421 111 1122333444444322 357665 344567778888888886 3444444
Q ss_pred e
Q 006918 253 T 253 (625)
Q Consensus 253 ~ 253 (625)
+
T Consensus 262 g 262 (343)
T PRK10936 262 S 262 (343)
T ss_pred E
Confidence 3
No 130
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=97.83 E-value=0.0023 Score=62.47 Aligned_cols=202 Identities=9% Similarity=0.012 Sum_probs=117.3
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||+++|.. ..+-.....+++-+.++. |+.+.+. .+..++..-.+....++.+++.++|-..+.. ...
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~ 69 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY--------KYNIILS--NSDNDKEKELKVLNNLLAKQVDGIIFMGGKI-SEE 69 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc--------CCeEEEE--eCCCCHHHHHHHHHHHHHhcCCEEEEeCCCC-cHH
Confidence 478888863 222223344444444431 4555544 3444555555666667777888877421111 123
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC---CCcchHHHHHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD---QGRNGVTALGDKL 183 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~---~g~~~~~~l~~~l 183 (625)
+...+...++|+|......+ ....++ ..+++...+..+++.+...|-++++++..+.. .+....+.|++.+
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 44455667999998754321 112222 34556666777888888889999999985433 4667788899999
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC-ceEEEEEcchhhHHHHHHHHHHcCCCCCCeE
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~-~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~ 249 (625)
++.|+.+......... .+.......++++.+.. +++|+. .+...+..+++++++.|+..++.+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di 207 (268)
T cd06298 144 SEANIEFDESLIFEGD--YTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDF 207 (268)
T ss_pred HHcCCCCCHHHeEeCC--CChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccce
Confidence 9888654211111111 11223334555655444 566664 444557788999999998654433
No 131
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.82 E-value=0.023 Score=56.91 Aligned_cols=203 Identities=11% Similarity=0.026 Sum_probs=113.7
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHH-
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMA- 104 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~- 104 (625)
+||++.|... .+-.....+++-+.++ .|+++.+...+...+...-.+....++.+++.++|- +..+...
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~--------~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKT--------LGVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLV 97 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHH--------cCCeEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 8999998642 2222233444444433 156666543344445555566666777888887764 3333222
Q ss_pred HHHHHhhhcCCCcEEeeccCCCC--CCCCCCCceEEccCchHHHHHHHHHHHHH-cCC--cEEEEEEecC--CCCcchHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPT--LSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGW--GEVIAIFNDD--DQGRNGVT 177 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~--ls~~~~~~~~r~~ps~~~~~~al~~ll~~-~~W--~~v~ii~~d~--~~g~~~~~ 177 (625)
..+.. +...+||++.+....+. +....-........+....+...++.+.. .|- ++++++..+. .......+
T Consensus 98 ~~l~~-~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~ 176 (311)
T PRK09701 98 MPVAR-AWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRN 176 (311)
T ss_pred HHHHH-HHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHH
Confidence 22333 35689999987543221 11001112233556667777888887755 454 7999886533 23445678
Q ss_pred HHHHHHhccc-eEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 178 ALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 178 ~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
.+++.+++.+ +++... .... .+..+....++++.+. .++. |++.+...+..+++++++.|..
T Consensus 177 Gf~~al~~~~~~~~~~~--~~~~--~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~ 241 (311)
T PRK09701 177 GATEAFKKASQIKLVAS--QPAD--WDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT 241 (311)
T ss_pred HHHHHHHhCCCcEEEEe--cCCC--CCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC
Confidence 8889998877 665332 1111 1222334455555433 3454 4455566777888999988864
No 132
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.82 E-value=0.0025 Score=62.12 Aligned_cols=205 Identities=10% Similarity=0.030 Sum_probs=117.5
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||+++|.. ..+-.....+++.+.++. |+++. +.++..++..-.+....++++++.++|...+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA--------GYTVF--LANSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPD 70 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc--------CCeEE--EecCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHH
Confidence 478898863 233334556666666552 45553 3455556655555666677788988877544332223
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC--CCCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~--~~g~~~~~~l~~~l~ 184 (625)
....+...++|+|......+ +...+ ...++....+...++.+...|-++|+++..+. .......+.|.+.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVA---GAPFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCC---CCCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 44556778999998743322 11122 23345556677788888778989999887533 244566788899998
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEE
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (625)
+.|..+.....+... .+.......++++... .+++|+ +.+...+..+++++++.|+..++.+-+
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~-~~~~~~a~~~~~al~~~g~~~p~di~i 210 (268)
T cd06289 145 EAGLPFDSELVVEGP--PSRQGGAEAVAQLLDLPPRPTAIV-CFNDLVAFGAMSGLRRAGLTPGRDIAV 210 (268)
T ss_pred HcCCCCCchhEEecC--cchhhHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEE
Confidence 877432211111111 1122233444444333 345544 444555777888998888765443333
No 133
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=97.81 E-value=0.0037 Score=60.91 Aligned_cols=198 Identities=8% Similarity=-0.006 Sum_probs=113.1
Q ss_pred EEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 29 VGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 29 IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
||++.|... .+-.....+++-|.++ . |+.+ .+.|+..++....+....+..+++.++|......... .
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~----~----g~~~--~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~ 70 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEARE----A----GYGV--LLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT-A 70 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHH----c----CCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH-H
Confidence 788888643 2222344555555554 1 4555 3566766766655555666677898887632221111 2
Q ss_pred HHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEec--CCCCcchHHHHHHHHhc
Q 006918 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALGDKLAE 185 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d--~~~g~~~~~~l~~~l~~ 185 (625)
.... ..++|+|......+ . +.+.....+....+..+++.+..-|.++++++..+ +..+....+.|.+.+++
T Consensus 71 ~~~~-~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~ 143 (267)
T cd06284 71 LTAL-AKLPPIVQACEYIP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLARDRLEGYRQALAE 143 (267)
T ss_pred HHHH-hcCCCEEEEecccC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhHHHHHHHHHHHHHH
Confidence 2333 34999997642211 1 11223445566677888888888899999999764 23455667888999998
Q ss_pred cceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCC
Q 006918 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (625)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 247 (625)
.++.+......... .+.++....++++.+. .++.|+.. +...+..+++++++.|+..++
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 87543211111111 1123334445554333 34555554 445567888898888875443
No 134
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=97.70 E-value=0.014 Score=57.38 Aligned_cols=212 Identities=7% Similarity=-0.008 Sum_probs=112.0
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC--ChHHHHHHHHHHHhcCcEEEEcCCChH-HH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF--NGFLSIMGALQFMETDTLAIVGPQSAV-MA 104 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~--~~~~a~~~~~~l~~~~v~aviG~~~s~-~~ 104 (625)
+||+++|.... ...+ ..+.-++++.=++. |+.+.+...++.. ++..-.+....++++++.++|=...+. ..
T Consensus 1 ~Igvi~~~~~~-~~~~-~~~~~~i~~~~~~~----g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~ 74 (280)
T cd06303 1 KIAVIYPGQQI-SDYW-VRNIASFTARLEEL----NIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHR 74 (280)
T ss_pred CeeEEecCccH-HHHH-HHHHHHHHHHHHHc----CCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhH
Confidence 58999986310 1112 22222332222221 5566655444332 444444555567778888877533222 22
Q ss_pred HHHHHhhhcCCCcEEeecc-CCCCCCCCCCCceEEccCchHHHHHHHHHHHHH--cCCcEEEEEEecC-CCCcchHHHHH
Q 006918 105 HVLSHLANELQVPLLSFTA-LDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVIAIFNDD-DQGRNGVTALG 180 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~-~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~--~~W~~v~ii~~d~-~~g~~~~~~l~ 180 (625)
..+.. +...++|.+.... ..+.......+..-...+.+..-+..+++.|.. .|.+++++|.... .......+.|+
T Consensus 75 ~~~~~-l~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~gf~ 153 (280)
T cd06303 75 KLIER-VLASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDTFI 153 (280)
T ss_pred HHHHH-HHhCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHHHH
Confidence 33334 3345777665422 222100000112233456666677888888777 7899999997532 23345678888
Q ss_pred HHHhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 181 DKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 181 ~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.+++. ++.+... +... .+..+....++++.+.. +++| ++.+...+..+++++++.|+. .+...+.
T Consensus 154 ~al~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~nd~~A~g~l~al~~~G~~-~dv~vvg 222 (280)
T cd06303 154 DCVHARNNWTLTSE--FYTD--ATRQKAYQATSDILSNNPDVDFI-YACSTDIALGASDALKELGRE-DDILING 222 (280)
T ss_pred HHHHhCCCceEEEe--ecCC--CCHHHHHHHHHHHHHhCCCCcEE-EECCcHHHHHHHHHHHHcCCC-CCcEEEe
Confidence 999887 6654321 2211 12233344555544333 4444 455666777899999999974 3333333
No 135
>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=97.65 E-value=0.0089 Score=60.39 Aligned_cols=206 Identities=7% Similarity=0.003 Sum_probs=117.5
Q ss_pred CceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChH
Q 006918 24 PEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (625)
Q Consensus 24 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~ 102 (625)
...-.||+++|.. ..+-.....+++-+.++ .|+.+.+ .++..++..-.+....+.++++.++|-....
T Consensus 57 ~~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~--------~g~~~~i--~~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~- 125 (329)
T TIGR01481 57 KRTTTVGVIIPDISNIYYAELARGIEDIATM--------YKYNIIL--SNSDEDPEKEVQVLNTLLSKQVDGIIFMGGT- 125 (329)
T ss_pred CCCCEEEEEeCCCCchhHHHHHHHHHHHHHH--------cCCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCC-
Confidence 3457899999853 22222334444444333 1455544 3443444444444555667788777631111
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC--C-CCcchHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--D-QGRNGVTAL 179 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~--~-~g~~~~~~l 179 (625)
....+...+...++|+|......+ ...+++ ...++..-+..+++.|...|.++++++.... . .+....+.|
T Consensus 126 ~~~~~~~~l~~~~iPvV~~~~~~~---~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~Gf 199 (329)
T TIGR01481 126 ITEKLREEFSRSPVPVVLAGTVDK---ENELPS---VNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEGY 199 (329)
T ss_pred CChHHHHHHHhcCCCEEEEecCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHHH
Confidence 112333455667999997654321 122232 3345555567777888788999999997532 2 235677889
Q ss_pred HHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeE
Q 006918 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (625)
Q Consensus 180 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~ 249 (625)
.+.+++.|+.+......... .+..+....++++.+..+++|+. .+...+..+++++++.|+..++-+
T Consensus 200 ~~~l~~~g~~~~~~~~~~~~--~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP~dv 266 (329)
T TIGR01481 200 KEALNKAGIQFGEDLVCEGK--YSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVPEDL 266 (329)
T ss_pred HHHHHHcCCCCCcceEEecC--CChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCce
Confidence 99999988754321111111 11233345566665556776655 445577889999999998655433
No 136
>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=97.65 E-value=0.015 Score=56.73 Aligned_cols=205 Identities=9% Similarity=-0.023 Sum_probs=114.7
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~avi-G~~~s~~~~ 105 (625)
+||+++|... .+-.....+++-+.++. |..+.+.+.++..++..-.+....++.+++.++| .+.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKL--------NPGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHh--------CCCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH
Confidence 4899998642 22223445555555553 2334445556666665555555566777877665 343322222
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecCC-CCcchHHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD-QGRNGVTALGDK 182 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~~-~g~~~~~~l~~~ 182 (625)
.....+...++|+|......+ + .. .....++...++.+++.+... |.++++++..... ......+.+.+.
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 333344567999998754332 1 11 234566666778888888777 9999999976432 234456788888
Q ss_pred Hhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEee
Q 006918 183 LAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 183 l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (625)
+++. +++.... ..... .+...-...++++.+. .++.|+. .+...+..+++++++.|+ .+...+..
T Consensus 146 ~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~--~di~v~g~ 213 (271)
T cd06321 146 LAKYPGIKLLSD-DQNGK--GSRDGGLRVMQGLLTRFPKLDGVFA-INDPTAIGADLAAKQAGR--NDIKITSV 213 (271)
T ss_pred HHhCCCcEEEee-ecCCC--CChhhHHHHHHHHHHhCCCCCEEEE-CCchhHHHHHHHHHHcCC--CCcEEEEe
Confidence 8887 5643211 11111 1122223344444333 3455443 455567778888888886 34444443
No 137
>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=97.64 E-value=0.0058 Score=59.97 Aligned_cols=203 Identities=10% Similarity=0.019 Sum_probs=126.8
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||+++|.-. .+-.....+++.+.++ .|+.+-+ .++..++..- +....+.+++|.++|=.........
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 6999999853 2222334444444443 2666654 4555555555 6666667778888875433333456
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcE-EEEEEecCCC--CcchHHHHHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGE-VIAIFNDDDQ--GRNGVTALGDKL 183 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~-v~ii~~d~~~--g~~~~~~l~~~l 183 (625)
+..+.+. ++|+|......... ..+++.. ..+..-+...++.|...|-++ |+++..+... .....+.+.+++
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 6677667 99999764432111 1233332 345555677888888999999 9999986544 345667899999
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceE-EEEEcchhhHHHHHHHHHHcC-CCCCCeE
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLG-MMDSGYV 249 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-Ivl~~~~~~~~~il~~a~~~g-~~~~~~~ 249 (625)
++.|+++......... .+..+-...++++.+.++++ .|++++...+..+++++.+.| +..+.-+
T Consensus 146 ~~~Gl~~~~~~i~~~~--~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~gr~~ip~di 211 (279)
T PF00532_consen 146 KEAGLPIDEEWIFEGD--FDYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERGRLKIPEDI 211 (279)
T ss_dssp HHTTSCEEEEEEEESS--SSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT-TCTTTEE
T ss_pred HHcCCCCCcccccccC--CCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcCCcccChhh
Confidence 9999866544333322 23455556667776666651 344566677888899999999 7666554
No 138
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.64 E-value=0.019 Score=57.17 Aligned_cols=208 Identities=10% Similarity=0.068 Sum_probs=111.1
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~avi-G~~~s~~~~ 105 (625)
+||++.|... .+-.....+++-+.++. +..+.+.+.+...++..-.+....++.+++.++| .|..+....
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~--------~~g~~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~ 72 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKEN--------GGKVEFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQ 72 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhh--------CCCeeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHH
Confidence 5899998642 22223344555555543 1224445566666776666666677888888765 344443334
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCc-----------EEEEEEecCC--
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWG-----------EVIAIFNDDD-- 170 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~-----------~v~ii~~d~~-- 170 (625)
.....+...++|+|......+...-....-+....++....+...+++|... +-+ .++++..+..
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 4445567789999987543221100111223345566666677777777553 221 2344544322
Q ss_pred CCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC---CceEEEEEcchhhHHHHHHHHHHcCCCCC
Q 006918 171 QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (625)
Q Consensus 171 ~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~~~~~~~~~il~~a~~~g~~~~ 246 (625)
......+.+++.+++.+..+......... .+.+.....++++..+ ..++|+ +.+...+..+++++++.|...+
T Consensus 153 ~~~~R~~gf~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~L~~~~~~~~ai~-~~~d~~a~g~~~al~~~g~~~p 228 (303)
T cd01539 153 DAIARTKYSIETLNDAGIKTEELASDTAN--WDRAQAKDKMDALLLKYGDKIEAVI-ANNDAMALGAIEALQKYGYNKG 228 (303)
T ss_pred hhhhhhhhHHHHHHhcCCCeEEEEeecCC--CCHHHHHHHHHHHHHhcCCCccEEE-ECCchHHHHHHHHHHHcCCCcC
Confidence 22345677888998887654322121111 1223333444554322 245444 4444556678888888887554
No 139
>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=97.63 E-value=0.0067 Score=59.18 Aligned_cols=205 Identities=12% Similarity=0.059 Sum_probs=117.1
Q ss_pred EEEEEeecC--CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHH
Q 006918 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~--~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~ 105 (625)
.||+++|.. ..+-.....+++.+.++ .|+.+.+ .++..++..-.+....+...++.++|-.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~- 69 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAARE--------HGYLLLV--VNTGGDDELEAEAVEALLDHRVDGIIYATMYHRE- 69 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-
Confidence 489999874 33333445566555554 1455543 4444454444445556667788877764322111
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKL 183 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l 183 (625)
+.......++|.+......+. ..+ ....+++...+..+++.+...|-++++++..+.. ......+.|.+.+
T Consensus 70 -~~~~~~~~~ipvv~~~~~~~~---~~~---~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 70 -VTLPPELLSVPTVLLNCYDAD---GAL---PSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred -hHHHHHhcCCCEEEEecccCC---CCC---CeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 122234578999986543221 112 2345667777888888888789999999976432 2345678888888
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEee
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (625)
++.++.+......... .+..+....++++.+. ++++|+ +.+...+..+++++++.|+..++-+.+.+
T Consensus 143 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~vp~di~v~g 211 (269)
T cd06288 143 AEAGIPFDPDLVVHGD--WSADDGYEAAAALLDLDDRPTAIF-CGNDRMAMGAYQALLERGLRIPQDVSVVG 211 (269)
T ss_pred HHcCCCCCHHHeEeCC--CChHHHHHHHHHHHhCCCCCCEEE-EeCcHHHHHHHHHHHHcCCCCcccceEEe
Confidence 8887643211111111 1123333445555433 356554 45556677788999998876555555543
No 140
>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=97.62 E-value=0.01 Score=57.82 Aligned_cols=206 Identities=9% Similarity=-0.037 Sum_probs=115.5
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
.||++.|.. ..+-.....+++-+.++. |+++. +.++..++..-.+....+..+++.+||=.........
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 378898864 333334455565555541 45554 3455556655555666677777776663222222222
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~ 184 (625)
+..+....++|+|......+ +..+++ ...+....+..+++.+...|-++++++..... ......+.|.+.++
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 23333456999998754321 122232 33455556777788888889999999975322 23455678888888
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.|+.+......... .+.......++++.+.. ++.| ++.+...+..+++.+.+.|...++.+-+.
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~vp~di~vv 211 (269)
T cd06275 145 EAGLPVNPGWIVEGD--FECEGGYEAMQRLLAQPKRPTAV-FCGNDLMAMGALCAAQEAGLRVPQDLSII 211 (269)
T ss_pred HcCCCCCHHHhccCC--CChHHHHHHHHHHHcCCCCCcEE-EECChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 887664311111111 12233344555554433 4443 44555667788888888887555444443
No 141
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.61 E-value=0.028 Score=56.72 Aligned_cols=210 Identities=10% Similarity=0.023 Sum_probs=108.3
Q ss_pred CCCceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CC
Q 006918 22 LKPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQ 99 (625)
Q Consensus 22 ~~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~ 99 (625)
...++.+||++.+.. ..+-.....+++-+.++ .+ +..+ .+.++..++....+....+..+++.++|= +.
T Consensus 20 ~~~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~---~g----~~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~ 90 (330)
T PRK15395 20 AAAADTRIGVTIYKYDDNFMSVVRKAIEKDAKA---AP----DVQL--LMNDSQNDQSKQNDQIDVLLAKGVKALAINLV 90 (330)
T ss_pred hhcCCceEEEEEecCcchHHHHHHHHHHHHHHh---cC----CeEE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEecc
Confidence 455789999999853 22212233444333333 22 2333 34555555555555555667778887764 33
Q ss_pred ChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc------------CCcEEEEEEe
Q 006918 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------------GWGEVIAIFN 167 (625)
Q Consensus 100 ~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~------------~W~~v~ii~~ 167 (625)
.+.........+...++|+|.+........-...+-......+....+...++++.+. |-..+++|..
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 3332333334466789999988653211000001112234455555555555544332 3334455544
Q ss_pred cC--CCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC----CceEEEEEcchhhHHHHHHHHHHc
Q 006918 168 DD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM----EARVIVVHGYSRTGLMVFDVAQRL 241 (625)
Q Consensus 168 d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~----~~~vIvl~~~~~~~~~il~~a~~~ 241 (625)
.. .......+.+++.+++.|+.+.... ..... .+...-...++++.++ .+++|+ +++...+..+++++++.
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 32 2233467788888888887654321 21110 1223333455555433 244444 55556677889999988
Q ss_pred CC
Q 006918 242 GM 243 (625)
Q Consensus 242 g~ 243 (625)
|+
T Consensus 248 Gl 249 (330)
T PRK15395 248 NK 249 (330)
T ss_pred CC
Confidence 86
No 142
>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=97.60 E-value=0.01 Score=57.78 Aligned_cols=203 Identities=12% Similarity=0.067 Sum_probs=113.1
Q ss_pred EEEEeecC-----CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCChH
Q 006918 29 VGAIFSFG-----TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQSAV 102 (625)
Q Consensus 29 IG~l~~~~-----~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~-~~v~aviG~~~s~ 102 (625)
||+++|.. ..+......+++.+.++ . |+.+.+...+.. ....+.+.+++. +++.++|......
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~---~-----g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~ 70 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE---H-----GYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRP 70 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH---C-----CceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCC
Confidence 78898863 22222333444333333 1 566665543322 223345556664 4688877533322
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALG 180 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~ 180 (625)
....+ ..+...++|+|.+....+ +..+++ ..+++...+..+++.+...|-++++++..... .+....+.|+
T Consensus 71 ~~~~~-~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 143 (268)
T cd06271 71 DDPRV-ALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYR 143 (268)
T ss_pred CChHH-HHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHH
Confidence 22222 445678999998743322 122343 23456666777888887889999999975432 3445678888
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.+++.|..+.....+... .+.......++++.+. .+++|+. .+...+..+++++.+.|+..++.+-+.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~vp~~i~ii 214 (268)
T cd06271 144 RALAEAGLPLDPALIVSGD--MTEEGGYAAAAELLALPDRPTAIVC-SSELMALGVLAALAEAGLRPGRDVSVV 214 (268)
T ss_pred HHHHHhCCCCCCceEEeCC--CChHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 9998887654221112111 1223334455555333 3555554 445566778899999997655544443
No 143
>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=97.59 E-value=0.02 Score=56.51 Aligned_cols=213 Identities=11% Similarity=0.023 Sum_probs=114.5
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~ 105 (625)
+||+++|... .+-.....+++.+.++. |+++. +.++. ++..-.+....++..++.++|= +..+....
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 5888888532 22233445555555541 55654 44555 5555455556677778877764 32233344
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHH----HcCC--cEEEEEEe-c--CCCCcchH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVS----YFGW--GEVIAIFN-D--DDQGRNGV 176 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~----~~~W--~~v~ii~~-d--~~~g~~~~ 176 (625)
.....+...++|+|......+....+..+.+-....+....+...++++. ..|+ +++++|.. . ........
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 45566778999999874432211100011122344455555555555443 4577 78888752 2 23456678
Q ss_pred HHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceE-EEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARV-IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 177 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~v-Ivl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.+.+.+++.|+............ .+.......++++..+. .+. .|++.+...+..+++++.+.|....+...+.
T Consensus 150 ~G~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig 227 (289)
T cd01540 150 DGALEALKAPGFPEANIFQAPQKT-TDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVG 227 (289)
T ss_pred HHHHHHHhcCCCCcceEecccccC-cchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEe
Confidence 889999988776432111111110 11222233444543333 343 4556666678888899999997632333333
No 144
>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=97.58 E-value=0.013 Score=57.17 Aligned_cols=205 Identities=10% Similarity=0.018 Sum_probs=114.6
Q ss_pred EEEEEeecCCC-CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFGTV-NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~~-~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
.||++.|.... +-.....+++-+.++ . |+.+.+ .++..++..-.+....++.+++.++|-...... ..
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~ 69 (268)
T cd01575 1 LVAVLVPSLSNSVFADVLQGISDVLEA----A----GYQLLL--GNTGYSPEREEELLRTLLSRRPAGLILTGLEHT-ER 69 (268)
T ss_pred CEEEEeCCCcchhHHHHHHHHHHHHHH----c----CCEEEE--ecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCC-HH
Confidence 37899986432 222333455444444 1 455544 444445544455566677778887765222212 22
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~ 184 (625)
....+...++|+|......+ .. .......+....+...++.+...|-+++++|..+.. ......+.+++.++
T Consensus 70 ~~~~~~~~~ipvv~~~~~~~---~~---~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (268)
T cd01575 70 TRQLLRAAGIPVVEIMDLPP---DP---IDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALR 143 (268)
T ss_pred HHHHHHhcCCCEEEEecCCC---CC---CCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHH
Confidence 33345567999997643211 11 112234455667788888888889999999986542 34455678888998
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.|............ .+.......++++.+. .+++|+ +.+...+..+++.+.+.|...++.+-+.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~di~vi 210 (268)
T cd01575 144 AAGLDPPLVVTTPEP--SSFALGRELLAELLARWPDLDAVF-CSNDDLALGALFECQRRGISVPEDIAIA 210 (268)
T ss_pred HcCCCCCceeEeccC--CCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHhCCCCCcceEEE
Confidence 887632211111111 1223344555555433 355555 4445567788888888886545444333
No 145
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.57 E-value=0.026 Score=55.28 Aligned_cols=203 Identities=10% Similarity=-0.005 Sum_probs=113.0
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~ 105 (625)
.||++.|.. ..+-.....+++-+.++..... .| +.+.+.+...++....+....++.+++.+||- |.......
T Consensus 1 ~Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~---~g--~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~ 75 (274)
T cd06311 1 TIGVSIPAADHGWTAGIVWHAQAAAKKLEAAY---PD--VEFILVTASNDTEQQNAQQDLLINRKIDALVILPFESAPLT 75 (274)
T ss_pred CeeeeccCCCCcHHHHHHHHHHHHHHHhhhhC---CC--eEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhH
Confidence 378888753 3222344566666666654332 23 44555666666554444455577778877663 43333222
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecC-CCCcchHHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD-DQGRNGVTALGDK 182 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~-~~g~~~~~~l~~~ 182 (625)
.....+...+||+|......+ +.. .......++....+...++++... +-++++++.... .......+.|.+.
T Consensus 76 ~~i~~~~~~gIpvV~~d~~~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~ 151 (274)
T cd06311 76 QPVAKAKKAGIFVVVVDRGLS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAA 151 (274)
T ss_pred HHHHHHHHCCCeEEEEcCCCC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHH
Confidence 223445678999998754221 110 011234556666677778877665 789999987533 2233456788889
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
+++.++++... .... .+.......++++.+.. .++|+. .+...+..+++++++.|..
T Consensus 152 l~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~ 210 (274)
T cd06311 152 IAKYPIKILDR--QYAN--WNRDDAFSVMQDLLTKFPKIDAVWA-HDDDMAVGVLAAIKQAGRT 210 (274)
T ss_pred HhhCCcEEEec--cCCC--CcHHHHHHHHHHHHHhCCCcCEEEE-CCCcHHHHHHHHHHHcCCC
Confidence 98888665432 2111 12233334444443333 455443 3444567788888888864
No 146
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=97.57 E-value=0.013 Score=56.68 Aligned_cols=200 Identities=13% Similarity=0.055 Sum_probs=119.8
Q ss_pred EEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 29 IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
||+++|.- +.+-.....+++.+.++. |+++.+ .++..++..-.+...++.++++.++|....... ..+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~ 70 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN--------GYQMLL--MNTNFSIEKEIEALELLARQKVDGIILLATTIT-DEH 70 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC--------CCEEEE--EeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHH
Confidence 78888853 333234556666666542 556543 455556666666677777888888886433222 234
Q ss_pred HHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEec-C--CCCcchHHHHHHHHh
Q 006918 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND-D--DQGRNGVTALGDKLA 184 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d-~--~~g~~~~~~l~~~l~ 184 (625)
...+...++|+|..+...+ ..+ ...++....+..+++.+..-|-++++++... . ..+....+.|++.++
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 4555667899998754221 122 2445666778888888888889999998643 2 223456788889998
Q ss_pred ccce-EEEEeeecCCCCCCChhHHHHHHHHHhcCC-ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEee
Q 006918 185 EIRC-KISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 185 ~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~-~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (625)
+.|. .+.. ..-. .+.......+.++.+.. +++|+. .+...+..+++.+.+.|+..++.+.+.+
T Consensus 143 ~~~~~~~~~-~~~~----~~~~~~~~~~~~~l~~~~~~~i~~-~~d~~a~g~~~~l~~~g~~vp~di~v~g 207 (259)
T cd01542 143 EHGICPPNI-VETD----FSYESAYEAAQELLEPQPPDAIVC-ATDTIALGAMKYLQELGRRIPEDISVAG 207 (259)
T ss_pred HcCCChHHe-eecc----CchhhHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 8886 2111 0111 11223334454544343 555544 4456677888888988886655555553
No 147
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.56 E-value=0.029 Score=56.57 Aligned_cols=203 Identities=8% Similarity=-0.034 Sum_probs=116.0
Q ss_pred CCceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh
Q 006918 23 KPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA 101 (625)
Q Consensus 23 ~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s 101 (625)
.++..+||++.|.. +.+......+++-+.++. |+.+.+ .++..++..-.+....++++++.++|=....
T Consensus 22 ~~~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~--------g~~l~i--~~~~~~~~~~~~~i~~l~~~~vDGiIi~~~~ 91 (330)
T PRK10355 22 HAKEVKIGMAIDDLRLERWQKDRDIFVKKAESL--------GAKVFV--QSANGNEETQMSQIENMINRGVDVLVIIPYN 91 (330)
T ss_pred cCCCceEEEEecCCCchHHHHHHHHHHHHHHHc--------CCEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEeCCC
Confidence 34689999999853 333334455555555442 455554 5565566665566667778888887643222
Q ss_pred -HHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC---CCCcchHH
Q 006918 102 -VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD---DQGRNGVT 177 (625)
Q Consensus 102 -~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~---~~g~~~~~ 177 (625)
.........+...++|+|...... .... ......+++...+..+++.|...|-++++++.... .......+
T Consensus 92 ~~~~~~~l~~~~~~~iPvV~id~~~---~~~~--~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~~R~~ 166 (330)
T PRK10355 92 GQVLSNVIKEAKQEGIKVLAYDRMI---NNAD--IDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNAKLFRA 166 (330)
T ss_pred hhhHHHHHHHHHHCCCeEEEECCCC---CCCC--ccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccHHHHHH
Confidence 222233345567789999874422 1111 11246667777888889998877878877655322 22344567
Q ss_pred HHHHHHhcc---c-eEEEEeeecCCCCCCChhHHHHHHHHHh-c--CCceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 178 ALGDKLAEI---R-CKISYKSALPPDQSVTETDVRNELVKVR-M--MEARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 178 ~l~~~l~~~---g-~~v~~~~~~~~~~~~~~~~~~~~l~~i~-~--~~~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
.+++.+++. | +.+....... . .+..+....++++. + ..+++ |++.+...+..+++.+.+.|+.
T Consensus 167 gf~~~l~~~~~~~~i~~~~~~~~~-~--~~~~~~~~~~~~lL~~~~~~~~a-I~~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 167 GQMKVLKPYIDSGKIKVVGDQWVD-G--WLPENALKIMENALTANNNKIDA-VVASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHHhhhccCCCeEEecccCCC-C--CCHHHHHHHHHHHHHhCCCCccE-EEECCCchHHHHHHHHHHCCCC
Confidence 777777753 4 4432211111 1 11223334444443 2 23554 4455566677889999998865
No 148
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.51 E-value=0.026 Score=55.02 Aligned_cols=205 Identities=11% Similarity=0.004 Sum_probs=114.5
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||++.|.. ..+-.....+++-+.++ .|+++.+. ++..++..-.+....+...++.++|--.+......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~--------~gy~v~~~--~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADA--------RGLSLVLC--ATRNRPERELTYLRWLDTNHVDGLIFVTNRPDDGA 70 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHH
Confidence 478898853 32222334444444443 15666543 33345544444555566668888875332212223
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~ 184 (625)
+..+. ..++|+|......+ +...+ ...+++...+..+++.|...|-+++++|..+.. ......+.|++.++
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~---~~~~~---~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVP---GAKVP---KVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHH-hcCCCEEEECCCCC---CCCCC---EEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 33333 34799998754322 11122 344667777888888888889999999975433 23345688999998
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.|..+......... .+.......+.++.+. .+++|+. ++...+..+++.+.+.|...++-+-|.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~vp~di~i~ 210 (269)
T cd06293 144 EAHIPEVPEYVCFGD--YTREFGRAAAAQLLARGDPPTAIFA-ASDEIAIGLLEVLRERGLSIPGDMSLV 210 (269)
T ss_pred HcCCCCChheEEecC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEE
Confidence 887643211111111 1123333455554332 3565544 455667788899999887655545444
No 149
>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=97.50 E-value=0.031 Score=54.25 Aligned_cols=203 Identities=10% Similarity=0.046 Sum_probs=112.8
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
.||+++|... ..-.....+++-+.++ . |+.+.+...+. .++..-.+....++++++.++|--........
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~----~----~~~~~~~~~~~-~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAARE----A----GYAVTLSMLAE-ADEEALRAAVRRLLAQRVDGVIVNAPLDDADA 71 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHH----C----CCeEEEEeCCC-CchHHHHHHHHHHHhcCCCEEEEeCCCCChHH
Confidence 4889998642 2222334444444444 1 56665543222 23344444455566778888873222222223
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCC--CcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~--g~~~~~~l~~~l~ 184 (625)
+.. ....++|+|....... ...+ ....+....+..+++.+...|-++|+++..+... .....+.|.+.++
T Consensus 72 ~~~-~~~~~ipvv~~~~~~~----~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (264)
T cd01574 72 ALA-AAPADVPVVFVDGSPS----PRVS---TVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAALE 143 (264)
T ss_pred HHH-HHhcCCCEEEEeccCC----CCCC---EEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHHH
Confidence 333 3467899998754321 1122 3445566678888888888899999999754332 2345677888888
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC-ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~-~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.|+.+... +... .+.......++++.++. +++|+ +.+...+..+++++.+.|...++.+-+.
T Consensus 144 ~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~ai~-~~~d~~a~g~~~~~~~~g~~ip~~i~ii 207 (264)
T cd01574 144 AAGIAPPPV--LEGD--WSAESGYRAGRELLREGDPTAVF-AANDQMALGVLRALHELGLRVPDDVSVV 207 (264)
T ss_pred HCCCCccee--eecC--CCHHHHHHHHHHHHhCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCccceEEe
Confidence 777765422 1111 12233344555554333 45544 4455667788888888886544444433
No 150
>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=97.50 E-value=0.018 Score=56.03 Aligned_cols=198 Identities=10% Similarity=0.044 Sum_probs=113.0
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
.||+++|.. ..+-.....++.-+.++. |+++. +.++..++..-.+....+.++++.++|=..+......
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~--------~~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~ 70 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER--------GYSTF--VANTGDNPDAQRRAIEMLLDRRVDGLILGDARSDDHF 70 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 479999863 222223344444444431 45553 4455556555555555667778887763222222233
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~ 184 (625)
+ ..+...++|++......+ .+++ ...+...-+...++.|...|-++++++..+.. ......+.|.+.++
T Consensus 71 ~-~~~~~~~iPvv~~~~~~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 141 (265)
T cd06285 71 L-DELTRRGVPFVLVLRHAG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAALA 141 (265)
T ss_pred H-HHHHHcCCCEEEEccCCC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3 345667999998754321 1232 33455566777888888889999999976432 34456788888888
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCC
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 247 (625)
+.|+.+.....+... .+.......++++.+. .++. |++.+...+..+++.+++.|+..++
T Consensus 142 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~~p~ 203 (265)
T cd06285 142 EAGIEVPPERIVYSG--FDIEGGEAAAEKLLRSDSPPTA-IFAVNDFAAIGVMGAARDRGLRVPD 203 (265)
T ss_pred HcCCCCChhhEEeCC--CCHHHHHHHHHHHHcCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCc
Confidence 888754221111111 1223333455555433 2444 4445566777899999999875443
No 151
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=97.50 E-value=0.037 Score=53.98 Aligned_cols=207 Identities=11% Similarity=0.122 Sum_probs=115.3
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~ 105 (625)
+||++.|... .+-.....+++-+.++ .. |+++. +.++..++..-.+....++.+++.+||= +.......
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~---~~----g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASN---YP----DVELI--IADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHh---cC----CcEEE--EEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 4888888532 2112223333333222 21 45554 4455556665566666677778776653 33322222
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecCCC--CcchHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTALGD 181 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~~~--g~~~~~~l~~ 181 (625)
.....+...++|++.+.... .+. ........++...+...++.+... |-++++++...... .....+.+.+
T Consensus 72 ~~~~~~~~~~ipvV~~~~~~---~~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 72 PVVEEAYRAGIPVILLDRKI---LSD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHHHCCCCEEEeCCCC---CCc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 22333456899999875322 111 122335566777788888888775 88999999753322 3345788888
Q ss_pred HHhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeC
Q 006918 182 KLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (625)
Q Consensus 182 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (625)
.+++. |+++.... ... .+.......++++.++ ++++| ++.+...+..+++++.+.|+. .+...+..+
T Consensus 147 ~l~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d 216 (270)
T cd06308 147 ALSKYPKIKIVAQQ--DGD--WLKEKAEEKMEELLQANPDIDLV-YAHNDPMALGAYLAAKRAGRE-KEIKFIGID 216 (270)
T ss_pred HHHHCCCCEEEEec--CCC--ccHHHHHHHHHHHHHhCCCCcEE-EeCCcHHHHHHHHHHHHcCCC-CCcEEEEec
Confidence 99988 87654321 111 1122223344444322 35544 445566777889999999976 444444443
No 152
>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=97.49 E-value=0.048 Score=54.00 Aligned_cols=203 Identities=11% Similarity=0.045 Sum_probs=112.5
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~~ 106 (625)
|||+++|... ......+..++++.-++. |+++.+. .++..++..-.+....++.+++.+||= +........
T Consensus 1 ~i~~i~~~~~---~~~~~~~~~gi~~~a~~~----g~~~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~ 72 (294)
T cd06316 1 KAAIVMHTSG---SDWSNAQVRGAKDEFAKL----GIEVVAT-TDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAA 72 (294)
T ss_pred CeEEEecCCC---ChHHHHHHHHHHHHHHHc----CCEEEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhH
Confidence 5888887532 133444444444433332 5666432 345556666666666777778877653 433222233
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecCCC--CcchHHHHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTALGDK 182 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~~~--g~~~~~~l~~~ 182 (625)
....+...++|+|.+....+..... -+++.....+....+..+++++... |-++++++..+.+. .....+.+.+.
T Consensus 73 ~i~~~~~~~iPvV~~~~~~~~~~~~-~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~ 151 (294)
T cd06316 73 AYKKVAEAGIKLVFMDNVPSGLEHG-KDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKET 151 (294)
T ss_pred HHHHHHHcCCcEEEecCCCcccccC-cceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHH
Confidence 3345667899999875443222110 1223334556666678888888766 78999999764332 33456778888
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCC
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
+++.+..+....... . .+.......++++.+. .++.|+ +.+...+..+++.+++.|+
T Consensus 152 l~~~~~~~~~~~~~~-~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~ 210 (294)
T cd06316 152 IKKNYPDITIVAEKG-I--DGPSKAEDIANAMLTQNPDLKGIY-AVWDVPAEGVIAALRAAGR 210 (294)
T ss_pred HHHhCCCcEEEeecC-C--cchhHHHHHHHHHHHhCCCeeEEE-eCCCchhHHHHHHHHHcCC
Confidence 876653222111111 1 1112223344444332 345444 4455678889999999886
No 153
>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=97.49 E-value=0.024 Score=55.31 Aligned_cols=202 Identities=13% Similarity=0.014 Sum_probs=115.3
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
.||+++|.. ..+-.....+++.+.++. |+++.+. ++..++..-.+....++++++.+||--.+......
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~--~~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~~ 70 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA--------GKHLIIT--AGHHSAEKEREAIEFLLERRCDALILHSKALSDDE 70 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC--------CCEEEEE--eCCCchHHHHHHHHHHHHcCCCEEEEecCCCCHHH
Confidence 488999863 333334455665555552 4566543 33444444445555667778887775322211111
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~ 184 (625)
-..+...++|+|......+ ...+++ ...+....+..+++.+...|-+++++|..+.. ......+.|.+.++
T Consensus 71 -~~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 71 -LIELAAQVPPLVLINRHIP---GLADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred -HHHHhhCCCCEEEEeccCC---CCCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3334567999998754322 111222 34566667888888888889999999975432 22345677888888
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeE
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~ 249 (625)
+.|+.+.....+... .+..+....++++.+++ +++|+ +.+...+..+++.+++.|+..++-+
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~di 207 (268)
T cd06270 144 EAGIALDESLIIEGD--FTEEGGYAAMQELLARGAPFTAVF-CANDEMAAGAISALREHGISVPQDV 207 (268)
T ss_pred HcCCCCCcceEEECC--CCHHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCce
Confidence 887654211111111 12334445555554443 45444 4445566778889988887654433
No 154
>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=97.49 E-value=0.029 Score=56.01 Aligned_cols=208 Identities=19% Similarity=0.146 Sum_probs=117.4
Q ss_pred EEEEeecC-C-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CcEEEEcCCChHHH
Q 006918 29 VGAIFSFG-T-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET--DTLAIVGPQSAVMA 104 (625)
Q Consensus 29 IG~l~~~~-~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~--~v~aviG~~~s~~~ 104 (625)
||+++|.. . .+-.....+++.+.++. |+.+.+ .++..+...-......++++ ++.+||=...+...
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~--------g~~v~~--~~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~ 71 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL--------GIELEV--LYAERDRFLMLQQARTILQRPDKPDALIFTNEKSVA 71 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc--------CCeEEE--EeCCCCHHHHHHHHHHHHHhccCCCEEEEcCCccch
Confidence 78888764 2 22223344454444431 555544 34555666666677778888 89887642222223
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCC-----C--CCCC-ceEEccCchHHHHHHHHHHHHHcCCcE--------EEEEEec
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLS-----P--LQYP-FFVQTAPNDLYLMSAIAEMVSYFGWGE--------VIAIFND 168 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls-----~--~~~~-~~~r~~ps~~~~~~al~~ll~~~~W~~--------v~ii~~d 168 (625)
......+...++|+|.+....+... + ..+. ++-...++....++.+++.|...|-++ ++++...
T Consensus 72 ~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~ 151 (305)
T cd06324 72 PELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISGD 151 (305)
T ss_pred HHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCC
Confidence 3334556678999998764432111 0 1122 234456777777888888887777664 7767643
Q ss_pred C--CCCcchHHHHHHHHhccc-eEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCC
Q 006918 169 D--DQGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 169 ~--~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
. .......+.|++.+++.| ..+.. .+... .+.......++++.+. +.+.|+ +.+...+..+++++++.|+
T Consensus 152 ~~~~~~~~R~~Gf~~~~~~~g~~~~~~--~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~ 226 (305)
T cd06324 152 PTTPAAILREAGLRRALAEHPDVRLRQ--VVYAG--WSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAGR 226 (305)
T ss_pred CCChHHHHHHHHHHHHHHHCCCceEee--eecCC--CCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcCC
Confidence 2 223456778888998887 33321 12211 1233334455554433 345544 4555667789999999997
Q ss_pred CCCCeEEE
Q 006918 244 MDSGYVWI 251 (625)
Q Consensus 244 ~~~~~~~i 251 (625)
..++.+-+
T Consensus 227 ~vp~di~v 234 (305)
T cd06324 227 KPGRDVLF 234 (305)
T ss_pred CcCCCEEE
Confidence 65443433
No 155
>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=97.49 E-value=0.065 Score=52.14 Aligned_cols=195 Identities=15% Similarity=0.079 Sum_probs=111.6
Q ss_pred EEEEEeecCCC-CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHH
Q 006918 28 NVGAIFSFGTV-NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~~-~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~ 105 (625)
.||+++|.... +-.....+++-+.++ . |+++. +.++..++....+....++++++.++|- +.......
T Consensus 1 ~i~~~~~~~~~~~~~~~~~~i~~~~~~----~----g~~~~--i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~ 70 (267)
T cd06322 1 VIGASLLTQQHPFYIELANAMKEEAKK----Q----KVNLI--VSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIR 70 (267)
T ss_pred CeeEeecCcccHHHHHHHHHHHHHHHh----c----CCEEE--EecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhH
Confidence 37888886432 111223444333332 1 45553 4566666666666777778888888875 44333223
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecC-CCCcchHHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD-DQGRNGVTALGDK 182 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~-~~g~~~~~~l~~~ 182 (625)
.....+...++|+|.+....+ + .+.+....+.....+...++++... |-+++++++..+ .......+.+++.
T Consensus 71 ~~~~~~~~~~ipvV~~~~~~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~ 145 (267)
T cd06322 71 AAIAKAKKAGIPVITVDIAAE---G--VAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEA 145 (267)
T ss_pred HHHHHHHHCCCCEEEEcccCC---C--CceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHH
Confidence 333445678999998743211 1 1222335556666677777877665 788999997532 2234556888889
Q ss_pred Hhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCC
Q 006918 183 LAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 183 l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
+++. |+.+... ... ...+.....++++.+. ++++| ++.+...+..+++++.+.|.
T Consensus 146 ~~~~~~~~~~~~---~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 146 LADYPNIKIVAV---QPG--ITRAEALTAAQNILQANPDLDGI-FAFGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HHhCCCcEEEEe---cCC--CChHHHHHHHHHHHHhCCCCCEE-EEcCCcHHHHHHHHHHHCCC
Confidence 9888 8776321 111 1122333444444332 34544 34445566778888888886
No 156
>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=97.47 E-value=0.011 Score=57.67 Aligned_cols=202 Identities=9% Similarity=-0.022 Sum_probs=114.8
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||+++|.. ..+-.....+++.+.++. |+.+. +.++..++....+....+..+++.++|--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA--------GYSLL--IANSLNDPERELEILRSFEQRRMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHH
Confidence 489999853 333334456665555552 45544 4456556655555555666678887775322222234
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~ 184 (625)
+...+...++|+|......+ . ..++ ...+...-+...++.+...|-++++++..... .+....+.+.+.++
T Consensus 71 ~~~~~~~~~ipvV~i~~~~~--~--~~~~---V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 71 LVDALASLDLPIVLLDRDMG--G--GADA---VLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHHHhCCCCEEEEecccC--C--CCCE---EEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 45566678999998754432 1 1222 23334444566677777779999999975332 23345678888998
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEE
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 250 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~ 250 (625)
+.|+.+.....+... . .......+.++.+ ..+++|+ +.+...+..+++.+.+.|+..++.+-
T Consensus 144 ~~~~~~~~~~~~~~~--~-~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~dv~ 207 (269)
T cd06281 144 AAGLPPDPALVRLST--P-AASGFDATRALLALPDRPTAII-AGGTQVLVGVLRALREAGLRIPRDLS 207 (269)
T ss_pred HcCCCCCHHHeecCc--H-HHHHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCccee
Confidence 888654211111111 1 2222344444433 2356665 44555666788899898876554443
No 157
>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=97.46 E-value=0.029 Score=54.50 Aligned_cols=205 Identities=9% Similarity=0.018 Sum_probs=116.2
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
.||++.|.. ..+-.....+++-|.++. |+.+. +.+...++..-.+....++++++.+||-.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~ 70 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAH--------GYQVL--VCNSDNDPEKEKEYLESLLAYQVDGLIVNPTGNNKEL 70 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCcCEEEEeCCCCChHH
Confidence 378888864 223234455665555542 45553 3445455555455556677778877764222222223
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC-C--CcchHHHHHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-Q--GRNGVTALGDKL 183 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~-~--g~~~~~~l~~~l 183 (625)
+ ..+...++|+|......+ ....++ ...++...+..+++.+...|-++++++..... . .....+.+++.+
T Consensus 71 l-~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 71 Y-QRLAKNGKPVVLVDRKIP---ELGVDT---VTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred H-HHHhcCCCCEEEEcCCCC---CCCCCE---EEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3 335667999998754322 112222 33455666788888888889999999975432 1 124567888888
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
++.|............ .+..+....++++.++. ++.|+. .+...+..+++.+.+.|+..++.+-+.
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~di~v~ 211 (267)
T cd06283 144 AEHGIGVNEELIEIDD--EDADELDERLRQLLNKPKKKTAIFA-ANGLILLEVLKALKELGIRIPEDVGLI 211 (267)
T ss_pred HHcCCCCCcceeEecc--cchHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEE
Confidence 8877432111111111 12334456666665443 454444 445566778889989997655444443
No 158
>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=97.45 E-value=0.035 Score=54.18 Aligned_cols=194 Identities=11% Similarity=-0.022 Sum_probs=112.1
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC--CChHHHHHHHHHHHhcCcEEEEc-CCChHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK--FNGFLSIMGALQFMETDTLAIVG-PQSAVM 103 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~--~~~~~a~~~~~~l~~~~v~aviG-~~~s~~ 103 (625)
+||+++|.. ..+-.....+++.+.++. |+++.+ .+.. .+...-.+....+++.++.+||- +.....
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~~--~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~ 70 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL--------GVSLKL--LEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDG 70 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc--------CCEEEE--ecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhh
Confidence 589999863 222223445565555542 455544 4433 23344445566677778887764 332222
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCC-----cEEEEEEecCC--CCcchH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGW-----GEVIAIFNDDD--QGRNGV 176 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W-----~~v~ii~~d~~--~g~~~~ 176 (625)
...+ ..+...++|+|....... +. ........++...+..+++.+.+.+- ++++++..... ......
T Consensus 71 ~~~~-~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~ 144 (268)
T cd06306 71 LNEI-LQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVE 144 (268)
T ss_pred HHHH-HHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHH
Confidence 2223 345678999998643211 11 11223456666677888888877665 89999975432 345567
Q ss_pred HHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCC
Q 006918 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 177 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
+.+++.+++.++++... .... .+.......++++.+. ++++|+. ....+..+++.+++.|+
T Consensus 145 ~g~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~ 207 (268)
T cd06306 145 KGFRDALAGSAIEISAI--KYGD--TGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGL 207 (268)
T ss_pred HHHHHHHhhcCcEEeee--ccCC--ccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCC
Confidence 88899999888876532 1111 1233334455554333 4566653 36667788888888886
No 159
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.45 E-value=0.079 Score=53.29 Aligned_cols=216 Identities=12% Similarity=0.085 Sum_probs=128.8
Q ss_pred CCCceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCC
Q 006918 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQS 100 (625)
Q Consensus 22 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~avi-G~~~ 100 (625)
+.....+||.+.+.... .+..++..++++--+.- |....+...|...++..-++...+++.+++.+|+ .|.+
T Consensus 29 a~~~~~~i~~~~~~~~~---~f~~~~~~g~~~~a~~~----g~~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d 101 (322)
T COG1879 29 AAAAGKTIGVVVPTLGN---PFFQAVRKGAEAAAKKL----GVVVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVD 101 (322)
T ss_pred HhccCceEEEEeccCCC---hHHHHHHHHHHHHHHHc----CCcEEEEecccccChHHHHHHHHHHHHcCCCEEEEcCCC
Confidence 33445889999887532 34455555555443332 2356666777778888888888888989997765 6888
Q ss_pred hHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHH-cC-CcEEEEEEecC--CCCcchH
Q 006918 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FG-WGEVIAIFNDD--DQGRNGV 176 (625)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~-~~-W~~v~ii~~d~--~~g~~~~ 176 (625)
+........-+...+||+|.+....+.- . .............+...++.+.+ ++ .-++.++.... .......
T Consensus 102 ~~~~~~~v~~a~~aGIpVv~~d~~~~~~--~--~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~ 177 (322)
T COG1879 102 PDALTPAVKKAKAAGIPVVTVDSDIPGP--G--DRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERV 177 (322)
T ss_pred hhhhHHHHHHHHHCCCcEEEEecCCCCC--C--ceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHH
Confidence 8888888888899999999875543321 1 11222223445555666666544 33 24466665433 3344567
Q ss_pred HHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 177 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.+.+.+++.+.++......... .+.+.-......+-.+.+++-.+++.. ..+.-..+++++.|... .+.+.
T Consensus 178 ~G~~~~l~~~~~~~~v~~~~~~~--~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~--~v~v~ 250 (322)
T COG1879 178 KGFRDALKEHPPDIEVVDVQTGD--WDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG--DVVVV 250 (322)
T ss_pred hhHHHHHHhCCCcEEEeeccCCc--ccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC--ceEEE
Confidence 88899999887432222222222 224444455566666677765555544 44445556666677544 44444
No 160
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.44 E-value=0.027 Score=57.23 Aligned_cols=204 Identities=10% Similarity=0.029 Sum_probs=114.8
Q ss_pred CceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChH
Q 006918 24 PEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (625)
Q Consensus 24 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~ 102 (625)
...-.||+++|.. ..+-.....+++-+.++ . |+.+-+ .++..++....+....++.+++.+||-.....
T Consensus 62 ~~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~---~-----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~ 131 (342)
T PRK10014 62 GQSGVIGLIVRDLSAPFYAELTAGLTEALEA---Q-----GRMVFL--LQGGKDGEQLAQRFSTLLNQGVDGVVIAGAAG 131 (342)
T ss_pred CCCCEEEEEeCCCccchHHHHHHHHHHHHHH---c-----CCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCC
Confidence 3456899999863 22222334444444433 2 444433 34444554444555566677888777422222
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALG 180 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~ 180 (625)
........+...++|+|...... ....+++ ...++...+..+++.|...|.+++++|..+.. ......+.+.
T Consensus 132 ~~~~~~~~l~~~~iPvV~~~~~~---~~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~ 205 (342)
T PRK10014 132 SSDDLREMAEEKGIPVVFASRAS---YLDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYC 205 (342)
T ss_pred CcHHHHHHHhhcCCCEEEEecCC---CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHH
Confidence 22334455567899999864321 1122232 34556666777888888889999999975432 2234567889
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCC
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~ 246 (625)
+.+++.|+.+.....+... .........++++.+.. ++.|+ +.+...+..+++.+.+.|+..+
T Consensus 206 ~al~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 206 ATLLKFGLPFHSEWVLECT--SSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHHcCCCCCcceEecCC--CChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 9999888754321111111 11223334455544333 45544 5556677788888888887544
No 161
>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=97.44 E-value=0.022 Score=55.78 Aligned_cols=207 Identities=11% Similarity=0.067 Sum_probs=111.4
Q ss_pred eEEEEEEeecCC----CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEc-CC
Q 006918 26 VLNVGAIFSFGT----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFM-ETDTLAIVG-PQ 99 (625)
Q Consensus 26 ~i~IG~l~~~~~----~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~-~~~v~aviG-~~ 99 (625)
.=.||++.|... .........+.-++++.-+.. |+++.+...+. + . .+.+.+.+ .+++.+||- +.
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~----g~~~~v~~~~~--~--~-~~~~~~~l~~~~~dgiii~~~ 73 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAER----GYDLLLSFVSS--P--D-RDWLARYLASGRADGVILIGQ 73 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHc----CCEEEEEeCCc--h--h-HHHHHHHHHhCCCCEEEEeCC
Confidence 346899998622 112223333333333332222 56666544332 2 1 23344444 457877763 22
Q ss_pred ChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHH
Q 006918 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVT 177 (625)
Q Consensus 100 ~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~ 177 (625)
... ... ...+...++|+|..+...+ +..+ ....+++...+...++.+...|.++++++..+.. .+....+
T Consensus 74 ~~~-~~~-~~~~~~~~ipvV~~~~~~~---~~~~---~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~r~~ 145 (275)
T cd06295 74 HDQ-DPL-PERLAETGLPFVVWGRPLP---GQPY---CYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEERLE 145 (275)
T ss_pred CCC-hHH-HHHHHhCCCCEEEECCccC---CCCC---CEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHHHHH
Confidence 212 122 3445678999998754322 1222 3344566677888888888889999999975432 3445678
Q ss_pred HHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 178 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
.|.+.+++.|..+......... .+.......++++.+++ ++.|+.. +...+..+++.+++.|+..++.+.+.
T Consensus 146 gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~~ip~~i~ii 219 (275)
T cd06295 146 GYREALAEAGLPLDPRLVAPGD--FTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGRRVPEDVAVV 219 (275)
T ss_pred HHHHHHHHcCCCCChhhEEecc--CCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCCCCccceEEE
Confidence 8899998887543211111111 11223334454443333 4555544 44556778888888887544444443
No 162
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.44 E-value=0.093 Score=52.99 Aligned_cols=198 Identities=12% Similarity=-0.014 Sum_probs=104.0
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~ 105 (625)
+|+.+.... ..+-.....+++-+.++. |+++.+. ..+..+...-.+....++.+++.+|+- |.......
T Consensus 25 ~i~~v~k~~~~pf~~~~~~Gi~~aa~~~--------G~~v~~~-~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~ 95 (336)
T PRK15408 25 RIAFIPKLVGVGFFTSGGNGAKEAGKEL--------GVDVTYD-GPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLC 95 (336)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHh--------CCEEEEE-CCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHH
Confidence 788887643 222223445555555542 5666542 223345555556677788888887765 44444444
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHH-c--CCcEEEEEEecCCC--CcchHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-F--GWGEVIAIFNDDDQ--GRNGVTALG 180 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~-~--~W~~v~ii~~d~~~--g~~~~~~l~ 180 (625)
....-+...+||+|++.+..+. +. ..++-..-++...+..+++++.+ . +-.+++++...... .....+.+.
T Consensus 96 ~~l~~a~~~gIpVV~~d~~~~~--~~--~~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g~~ 171 (336)
T PRK15408 96 PALKRAMQRGVKVLTWDSDTKP--EC--RSYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKEAK 171 (336)
T ss_pred HHHHHHHHCCCeEEEeCCCCCC--cc--ceEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHHHH
Confidence 5555677889999987543221 11 11111112234566666677655 2 45688888753221 122345566
Q ss_pred HHHhcc--ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCce--EEEEEcchhhHHHHHHHHHHcCC
Q 006918 181 DKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEAR--VIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 181 ~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~--vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
+.+.+. +++++... .. . .+...-...++++.++.++ .|+.. +...+...++++++.|+
T Consensus 172 ~~l~~~~p~~~vv~~~-~~-~--~d~~~a~~~~~~lL~~~pdi~aI~~~-~~~~~~Ga~~Al~~~g~ 233 (336)
T PRK15408 172 AKIAKEHPGWEIVTTQ-FG-Y--NDATKSLQTAEGILKAYPDLDAIIAP-DANALPAAAQAAENLKR 233 (336)
T ss_pred HHHHhhCCCCEEEeec-CC-C--CcHHHHHHHHHHHHHHCCCCcEEEEC-CCccHHHHHHHHHhCCC
Confidence 666443 55654321 11 1 1233333455555444554 44433 33333457777777775
No 163
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=97.43 E-value=0.022 Score=55.41 Aligned_cols=205 Identities=13% Similarity=0.052 Sum_probs=114.2
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||+++|.. ..+-.....+++-+.++. |+.+.+ .++..++..-.+....++..++.+||-.........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~ 70 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA--------GYSTII--GNSDENPETENRYLDNLLSQRVDGIIVVPHEQSAEQ 70 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc--------CCEEEE--EeCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCChHH
Confidence 489999863 333334455665555542 454443 344445554445555667778887774322222223
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~ 184 (625)
...+...++|+|......+ ...++++ ..+....+..+++.+...|-++|+++..... ......+.|.+.++
T Consensus 71 -~~~l~~~~ipvV~~~~~~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 71 -LEDLLKRGIPVVFVDREIT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred -HHHHHhCCCCEEEEecccC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 3444567999998754322 1223332 2233444555667777779999999965432 23455678888988
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.|..+......... .........++++.+.+++.|+ +.+...+..+++.+++.|+..++-+.+.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~av~-~~~d~~a~gv~~al~~~g~~vp~dv~v~ 208 (265)
T cd06299 144 SLGLEVNEDLVVLGG--YSQESGYAGATKLLDQGATAII-AGDSMMTIGAIRAIHDAGLVIGEDISLI 208 (265)
T ss_pred HCCCCCChHhEEecC--cchHHHHHHHHHHHcCCCCEEE-EcCcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 887543211111111 1122334455555444466544 4555567788888888887655444443
No 164
>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=97.41 E-value=0.049 Score=53.81 Aligned_cols=199 Identities=10% Similarity=0.069 Sum_probs=109.9
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~ 105 (625)
+||+++|.. ..+-.....+++-+.++. |+.+. +.++..++..-.+...+++.+++.+||- +..+....
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 489999863 222223344554444441 44544 4556666666566666777888887764 33333233
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc------CCcEEEEEEecCC--CCcchHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------GWGEVIAIFNDDD--QGRNGVT 177 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~------~W~~v~ii~~d~~--~g~~~~~ 177 (625)
.....+...++|+|......+. ....+. ...+....+..+++.|... |-++++++..+.. ......+
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 3444456789999987544321 112222 2344555566666666555 8889999875432 2334567
Q ss_pred HHHHHHhccc----eEEEEeeecCCCCCCChhHHHHHHHHHhcCC---ceEEEEEcchhhHHHHHHHHHHcCCCC
Q 006918 178 ALGDKLAEIR----CKISYKSALPPDQSVTETDVRNELVKVRMME---ARVIVVHGYSRTGLMVFDVAQRLGMMD 245 (625)
Q Consensus 178 ~l~~~l~~~g----~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~---~~vIvl~~~~~~~~~il~~a~~~g~~~ 245 (625)
.|.+.+++.+ +.+... ..... .+.......++++.++. +++|+ +.+...+..+++++++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~~~I~-~~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGE-VATPD--WDPETAQKRMENALTANYNKVDGVL-AANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEec-cccCC--CCHHHHHHHHHHHHHhCCCCccEEE-eCCcHHHHHHHHHHHHcCCCC
Confidence 7888888887 443321 11111 11222334444543332 34443 444566777888888888654
No 165
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.40 E-value=0.026 Score=57.34 Aligned_cols=209 Identities=10% Similarity=0.011 Sum_probs=115.8
Q ss_pred ceEEEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHH
Q 006918 25 EVLNVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (625)
Q Consensus 25 ~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~ 103 (625)
..-+||+++|... .+-.....+++-+.++. |+.+. +.++..++..-.+....+..+++.++|-......
T Consensus 58 ~~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~ 127 (341)
T PRK10703 58 HTKSIGLLATSSEAPYFAEIIEAVEKNCYQK--------GYTLI--LCNAWNNLEKQRAYLSMLAQKRVDGLLVMCSEYP 127 (341)
T ss_pred CCCeEEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCC
Confidence 4468999998742 22223344444444431 44443 3444555555555566667778887763221112
Q ss_pred HHHHHHhhhc-CCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEec--CCCCcchHHHHH
Q 006918 104 AHVLSHLANE-LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALG 180 (625)
Q Consensus 104 ~~~va~~~~~-~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d--~~~g~~~~~~l~ 180 (625)
...+ ..+.. .++|+|......+ +..+..+ ..++....+...++.|...|-+++++|..+ ........+.|.
T Consensus 128 ~~~~-~~l~~~~~iPvV~~d~~~~---~~~~~~~--v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~ 201 (341)
T PRK10703 128 EPLL-AMLEEYRHIPMVVMDWGEA---KADFTDA--IIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFM 201 (341)
T ss_pred HHHH-HHHHhcCCCCEEEEecccC---CcCCCCe--EEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHH
Confidence 2233 33344 6999998753321 1111222 233444456777777777799999999653 233445678888
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.+++.|+.+......... ....+....++++.++ .+++|+ +.+...+..+++++.+.|...++-+.+.
T Consensus 202 ~~l~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~a~g~~~al~~~g~~ip~dv~vv 272 (341)
T PRK10703 202 KAMEEANIKVPEEWIVQGD--FEPESGYEAMQQILSQKHRPTAVF-CGGDIMAMGAICAADEMGLRVPQDISVI 272 (341)
T ss_pred HHHHHcCCCCChHHeEeCC--CCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 9999888765321111111 1223344455554433 345555 4555667788899999887655544443
No 166
>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=97.40 E-value=0.028 Score=54.59 Aligned_cols=191 Identities=11% Similarity=0.021 Sum_probs=106.6
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
.||+++|... .+-.....++.-+.++ .|+++.+...+. +. ...+...+++.+++.++|--.+.....
T Consensus 1 ~I~~i~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~--~~-~~~~~i~~~~~~~vdgiii~~~~~~~~- 68 (266)
T cd06278 1 LIGVVVADLDNPFYSELLEALSRALQA--------RGYQPLLINTDD--DE-DLDAALRQLLQYRVDGVIVTSGTLSSE- 68 (266)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHH--------CCCeEEEEcCCC--CH-HHHHHHHHHHHcCCCEEEEecCCCCHH-
Confidence 3788888642 2222233444333332 156666554443 22 333444566677888777533322222
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~ 184 (625)
....+...++|+|......+ +. .+....++....+..+++.+...|-++++++..+.. ......+.|.+.++
T Consensus 69 ~~~~~~~~~ipvV~~~~~~~---~~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 142 (266)
T cd06278 69 LAEECRRNGIPVVLINRYVD---GP---GVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALA 142 (266)
T ss_pred HHHHHhhcCCCEEEECCccC---CC---CCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHH
Confidence 24455667999998754322 11 223355667777888888888889999999986433 34456778888998
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHc
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRL 241 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~ 241 (625)
+.|..+... .... .+.......++++.+. .+++|+.. +...+..+++.+++.
T Consensus 143 ~~~~~~~~~-~~~~---~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~ 196 (266)
T cd06278 143 AAGVPVVVE-EAGD---YSYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQE 196 (266)
T ss_pred HcCCChhhh-ccCC---CCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHh
Confidence 888764221 1111 1122333444444333 34555443 444566677777764
No 167
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.39 E-value=0.041 Score=55.50 Aligned_cols=205 Identities=10% Similarity=-0.021 Sum_probs=114.6
Q ss_pred ceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC-hH
Q 006918 25 EVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQS-AV 102 (625)
Q Consensus 25 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~-s~ 102 (625)
..-.||+++|.. ..+-.....+++.+.++ . |+.+.+. ++..++..-.+....+..+++.++|-... ..
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~----~----g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 129 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQ----R----GYQLLIA--CSDDQPDNEMRCAEHLLQRQVDALIVSTSLPP 129 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHH----c----CCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCC
Confidence 456899999853 22212233444444433 1 5666543 33344444444455566778888764222 11
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALG 180 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~ 180 (625)
....+ ..+...++|+|......+ ...+++ ...++...+..+++.|...|-++|+++..... ......+.|.
T Consensus 130 ~~~~~-~~l~~~~iPvV~v~~~~~---~~~~~~---V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~ 202 (328)
T PRK11303 130 EHPFY-QRLQNDGLPIIALDRALD---REHFTS---VVSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGFR 202 (328)
T ss_pred ChHHH-HHHHhcCCCEEEECCCCC---CCCCCE---EEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHHH
Confidence 22223 333467999998643321 122332 33455666777778887789999999975432 3455678899
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEE
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (625)
+.+++.|+.+.... ... .+..+-...++++.+. .+++|+.. +...+..+++++.+.|+..++-+=+
T Consensus 203 ~al~~~g~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~vP~disv 270 (328)
T PRK11303 203 QALKDDPREVHYLY--ANS--FEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGELPSDLAI 270 (328)
T ss_pred HHHHHcCCCceEEE--eCC--CChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCceEE
Confidence 99998887543221 111 1122333445554433 35655544 4456778888889988765544433
No 168
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.37 E-value=0.035 Score=55.94 Aligned_cols=203 Identities=10% Similarity=0.021 Sum_probs=127.0
Q ss_pred CCceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh
Q 006918 23 KPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA 101 (625)
Q Consensus 23 ~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s 101 (625)
....-.||+++|.- ..+-.....+++.+.++ .|+.+-+ .++..++..-.+....+.++++.++|=.. .
T Consensus 55 ~~~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~--------~gy~~~l--~~~~~~~~~e~~~~~~l~~~~vdGiIi~~-~ 123 (333)
T COG1609 55 TGRTKTIGLVVPDITNPFFAEILKGIEEAARE--------AGYSLLL--ANTDDDPEKEREYLETLLQKRVDGLILLG-E 123 (333)
T ss_pred hCCCCEEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEec-C
Confidence 34677899999943 22222334444444444 1455544 44444555555555566677898887533 2
Q ss_pred HHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEec--CCCCcchHHHH
Q 006918 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTAL 179 (625)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d--~~~g~~~~~~l 179 (625)
.........+...++|+|......+ +..+ -....++..-+..+++.|...|-+++++|... ...+....+.+
T Consensus 124 ~~~~~~~~~l~~~~~P~V~i~~~~~---~~~~---~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf 197 (333)
T COG1609 124 RPNDSLLELLAAAGIPVVVIDRSPP---GLGV---PSVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSASRERLEGY 197 (333)
T ss_pred CCCHHHHHHHHhcCCCEEEEeCCCc---cCCC---CEEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHH
Confidence 3334445666677999998755443 2222 33445677778889999999999999999986 34556778999
Q ss_pred HHHHhccceEE--EEeeecCCCCCCChhHHHHHHHHHhcCC---ceEEEEEcchhhHHHHHHHHHHcCCCCCC
Q 006918 180 GDKLAEIRCKI--SYKSALPPDQSVTETDVRNELVKVRMME---ARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (625)
Q Consensus 180 ~~~l~~~g~~v--~~~~~~~~~~~~~~~~~~~~l~~i~~~~---~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 247 (625)
.+.+++.|+.. .....-.. +..+-...+.++.... ++.| ++++...+..+++++.+.|+..++
T Consensus 198 ~~al~~~~~~~~~~~i~~~~~----~~~~g~~~~~~ll~~~~~~ptAi-f~~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 198 RAALREAGLPINPEWIVEGDF----SEESGYEAAERLLARGEPRPTAI-FCANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHHHHCCCCCCcceEEecCC----ChHHHHHHHHHHHhcCCCCCcEE-EEcCcHHHHHHHHHHHHcCCCCCC
Confidence 99999999875 22221111 1334444444544322 4544 456667888999999999976554
No 169
>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=97.35 E-value=0.026 Score=55.01 Aligned_cols=202 Identities=11% Similarity=0.057 Sum_probs=113.4
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~ 105 (625)
.||++.|.. ..+-.....+++-+.++ .|+++.+ .++..++..-.+....++.+++.++|- +.... ..
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~-~~ 69 (270)
T cd06296 1 LIGLVFPDLDSPWASEVLRGVEEAAAA--------AGYDVVL--SESGRRTSPERQWVERLSARRTDGVILVTPELT-SA 69 (270)
T ss_pred CeEEEECCCCCccHHHHHHHHHHHHHH--------cCCeEEE--ecCCCchHHHHHHHHHHHHcCCCEEEEecCCCC-hH
Confidence 378888863 33333444555554444 1555544 444444444444555666778887763 33222 22
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKL 183 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l 183 (625)
....+...++|+|........ ...+++ ..++....++..++.+...|.++++++..+.. ......+.|.+.+
T Consensus 70 -~~~~~~~~~ipvV~i~~~~~~--~~~~~~---v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 143 (270)
T cd06296 70 -QRAALRRTGIPFVVVDPAGDP--DADVPS---VGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAAL 143 (270)
T ss_pred -HHHHHhcCCCCEEEEecccCC--CCCCCE---EEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHH
Confidence 244456789999987543211 112232 44556666777888887789999999875322 3345568888888
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeE
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~ 249 (625)
++.++.+......... ...+.....++++.+. .+++|+ +.+...+..+++.+.+.|...++.+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~~i 208 (270)
T cd06296 144 AEAGIPVDPALVREGD--FSTESGFRAAAELLALPERPTAIF-AGNDLMALGVYEAARERGLRIPEDL 208 (270)
T ss_pred HHcCCCCChHHheeCC--CCHHHHHHHHHHHHhCCCCCcEEE-EcCcHHHHHHHHHHHHhCCCCCCce
Confidence 8877644321111111 1123333444454333 334444 4455667788899999887644433
No 170
>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=97.34 E-value=0.042 Score=53.39 Aligned_cols=206 Identities=10% Similarity=0.031 Sum_probs=115.2
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
.||+++|.... .....+...+++.-+.. |+.+.+ .++..++..-.+....++.+++.++|-.........+
T Consensus 1 ~igvi~~~~~~---~~~~~~~~~~~~~~~~~----g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~ 71 (264)
T cd06274 1 TIGLIIPDLEN---RSFARIAKRLEALARER----GYQLLI--ACSDDDPETERETVETLIARQVDALIVAGSLPPDDPY 71 (264)
T ss_pred CEEEEeccccC---chHHHHHHHHHHHHHHC----CCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHHH
Confidence 37899986321 22333333344333222 455544 4444455555556666778888877743322222223
Q ss_pred HHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHhc
Q 006918 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLAE 185 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~~ 185 (625)
. .+...++|+|......+ +..+++ ....+...+..+++.+...|-++++++..+.. ......+.+.+.+++
T Consensus 72 ~-~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 144 (264)
T cd06274 72 Y-LCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALAD 144 (264)
T ss_pred H-HHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHHH
Confidence 3 34568899998744321 122233 33445555677788887889999999976432 344567888999988
Q ss_pred cceEEEEeeecCCCCCCChhHHHHHHHHHhcC---CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
.|..+......... .+.......++++.+. .++.|+ +.+...+..+++++.+.|+..++.+-+.
T Consensus 145 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~ip~dv~v~ 211 (264)
T cd06274 145 AGLPVQPDWIYAEG--YSPESGYQLMAELLARLGRLPRALF-TTSYTLLEGVLRFLRERPGLAPSDLRIA 211 (264)
T ss_pred cCCCCCcceeecCC--CChHHHHHHHHHHHccCCCCCcEEE-EcChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 87542211111111 1122333445554333 355555 4455667788899999887655555544
No 171
>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=97.32 E-value=0.027 Score=54.55 Aligned_cols=202 Identities=10% Similarity=0.031 Sum_probs=115.5
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
+||+++|.. ..+-.....+++.+.++. |+.+.+ .++..++....+....+.++++.++|=.........
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH--------GYKVVL--LQTNYDKEKELEYLELLKTKQVDGLILCSRENDWEV 70 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCHHH
Confidence 478888863 333334556666665542 566654 344555555555556666778887764222222233
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC--CCCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~--~~g~~~~~~l~~~l~ 184 (625)
+..+.+ .+ |.+......+ ...+ ...++....+..+++.|...|-+++++|..+. .......+.|.+.++
T Consensus 71 ~~~~~~-~~-pvv~~~~~~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~ 141 (260)
T cd06286 71 IEPYTK-YG-PIVLCEEYDS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALE 141 (260)
T ss_pred HHHHhc-CC-CEEEEecccC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHHH
Confidence 444433 34 8887543211 1122 24455666677888888888999999997643 334456788889998
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEE
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (625)
+.|+.+.....+... .+..+-...++++.+. .+++| ++.+...+..+++.+++.|+..++-+-+
T Consensus 142 ~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~ip~di~v 207 (260)
T cd06286 142 EYGLTPDEEWIFEGC--FTIEDGERIGHQLLKMKDRPDAI-FTGSDEVAAGIITEAKKQGIRVPEDLAI 207 (260)
T ss_pred HcCCCCChHheEeCC--CCHHHHHHHHHHHHcCCCCCCEE-EEcchHHHHHHHHHHHHcCCCCCcceEE
Confidence 888654221111111 1223334455555433 34544 4556667778999999988754443333
No 172
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.28 E-value=0.069 Score=53.83 Aligned_cols=208 Identities=8% Similarity=0.016 Sum_probs=113.7
Q ss_pred CceEEEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCh
Q 006918 24 PEVLNVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSA 101 (625)
Q Consensus 24 ~~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s 101 (625)
...-.||+++|... .+-.....+++-+.++ . |+.+.+ .++..++..-.+....+.++++.++|= |...
T Consensus 54 ~~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~---~-----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdGiI~~~~~~ 123 (327)
T PRK10423 54 NQTRTIGMLITASTNPFYSELVRGVERSCFE---R-----GYSLVL--CNTEGDEQRMNRNLETLMQKRVDGLLLLCTET 123 (327)
T ss_pred CCCCeEEEEeCCCCCCcHHHHHHHHHHHHHH---c-----CCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEeCCCc
Confidence 34568999998632 2222334455444443 1 556544 344445554445555666777877763 2221
Q ss_pred HHHHHHHHhhhc-CCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC--CCCcchHHH
Q 006918 102 VMAHVLSHLANE-LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTA 178 (625)
Q Consensus 102 ~~~~~va~~~~~-~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~--~~g~~~~~~ 178 (625)
.. . ....+.. .++|+|...... ....++ ....+...-+..+++.|...|-+++++|.... .......+.
T Consensus 124 ~~-~-~~~~l~~~~~iPvV~i~~~~---~~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~G 195 (327)
T PRK10423 124 HQ-P-SREIMQRYPSVPTVMMDWAP---FDGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEG 195 (327)
T ss_pred ch-h-hHHHHHhcCCCCEEEECCcc---CCCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHH
Confidence 11 1 1122233 489999875321 111111 23334444567778888888999999997532 234456788
Q ss_pred HHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 179 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
|.+.+++.|+.+.....+... .+.......++++.+. .++.|+ +.+...+..+++.+.+.|+..++-+-+.
T Consensus 196 f~~al~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~~l~~~g~~vP~dvsvi 268 (327)
T PRK10423 196 YRAAMKRAGLNIPDGYEVTGD--FEFNGGFDAMQQLLALPLRPQAVF-TGNDAMAVGVYQALYQAGLSVPQDIAVI 268 (327)
T ss_pred HHHHHHHcCCCCCcceEEeCC--CChHHHHHHHHHHhcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999999988754221111111 1122233445554433 345444 4555667789999999997665544444
No 173
>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=97.27 E-value=0.048 Score=52.96 Aligned_cols=201 Identities=10% Similarity=0.004 Sum_probs=109.1
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
.||+++|.... .....+..++++.-++. |+.+.+ .++..++..-.+....+.++++.++|-..+......+
T Consensus 1 ~i~vi~~~~~~---~~~~~~~~gi~~~~~~~----gy~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~~ 71 (265)
T cd06290 1 TIGVLTQDFAS---PFYGRILKGMERGLNGS----GYSPII--ATGHWNQSRELEALELLKSRRVDALILLGGDLPEEEI 71 (265)
T ss_pred CEEEEECCCCC---chHHHHHHHHHHHHHHC----CCEEEE--EeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCChHHH
Confidence 47888886321 22333333444333222 455544 4444555444445556667788877632222112222
Q ss_pred HHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC--CCCcchHHHHHHHHhc
Q 006918 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLAE 185 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~--~~g~~~~~~l~~~l~~ 185 (625)
..+ . .++|+|......+ +...++ ...+....+..+++.+...|-++++++..+. .......+.+.+.+++
T Consensus 72 ~~~-~-~~iPvV~i~~~~~---~~~~~~---V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~ 143 (265)
T cd06290 72 LAL-A-EEIPVLAVGRRVP---GPGAAS---IAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALEE 143 (265)
T ss_pred HHH-h-cCCCEEEECCCcC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHHH
Confidence 333 3 4899998764322 111222 3345666677777877777999999997542 2333556778888887
Q ss_pred cceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCe
Q 006918 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 248 (625)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~ 248 (625)
.|+.+.....+... .+.......++++.+++ +++|+ +++...+..+++.+.+.|+..++.
T Consensus 144 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~ip~d 205 (265)
T cd06290 144 AGLEVQPDLIVQGD--FEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRVPED 205 (265)
T ss_pred cCCCCCHHHEEecC--CCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcc
Confidence 77653211111111 11222334455554333 45544 456667778888999888765443
No 174
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.26 E-value=0.064 Score=52.36 Aligned_cols=207 Identities=14% Similarity=0.071 Sum_probs=116.4
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCC-hHH-
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQS-AVM- 103 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~-s~~- 103 (625)
.||+++|.. ..+-.....+++-+.++ . |+.+. +.++..++..-.+....+..+++.++|= +.. ...
T Consensus 1 ~Igvi~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 70 (273)
T cd06292 1 LVGLLVPELSNPIFPAFAEAIEAALAQ----Y----GYTVL--LCNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTH 70 (273)
T ss_pred CEEEEeCCCcCchHHHHHHHHHHHHHH----C----CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCccc
Confidence 378998863 22222334444444444 2 56654 3455555555556666777788887763 221 111
Q ss_pred -HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHH
Q 006918 104 -AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALG 180 (625)
Q Consensus 104 -~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~ 180 (625)
.......+...++|+|......+. ...+++ ...++...+..+++.|...|-++++++....+ ......+.|.
T Consensus 71 ~~~~~i~~~~~~~ipvV~i~~~~~~--~~~~~~---V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 145 (273)
T cd06292 71 ADHSHYERLAERGLPVVLVNGRAPP--PLKVPH---VSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFR 145 (273)
T ss_pred chhHHHHHHHhCCCCEEEEcCCCCC--CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHH
Confidence 112223346679999987543321 011232 34556667788888888889999999875432 2345678888
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.+++.|+.......+... .+.......++++....+++|+ +.+...+..+++...+.|+..++-+-+.
T Consensus 146 ~~~~~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~di~ii 214 (273)
T cd06292 146 AALEEAGLEPPEALVARGM--FSVEGGQAAAVELLGSGPTAIV-AASDLMALGAIRAARRRGLRVPEDVSVV 214 (273)
T ss_pred HHHHHcCCCCChhheEeCC--CCHHHHHHHHHHHhcCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 8988887532111011111 1122333445555434466555 4455667778888888887655544444
No 175
>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=97.24 E-value=0.065 Score=54.03 Aligned_cols=204 Identities=7% Similarity=-0.010 Sum_probs=113.4
Q ss_pred ceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChH
Q 006918 25 EVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAV 102 (625)
Q Consensus 25 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~ 102 (625)
..-.||+++|.. ..+-.....+++-+.++ .|+.+.+. ++..++..-.+....+..+++.++|- |....
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 457899999853 22222333444433332 25666543 33344444444555566778887663 33221
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALG 180 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~ 180 (625)
....+ ..+...++|+|......+ +..+++ ..+++..-+..+++.|...|-++++++..... ......+.|+
T Consensus 129 ~~~~~-~~l~~~~iPvV~~~~~~~---~~~~~~---V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 129 EDAYY-QKLQNEGLPVVALDRSLD---DEHFCS---VISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred ChHHH-HHHHhcCCCEEEEccccC---CCCCCE---EEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 22223 334567999998654322 112232 33445555666777787789999999975432 3445678889
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC---CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEE
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (625)
+.+++.|+...... ... .+...-...++++.+. .+++|+. .+...+..+++++.+.| ..++-+-+
T Consensus 202 ~al~~~~~~~~~~~--~~~--~~~~~~~~~~~~ll~~~~~~~~Ai~~-~~D~~A~g~~~al~~~g-~vP~dvsv 269 (327)
T TIGR02417 202 QALKQATLEVEWVY--GGN--YSRESGYQMFAKLCARLGRLPQALFT-TSYTLLEGVLDYMLERP-LLDSQLHL 269 (327)
T ss_pred HHHHHcCCChHhEE--eCC--CChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcC-CCCCcceE
Confidence 99998887532111 111 1122333455555433 2565554 44556778899999988 55544433
No 176
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.21 E-value=0.05 Score=52.98 Aligned_cols=200 Identities=12% Similarity=0.067 Sum_probs=108.5
Q ss_pred EEEEEeecC------CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 006918 28 NVGAIFSFG------TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQS 100 (625)
Q Consensus 28 ~IG~l~~~~------~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~ 100 (625)
.||+++|.. ..+-.....+++-+.++. |+++.+ .+... +..-.+...+++.+ ++.++|-...
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~--~~~~~-~~~~~~~~~~~~~~~~~dgiii~~~ 69 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN--------GYDISL--ATGKN-EEELLEEVKKMIQQKRVDGFILLYS 69 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC--------CCEEEE--ecCCC-cHHHHHHHHHHHHHcCcCEEEEecC
Confidence 378898852 222223344555544441 566654 33332 33334455555544 5777654222
Q ss_pred hHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCC--CcchHHH
Q 006918 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTA 178 (625)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~--g~~~~~~ 178 (625)
... ......+...++|+|......+. ....++ ....+...++.+++.+...|-++++++.....+ .....+.
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 22234456779999987543211 011222 334555667777888777799999999754332 3345678
Q ss_pred HHHHHhccceEEE--EeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeE
Q 006918 179 LGDKLAEIRCKIS--YKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (625)
Q Consensus 179 l~~~l~~~g~~v~--~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~ 249 (625)
|.+.+++.|+... .....+. +.......+.++.+++ +++|+. .+...+..+++++.+.|+..++-+
T Consensus 144 f~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv 213 (270)
T cd06294 144 YKQALEDHGIPDRNEVIISLDF----SEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDL 213 (270)
T ss_pred HHHHHHHcCCCCCcceEEecCC----chHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcce
Confidence 8899988875321 1111111 1233344555544333 454444 455677888899999997654433
No 177
>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=97.20 E-value=0.066 Score=52.15 Aligned_cols=200 Identities=13% Similarity=0.013 Sum_probs=102.4
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
+||+++|............+..++++.=++. |+++.+. +.. ++..-.+....+.+.++.+||--... .....
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~~----gy~~~i~--~~~-~~~~~~~~i~~l~~~~vdgiI~~~~~-~~~~~ 72 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKEL----GIEYKYV--ESK-SDADYEPNLEQLADAGYDLIVGVGFL-LADAL 72 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHHc----CCeEEEE--ecC-CHHHHHHHHHHHHhCCCCEEEEcCcc-hHHHH
Confidence 5899998621111233333334444333332 5555553 332 33333444556677789888863222 22344
Q ss_pred HHhhhcC-CCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHH-cCCcEEEEEEecCCCCcch-HHHHHHHHh
Q 006918 108 SHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNG-VTALGDKLA 184 (625)
Q Consensus 108 a~~~~~~-~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~-~~W~~v~ii~~d~~~g~~~-~~~l~~~l~ 184 (625)
......+ ++|++..+...+.. ...+ +.......-+...+.++.. .|-+++++|..+....... .+.+++.++
T Consensus 73 ~~~~~~~~~~PiV~i~~~~~~~--~~~~---~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf~~~~~ 147 (265)
T cd06354 73 KEVAKQYPDQKFAIIDAVVDDP--PNVA---SIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGFEAGVK 147 (265)
T ss_pred HHHHHHCCCCEEEEEecccCCC--CcEE---EEEecchhHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHHHHHHH
Confidence 5555555 89999865422110 1112 2222333333444466654 3899999997543222222 367888888
Q ss_pred ccc---eEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcC
Q 006918 185 EIR---CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (625)
Q Consensus 185 ~~g---~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g 242 (625)
+.| ..+......... ..+..+-...++++.+.++++|+ +.+...+..+++++++.|
T Consensus 148 ~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ll~~~pdaI~-~~nd~~A~gv~~al~~~g 206 (265)
T cd06354 148 YVNPGVPDIEVLVQYAGS-FNDPAKGKEIAQAMYDQGADVIF-AAAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHhccCCCceEEEEEcCc-ccCHHHHHHHHHHHHHCCCcEEE-ECCCCCchHHHHHHHhcC
Confidence 877 543322111111 01122333455665545577654 445566778888888877
No 178
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=97.17 E-value=0.056 Score=52.82 Aligned_cols=207 Identities=15% Similarity=0.150 Sum_probs=117.2
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHH---
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVM--- 103 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~--- 103 (625)
.||+++|.... .....+..++++.-++. |+++. +.++..++....+....++.+++.++|= +..+..
T Consensus 1 ~igvv~~~~~~---~~~~~~~~gi~~~~~~~----g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~ 71 (273)
T cd01541 1 NIGVITTYISD---YIFPSIIRGIESVLSEK----GYSLL--LASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPNP 71 (273)
T ss_pred CeEEEeCCccc---hhHHHHHHHHHHHHHHc----CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEeccccccccc
Confidence 37888875321 22333334444433332 45554 4555667766677777888888888863 322211
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC-CCcchHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDK 182 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~-~g~~~~~~l~~~ 182 (625)
.......+...++|+|......+. .. +.....++...+..+++.+...|.++++++...+. .+....+.+.+.
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~~~~---~~---~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~ 145 (273)
T cd01541 72 NIDLYLKLEKLGIPYVFINASYEE---LN---FPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKA 145 (273)
T ss_pred cHHHHHHHHHCCCCEEEEecCCCC---CC---CCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHH
Confidence 112223346679999987543211 11 12344556667788888888889999998875332 234456778888
Q ss_pred HhccceEEEEee--ecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 183 LAEIRCKISYKS--ALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 183 l~~~g~~v~~~~--~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+++.|..+.... ..... .........++++.+. .+++| ++.+...+..+++++++.|+..++.+-+.
T Consensus 146 l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~av-~~~~d~~a~g~~~al~~~g~~~p~dv~vv 216 (273)
T cd01541 146 YREHGIPFNPSNVITYTTE--EKEEKLFEKIKEILKRPERPTAI-VCYNDEIALRVIDLLKELGLKIPEDISVV 216 (273)
T ss_pred HHHcCCCCChHHEEecccc--chhhHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 888776432111 11111 1112344455555433 34544 44555667778899999997655544444
No 179
>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=97.17 E-value=0.14 Score=50.15 Aligned_cols=200 Identities=14% Similarity=0.029 Sum_probs=109.8
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~ 105 (625)
+||++.|... .+-.....+++.+.++. |+.+. +.++..++..-.+....++++++.+||- +..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~--------g~~v~--~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL--------GYELI--STDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH
Confidence 5888988642 11123334444444431 44443 4555556655556666677778877663 33322222
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHH-cCCc--EEEEEEec--CCCCcchHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWG--EVIAIFND--DDQGRNGVTALG 180 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~-~~W~--~v~ii~~d--~~~g~~~~~~l~ 180 (625)
.....+...++|+|......+ +. .+.+.....+....+..+++.|.. .|-+ +++++..+ ...+....+.|+
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 333445678999998754321 10 122334556667778888887765 6754 88888753 234556778889
Q ss_pred HHHhccceE------EEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 181 DKLAEIRCK------ISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 181 ~~l~~~g~~------v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
+.+++.|+. .......... .+..+....+.++... ++++|+ +.+...+..+++++.+.|+.
T Consensus 147 ~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~al~~~g~~ 215 (282)
T cd06318 147 LGVSEAQLRKYGKTNFTIVAQGYGD--WTREGGLKAMEDLLVAHPDINVVY-SENDDMALGAMRVLAEAGKT 215 (282)
T ss_pred HHHhhCcccccccCCeEEEecCCCC--CCHHHHHHHHHHHHHhCCCcCEEE-ECCcchHHHHHHHHHHcCCC
Confidence 999887642 1111001111 1122333444444322 344444 44455677888999998874
No 180
>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=97.14 E-value=0.032 Score=55.26 Aligned_cols=185 Identities=10% Similarity=0.085 Sum_probs=106.0
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
+||++-..+...-.....||+-++++.. ... ..+++.+.+...|+..+.+.+.++.+++...|+-- .+..+..+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g----~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~-gt~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELG----YDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAI-GTPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT------C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEE-SHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcC----Ccc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEe-CcHHHHHH
Confidence 5777777654333355677766666542 222 56788888999998888777777777777766643 24445555
Q ss_pred HHhhhcCCCcEEeeccCCCCCCC----CCC--CceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecCCC-CcchHHH
Q 006918 108 SHLANELQVPLLSFTALDPTLSP----LQY--PFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ-GRNGVTA 178 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~----~~~--~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~~~-g~~~~~~ 178 (625)
....... +|+|-.+-++|.... ... .++.-+. +........++++++ +-++++++|+++.- +....+.
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 5544333 999877776765332 222 2444443 334455666777664 46999999976543 3456778
Q ss_pred HHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 006918 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (625)
Q Consensus 179 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 228 (625)
+++.+++.|+++... .++ +..++...++.+.+ +.+++++..+.
T Consensus 152 ~~~~a~~~g~~l~~~-~v~-----~~~~~~~~~~~l~~-~~da~~~~~~~ 194 (294)
T PF04392_consen 152 LRKAAKKLGIELVEI-PVP-----SSEDLEQALEALAE-KVDALYLLPDN 194 (294)
T ss_dssp HHHHHHHTT-EEEEE-EES-----SGGGHHHHHHHHCT-T-SEEEE-S-H
T ss_pred HHHHHHHcCCEEEEE-ecC-----cHhHHHHHHHHhhc-cCCEEEEECCc
Confidence 888888899987643 232 25677888888864 56777776554
No 181
>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=97.13 E-value=0.081 Score=51.34 Aligned_cols=200 Identities=13% Similarity=0.084 Sum_probs=113.1
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~ 105 (625)
.||+++|... .+-.....+++.+.++ .|+++.+ .++..++..-......+...++.++|= |......
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 4889998743 2222345566555555 1566643 444445544334445555667776653 3222211
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC-CCcchHHHHHHHHh
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDKLA 184 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~-~g~~~~~~l~~~l~ 184 (625)
... +...++|+|......+ ...++++ ..++...+..+++.|...|-++++++..+.. ......+.+++.++
T Consensus 70 -~~~-~~~~~iPvV~~~~~~~---~~~~~~v---~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~ 141 (263)
T cd06280 70 -RLA-ELRLSFPVVLIDRAGP---AGRVDAV---VLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMR 141 (263)
T ss_pred -HHH-HHhcCCCEEEECCCCC---CCCCCEE---EECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 222 3466899998754432 2223432 3455666777888888889999999875422 23355678888888
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.|+..... .... +.......++++... .+++| ++.+...+..+++.+++.|+..++-+.+.
T Consensus 142 ~~~~~~~~~-~~~~----~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~di~ii 205 (263)
T cd06280 142 RHGLAPDAR-FVAP----TAEAAEAALAAWLAAPERPEAL-VASNGLLLLGALRAVRAAGLRIPQDLALA 205 (263)
T ss_pred HcCCCCChh-hccc----CHHHHHHHHHHHhcCCCCCcEE-EECCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 887654221 1111 122333344444333 34544 44556668889999999997655544443
No 182
>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=97.12 E-value=0.059 Score=52.24 Aligned_cols=200 Identities=14% Similarity=0.088 Sum_probs=108.6
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
.||++.|... .+-.....+++-+.++ . |+.+.+...+ +.. .....+...++.++|-.........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~~~~~~---~~~---~~~~~l~~~~vdgii~~~~~~~~~~ 66 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISK----N----GYNMNVSITP---SLA---EAEDLFKENRFDGVIIFGESASDVE 66 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHH----c----CCEEEEEecc---cHH---HHHHHHHHcCcCEEEEeCCCCChHH
Confidence 4788988642 2222333444444433 1 4566654433 222 2223455567877763222222222
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHh
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~l~ 184 (625)
+ ..+...++|+|......+ ..+++ ...++...+..+++.+...|-++++++..... ......+.+++.++
T Consensus 67 ~-~~~~~~~ipvV~~~~~~~----~~~~~---V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 67 Y-LYKIKLAIPVVSYGVDYD----LKYPI---VNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred H-HHHHHcCCCEEEEcccCC----CCCCE---EEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 2 444578899998644322 12232 34556666788888888889999999975432 33445678888998
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.|+.+......... .+.......++++.+.. +++ |++++...+..+++.+++.|+..++.+-+.
T Consensus 139 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp~dv~vv 205 (261)
T cd06272 139 ENGISISDSHIDVDG--LSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIPEDIEII 205 (261)
T ss_pred HcCCCCCHHHeeeCC--CCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 888633211111111 11233344555554333 444 444555667788899998887655444433
No 183
>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=97.12 E-value=0.11 Score=50.88 Aligned_cols=171 Identities=11% Similarity=0.117 Sum_probs=103.5
Q ss_pred CcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccC
Q 006918 63 GRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAP 141 (625)
Q Consensus 63 g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~p 141 (625)
|+.+.+ .++..++..-.+....++.+++.+||= +..+......-..+...+||+|......+ ....+.+....+
T Consensus 29 G~~~~~--~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~---~~~~~~~~~v~~ 103 (272)
T cd06313 29 GVDVTW--YGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIA---PLQINVHSFLAP 103 (272)
T ss_pred CCEEEE--ecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCC---CCCCceEEEECC
Confidence 555554 455567776667777788888887764 33333333333445567999998754332 111122334557
Q ss_pred chHHHHHHHHHHHHHc--CCcEEEEEEecCC--CCcchHHHHHHHHhccc-eEEEEeeecCCCCCCChhHHHHHHHHHhc
Q 006918 142 NDLYLMSAIAEMVSYF--GWGEVIAIFNDDD--QGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRM 216 (625)
Q Consensus 142 s~~~~~~al~~ll~~~--~W~~v~ii~~d~~--~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~i~~ 216 (625)
++...+..+++.|... |.++++++..+.. ......+.|.+.+++.+ .++... .... .+.......++++.+
T Consensus 104 d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~ 179 (272)
T cd06313 104 DNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPAN--WDVSKAARIWETWLT 179 (272)
T ss_pred CcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCC--CCHHHHHHHHHHHHH
Confidence 7777788888888776 8899999976432 23456788899998875 554321 1111 123334455555543
Q ss_pred CC--ceEEEEEcchhhHHHHHHHHHHcCC
Q 006918 217 ME--ARVIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 217 ~~--~~vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
.+ +++ |++.+...+..+++.+++.|+
T Consensus 180 ~~~~~~a-i~~~nd~~a~g~~~al~~~g~ 207 (272)
T cd06313 180 KYPQLDG-AFCHNDSMALAAYQIMKAAGR 207 (272)
T ss_pred hCCCCCE-EEECCCcHHHHHHHHHHHcCC
Confidence 33 344 444555667788888888886
No 184
>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=97.11 E-value=0.079 Score=51.45 Aligned_cols=199 Identities=13% Similarity=0.070 Sum_probs=108.7
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
.||++.|.. ..+-.....+++-+.++ . |+++.+ .++..++..-.+....+..+++.++|--.....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~~--~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~--- 67 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYK----K----GYKLIL--CNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG--- 67 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHH----C----CCeEEE--ecCCccHHHHHHHHHHHHHcCCCEEEEecCCcC---
Confidence 378888753 32222334444443333 2 455543 444445554445555566667777763222211
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC---CCcchHHHHHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD---QGRNGVTALGDKL 183 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~---~g~~~~~~l~~~l 183 (625)
. ..+...++|+|......+ ..+++ ..++....+..+++.|...|.++++++..... ......+.|.+.+
T Consensus 68 ~-~~~~~~gipvv~~~~~~~----~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 139 (265)
T cd06291 68 I-EEYENIDLPIVSFDRYLS----ENIPI---VSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDVL 139 (265)
T ss_pred H-HHHhcCCCCEEEEeCCCC----CCCCe---EeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHHH
Confidence 1 233567999998765432 12232 33445556777888887889999999875332 3445678889999
Q ss_pred hccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEE
Q 006918 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (625)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (625)
++.|+.+.... .... .+..+....++++.+.. ++.|+ +.+...+..+++.+.+.|...++-+-+
T Consensus 140 ~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~al~~~g~~vp~di~v 205 (265)
T cd06291 140 KENGLEVRIIE-IQEN--FDDAEKKEEIKELLEEYPDIDGIF-ASNDLTAILVLKEAQQRGIRVPEDLQI 205 (265)
T ss_pred HHcCCCCChhe-eecc--ccchHHHHHHHHHHhCCCCCCEEE-ECChHHHHHHHHHHHHcCCCCCcceEE
Confidence 88887543211 1111 11112233444443333 34444 344456778888888888754443333
No 185
>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=97.09 E-value=0.26 Score=48.10 Aligned_cols=201 Identities=12% Similarity=0.047 Sum_probs=105.0
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~ 105 (625)
+||++.|... .+-.....+++-+.++.+.. ...+.....+ ..++..-.+....+.. ++.++|= +.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~-----~~~~~~~~~~-~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA-----RIRVRIHFVE-SFDPAALAAALLRLGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc-----CceEEEEEcc-CCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHH
Confidence 5888888642 22223445555555553211 1223322222 2344444444445555 7877753 43333222
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc-CC--cEEEEEEecCC--CCcchHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GW--GEVIAIFNDDD--QGRNGVTALG 180 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~-~W--~~v~ii~~d~~--~g~~~~~~l~ 180 (625)
.....+...++|+|.+....+. ... .......+...+...+++|.+. |. ++++++..... ......+.|.
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 3334455689999987533211 111 1223445555666667766654 54 69999876432 2345567888
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
+.+++.+..+......... .+..+....++++.+ .++++|+...+. +..+++.+++.|+.
T Consensus 149 ~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~ 210 (275)
T cd06307 149 SVLREEFPGLRVLETLEGL--DDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA 210 (275)
T ss_pred HHHHhhCCCcEEEeeccCC--CChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC
Confidence 8988876544332222211 122333445555433 245666665543 46888999998864
No 186
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=97.09 E-value=0.055 Score=52.48 Aligned_cols=199 Identities=11% Similarity=0.043 Sum_probs=105.9
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
|||+++|... ...+....+..++++.-++. |+.+.+ .++. ++....+....+...++.++|-.... ....+
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~~----gy~~~~--~~~~-~~~~~~~~~~~l~~~~vdgiii~~~~-~~~~~ 71 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKEL----GVEVKY--VESV-EDADYEPNLRQLAAQGYDLIFGVGFG-FMDAV 71 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHhc----CceEEE--EecC-CHHHHHHHHHHHHHcCCCEEEECCcc-hhHHH
Confidence 5899998521 11244445555555543332 555544 3443 44444445555666788877643222 22334
Q ss_pred HHhhhcC-CCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc-CCcEEEEEEecC-CCCcchHHHHHHHHh
Q 006918 108 SHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GWGEVIAIFNDD-DQGRNGVTALGDKLA 184 (625)
Q Consensus 108 a~~~~~~-~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~-~W~~v~ii~~d~-~~g~~~~~~l~~~l~ 184 (625)
....... ++|++......+. +...+ ....++..-+...+.++... |-+++++|..+. .......+.|.+.++
T Consensus 72 ~~~~~~~~~ipvv~~~~~~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~ 146 (260)
T cd06304 72 EKVAKEYPDVKFAIIDGVVDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAK 146 (260)
T ss_pred HHHHHHCCCCEEEEecCccCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHH
Confidence 4555444 7898876443211 01112 12223333344445666655 889999997532 223345678888998
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcC
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g 242 (625)
+.|..+......... ..+...-...++++.+.++++| ++.+...+..+++++++.|
T Consensus 147 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 147 SVNPDITVLVIYTGS-FFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HhCCCcEEEEEEecC-ccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 887643321111111 0112233445566555556765 5566667778888888877
No 187
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.08 E-value=0.1 Score=52.95 Aligned_cols=208 Identities=13% Similarity=0.058 Sum_probs=112.0
Q ss_pred CceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChH
Q 006918 24 PEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (625)
Q Consensus 24 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~ 102 (625)
...-.||+++|.- ..+-.....+++.+.++ . |+.+ .+.++..++..-.+....++.+++.++|-.....
T Consensus 57 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~---~-----g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~ 126 (343)
T PRK10727 57 QSTETVGLVVGDVSDPFFGAMVKAVEQVAYH---T-----GNFL--LIGNGYHNEQKERQAIEQLIRHRCAALVVHAKMI 126 (343)
T ss_pred CCCCeEEEEeCCCCcchHHHHHHHHHHHHHH---c-----CCEE--EEEeCCCCHHHHHHHHHHHHhcCCCEEEEecCCC
Confidence 3467899999852 22222233444333333 2 4444 3445544554444455566777887776422111
Q ss_pred HHHHHHHhhhcCCCc-EEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHH
Q 006918 103 MAHVLSHLANELQVP-LLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTAL 179 (625)
Q Consensus 103 ~~~~va~~~~~~~iP-~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l 179 (625)
....+..+.. ++| ++......+ +...++ ..+.+..-+..+++.|...|.+++++|..... ......+.|
T Consensus 127 ~~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf 198 (343)
T PRK10727 127 PDAELASLMK--QIPGMVLINRILP---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGY 198 (343)
T ss_pred ChHHHHHHHh--cCCCEEEEecCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHH
Confidence 1222333333 677 676543221 111222 33455555666777787789999999975432 344567889
Q ss_pred HHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 180 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
.+.+++.|+.+......... .+...-...++++.+.+ ++.|+ +.+...+..+++++++.|+..++-+-|.
T Consensus 199 ~~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~G~~vP~disVi 270 (343)
T PRK10727 199 YDALAESGIPANDRLVTFGE--PDESGGEQAMTELLGRGRNFTAVA-CYNDSMAAGAMGVLNDNGIDVPGEISLI 270 (343)
T ss_pred HHHHHHCCCCCChhhEEeCC--CChhHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceeEE
Confidence 99999988754221111111 11222233455544333 45544 4556677889999999998655544443
No 188
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=97.07 E-value=0.17 Score=50.11 Aligned_cols=203 Identities=12% Similarity=0.030 Sum_probs=107.9
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHH-HH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVM-AH 105 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~-~~ 105 (625)
+||+++|.... .....+..++++.=++. |+.+.+...+...+...-.+....++++++.++|- +..... ..
T Consensus 1 ~igvvvp~~~n---~f~~~~~~gi~~~a~~~----g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 73 (295)
T TIGR02955 1 KLCALYPHLKD---SYWLSINYGMVEQAKHL----GVELKVLEAGGYPNLDKQLAQIEQCKSWGADAILLGTVSPEALNH 73 (295)
T ss_pred CeeEEecCCCc---HHHHHHHHHHHHHHHHh----CCEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhhH
Confidence 58999986321 22222222333322221 56665543333334444455666677888888764 322222 23
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCC------cEEEEEEecCC--CCcchHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGW------GEVIAIFNDDD--QGRNGVT 177 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W------~~v~ii~~d~~--~g~~~~~ 177 (625)
.+..+ . .++|+|....... .. ..+-....+...-+..+++.|.. +- ++++++..... ......+
T Consensus 74 ~l~~~-~-~~iPvV~~~~~~~--~~---~~~~~V~~D~~~~g~~~~~~L~~-~~~~~~g~~~I~~i~g~~~~~~~~~R~~ 145 (295)
T TIGR02955 74 DLAQL-T-KSIPVFALVNQID--SN---QVKGRVGVDWYQMGYQAGEYLAQ-RHPKGSGPTTLAWLPGPKNRGGTKPVTQ 145 (295)
T ss_pred HHHHH-h-cCCCEEEEecCCC--cc---ceeEEEeecHHHHHHHHHHHHHH-hcccCCCCeeEEEEeCCCcCCchhHHHH
Confidence 33333 3 4899987532211 11 11233445555566777777765 32 46999975432 3455678
Q ss_pred HHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEee
Q 006918 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 178 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (625)
.+++.+++.|+.+... .... .+...-...++++.+. .+++| +++...+..+++++++.|+ ++-+.+.+
T Consensus 146 Gf~~al~~~g~~~~~~--~~~~--~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~--~~dv~vvg 215 (295)
T TIGR02955 146 GFRAALEGSDVEISAI--LWAD--NDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM--TQQIKLVS 215 (295)
T ss_pred HHHHHHhcCCcEEEEE--ecCC--CcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc--cCCeEEEE
Confidence 8999999888876532 1111 1233334455554432 34654 4555667788888888775 33344443
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=97.07 E-value=0.092 Score=51.10 Aligned_cols=198 Identities=10% Similarity=0.013 Sum_probs=105.4
Q ss_pred EEEEeecC----CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHH
Q 006918 29 VGAIFSFG----TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (625)
Q Consensus 29 IG~l~~~~----~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~ 104 (625)
||+++|.. ..+-.....+++-+.++ . |+++.+...|. +...-......+...++.+||-......
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~----~----g~~~~~~~~~~--~~~~~~~~~~~l~~~~vdgiii~~~~~~- 70 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKK----Y----GYNLILKFVSD--EDEEEFELPSFLEDGKVDGIILLGGIST- 70 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHH----c----CCEEEEEeCCC--ChHHHHHHHHHHHHCCCCEEEEeCCCCh-
Confidence 78888872 22222233344333333 1 56776655543 2222222223355678888875322222
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDK 182 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l~~~ 182 (625)
.....+...++|+|......+ +...++ ...+....+...++.+...|.++++++..+.. ......+.|.+.
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 224445677999998754322 112222 23344555666777777789999999976543 233456788899
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCC
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 247 (625)
+++.|+.+.....+... ..........++++. ..+++|+ +.+...+..+++++.+.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~-~~~~ai~-~~~d~~a~g~~~a~~~~g~~~p~ 205 (268)
T cd06277 144 LLDHGIPFNEDYDITEK-EEDEEDIGKFIDELK-PLPTAFF-CSNDGVAFLLIKVLKEMGIRVPE 205 (268)
T ss_pred HHHcCCCCCcceEEEcc-hhHHHHHHHHHhcCC-CCCCEEE-ECCcHHHHHHHHHHHHcCCCCCC
Confidence 98888754321111100 011233334443322 2355544 44555667788888888875443
No 190
>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=97.04 E-value=0.33 Score=47.27 Aligned_cols=196 Identities=10% Similarity=0.120 Sum_probs=103.4
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHH-HH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVM-AH 105 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~-~~ 105 (625)
+||++......+-.....++.-+.++ . |+.+.+.. ++..++..-.+....++++++.++|= |..... ..
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~----~----g~~~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 71 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKE----L----GVDVEFVV-PQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIP 71 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHH----c----CCeEEEeC-CCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHH
Confidence 47777654432222233344333333 1 45555432 23335555555666677778887774 433222 23
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecC--CCCcchHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD--DQGRNGVTALGD 181 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~--~~g~~~~~~l~~ 181 (625)
.+..+ .. ++|+|......+. ...++ ....+....+..+++.+.+. +-.+++++.... .......+.+++
T Consensus 72 ~l~~~-~~-~ipvV~~~~~~~~--~~~~~---~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~ 144 (271)
T cd06314 72 ALNKA-AA-GIKLITTDSDAPD--SGRYV---YIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKD 144 (271)
T ss_pred HHHHH-hc-CCCEEEecCCCCc--cceeE---EEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHH
Confidence 34444 45 9999987532211 11112 23455566677777777663 334566665432 234456788899
Q ss_pred HHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 182 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
.+++.|+++.... .. . .+..+....++++.+.. ++.|+ +.+...+..+++.+++.|+.
T Consensus 145 ~~~~~~~~~~~~~-~~-~--~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~al~~~g~~ 204 (271)
T cd06314 145 AIKDSKIEIVDTR-GD-E--EDFAKAKSNAEDALNAHPDLKCMF-GLYAYNGPAIAEAVKAAGKL 204 (271)
T ss_pred HHhcCCcEEEEEe-cC-c--cCHHHHHHHHHHHHHhCCCccEEE-ecCCccHHHHHHHHHHcCCC
Confidence 9999888765321 11 1 12233344555554333 45554 33444555677888888865
No 191
>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=97.04 E-value=0.06 Score=52.37 Aligned_cols=196 Identities=9% Similarity=0.018 Sum_probs=107.5
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
+||++.|.+..+......+++-+.++. + |+++-+ .+. +. .+....+..+++.++|-...+. ..
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~----g~~~~~--~~~--~~---~~~~~~l~~~~vdGiI~~~~~~---~~ 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---G----PWSIYL--EPR--GL---QEPLRWLKDWQGDGIIARIDDP---EM 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---C----CeEEEE--ecc--cc---hhhhhhccccccceEEEECCCH---HH
Confidence 589999965433334444444444442 2 455543 222 11 2333344556888887532222 12
Q ss_pred HHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC-CCcchHHHHHHHHhcc
Q 006918 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDKLAEI 186 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~-~g~~~~~~l~~~l~~~ 186 (625)
...+...++|+|......+. +.+-+...++...+..+++.+...|-++++++..... ......+.+++.+++.
T Consensus 64 ~~~l~~~~~PvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~ 137 (265)
T cd01543 64 AEALQKLGIPVVDVSGSREK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPGARWSDEREEAFRQLVAEA 137 (265)
T ss_pred HHHHhhCCCCEEEEeCccCC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCCCHHHHHHHHHHHHHHHHc
Confidence 23445679999987543221 1223455667777788888888889999999875433 1234467888899888
Q ss_pred ceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCC
Q 006918 187 RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (625)
Q Consensus 187 g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 247 (625)
|+.+............+.......++++-++ .+++ |++.+...+..+++.+++.|+..++
T Consensus 138 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~ 199 (265)
T cd01543 138 GYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVG-IFACTDARARQLLEACRRAGIAVPE 199 (265)
T ss_pred CCccccccCccccccccHHHHHHHHHHHHhcCCCCcE-EEecChHHHHHHHHHHHHhCCCCCC
Confidence 8765211111100001112223344444333 3454 4445566777888888888875443
No 192
>PRK09526 lacI lac repressor; Reviewed
Probab=97.02 E-value=0.2 Score=50.76 Aligned_cols=204 Identities=11% Similarity=0.074 Sum_probs=112.8
Q ss_pred ceEEEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc--CCCh
Q 006918 25 EVLNVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG--PQSA 101 (625)
Q Consensus 25 ~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG--~~~s 101 (625)
..-.||+++|... ..-.....+++-+.++ .|+.+.+...+.. +...-.+....+.++++.++|- +..+
T Consensus 62 ~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~i~~~~~~-~~~~~~~~l~~l~~~~vdGiii~~~~~~ 132 (342)
T PRK09526 62 QSLTIGLATTSLALHAPSQIAAAIKSRADQ--------LGYSVVISMVERS-GVEACQAAVNELLAQRVSGVIINVPLED 132 (342)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHH--------CCCEEEEEeCCCC-hHHHHHHHHHHHHhcCCCEEEEecCCCc
Confidence 4567999998632 2112334444444433 1566665433321 2233234445566778887764 3332
Q ss_pred HHHHHHHHhh-hcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHH
Q 006918 102 VMAHVLSHLA-NELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTA 178 (625)
Q Consensus 102 ~~~~~va~~~-~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~ 178 (625)
.. +..+. ...++|++..... + +...+ ....++..-+..+++.|...|-++++++..... ......+.
T Consensus 133 ~~---~~~~~~~~~~iPvV~~d~~-~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~G 202 (342)
T PRK09526 133 AD---AEKIVADCADVPCLFLDVS-P---QSPVN---SVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAG 202 (342)
T ss_pred ch---HHHHHhhcCCCCEEEEecc-C---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHH
Confidence 22 22222 2358999976432 1 11122 234555666677888888889999999975432 23455678
Q ss_pred HHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 179 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
|++.+++.|+.+.... ... .+...-...+.++.+. .++.|+ +.+...+..+++.+.+.|+..++-+-|.
T Consensus 203 f~~al~~~gi~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vP~disvi 273 (342)
T PRK09526 203 WLEYLTDYQLQPIAVR--EGD--WSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLRVPGQISVI 273 (342)
T ss_pred HHHHHHHcCCCcceEE--eCC--CchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8999998887643211 111 1122223344444332 345444 4555677789999999998665544433
No 193
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=97.00 E-value=0.31 Score=48.37 Aligned_cols=199 Identities=9% Similarity=-0.046 Sum_probs=109.6
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~ 105 (625)
+||++.+.. ..+-.....+++-+.++ . |+++.+. .++..++....+....++.+++.+||- +.......
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~----~----g~~v~~~-~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~ 71 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKE----L----GVDAIYV-GPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALE 71 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHH----h----CCeEEEE-CCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHH
Confidence 588888753 22222334444444444 1 4555532 233446665556666677778887774 33333223
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHc-CC-cEEEEEEecCC--CCcchHHHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GW-GEVIAIFNDDD--QGRNGVTALGD 181 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~-~W-~~v~ii~~d~~--~g~~~~~~l~~ 181 (625)
.....+...++|+|......+. .. ..+....+++...+..+++.+.+. +- ++++++..+.. ......+.|++
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 3334456789999987543211 01 112334456667778888887665 43 69999875432 23345678889
Q ss_pred HHhccc---eEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 182 KLAEIR---CKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 182 ~l~~~g---~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
.++++| +++.. .+... .+...-...++++.++. ++.|+ +.+...+..+++++.+.|+.
T Consensus 148 ~l~~~g~~~~~~~~--~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~D~~A~g~~~al~~~g~~ 210 (298)
T cd06302 148 YQKEKYYPMLELVD--RQYGD--DDADKSYQTAQELLKAYPDLKGII-GPTSVGIPGAARAVEEAGLK 210 (298)
T ss_pred HHhhcCCCCeEEeC--cccCC--CCHHHHHHHHHHHHHhCCCceEEE-ECCCcchhHHHHHHHhcCCC
Confidence 998886 22211 11111 12233334444443333 34433 44456778888999998875
No 194
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=96.95 E-value=0.13 Score=50.09 Aligned_cols=201 Identities=11% Similarity=-0.012 Sum_probs=110.5
Q ss_pred EEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHH-HHhcCcEEEEcCCChHHHH
Q 006918 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQ-FMETDTLAIVGPQSAVMAH 105 (625)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~-l~~~~v~aviG~~~s~~~~ 105 (625)
.||++.|.. ..+-.....+++.+.++ .|+.+.+...+ .+ ....+...+ +...++.+||=...... .
T Consensus 1 ~Igvi~p~~~~~~~~~~~~~i~~~~~~--------~gy~~~~~~~~--~~-~~~~~~~~~~l~~~~vdgvi~~~~~~~-~ 68 (269)
T cd06297 1 TISVLLPVVATEFYRRLLEGIEGALLE--------QRYDLALFPLL--SL-ARLKRYLESTTLAYLTDGLLLASYDLT-E 68 (269)
T ss_pred CEEEEeCCCcChhHHHHHHHHHHHHHH--------CCCEEEEEeCC--Cc-HHHHHHHHHHHHhcCCCEEEEecCccC-h
Confidence 378888864 22222334444444444 15666654433 22 222233333 44557777664222222 2
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC--C------CCcchHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--D------QGRNGVT 177 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~--~------~g~~~~~ 177 (625)
.....+...++|+|......+ ..++ ..+++..-+...++.|... .++++++.... . ......+
T Consensus 69 ~~~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~ 139 (269)
T cd06297 69 RLAERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRA 139 (269)
T ss_pred HHHHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHH
Confidence 333445677999998754321 1232 2356666677777777666 79999986532 2 3445688
Q ss_pred HHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 178 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
.|++.+++.|+++.....+... .+..+....++++.+.. +++|+ +.+...+..+++.+++.|...++.+-+.
T Consensus 140 gf~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vP~di~vv 213 (269)
T cd06297 140 GFQQALKDAGRPFSPDLLAITD--HSEEGGRLAMRHLLEKASPPLAVF-ASADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHHcCCCCChhhEEeCC--CChhhHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8999999888764321111111 11233445555654333 45444 4455577788999999887655555444
No 195
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.80 E-value=0.2 Score=49.18 Aligned_cols=198 Identities=11% Similarity=0.001 Sum_probs=108.6
Q ss_pred EEEEEeecC------CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh
Q 006918 28 NVGAIFSFG------TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA 101 (625)
Q Consensus 28 ~IG~l~~~~------~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s 101 (625)
.||+++|.. ..+-.....+++-+.++ .|+++.+...+. . .+....+...++.++|--...
T Consensus 1 ~igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~~~~~~~---~---~~~~~~~~~~~~dgiii~~~~ 66 (283)
T cd06279 1 AVGVVLTDSLSYAFSDPVASQFLAGVAEVLDA--------AGVNLLLLPASS---E---DSDSALVVSALVDGFIVYGVP 66 (283)
T ss_pred CEEEEeCCcccccccCccHHHHHHHHHHHHHH--------CCCEEEEecCcc---H---HHHHHHHHhcCCCEEEEeCCC
Confidence 388999862 21112233444433333 156665543322 1 123334556688877753322
Q ss_pred HHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC------------
Q 006918 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD------------ 169 (625)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~------------ 169 (625)
... .....+...++|+|......+ .. .-....+....+...+++|...|-++++++..+.
T Consensus 67 ~~~-~~~~~~~~~~ipvV~~~~~~~----~~---~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~ 138 (283)
T cd06279 67 RDD-PLVAALLRRGLPVVVVDQPLP----PG---VPSVGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDE 138 (283)
T ss_pred CCh-HHHHHHHHcCCCEEEEecCCC----CC---CCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCcccccccccccccc
Confidence 222 233445678999998754321 11 1234456667788888888888999999997532
Q ss_pred -------CCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHH
Q 006918 170 -------DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQR 240 (625)
Q Consensus 170 -------~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~ 240 (625)
.......+.+.+.+++.|++......+.... .+.......++++.+++ +++|+ +++...+..+++++.+
T Consensus 139 ~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~gv~~al~~ 216 (283)
T cd06279 139 RLASATFSVARERLEGYLEALEEAGIDISDVPIWEIPE-NDRASGEEAARELLDASPRPTAIL-CMSDVLALGALQVARE 216 (283)
T ss_pred cccccccccHHHHHHHHHHHHHHcCCCCChheEEecCC-CchHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHH
Confidence 1123456778888888875432111111110 12234445555654433 34443 4555667788899999
Q ss_pred cCCCCCCeE
Q 006918 241 LGMMDSGYV 249 (625)
Q Consensus 241 ~g~~~~~~~ 249 (625)
.|+..++.+
T Consensus 217 ~g~~ip~di 225 (283)
T cd06279 217 LGLRVPEDL 225 (283)
T ss_pred cCCCCCCce
Confidence 887644433
No 196
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.78 E-value=0.25 Score=50.20 Aligned_cols=207 Identities=7% Similarity=-0.034 Sum_probs=111.4
Q ss_pred ceEEEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHH
Q 006918 25 EVLNVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (625)
Q Consensus 25 ~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~ 103 (625)
..-.||+++|... .+-.....+++-+.++. |+.+- +.++..++..-.+....+.++++.++|-......
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 4567999998632 22223344444444431 44443 3444444444444455566677877664221111
Q ss_pred HHHHHHhhhcCCCc-EEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC--CCCcchHHHHH
Q 006918 104 AHVLSHLANELQVP-LLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALG 180 (625)
Q Consensus 104 ~~~va~~~~~~~iP-~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~--~~g~~~~~~l~ 180 (625)
...+..+.. ++| ++......+ +..+++ ....+..-+...++.|...|-+++++|.... .......+.|.
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 222334433 355 666543221 111222 3334555566677888888999999997543 23456678899
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+.+++.|+.+......... .+...-...++++.+. .++.|+ +.+...+..+++++.+.|+..++-+-+.
T Consensus 200 ~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~al~~~G~~vP~disvi 270 (346)
T PRK10401 200 SALKEQGIIPPESWIGTGT--PDMQGGEAAMVELLGRNLQLTAVF-AYNDNMAAGALTALKDNGIAIPLHLSII 270 (346)
T ss_pred HHHHHcCCCCChhheecCC--CChHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 9999988754321111111 1122223445554433 355555 4566677789999999998765544443
No 197
>PRK09492 treR trehalose repressor; Provisional
Probab=96.77 E-value=0.31 Score=48.77 Aligned_cols=192 Identities=11% Similarity=0.000 Sum_probs=109.6
Q ss_pred ceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHH
Q 006918 25 EVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (625)
Q Consensus 25 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~ 103 (625)
..-+||+++|.. ..+-.....++ .+++++. |+++ .+.++..++....+....+.++++.++|-...+..
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i---~~~~~~~-----gy~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 130 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTM---LPAFYEQ-----GYDP--IIMESQFSPEKVNEHLGVLKRRNVDGVILFGFTGI 130 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHH---HHHHHHc-----CCeE--EEEecCCChHHHHHHHHHHHhcCCCEEEEeCCCcc
Confidence 456899999853 22222233333 3444443 4555 34555556555545555566678888875322211
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEec-C--CCCcchHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND-D--DQGRNGVTALG 180 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d-~--~~g~~~~~~l~ 180 (625)
. .......++|++...... ..++ ...+++..-+..+++.|...|-++++++... . ..+....+.|.
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 123344567887654321 1122 2344555566667788778899999999632 2 23456778999
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
+.+++.|+.+... ... .+...-...++++.+.+++.|+. .+...+..+++++++.|+
T Consensus 200 ~al~~~g~~~~~~--~~~---~~~~~~~~~~~~~l~~~~~ai~~-~~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 200 AFCKQHKLTPVAA--LGG---LSMQSGYELVAKVLTPETTALVC-ATDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHcCCCceee--cCC---CCchHHHHHHHHHhhcCCCEEEE-cCcHHHHHHHHHHHHcCC
Confidence 9999998865321 111 11222233455544456776664 445677788999999886
No 198
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.73 E-value=0.24 Score=49.30 Aligned_cols=210 Identities=10% Similarity=0.026 Sum_probs=114.7
Q ss_pred CCceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh
Q 006918 23 KPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA 101 (625)
Q Consensus 23 ~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s 101 (625)
..+.-+||+++|.. ..+-.....+++-+.++. |+.+.+ .+...+...-.+....+...++.+||=-...
T Consensus 32 ~~~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~ 101 (309)
T PRK11041 32 RNESRTILVIVPDICDPFFSEIIRGIEVTAAEH--------GYLVLI--GDCAHQNQQEKTFVNLIITKQIDGMLLLGSR 101 (309)
T ss_pred cCCCcEEEEEeCCCcCccHHHHHHHHHHHHHHC--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCC
Confidence 34567999999853 333334455555555542 455543 3444444444445555667788877642211
Q ss_pred HHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHH
Q 006918 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTAL 179 (625)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~--~g~~~~~~l 179 (625)
....... .......|++..+...+. ..+++ ...++...+...++.|...|-+++++|..... ......+.|
T Consensus 102 ~~~~~~~-~~~~~~~pvv~~~~~~~~---~~~~~---V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf 174 (309)
T PRK11041 102 LPFDASK-EEQRNLPPMVMANEFAPE---LELPT---VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGY 174 (309)
T ss_pred CChHHHH-HHHhcCCCEEEEccccCC---CCCCE---EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHH
Confidence 1111111 122223467764433221 11232 33455666777778888889999999975432 234567888
Q ss_pred HHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 180 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
++.+++.|+++.....+... .+.......++++.+. .+++|+. ++...+..++++.++.|+..++-+.+.
T Consensus 175 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vv 246 (309)
T PRK11041 175 VQALRRCGITVDPQYIARGD--FTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSII 246 (309)
T ss_pred HHHHHHcCCCCCHHHeEeCC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 99998888764321111111 1233334555665443 3566654 455566678888888887555444444
No 199
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.69 E-value=0.37 Score=48.61 Aligned_cols=207 Identities=7% Similarity=-0.005 Sum_probs=114.0
Q ss_pred ceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHH
Q 006918 25 EVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (625)
Q Consensus 25 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~ 103 (625)
..-.||+++|.. ..+-.....+++-+.++ .|+++.+ .+...++..-.+....+.++++.++|-......
T Consensus 62 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~ 131 (331)
T PRK14987 62 TSRAIGVLLPSLTNQVFAEVLRGIESVTDA--------HGYQTML--AHYGYKPEMEQERLESMLSWNIDGLILTERTHT 131 (331)
T ss_pred CCCEEEEEeCCCcchhHHHHHHHHHHHHHH--------CCCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCC
Confidence 445899999853 22222334444444443 1555544 444445444344444566778888774221112
Q ss_pred HHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC-CCcchHHHHHHH
Q 006918 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDK 182 (625)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~-~g~~~~~~l~~~ 182 (625)
......+...++|+|....... +. ... ....++..-+..+++.|...|-++++++..... ......+.|++.
T Consensus 132 -~~~~~~l~~~~iPvV~~~~~~~---~~-~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~a 204 (331)
T PRK14987 132 -PRTLKMIEVAGIPVVELMDSQS---PC-LDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERTIIKQKGYEQA 204 (331)
T ss_pred -HHHHHHHHhCCCCEEEEecCCC---CC-CCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccHHHHHHHHHHH
Confidence 2223345677999997532211 11 111 244556666777788888889999999964322 233456788899
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
+++.|+... ...+... .....-...++++.+. .++.|+ +.+...+..+++++.+.|+..++-+-|.
T Consensus 205 l~~~g~~~~-~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~g~~vP~disvi 272 (331)
T PRK14987 205 MLDAGLVPY-SVMVEQS--SSYSSGIELIRQARREYPQLDGVF-CTNDDLAVGAAFECQRLGLKVPDDMAIA 272 (331)
T ss_pred HHHcCCCcc-ceeecCC--CChhhHHHHHHHHHhcCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCccEEE
Confidence 998886311 0111111 1112223445555433 345554 4555677788999999998766555444
No 200
>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=96.42 E-value=0.0085 Score=57.99 Aligned_cols=92 Identities=14% Similarity=0.091 Sum_probs=66.5
Q ss_pred CceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEee
Q 006918 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (625)
Q Consensus 461 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~ 540 (625)
.++|+||+. +.+.| ..+.+...++.+++++++|.+ ++++.. ++|+.++..+..|++|+++.+
T Consensus 31 ~~~l~vg~~--~~~~~--------~~~~~~~~~l~~~l~~~~g~~--v~~~~~------~~~~~~~~~l~~g~~Di~~~~ 92 (254)
T TIGR01098 31 PKELNFGIL--PGENA--------SNLTRRWEPLADYLEKKLGIK--VQLFVA------TDYSAVIEAMRFGRVDIAWFG 92 (254)
T ss_pred CCceEEEEC--CCCCH--------HHHHHHHHHHHHHHHHHhCCc--EEEEeC------CCHHHHHHHHHcCCccEEEEC
Confidence 357999995 33333 223445679999999999988 666653 459999999999999999876
Q ss_pred eeeec---ccccceEeccccccc------ceEEEEecCC
Q 006918 541 IAIVT---NRTKAVDFTQPYIES------GLVVVAPVRK 570 (625)
Q Consensus 541 ~~~t~---~R~~~vdfs~p~~~~------~~~~l~~~~~ 570 (625)
..... +|.+..+|+.|+... ...+++++..
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~ 131 (254)
T TIGR01098 93 PSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADS 131 (254)
T ss_pred cHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCC
Confidence 54433 677778999986643 2467776644
No 201
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=96.17 E-value=0.59 Score=45.47 Aligned_cols=198 Identities=9% Similarity=-0.001 Sum_probs=106.9
Q ss_pred EEEEEeecCC--CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHH
Q 006918 28 NVGAIFSFGT--VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMA 104 (625)
Q Consensus 28 ~IG~l~~~~~--~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~ 104 (625)
+||++.+.+. ..+......+..++++.-++. |+.+.+... ..+. ....+++.++|- +..+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~----g~~~~~~~~--~~~~--------~~~~~~vdgii~~~~~~~-- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQEL----GIELTKFFR--DDDL--------LEILEDVDGIIAIGKFSQ-- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHc----CCEEEEEec--cchh--------HHhccCcCEEEEecCCCH--
Confidence 5888888542 122233344444444444332 566655433 2111 123456766652 22222
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCC-------CCcchHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-------QGRNGVT 177 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~-------~g~~~~~ 177 (625)
.....+...++|++...... .+..+++ ...++...+..+++.+.+.|-++++++..... ......+
T Consensus 65 -~~~~~~~~~~~pvV~~~~~~---~~~~~~~---v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~R~~ 137 (270)
T cd01544 65 -EQLAKLAKLNPNLVFVDSNP---APDGFDS---VVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIEDPRET 137 (270)
T ss_pred -HHHHHHHhhCCCEEEECCCC---CCCCCCE---EEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhhHHHH
Confidence 23344556789999864321 2222333 34556666777888888889999999976432 2344577
Q ss_pred HHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC----CceEEEEEcchhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM----EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 178 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~----~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
.+.+.+++.|.. .....+... .+.......++++.+. .+++ |++++...+..+++.+++.|+..++-+-|.
T Consensus 138 gf~~~~~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~v~ 212 (270)
T cd01544 138 AFREYMKEKGLY-DPELIYIGD--FTVESGYQLMKEALKSLGDNLPTA-FFIASDPMAIGALRALQEAGIKVPEDVSVI 212 (270)
T ss_pred HHHHHHHHcCCC-ChheEeeCC--CCHHHHHHHHHHHHhccCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 888888888741 100111111 1122233444444332 2454 444566778888999999997655444443
No 202
>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=96.17 E-value=0.43 Score=46.12 Aligned_cols=198 Identities=14% Similarity=0.069 Sum_probs=104.3
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
+||.+++-. .....+-.++..+++++.++. |.++.+ .+...++....+...++.+++...||+ .......++
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~~----gv~~~~--~e~~~~~~~~~~~i~~~~~~g~dlIi~-~g~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKAL----GVEVTY--VENVPEGADAERVLRELAAQGYDLIFG-TSFGFMDAA 72 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHhc----CCeEEE--EecCCchHhHHHHHHHHHHcCCCEEEE-CchhhhHHH
Confidence 578888732 222234444555666665542 455444 444445666777778888889999998 344555666
Q ss_pred HHhhhcC-CCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCC-CcchHHHHHHHHhc
Q 006918 108 SHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAE 185 (625)
Q Consensus 108 a~~~~~~-~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~-g~~~~~~l~~~l~~ 185 (625)
..++..+ ++.++...+..+ .+.-..+.|+... ...++-.++.++.. =.+|++|...... .......|.+-++.
T Consensus 73 ~~vA~~~p~~~F~~~d~~~~--~~Nv~~~~~~~~e-~~ylaG~~Aa~~t~--t~kVG~I~g~~~~~~~~~~~gF~~G~~~ 147 (258)
T cd06353 73 LKVAKEYPDVKFEHCSGYKT--APNVGSYFARIYE-GRYLAGVVAGKMTK--TNKVGYVAAFPIPEVVRGINAFALGARS 147 (258)
T ss_pred HHHHHHCCCCEEEECCCCCC--CCCeeeEechhhH-HHHHHHHHHHHhhc--CCcEEEEcCcccHHHHHHHHHHHHHHHH
Confidence 6666665 333333222111 1111223333331 12334444554443 3589999864322 22334566666654
Q ss_pred cceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcC
Q 006918 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (625)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g 242 (625)
.+-.+.....+... ..+...-....+.+.+.++++|+-.+. ....++++++.|
T Consensus 148 ~~p~~~v~~~~~g~-~~D~~~a~~~a~~l~~~G~DvI~~~~~---~~g~~~aa~~~g 200 (258)
T cd06353 148 VNPDATVKVIWTGS-WFDPAKEKEAALALIDQGADVIYQHTD---SPGVIQAAEEKG 200 (258)
T ss_pred HCCCcEEEEEEecC-CCCcHHHHHHHHHHHHCCCcEEEecCC---ChHHHHHHHHhC
Confidence 43333222222211 022333455666667789998887772 245778888766
No 203
>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=96.14 E-value=1.3 Score=44.12 Aligned_cols=191 Identities=10% Similarity=-0.012 Sum_probs=105.8
Q ss_pred ceEEEEEEeecC-CCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChH
Q 006918 25 EVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAV 102 (625)
Q Consensus 25 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~ 102 (625)
..-.||+++|.- ..+-.....++.- ...+. |+.+- +.++..++....+....+...++.++|- +....
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i~~---~~~~~-----gy~~~--i~~~~~~~~~~~~~~~~l~~~~vdGvIi~~~~~~ 127 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGMLP---VFYTA-----GYDPI--IMESQFSPQLTNEHLSVLQKRNVDGVILFGFTGC 127 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHHHH---HHHHC-----CCeEE--EecCCCChHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 445799999852 2211122233322 33322 45543 3444445544434444455667887764 22111
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEec-C--CCCcchHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND-D--DQGRNGVTAL 179 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d-~--~~g~~~~~~l 179 (625)
... .....++|++..+... ..++ ...+++..-+..+++.|...|-+++++|..+ . ..+....+.+
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 2345678988765321 1122 2445566667777888888899999999732 2 2345667889
Q ss_pred HHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC
Q 006918 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 180 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
++.+++.|+.... .... .+.......++++.+.+++.|| +.+...+..+++.+.+.|.
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 1122333445554334566554 5666678888899998884
No 204
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=96.08 E-value=1.3 Score=44.05 Aligned_cols=171 Identities=11% Similarity=-0.023 Sum_probs=95.2
Q ss_pred CcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccC
Q 006918 63 GRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAP 141 (625)
Q Consensus 63 g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~p 141 (625)
|+.+. +.++..++..-.+....++.+++.+||= +............+...++|+|......+ . .+.......
T Consensus 28 g~~v~--~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~~~---~--~~~~~~V~~ 100 (302)
T TIGR02634 28 GAKVF--VQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRLIN---D--ADIDFYLSF 100 (302)
T ss_pred CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCcCC---C--CCccEEEec
Confidence 45553 4566666666566666777888877663 33333233444456678999998754321 1 112223445
Q ss_pred chHHHHHHHHHHHHHcCCc-EEEEEEecCC--CCcchHHHHHHHHhcc----ceEEEEeeecCCCCCCChhHHHHHHHHH
Q 006918 142 NDLYLMSAIAEMVSYFGWG-EVIAIFNDDD--QGRNGVTALGDKLAEI----RCKISYKSALPPDQSVTETDVRNELVKV 214 (625)
Q Consensus 142 s~~~~~~al~~ll~~~~W~-~v~ii~~d~~--~g~~~~~~l~~~l~~~----g~~v~~~~~~~~~~~~~~~~~~~~l~~i 214 (625)
+....+..+++.|...+-+ +++++..+.. ......+.+++.+++. ++.+....... . ....+....++++
T Consensus 101 d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~~~~~~l 177 (302)
T TIGR02634 101 DNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVLQPAIDSGDIKIVGDQWVD-G--WLPENALRIMENA 177 (302)
T ss_pred CHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHHhhhccCCCeEEecCcCCC-C--CCHHHHHHHHHHH
Confidence 6667778888888776655 7877765322 2333456677777753 34432211111 1 1233344555554
Q ss_pred hc---CCceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 215 RM---MEARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 215 ~~---~~~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
.. ..+++|+ +.+...+..+++++++.|+.
T Consensus 178 l~~~~~~~~aI~-~~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 178 LTANDNKVDAVV-ASNDATAGGAIQALTAQGLA 209 (302)
T ss_pred HHhCCCCccEEE-ECCCchHHHHHHHHHHCCCC
Confidence 32 2355544 44455567788888888863
No 205
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=94.86 E-value=4.2 Score=39.70 Aligned_cols=204 Identities=14% Similarity=0.059 Sum_probs=100.4
Q ss_pred EEEEEeecCC-CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh-H-HH
Q 006918 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-V-MA 104 (625)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s-~-~~ 104 (625)
+||++.|... .+-.....+++.+.++. |+++- +.++..++..-.+....++.+++.++|=.... . ..
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~--------gy~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI--------GWNLR--ILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc--------CcEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 5888888632 22122334443333332 44443 34555565555555556667788777643222 2 12
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCC-ceEEccCchHHHHHHHHHHHHHc--CCcEEEEEEecCC-CCcchHHHHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYP-FFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD-QGRNGVTALG 180 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~-~~~r~~ps~~~~~~al~~ll~~~--~W~~v~ii~~d~~-~g~~~~~~l~ 180 (625)
..+ ..+...++|+|........ .+...+ .+-.....+...+..+++.|... |-++++++..... ......+.++
T Consensus 72 ~~~-~~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~ 149 (280)
T cd06315 72 AEL-ELAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIAKAKANAMK 149 (280)
T ss_pred HHH-HHHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHH
Confidence 233 3345679999987542111 110011 13334555666677788877665 8899998864321 1111123444
Q ss_pred HHHhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhcC---CceEEEEEcchhhHHHHHHHHHHcCCCCC
Q 006918 181 DKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (625)
Q Consensus 181 ~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~~~~~~~~~il~~a~~~g~~~~ 246 (625)
..++.. +..+......... .........++++.++ .+++ |++.+...+..+++.+++.|+..+
T Consensus 150 ~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~a-i~~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 150 EIIEACKGCTVLSIEDVPIS--RTATRMPALTARLLQRYGDKWTH-SLAINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHHhCCCCEEEEecccCcc--hhhhhhHHHHHHHHHhcCcccce-ecccchhhhHHhHHHHHHhcccCC
Confidence 444332 2222111111111 1111111334443322 2454 445555677788889999887644
No 206
>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=94.64 E-value=5.1 Score=39.63 Aligned_cols=162 Identities=7% Similarity=-0.051 Sum_probs=82.4
Q ss_pred CCCChHHHHHHHHHHHhcCcEEEEc-CCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccC-chHHHHHHH
Q 006918 73 AKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAP-NDLYLMSAI 150 (625)
Q Consensus 73 ~~~~~~~a~~~~~~l~~~~v~aviG-~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~p-s~~~~~~al 150 (625)
+..++..-.+....++++++.+||- |..+.........+...+||+|......+. + ........ .....+...
T Consensus 38 ~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~a 112 (302)
T TIGR02637 38 TGTTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQ 112 (302)
T ss_pred CCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHH
Confidence 4456666666666777888877653 433333333344466689999986543211 1 11223333 233334444
Q ss_pred HHHH-HHc-CCcEEEEEEecCCCC--cchHHHHHHHHhccc---eEEEEeeecCCCCCCChhHHHHHHHHHhcCCc--eE
Q 006918 151 AEMV-SYF-GWGEVIAIFNDDDQG--RNGVTALGDKLAEIR---CKISYKSALPPDQSVTETDVRNELVKVRMMEA--RV 221 (625)
Q Consensus 151 ~~ll-~~~-~W~~v~ii~~d~~~g--~~~~~~l~~~l~~~g---~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~--~v 221 (625)
++.+ ++. +-.+|++|..+.... ....+.+++.+++.| .++... .... .+.+.-...++++.+.++ +.
T Consensus 113 a~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~L~~~~~~~a 188 (302)
T TIGR02637 113 VQLAAEQIGNGGEIAILSAASTATNQNAWIEIMKKELKDPKYPKVKLVAT--VYGD--DDAQKSYQEAQGLLKSYPNLKG 188 (302)
T ss_pred HHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHHHHHhhccCCCCEEEee--ecCC--chHHHHHHHHHHHHHhCCCccE
Confidence 4444 332 237999987543221 123466677776543 333211 1111 123333445555444444 44
Q ss_pred EEEEcchhhHHHHHHHHHHcCCC
Q 006918 222 IVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 222 Ivl~~~~~~~~~il~~a~~~g~~ 244 (625)
|+. .....+...++++++.|..
T Consensus 189 i~~-~~d~~a~ga~~al~~~g~~ 210 (302)
T TIGR02637 189 IIA-PTTVGIKAAAQAVSDAKLI 210 (302)
T ss_pred EEe-CCCchHHHHHHHHHhcCCC
Confidence 443 3455667778888888753
No 207
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=94.45 E-value=0.042 Score=54.01 Aligned_cols=51 Identities=14% Similarity=0.206 Sum_probs=45.0
Q ss_pred CCHHHHHHHHHcCcccEEEeeeeeecccccceEeccc--ccccceEEEEecCC
Q 006918 520 PTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQP--YIESGLVVVAPVRK 570 (625)
Q Consensus 520 ~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p--~~~~~~~~l~~~~~ 570 (625)
.+|+.++..|.+|++|+++++++++.||.+.++|+.| |....+.++++...
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 3499999999999999999999999999999999998 67777888887654
No 208
>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=93.89 E-value=0.7 Score=43.75 Aligned_cols=93 Identities=9% Similarity=0.044 Sum_probs=72.3
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCC-----CCChhHHHHHHHHHhcCCceE
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-----SVTETDVRNELVKVRMMEARV 221 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~-----~~~~~~~~~~l~~i~~~~~~v 221 (625)
..|+.+.++++|-++++++. .|-....+.+.+.+++.|++|.....+.... ..+...+.+.++++...+++.
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 57899999999999999997 4667788999999999999998765444321 123556666677776778999
Q ss_pred EEEEcchhhHHHHHHHHHH-cC
Q 006918 222 IVVHGYSRTGLMVFDVAQR-LG 242 (625)
Q Consensus 222 Ivl~~~~~~~~~il~~a~~-~g 242 (625)
|++.|..-....++.++.+ +|
T Consensus 185 ifisCTnLrt~~vi~~lE~~lG 206 (239)
T TIGR02990 185 LFLSCTALRAATCAQRIEQAIG 206 (239)
T ss_pred EEEeCCCchhHHHHHHHHHHHC
Confidence 9999998888888888854 44
No 209
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=93.51 E-value=7.8 Score=37.61 Aligned_cols=154 Identities=9% Similarity=0.004 Sum_probs=88.3
Q ss_pred hcCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEec
Q 006918 89 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 168 (625)
Q Consensus 89 ~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d 168 (625)
..++.++|-.........+.. +...++|+|........ ...+++ ....+...+..+++.+...|-+++++|...
T Consensus 54 ~~~vdgiIi~~~~~~~~~~~~-l~~~~iPvV~i~~~~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~~~ 127 (269)
T cd06287 54 ALDIDGAILVEPMADDPQVAR-LRQRGIPVVSIGRPPGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIVGS 127 (269)
T ss_pred ccCcCeEEEecCCCCCHHHHH-HHHcCCCEEEeCCCCCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEeCC
Confidence 557777653211111122333 45569999987543210 112333 234555566777788888899999999743
Q ss_pred C--CCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 169 D--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 169 ~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
. .......+.+.+.+++.|+..... ..... .+..+-...++++.+. .+++|+ +.+...+..+++.+++.|+.
T Consensus 128 ~~~~~~~~R~~gf~~a~~~~g~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~gvl~al~~~gl~ 203 (269)
T cd06287 128 ARRNSYLEAEAAYRAFAAEHGMPPVVL-RVDEA--GGEEAGYAACAQLLAQHPDLDALC-VPVDAFAVGAVRAATELGRA 203 (269)
T ss_pred cccccHHHHHHHHHHHHHHcCCCccee-EecCC--CChHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCC
Confidence 2 233455778889998888753211 11111 1123333455555433 345554 55667788899999999987
Q ss_pred CCCeEEEe
Q 006918 245 DSGYVWIA 252 (625)
Q Consensus 245 ~~~~~~i~ 252 (625)
.++-+=+.
T Consensus 204 vP~dvsvi 211 (269)
T cd06287 204 VPDQLRVV 211 (269)
T ss_pred CCCceEEE
Confidence 66545444
No 210
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=93.45 E-value=6.7 Score=39.59 Aligned_cols=209 Identities=14% Similarity=0.068 Sum_probs=100.5
Q ss_pred CCceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEec--CCCChHHHHHHHHHHHhcCcEEEEcCCC
Q 006918 23 KPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHD--AKFNGFLSIMGALQFMETDTLAIVGPQS 100 (625)
Q Consensus 23 ~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D--~~~~~~~a~~~~~~l~~~~v~aviG~~~ 100 (625)
..++.+..+++.........+-.....+++.+-++. |.+++....+ ...+.....+...++.+++...|+|..
T Consensus 31 ~~~~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~----g~~~~~~~~~~~~~~~~~~~~~~~~~~a~~g~~lI~~~g- 105 (345)
T COG1744 31 AAGKKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKEL----GLKVETYYWEYVQSDSEADYERALRALAEDGYDLIFGTG- 105 (345)
T ss_pred ccccceEEEEEecCCCCccchhHHHHHHHHHHHHHh----CCceEeeeeeecCCcchhHHHHHHHHHHhcCCCEEEEec-
Confidence 334444444444432222333333344444443332 3444443222 222345555666667777877787744
Q ss_pred hHHHHHHHHhhhcCCCcEEeeccCCCCCCC--CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEe-cCCCCcchHH
Q 006918 101 AVMAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN-DDDQGRNGVT 177 (625)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~--~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~-d~~~g~~~~~ 177 (625)
-....++..++..+ |-+.+.-.+..... ....+.||..-. ..++-.++..+.+ =.+++.|.. +-+--.....
T Consensus 106 f~~~d~~~~va~~~--Pd~~F~iid~~~~~~~Nv~s~~f~~~eg-ayL~G~~AA~~sk--~~~vG~vgg~~~p~v~~f~~ 180 (345)
T COG1744 106 FAFSDALEKVAAEY--PDVKFVIIDGVVKKEDNVASYVFREYEG-AYLAGVAAAKMSK--SGKVGFVGGMDIPEVNRFIN 180 (345)
T ss_pred cchhhHHHHHHHHC--CCCEEEEecCccCCCCceEEEEeccccH-HHHHHHHHHHhhc--CCceeEEecccchhhHHHHH
Confidence 34445556666665 33333222322222 234566776532 2233333433333 344555554 2333334556
Q ss_pred HHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC
Q 006918 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 178 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
.|..-++..+-.+.....+-.. ..+...-..+...+.++++|||+-...+.... .+.+|++.+.
T Consensus 181 gF~~Gak~~np~i~v~v~~~gs-f~D~~k~k~~a~~li~~GaDVI~~~ag~~~~g-v~~~A~~~~~ 244 (345)
T COG1744 181 GFLAGAKSVNPDIKVKVVYVGS-FSDPAKGKEAANALIDQGADVIYPAAGGTGVG-VFQAAKELGA 244 (345)
T ss_pred HHHHHHHhhCCCccEEEEEecC-ccChHHHHHHHHHHHhcCCCEEEecCCCCcch-HHHHHHHhCC
Confidence 6666666544333222222211 12333445577788889999998877664433 3336777663
No 211
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=91.98 E-value=15 Score=36.87 Aligned_cols=149 Identities=9% Similarity=0.005 Sum_probs=82.8
Q ss_pred cCcEEEEc-CCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEec
Q 006918 90 TDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 168 (625)
Q Consensus 90 ~~v~aviG-~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d 168 (625)
.++.++|- +..+. .....+...++|++......+ ...+++ ...++...+..+++.|...|.++++++..+
T Consensus 113 ~~vDgiI~~~~~~~---~~~~~l~~~~~pvV~~~~~~~---~~~~~~---V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~ 183 (327)
T PRK10339 113 KNVTGILIVGKPTP---ALRAAASALTDNICFIDFHEP---GSGYDA---VDIDLARISKEIIDFYINQGVNRIGFIGGE 183 (327)
T ss_pred ccCCEEEEeCCCCH---HHHHHHHhcCCCEEEEeCCCC---CCCCCE---EEECHHHHHHHHHHHHHHCCCCeEEEeCCc
Confidence 56776664 22222 233445567899987643221 112332 444555566777888888899999999653
Q ss_pred CC--CCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 169 DD--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 169 ~~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
.. ......+.+.+.+++.|+. .....+... .........++++.+. .++. |++.+...+..+++++.+.|..
T Consensus 184 ~~~~~~~~R~~gf~~~~~~~g~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~D~~A~g~~~al~~~g~~ 259 (327)
T PRK10339 184 DEPGKADIREVAFAEYGRLKQVV-REEDIWRGG--FSSSSGYELAKQMLAREDYPKA-LFVASDSIAIGVLRAIHERGLN 259 (327)
T ss_pred cccchhhHHHHHHHHHHHHcCCC-ChhheeecC--cChhHHHHHHHHHHhCCCCCCE-EEECCcHHHHHHHHHHHHcCCC
Confidence 32 2334566777777777751 110111111 1122333445554432 3454 4455566788899999999976
Q ss_pred CCCeEEE
Q 006918 245 DSGYVWI 251 (625)
Q Consensus 245 ~~~~~~i 251 (625)
.++-+-|
T Consensus 260 vP~di~v 266 (327)
T PRK10339 260 IPQDISL 266 (327)
T ss_pred CCCceEE
Confidence 5544433
No 212
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=91.97 E-value=13 Score=36.13 Aligned_cols=205 Identities=10% Similarity=0.049 Sum_probs=110.6
Q ss_pred cCCCceEEEEEEeecCCCCchhH---HHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcE-EEE
Q 006918 21 ALKPEVLNVGAIFSFGTVNGQVS---RIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTL-AIV 96 (625)
Q Consensus 21 ~~~~~~i~IG~l~~~~~~~g~~~---~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~-avi 96 (625)
++..++..||...|.-.. .++ ..+|.-+.+.. |.+..+ .+-.++...-......++++|+. .||
T Consensus 20 aa~~~d~~IGis~~d~~~--eRW~~D~~~~~~~~e~~--------g~k~~~--q~A~~~~~~Q~~qien~i~qg~~vlvi 87 (341)
T COG4213 20 AAAAKDGVIGISMPDLRS--ERWIKDRDAFVKKAEAL--------GAKVDV--QSADGDEEKQLAQIENMINQGVKVLVI 87 (341)
T ss_pred hhhccCCeEEEEcCChhH--hhhhhhhHHHHHHHHhc--------cchhhh--hhhccChhHHHHHHHHHHhcCCCEEEE
Confidence 456789999999887421 123 34444444443 333333 33444556666777888999874 557
Q ss_pred cCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEc--cCchHHHHHHHHHHHHHcC----CcEEEEEEecCC
Q 006918 97 GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQT--APNDLYLMSAIAEMVSYFG----WGEVIAIFNDDD 170 (625)
Q Consensus 97 G~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~--~ps~~~~~~al~~ll~~~~----W~~v~ii~~d~~ 170 (625)
++..+.....+-..+...+||+|+| +....+..+.|.... .---..|+.++.+-++.-. +.-+.+=.+.++
T Consensus 88 ~a~d~~~l~~~i~~A~~~gikViaY---DRlI~n~dvd~YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~D 164 (341)
T COG4213 88 GAIDGGVLSNAVEKAKSEGIKVIAY---DRLINNADVDFYVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDD 164 (341)
T ss_pred EeccchhHHHHHHHHHHcCCeEEEe---ecccccCCccEEEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCC
Confidence 8999988888888889999999987 333333333332221 1122345555555454432 444433333222
Q ss_pred -CC----cchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhc---CCceEEEEEcchhhHHHHHHHHHHcC
Q 006918 171 -QG----RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM---MEARVIVVHGYSRTGLMVFDVAQRLG 242 (625)
Q Consensus 171 -~g----~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~---~~~~vIvl~~~~~~~~~il~~a~~~g 242 (625)
.. ....+.|+..+..-.+.+......+.. ....-...+..+.. .+.+.|+-.-+ ..+.-.+.+....|
T Consensus 165 nNA~lf~~G~m~VLkp~idsGkik~~Ge~~~d~W---~ps~Aq~~men~lta~~~~vdaVvA~nD-gtagGaI~aL~a~G 240 (341)
T COG4213 165 NNAKLFFAGAMKVLKPLIDSGKIKVVGEQWTDGW---LPSNAQQIMENLLTANYNDIDAVVAPND-GTAGGAIAALKAQG 240 (341)
T ss_pred cchHHHHhcHHHHHHHHhhCCceEEeeecccccc---CHHHHHHHHHHHHhcccCceeEEEcCCC-chhHHHHHHHHhcc
Confidence 11 122344555555555666444444432 12233333443332 33444444333 55667777777788
Q ss_pred CC
Q 006918 243 MM 244 (625)
Q Consensus 243 ~~ 244 (625)
+-
T Consensus 241 l~ 242 (341)
T COG4213 241 LA 242 (341)
T ss_pred cC
Confidence 75
No 213
>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=91.86 E-value=3.8 Score=36.74 Aligned_cols=99 Identities=9% Similarity=-0.022 Sum_probs=67.0
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc--ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEE
Q 006918 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVI 222 (625)
Q Consensus 145 ~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vI 222 (625)
++...+.+.+..-++ ++.++..... ..+.+.+.+++. |+.++....-+. +..+...+++.|+++++++|
T Consensus 35 dl~~~l~~~~~~~~~-~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~~g~f----~~~~~~~i~~~I~~~~pdiv 105 (172)
T PF03808_consen 35 DLFPDLLRRAEQRGK-RIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYHHGYF----DEEEEEAIINRINASGPDIV 105 (172)
T ss_pred HHHHHHHHHHHHcCC-eEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEecCCCC----ChhhHHHHHHHHHHcCCCEE
Confidence 345666666666665 6777776553 566677777766 667765432222 35677889999999999999
Q ss_pred EEEcchhhHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006918 223 VVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW 255 (625)
Q Consensus 223 vl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 255 (625)
++.........++.+..+.. ... +|+..+.
T Consensus 106 ~vglG~PkQE~~~~~~~~~l--~~~-v~i~vG~ 135 (172)
T PF03808_consen 106 FVGLGAPKQERWIARHRQRL--PAG-VIIGVGG 135 (172)
T ss_pred EEECCCCHHHHHHHHHHHHC--CCC-EEEEECc
Confidence 99888877777777666532 233 7777653
No 214
>TIGR00035 asp_race aspartate racemase.
Probab=91.02 E-value=3.3 Score=39.14 Aligned_cols=87 Identities=11% Similarity=0.085 Sum_probs=52.0
Q ss_pred ChHHHHHHHHHHH-hcCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH
Q 006918 76 NGFLSIMGALQFM-ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV 154 (625)
Q Consensus 76 ~~~~a~~~~~~l~-~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll 154 (625)
++...+..+.+.+ +.|+.+++=+.++.... +..+-+..++|+|+. .++.++-+
T Consensus 59 ~~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------~~~~~~~~ 112 (229)
T TIGR00035 59 RPRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISM-------------------------IEETAEAV 112 (229)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEech-------------------------HHHHHHHH
Confidence 3444444444444 44888877655554333 455656678998862 23444445
Q ss_pred HHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEE
Q 006918 155 SYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKIS 191 (625)
Q Consensus 155 ~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 191 (625)
+..+.++|+++.....- ....+++.+++.|+++.
T Consensus 113 ~~~~~~~VgvLaT~~T~---~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 113 KEDGVKKAGLLGTKGTM---KDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHcCCCEEEEEecHHHH---HhHHHHHHHHHCCCEEE
Confidence 66688889988754321 23446777777786654
No 215
>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=90.06 E-value=1.6 Score=38.43 Aligned_cols=98 Identities=15% Similarity=0.175 Sum_probs=62.3
Q ss_pred HHHHHHcCCcEEEEEEecC--CCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHH-HHhcCCceEEEEEcc
Q 006918 151 AEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELV-KVRMMEARVIVVHGY 227 (625)
Q Consensus 151 ~~ll~~~~W~~v~ii~~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~-~i~~~~~~vIvl~~~ 227 (625)
++.|...|-+++++|..+. .+.....+.|++.+++.|+........... ...+...... .+++..++.|| +.+
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~pdaii-~~~ 76 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDD---DSEDAREAQLLWLRRLRPDAII-CSN 76 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESS---SHHHHHHHHHHHHHTCSSSEEE-ESS
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCC---cchhHHHHHHHHHhcCCCcEEE-EcC
Confidence 4667888999999999432 334456788999999999986554433322 2333332222 34433566555 477
Q ss_pred hhhHHHHHHHHHHcCCCCCCeEEEe
Q 006918 228 SRTGLMVFDVAQRLGMMDSGYVWIA 252 (625)
Q Consensus 228 ~~~~~~il~~a~~~g~~~~~~~~i~ 252 (625)
...+..+++.+.+.|+..++-+-+.
T Consensus 77 ~~~a~~~~~~l~~~g~~vP~di~vv 101 (160)
T PF13377_consen 77 DRLALGVLRALRELGIRVPQDISVV 101 (160)
T ss_dssp HHHHHHHHHHHHHTTSCTTTTSEEE
T ss_pred HHHHHHHHHHHHHcCCcccccccEE
Confidence 7888999999999998655434433
No 216
>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=88.77 E-value=0.87 Score=44.86 Aligned_cols=67 Identities=18% Similarity=0.141 Sum_probs=46.1
Q ss_pred HHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeee---eeecccccceEe--------cccccccc
Q 006918 493 DVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI---AIVTNRTKAVDF--------TQPYIESG 561 (625)
Q Consensus 493 dl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~---~~t~~R~~~vdf--------s~p~~~~~ 561 (625)
.+.+.+++++|.+ +++... .+|..++..+..|++|+++.+. ....+|.+..+| +.||.
T Consensus 48 ~l~~~l~~~~g~~--v~~~~~------~~~~~~~~al~~g~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~--- 116 (288)
T TIGR03431 48 PLADYLSKKLGVK--VKLFFA------TDYAGVIEGMRFGKVDIAWYGPSSYAEAYQKANAEAFAIEVNADGSTGYY--- 116 (288)
T ss_pred HHHHHHHHHhCCc--EEEEeC------CCHHHHHHHHHcCCccEEEEChHHHHHHHHhcCCeEEEEeccCCCCCceE---
Confidence 4778899999987 665543 4599999999999999998653 222366665544 44443
Q ss_pred eEEEEecCC
Q 006918 562 LVVVAPVRK 570 (625)
Q Consensus 562 ~~~l~~~~~ 570 (625)
..+++++.+
T Consensus 117 ~~lvv~~ds 125 (288)
T TIGR03431 117 SVLIVKKDS 125 (288)
T ss_pred EEEEEeCCC
Confidence 456665543
No 217
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=88.29 E-value=2.5 Score=40.83 Aligned_cols=87 Identities=14% Similarity=0.105 Sum_probs=65.9
Q ss_pred EEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
=+||.+-+.....-.....|+...++..| |+.++...+..+..|+..+.+.+..++++++.+|.+.. + ...
T Consensus 121 ~kVG~I~g~~~~~~~~~~~gF~~G~~~~~------p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~-~--~~g 191 (258)
T cd06353 121 NKVGYVAAFPIPEVVRGINAFALGARSVN------PDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHT-D--SPG 191 (258)
T ss_pred CcEEEEcCcccHHHHHHHHHHHHHHHHHC------CCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecC-C--ChH
Confidence 36888877754433455789999999888 56777777777778999999999999999999888765 2 234
Q ss_pred HHHhhhcCCCcEEeec
Q 006918 107 LSHLANELQVPLLSFT 122 (625)
Q Consensus 107 va~~~~~~~iP~Is~~ 122 (625)
+...+.+.++..|.+.
T Consensus 192 ~~~aa~~~g~~~IG~d 207 (258)
T cd06353 192 VIQAAEEKGVYAIGYV 207 (258)
T ss_pred HHHHHHHhCCEEEeec
Confidence 5566677889988764
No 218
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=87.08 E-value=3.7 Score=42.28 Aligned_cols=87 Identities=10% Similarity=0.088 Sum_probs=61.6
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.+.++.+|.+++.++++.........+.+.+.+++.|+.+.....+.+. .+.++..+..+.+++.++|+||-.+.
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 4567788999999999887543333346788999999999876433334333 55778888999999999999997655
Q ss_pred h--hhHHHHHH
Q 006918 228 S--RTGLMVFD 236 (625)
Q Consensus 228 ~--~~~~~il~ 236 (625)
+ -++.+.+.
T Consensus 98 GS~iD~AK~ia 108 (383)
T PRK09860 98 GSPHDCAKGIA 108 (383)
T ss_pred chHHHHHHHHH
Confidence 4 34444443
No 219
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=87.03 E-value=29 Score=33.11 Aligned_cols=148 Identities=9% Similarity=-0.017 Sum_probs=85.3
Q ss_pred HHHHHHhcCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHH--cCCc
Q 006918 83 GALQFMETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGWG 160 (625)
Q Consensus 83 ~~~~l~~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~--~~W~ 160 (625)
...+.++.++.++|=-............+...++|++......+. ...+++ ....+..-+..+++.+.. .|-+
T Consensus 44 ~~~~~~~~~vdGvIi~~~~~~~~~~~~~~~~~~~PvV~i~~~~~~--~~~~~~---V~~D~~~~~~~a~~~L~~~~~G~~ 118 (247)
T cd06276 44 NIISNTKGKYSGYVVMPHFKNEIQYFLLKKIPKEKLLILDHSIPE--GGEYSS---VAQDFEKAIYNALQEGLEKLKKYK 118 (247)
T ss_pred HHHHHHhcCCCEEEEecCCCCcHHHHHHhccCCCCEEEEcCcCCC--CCCCCe---EEEccHHHHHHHHHHHHHHhcCCC
Confidence 334445567776653111111122344555578999986543211 112232 334556667777788877 8999
Q ss_pred EEEEEEecC-CCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 161 EVIAIFNDD-DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 161 ~v~ii~~d~-~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
++++|.... ..+....+.+++.+++.|+.... .... .. .. + ...+ .|++.+...+..+++.++
T Consensus 119 ~Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~---~~~~-----~~--~~---~--~~~~-ai~~~~d~~A~g~~~~l~ 182 (247)
T cd06276 119 KLILVFPNKTAIPKEIKRGFERFCKDYNIETEI---INDY-----EN--RE---I--EKGD-LYIILSDTDLVFLIKKAR 182 (247)
T ss_pred EEEEEecCccHhHHHHHHHHHHHHHHcCCCccc---cccc-----ch--hh---c--cCCc-EEEEeCHHHHHHHHHHHH
Confidence 999997543 34456678899999998875431 1100 00 00 1 1234 455666778888999999
Q ss_pred HcCCCCCCeEEE
Q 006918 240 RLGMMDSGYVWI 251 (625)
Q Consensus 240 ~~g~~~~~~~~i 251 (625)
+.|+..++-+=+
T Consensus 183 ~~g~~iP~disv 194 (247)
T cd06276 183 ESGLLLGKDIGI 194 (247)
T ss_pred HcCCcCCceeEE
Confidence 999865544433
No 220
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=86.60 E-value=5 Score=40.67 Aligned_cols=92 Identities=12% Similarity=0.100 Sum_probs=69.1
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
...+.+.++.+|++++-||.+..-......+.+.+.+++.|+.+.....+.+. ...+....-++.+++.++|.||-.+
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~--P~~~~v~~~~~~~~~~~~D~iIalG 94 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPE--PTIETVEAGAEVAREFGPDTIIALG 94 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 45677788889999999998766555567899999999999776655555555 5677888888999999999999876
Q ss_pred chh--hHHHHHHHHHH
Q 006918 227 YSR--TGLMVFDVAQR 240 (625)
Q Consensus 227 ~~~--~~~~il~~a~~ 240 (625)
.++ ++.+.+.-...
T Consensus 95 GGS~~D~AK~i~~~~~ 110 (377)
T COG1454 95 GGSVIDAAKAIALLAE 110 (377)
T ss_pred CccHHHHHHHHHHHhh
Confidence 553 44444443333
No 221
>PRK10200 putative racemase; Provisional
Probab=86.27 E-value=13 Score=35.15 Aligned_cols=87 Identities=11% Similarity=0.017 Sum_probs=55.4
Q ss_pred ChHHHHHHHHHHHh-cCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH
Q 006918 76 NGFLSIMGALQFME-TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV 154 (625)
Q Consensus 76 ~~~~a~~~~~~l~~-~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll 154 (625)
++...+...++.+. .|+.+++=|-++..+. ...+-+..++|+|+- .++..+.+
T Consensus 59 ~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------i~~~~~~~ 112 (230)
T PRK10200 59 KTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI-------------------------ADATGRAI 112 (230)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh-------------------------HHHHHHHH
Confidence 56666666666554 4888888766555444 456667778998862 23444555
Q ss_pred HHcCCcEEEEEEecCCCCcchHHHHHHHHhcc-ceEEE
Q 006918 155 SYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI-RCKIS 191 (625)
Q Consensus 155 ~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v~ 191 (625)
+..+-++|+++..... -....+++.+.+. |+++.
T Consensus 113 ~~~~~~~VglLaT~~T---i~s~~Y~~~l~~~~g~~~~ 147 (230)
T PRK10200 113 TGAGMTRVALLGTRYT---MEQDFYRGRLTEQFSINCL 147 (230)
T ss_pred HHcCCCeEEEeccHHH---HHHhHHHHHHHHhcCCeEe
Confidence 5567789999986543 2345566666644 77663
No 222
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=85.76 E-value=4.5 Score=41.80 Aligned_cols=80 Identities=13% Similarity=0.062 Sum_probs=58.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.+.++.+|.+++.++.+..-......+.+.+.+++.|+.+.....+.+. ...+...+.++..++.++|+||-.+.
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 4567788899999887776543333345788999999999876543333333 45677888899999999999998776
Q ss_pred hh
Q 006918 228 SR 229 (625)
Q Consensus 228 ~~ 229 (625)
++
T Consensus 116 GS 117 (395)
T PRK15454 116 GS 117 (395)
T ss_pred hH
Confidence 63
No 223
>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=85.75 E-value=16 Score=32.71 Aligned_cols=99 Identities=13% Similarity=-0.011 Sum_probs=62.6
Q ss_pred HHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc--ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceE
Q 006918 144 LYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARV 221 (625)
Q Consensus 144 ~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v 221 (625)
.++...+.+.+...+ .++.++.+..+ ..+.+.+.+++. |+.++....-+.. ..+-.+.++.|+++++|+
T Consensus 32 ~dl~~~ll~~~~~~~-~~v~llG~~~~----~~~~~~~~l~~~yp~l~i~g~~~g~~~----~~~~~~i~~~I~~~~pdi 102 (171)
T cd06533 32 SDLMPALLELAAQKG-LRVFLLGAKPE----VLEKAAERLRARYPGLKIVGYHHGYFG----PEEEEEIIERINASGADI 102 (171)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCcEEEEecCCCCC----hhhHHHHHHHHHHcCCCE
Confidence 334555666655555 56767776554 455555556654 7777764333322 334445889999999999
Q ss_pred EEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeC
Q 006918 222 IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (625)
Q Consensus 222 Ivl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (625)
|++.+.......++.+..+.. ..-+++..+
T Consensus 103 v~vglG~PkQE~~~~~~~~~l---~~~v~~~vG 132 (171)
T cd06533 103 LFVGLGAPKQELWIARHKDRL---PVPVAIGVG 132 (171)
T ss_pred EEEECCCCHHHHHHHHHHHHC---CCCEEEEec
Confidence 999988877777877766543 233566544
No 224
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=85.40 E-value=29 Score=31.59 Aligned_cols=90 Identities=12% Similarity=0.001 Sum_probs=63.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCC-----CCChhHHHHHHHHHhcCCceEE
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-----SVTETDVRNELVKVRMMEARVI 222 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~-----~~~~~~~~~~l~~i~~~~~~vI 222 (625)
.|+++-|+.++-+++.++. .|-.+.-+.-.+.++.+|++|+....+.... .......-+..+++..-++|.|
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 5788889999999999987 4656677888889999999998665443220 0112234455667777889999
Q ss_pred EEEcchhhHHHHHHHHHH
Q 006918 223 VVHGYSRTGLMVFDVAQR 240 (625)
Q Consensus 223 vl~~~~~~~~~il~~a~~ 240 (625)
++.|..-....++....+
T Consensus 184 FiSCTnlRt~eii~~lE~ 201 (238)
T COG3473 184 FISCTNLRTFEIIEKLER 201 (238)
T ss_pred EEEeeccccHHHHHHHHH
Confidence 998877666666665543
No 225
>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=85.01 E-value=5.4 Score=41.55 Aligned_cols=80 Identities=10% Similarity=0.079 Sum_probs=59.0
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
.+.+.++++.+|.+++.+|++.........+.+.+.+++.|+.+.....+... .+.+.+...++..++.++++||-.+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 88 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVE--PTDESFKDAIAFAKKGQFDAFVAVG 88 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34567788899999999888655444345788999999888876543333333 4567788888888999999999876
Q ss_pred ch
Q 006918 227 YS 228 (625)
Q Consensus 227 ~~ 228 (625)
.+
T Consensus 89 GG 90 (414)
T cd08190 89 GG 90 (414)
T ss_pred Cc
Confidence 65
No 226
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=84.82 E-value=5.7 Score=40.90 Aligned_cols=80 Identities=14% Similarity=0.149 Sum_probs=57.9
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
...+.+.++.+|.+++.|+++....-....+.+.+.+++.|+.+.....+... .+.+.....++.+++.+++.||-.+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 95 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPN--PTIEVVKEGVEVFKASGADYLIAIG 95 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35577888889999998888654333346788999999988876533233333 4567788888889989999998765
Q ss_pred ch
Q 006918 227 YS 228 (625)
Q Consensus 227 ~~ 228 (625)
.+
T Consensus 96 GG 97 (382)
T PRK10624 96 GG 97 (382)
T ss_pred Ch
Confidence 54
No 227
>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=84.58 E-value=5.9 Score=40.62 Aligned_cols=88 Identities=13% Similarity=0.096 Sum_probs=61.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.++++.+|.+++.++++.........+.+.+.+++.|+++.....+... .+.+.+.+.++..++.+++.||-.+.
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 4567788889999998887654433336788999999988876543334433 55777888889999899999997655
Q ss_pred h--hhHHHHHHH
Q 006918 228 S--RTGLMVFDV 237 (625)
Q Consensus 228 ~--~~~~~il~~ 237 (625)
+ -++.+++..
T Consensus 91 GSviD~aK~ia~ 102 (370)
T cd08192 91 GSALDLAKAVAL 102 (370)
T ss_pred chHHHHHHHHHH
Confidence 4 344444433
No 228
>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=83.97 E-value=6.4 Score=40.47 Aligned_cols=87 Identities=13% Similarity=0.117 Sum_probs=61.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.++++.++.+++.++++.........+.+.+.+++.|+++.....+... .+.+.+...++.+++.+++.||-.+.
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 4566778888999998887654333346788889999888876533333333 56778888999999899999998766
Q ss_pred hh--hHHHHHH
Q 006918 228 SR--TGLMVFD 236 (625)
Q Consensus 228 ~~--~~~~il~ 236 (625)
+. ++..++.
T Consensus 93 Gs~iD~aK~ia 103 (376)
T cd08193 93 GSSMDVAKLVA 103 (376)
T ss_pred chHHHHHHHHH
Confidence 53 4444443
No 229
>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=82.87 E-value=8.3 Score=39.55 Aligned_cols=88 Identities=11% Similarity=0.122 Sum_probs=62.0
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
.+.+.+.++.++.+++.+|++.........+.+.+.+++.|+++.....+... .+.+++...++.++..+++.||-.+
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IiaiG 88 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPN--PTLSNVDAAVAAYREEGCDGVIAVG 88 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35667778888999999888654433356778899999888876533234333 5577888999999988999998766
Q ss_pred ch--hhHHHHHH
Q 006918 227 YS--RTGLMVFD 236 (625)
Q Consensus 227 ~~--~~~~~il~ 236 (625)
.+ -++.+++.
T Consensus 89 GGs~~D~AK~va 100 (370)
T cd08551 89 GGSVLDTAKAIA 100 (370)
T ss_pred CchHHHHHHHHH
Confidence 55 34444443
No 230
>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=82.72 E-value=46 Score=31.79 Aligned_cols=208 Identities=9% Similarity=0.037 Sum_probs=108.7
Q ss_pred ceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC--CChHHHHHHHHHHHhc-CcEEEEcC-CC
Q 006918 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK--FNGFLSIMGALQFMET-DTLAIVGP-QS 100 (625)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~--~~~~~a~~~~~~l~~~-~v~aviG~-~~ 100 (625)
++++||++.+..+. +....+|++..+++--+. .|..+++-+. ......+.....+.++ .+-|||-. .-
T Consensus 1 ~~~kIGivTgtvSq-~ed~~r~Ae~l~~~Yg~~-------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~v 72 (275)
T PF12683_consen 1 EDYKIGIVTGTVSQ-SEDEYRGAEELIKKYGDV-------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAV 72 (275)
T ss_dssp --EEEEEEE--TTT--HHHHHHHHHHHHHHHHH-------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS
T ss_pred CceEEEEEeCCccc-ChHHHHHHHHHHHHhCcc-------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCC
Confidence 36899999876432 345566777777765332 5665555333 2445556666666555 56666532 23
Q ss_pred hHHHHHHHHhhh-cCCCcEEeeccCC-CCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchH--
Q 006918 101 AVMAHVLSHLAN-ELQVPLLSFTALD-PTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGV-- 176 (625)
Q Consensus 101 s~~~~~va~~~~-~~~iP~Is~~~~~-~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~-- 176 (625)
...+.+...+=+ +-.|..|+-.... |..-..... +-..+.....+..++...+.+|-+.+.-+.....-+...+
T Consensus 73 pGt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aD--i~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~ 150 (275)
T PF12683_consen 73 PGTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAAD--IVVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLAR 150 (275)
T ss_dssp ---HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSS--EEEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHH
T ss_pred cchHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccC--eEeccchhhccHHHHHHHHHcCCceEEEEechhhcchHHHHH
Confidence 345555555543 3456666522221 111111112 3344677778999999999999999988866554444443
Q ss_pred --HHHHHHHhccceEEEEeeecCCCCCCChhHH-----HHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcC
Q 006918 177 --TALGDKLAEIRCKISYKSALPPDQSVTETDV-----RNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (625)
Q Consensus 177 --~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~-----~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g 242 (625)
+.+++..++.|++.+....-.+......... ..+-+.+++-+.++-+.+.+......+++++.+.|
T Consensus 151 Rr~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g 223 (275)
T PF12683_consen 151 RRDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYG 223 (275)
T ss_dssp HHHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcC
Confidence 4555566678998887654444311111111 22224556678899999999999999999999876
No 231
>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=82.09 E-value=8.4 Score=39.55 Aligned_cols=89 Identities=15% Similarity=0.149 Sum_probs=61.8
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
.+.+.+.++.+|-+++.++++.........+.+.+.+++.|+.+.....+... .+.+.+...++.+++.++++||-.+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 91 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPD--PTIENVEAGLALYRENGCDAILAVG 91 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34567778888889998888654333335788899999888876543334333 5577788888999999999999765
Q ss_pred ch--hhHHHHHHH
Q 006918 227 YS--RTGLMVFDV 237 (625)
Q Consensus 227 ~~--~~~~~il~~ 237 (625)
.+ -++.+++..
T Consensus 92 GGS~~D~aK~ia~ 104 (374)
T cd08189 92 GGSVIDCAKAIAA 104 (374)
T ss_pred CccHHHHHHHHHH
Confidence 54 344444433
No 232
>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=82.01 E-value=8.2 Score=39.70 Aligned_cols=80 Identities=16% Similarity=0.172 Sum_probs=57.6
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
...+.+.++.+|.+++.|+++....-....+.+.+.+++.|+.+.....+... .+.+......+.+++.+++.||-.+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiaiG 94 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPN--PTITVVKAGVAAFKASGADYLIAIG 94 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34566778889999998888544332236788899999888876543233333 4577788888888889999999776
Q ss_pred ch
Q 006918 227 YS 228 (625)
Q Consensus 227 ~~ 228 (625)
.+
T Consensus 95 GG 96 (379)
T TIGR02638 95 GG 96 (379)
T ss_pred Ch
Confidence 65
No 233
>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=81.61 E-value=9.4 Score=39.19 Aligned_cols=79 Identities=13% Similarity=0.085 Sum_probs=58.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.+.++.++.+++.+|++...+.....+.+.+.+++.|+++.....+... .+.+.+.+.++.++..+++.||-.+.
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 4556677778889999888654443346788999999989876543334444 55777888999999899999997766
Q ss_pred h
Q 006918 228 S 228 (625)
Q Consensus 228 ~ 228 (625)
+
T Consensus 90 G 90 (375)
T cd08194 90 G 90 (375)
T ss_pred c
Confidence 5
No 234
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=81.59 E-value=12 Score=36.69 Aligned_cols=96 Identities=13% Similarity=0.090 Sum_probs=72.6
Q ss_pred CCCCceEEccCchHHHHHHH----HHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhH
Q 006918 131 LQYPFFVQTAPNDLYLMSAI----AEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETD 206 (625)
Q Consensus 131 ~~~~~~~r~~ps~~~~~~al----~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~ 206 (625)
+.-++-|-+.||....+... .+-++..|.+++.++.+....-....+..++.|+++|+.++.-..+.+. .+..+
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 34567777888877776654 3447889999999998766555566788999999999998765555544 55778
Q ss_pred HHHHHHHHhcCCceEEEEEcch
Q 006918 207 VRNELVKVRMMEARVIVVHGYS 228 (625)
Q Consensus 207 ~~~~l~~i~~~~~~vIvl~~~~ 228 (625)
+...++-.|+.+.+.+|-.+.+
T Consensus 116 ~~~alefak~~~fDs~vaiGGG 137 (465)
T KOG3857|consen 116 VTAALEFAKKKNFDSFVAIGGG 137 (465)
T ss_pred HHHHHHHHHhcccceEEEEcCc
Confidence 8889999998888888876655
No 235
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=81.41 E-value=19 Score=33.29 Aligned_cols=86 Identities=16% Similarity=0.162 Sum_probs=54.8
Q ss_pred ChHHHHHHH-HHHHhcCcEEEEcCCChHHHHHHH-HhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHH
Q 006918 76 NGFLSIMGA-LQFMETDTLAIVGPQSAVMAHVLS-HLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM 153 (625)
Q Consensus 76 ~~~~a~~~~-~~l~~~~v~aviG~~~s~~~~~va-~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~l 153 (625)
++...+..+ ..|-..|+..++=|.++ ...++ .+-..-+||+|+ ..++-++-
T Consensus 59 ~~~~~L~~~a~~Le~~GAd~i~l~~NT--~H~~~d~iq~~~~iPllh-------------------------IidaTa~~ 111 (230)
T COG1794 59 EAGEILIDAAKKLERAGADFIVLPTNT--MHKVADDIQKAVGIPLLH-------------------------IIDATAKA 111 (230)
T ss_pred cHHHHHHHHHHHHHhcCCCEEEEeCCc--HHHHHHHHHHhcCCCeeh-------------------------HHHHHHHH
Confidence 444444433 34444488888865543 33333 344578999996 35677777
Q ss_pred HHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEE
Q 006918 154 VSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKIS 191 (625)
Q Consensus 154 l~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 191 (625)
+++-|-++|+++.....- ...-.++.+.++|+++.
T Consensus 112 ik~~g~kkvgLLgT~~Tm---~~~fY~~~l~~~gievv 146 (230)
T COG1794 112 IKAAGAKKVGLLGTRFTM---EQGFYRKRLEEKGIEVV 146 (230)
T ss_pred HHhcCCceeEEeeccchH---HhHHHHHHHHHCCceEe
Confidence 888899999999865431 22345677888887765
No 236
>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=79.84 E-value=5.5 Score=40.77 Aligned_cols=89 Identities=17% Similarity=0.188 Sum_probs=64.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.+.++.+| ++.+|++.........+.+.+.+++.|+.+.....+... .+..++...++.+++.+++.||-.+.
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 45667788887 898888663222236889999999999988665555554 56888999999999999999998776
Q ss_pred hh--hHHHHHHHHHH
Q 006918 228 SR--TGLMVFDVAQR 240 (625)
Q Consensus 228 ~~--~~~~il~~a~~ 240 (625)
+. ++.+.+.....
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 63 44455544443
No 237
>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=78.76 E-value=13 Score=38.32 Aligned_cols=85 Identities=12% Similarity=0.084 Sum_probs=59.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCC-CcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
..+.++++.+| +++.||++.... .....+.+.+.+++.|+++.....+.+. .+.++..+..+.+++.++|.||-.+
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 45667778888 899888864432 3456788999999888877533334433 5577788888889989999999765
Q ss_pred ch--hhHHHHH
Q 006918 227 YS--RTGLMVF 235 (625)
Q Consensus 227 ~~--~~~~~il 235 (625)
.+ -++.+.+
T Consensus 92 GGS~iD~aK~i 102 (380)
T cd08185 92 GGSSMDTAKAI 102 (380)
T ss_pred CccHHHHHHHH
Confidence 54 3444444
No 238
>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=78.02 E-value=14 Score=37.90 Aligned_cols=80 Identities=14% Similarity=0.086 Sum_probs=56.5
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
...+.++++.+|.+++.|+++.........+.+.+.+++.|+.+.....+... ....+..+.++.+++.+++.||-.+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 93 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPN--PRDEEVMAGAELYLENGCDVIIAVG 93 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34567778888999999888644332235778889998888766533223333 4566788888888888999999776
Q ss_pred ch
Q 006918 227 YS 228 (625)
Q Consensus 227 ~~ 228 (625)
.+
T Consensus 94 GG 95 (377)
T cd08188 94 GG 95 (377)
T ss_pred Cc
Confidence 55
No 239
>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=77.26 E-value=16 Score=37.30 Aligned_cols=79 Identities=8% Similarity=0.130 Sum_probs=56.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCC-cchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
.-+.++++.+| +++.+|++...+- ....+.+.+.+++.|+++.....+... .+.++..+..+.+++.++|.||-.+
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 34567788888 8998887544322 234678889999888876543334333 5577788899999999999999876
Q ss_pred chh
Q 006918 227 YSR 229 (625)
Q Consensus 227 ~~~ 229 (625)
.++
T Consensus 92 GGS 94 (357)
T cd08181 92 GGS 94 (357)
T ss_pred Cch
Confidence 663
No 240
>PF02608 Bmp: Basic membrane protein; InterPro: IPR003760 This is a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. All of these proteins are outer membrane proteins and are thus antigenic in nature when possessed by the pathogenic members of the family []. The Bacillus subtilis degR, a positive regulator of the production of degradative enzymes, is also a member of this group [].; GO: 0005886 plasma membrane; PDB: 2HQB_A 3S99_A 2FQW_A 2FQY_A 2FQX_A.
Probab=77.22 E-value=80 Score=31.30 Aligned_cols=205 Identities=12% Similarity=0.034 Sum_probs=101.6
Q ss_pred EEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCCChHHHH
Q 006918 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (625)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~-~~~~a~~~~~~l~~~~v~aviG~~~s~~~~ 105 (625)
.++++++|-.-. ...+-.++..+++++.++. +|.++.+ .+... ++....+...++.+++...||+.. .....
T Consensus 2 ~~v~~~~~g~~~-D~g~n~~~~~G~~~~~~~~---~~i~~~~--~e~~~~~~~~~~~~~~~~~~~g~dlIi~~g-~~~~~ 74 (306)
T PF02608_consen 2 KKVALLDPGGIN-DKGFNQSAYEGLKRAEKEL---DGIEIIY--VENVPETDADYEEAIRQLADQGYDLIIGHG-FEYSD 74 (306)
T ss_dssp EEEEEESSS-CC-CSSHHHHHHHHHHHHHHHC---TTEEEEE--EES-S-TCHHHHHHHHHHHHTT-SEEEEES-GGGHH
T ss_pred eEEEEEECCCCC-CccHHHHHHHHHHHHHHHc---CCceEEE--EecCCccHHHHHHHHHHHHHcCCCEEEEcc-HHHHH
Confidence 356777665421 1123333444444444432 3444444 43333 345556666777778888888743 44555
Q ss_pred HHHHhhhcC-CCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEE---ecC-CCCcchHHHHH
Q 006918 106 VLSHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF---NDD-DQGRNGVTALG 180 (625)
Q Consensus 106 ~va~~~~~~-~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~---~d~-~~g~~~~~~l~ 180 (625)
++..++..+ ++-++...+......+.-..+.||..- ...++-.++.++.+- .++++|. ..+ +.-......|.
T Consensus 75 ~~~~vA~~yPd~~F~~~d~~~~~~~~Nv~~~~f~~~e-~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~~~~~~gF~ 151 (306)
T PF02608_consen 75 ALQEVAKEYPDTKFIIIDGYIDAPEPNVISITFREEE-ASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPVNRFINGFI 151 (306)
T ss_dssp HHHHHHTC-TTSEEEEESS---ST-TTEEEEEE-HHH-HHHHHHHHHHHHHSS--TEEEEEEEEES--SCTTHHHHHHHH
T ss_pred HHHHHHHHCCCCEEEEEecCcCCCCCcEEEEEccccc-hhHHHHHHHHHHhcc--CcccccccccCCCcHhHHHHHHHHH
Confidence 667777776 444444433322111122334455432 233444555555543 4788887 433 33334566677
Q ss_pred HHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC
Q 006918 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 181 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
.-++..+-.+.....+... ..+...-+...+.+-..++|||+-.+.. ....++++|++.|.
T Consensus 152 ~Ga~~~np~i~v~~~~~gs-~~D~~~~~~~a~~li~~GaDvI~~~ag~-~~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 152 AGAKYVNPDIKVNVSYTGS-FNDPAKAKEAAEALIDQGADVIFPVAGG-SGQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHTTTT-EEEEEE-SS-SS-HHHHHHHHHHHHHTT-SEEEEE-CC-CHHHHHHHHHHHTH
T ss_pred HHHHHhCcCceEEEEEcCC-cCchHHHHHHHHHHhhcCCeEEEECCCC-CchHHHHHHHHcCC
Confidence 7776553333222222211 1334445566667777899999886554 44567888888773
No 241
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=76.95 E-value=11 Score=35.98 Aligned_cols=99 Identities=16% Similarity=0.262 Sum_probs=56.4
Q ss_pred HHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 006918 149 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (625)
Q Consensus 149 al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 228 (625)
-+.++++.++.+++.+|++...+ ....+.+.+.+++.|+++......... .+..+.....++++..+.++||-.+.+
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 35677888888999999866543 345678888999999988743322222 345566666667766778888877766
Q ss_pred hhHHHHHH-HHHHcCCCCCCeEEEeeC
Q 006918 229 RTGLMVFD-VAQRLGMMDSGYVWIATT 254 (625)
Q Consensus 229 ~~~~~il~-~a~~~g~~~~~~~~i~~~ 254 (625)
. +..+.| .|.+++ ..|+-+-+.
T Consensus 86 ~-i~D~~K~~A~~~~---~p~isVPTa 108 (250)
T PF13685_consen 86 T-IIDIAKYAAFELG---IPFISVPTA 108 (250)
T ss_dssp H-HHHHHHHHHHHHT-----EEEEES-
T ss_pred H-HHHHHHHHHHhcC---CCEEEeccc
Confidence 4 334443 345555 345555443
No 242
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=76.48 E-value=79 Score=30.87 Aligned_cols=162 Identities=17% Similarity=0.199 Sum_probs=98.0
Q ss_pred eEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHH
Q 006918 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (625)
Q Consensus 26 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~ 105 (625)
.=.|+.||.-.+. +.+.+|+.|+.++. |..+-+---|.+-.-.+.++-+.+.+++=+++|.--..+ -.
T Consensus 44 gk~laliFeK~ST---RTR~SFeva~~qlG-------g~~~~l~~~~~Qlgr~Esi~DTArVLsr~~D~I~~R~~~--~~ 111 (310)
T COG0078 44 GKNLALIFEKTST---RTRVSFEVAATQLG-------GHAIYLGPGDSQLGRGESIKDTARVLSRMVDAIMIRGFS--HE 111 (310)
T ss_pred CceEEEEecCCCc---hhhhhHHHHHHHcC-------CCeEEeCCCccccCCCCcHHHHHHHHHhhhheEEEeccc--HH
Confidence 4568999998763 67889999998863 444444344444333344455556666666666643333 34
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH---HHcC---CcEEEEEEecCCCCcchHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFG---WGEVIAIFNDDDQGRNGVTAL 179 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll---~~~~---W~~v~ii~~d~~~g~~~~~~l 179 (625)
.+..+++...+|+|. .|+|...| .+++++++ .|+| -.+++.+.+. .+....+
T Consensus 112 ~ve~lA~~s~VPViN------gLtD~~HP------------~Q~LADl~Ti~E~~g~l~g~k~a~vGDg----NNv~nSl 169 (310)
T COG0078 112 TLEELAKYSGVPVIN------GLTDEFHP------------CQALADLMTIKEHFGSLKGLKLAYVGDG----NNVANSL 169 (310)
T ss_pred HHHHHHHhCCCceEc------ccccccCc------------HHHHHHHHHHHHhcCcccCcEEEEEcCc----chHHHHH
Confidence 678899999999995 24553333 25666664 5665 3566666532 4678888
Q ss_pred HHHHhccceEEEEeeecCCCCCCChhHHHHHHHHH-hcCCceEEEE
Q 006918 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKV-RMMEARVIVV 224 (625)
Q Consensus 180 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i-~~~~~~vIvl 224 (625)
.......|+++...- |.+ ....+++....+++ ++++..+.+.
T Consensus 170 ~~~~a~~G~dv~ia~--Pk~-~~p~~~~~~~a~~~a~~~g~~i~~t 212 (310)
T COG0078 170 LLAAAKLGMDVRIAT--PKG-YEPDPEVVEKAKENAKESGGKITLT 212 (310)
T ss_pred HHHHHHhCCeEEEEC--CCc-CCcCHHHHHHHHHHHHhcCCeEEEe
Confidence 888888898876532 222 11244555555553 4455555443
No 243
>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=75.90 E-value=15 Score=37.85 Aligned_cols=79 Identities=16% Similarity=0.210 Sum_probs=56.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.+.++.+|-+++.++++.........+.+.+.+++.|+.+.....+... .+.+...+..+.+++.++|.||-.+.
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 4566778888888998887543322246778899999888876533333333 45777888888898899999997766
Q ss_pred h
Q 006918 228 S 228 (625)
Q Consensus 228 ~ 228 (625)
+
T Consensus 95 G 95 (377)
T cd08176 95 G 95 (377)
T ss_pred c
Confidence 5
No 244
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=75.73 E-value=58 Score=29.24 Aligned_cols=86 Identities=14% Similarity=0.026 Sum_probs=56.3
Q ss_pred HHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc--ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceE
Q 006918 144 LYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARV 221 (625)
Q Consensus 144 ~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v 221 (625)
.++...+.+....-+ .++.++....+ ..+.+.+.+++. |++++.. . +. ....+-..++++|.++++|+
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~~~----v~~~~~~~l~~~yP~l~i~g~---~-g~-f~~~~~~~i~~~I~~s~~di 103 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGKPD----VLQQLKVKLIKEYPKLKIVGA---F-GP-LEPEERKAALAKIARSGAGI 103 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCCEEEEE---C-CC-CChHHHHHHHHHHHHcCCCE
Confidence 345566666666666 46777775543 566666666654 6777654 1 11 12344567889999999999
Q ss_pred EEEEcchhhHHHHHHHHH
Q 006918 222 IVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 222 Ivl~~~~~~~~~il~~a~ 239 (625)
+++.........++.+..
T Consensus 104 l~VglG~PkQE~~~~~~~ 121 (177)
T TIGR00696 104 VFVGLGCPKQEIWMRNHR 121 (177)
T ss_pred EEEEcCCcHhHHHHHHhH
Confidence 999888777777776553
No 245
>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=75.63 E-value=19 Score=37.07 Aligned_cols=86 Identities=12% Similarity=0.167 Sum_probs=56.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
.-+.++++.+| +++.+|++.........+.+.+.+++.|+++.....+.+. ....+....++..++.++|.||-.+.
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 8998888543332356788888999888876533223222 33555667777788889999987766
Q ss_pred h--hhHHHHHH
Q 006918 228 S--RTGLMVFD 236 (625)
Q Consensus 228 ~--~~~~~il~ 236 (625)
+ -++.+++.
T Consensus 89 GS~iD~aK~ia 99 (386)
T cd08191 89 GSCIDLAKIAG 99 (386)
T ss_pred chHHHHHHHHH
Confidence 5 34444443
No 246
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=75.45 E-value=8.1 Score=36.99 Aligned_cols=78 Identities=9% Similarity=0.058 Sum_probs=56.0
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEE-cchhhHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH-GYSRTGLMVFDVA 238 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~-~~~~~~~~il~~a 238 (625)
|++|.. ++.|.....+.+++.+++.|+.+... .+.. .+.......++++.+.+++.||+. .+++....+++++
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 455654 34466677888999999999988764 2222 335566677888878889988876 4556778899999
Q ss_pred HHcCC
Q 006918 239 QRLGM 243 (625)
Q Consensus 239 ~~~g~ 243 (625)
.+.|+
T Consensus 77 ~~~gI 81 (257)
T PF13407_consen 77 KAAGI 81 (257)
T ss_dssp HHTTS
T ss_pred hhcCc
Confidence 98875
No 247
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=75.23 E-value=61 Score=31.35 Aligned_cols=115 Identities=15% Similarity=0.178 Sum_probs=65.7
Q ss_pred CchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh-HHHHHHHHhhhcCCCc
Q 006918 39 NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMAHVLSHLANELQVP 117 (625)
Q Consensus 39 ~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s-~~~~~va~~~~~~~iP 117 (625)
.|..-..++.-.+.+|| |+.++..+ +..-++. ...+++..+...||-...+ ..-..+...|...++|
T Consensus 81 vG~~Kve~~~~rl~~IN------P~~~V~~i--~~~i~~e----~~~~ll~~~~D~VIdaiD~~~~k~~L~~~c~~~~ip 148 (268)
T PRK15116 81 VGLAKAEVMAERIRQIN------PECRVTVV--DDFITPD----NVAEYMSAGFSYVIDAIDSVRPKAALIAYCRRNKIP 148 (268)
T ss_pred cChHHHHHHHHHHHhHC------CCcEEEEE--ecccChh----hHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHcCCC
Confidence 35455566767777776 55666543 3222222 2334555567778776666 4556688899999999
Q ss_pred EEeeccCCCCCCCCCCCceEEccC----chHHHHHHHHHHHHH-cCCc-------EEEEEEecC
Q 006918 118 LLSFTALDPTLSPLQYPFFVQTAP----NDLYLMSAIAEMVSY-FGWG-------EVIAIFNDD 169 (625)
Q Consensus 118 ~Is~~~~~~~ls~~~~~~~~r~~p----s~~~~~~al~~ll~~-~~W~-------~v~ii~~d~ 169 (625)
+|+.++....+. |.-++..- ...-+++.+-+.|++ +|.+ .+-++|+..
T Consensus 149 ~I~~gGag~k~d----p~~~~~~di~~t~~~pla~~~R~~lr~~~~~~~~~~~~~~~~~v~S~E 208 (268)
T PRK15116 149 LVTTGGAGGQID----PTQIQVVDLAKTIQDPLAAKLRERLKSDFGVVKNSKGKLGVDCVFSTE 208 (268)
T ss_pred EEEECCcccCCC----CCeEEEEeeecccCChHHHHHHHHHHHhhCCCcccCccCCeEEEeCCC
Confidence 998655543333 33343321 122355666666666 5654 255566543
No 248
>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=73.87 E-value=14 Score=37.48 Aligned_cols=77 Identities=13% Similarity=0.154 Sum_probs=55.6
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.++++.++ +++.+|+....+. ...+.+.+.+++.|+.+.+. .+... ...++.....+.+++.++|.||-.+.
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 8988888544333 56788888999888887643 34443 45677888888888889999988766
Q ss_pred hh
Q 006918 228 SR 229 (625)
Q Consensus 228 ~~ 229 (625)
++
T Consensus 87 GS 88 (351)
T cd08170 87 GK 88 (351)
T ss_pred ch
Confidence 53
No 249
>PRK07475 hypothetical protein; Provisional
Probab=73.69 E-value=28 Score=33.23 Aligned_cols=82 Identities=15% Similarity=0.076 Sum_probs=49.2
Q ss_pred ChHHHHHHHHHH-HhcCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH
Q 006918 76 NGFLSIMGALQF-METDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV 154 (625)
Q Consensus 76 ~~~~a~~~~~~l-~~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll 154 (625)
++......+.+. -..|+.+|+.+- .........+.+..++|+++. ..+.+..+
T Consensus 62 ~~~~~l~~aa~~L~~~G~d~I~~~C-gt~~~~~~~l~~~~~VPv~~s-------------------------s~~~v~~l 115 (245)
T PRK07475 62 SLLDAFVAAARELEAEGVRAITTSC-GFLALFQRELAAALGVPVATS-------------------------SLLQVPLI 115 (245)
T ss_pred cHHHHHHHHHHHHHHcCCCEEEech-HHHHHHHHHHHHHcCCCEecc-------------------------HHHHHHHH
Confidence 455544444444 445999999854 444455566667789999851 12333334
Q ss_pred HHc--CCcEEEEEEecCCCCcchHHHHHHHHhccceE
Q 006918 155 SYF--GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCK 189 (625)
Q Consensus 155 ~~~--~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~ 189 (625)
+.. +-++|+++..+... ..++.+++.|+.
T Consensus 116 ~~~~~~~~kIGILtt~~t~------l~~~~l~~~Gi~ 146 (245)
T PRK07475 116 QALLPAGQKVGILTADASS------LTPAHLLAVGVP 146 (245)
T ss_pred HHhccCCCeEEEEeCCchh------hhHHHHHhCCCC
Confidence 443 36899999876542 234667777775
No 250
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=73.33 E-value=29 Score=33.03 Aligned_cols=87 Identities=13% Similarity=0.019 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhc-cceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEE
Q 006918 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (625)
Q Consensus 145 ~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIv 223 (625)
++...+.+.....+ .+|.++..+.. ..+.+.+.+++ .|+.++....=.. +.++...++++|.++++++++
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~----v~~~a~~~l~~~y~l~i~g~~~Gyf----~~~e~~~i~~~I~~s~~dil~ 162 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPE----VLAQTEAKLRTQWNVNIVGSQDGYF----TPEQRQALFERIHASGAKIVT 162 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHH----HHHHHHHHHHHHhCCEEEEEeCCCC----CHHHHHHHHHHHHhcCCCEEE
Confidence 34556666666667 67777776543 45555555543 3777765432111 244556789999999999999
Q ss_pred EEcchhhHHHHHHHHHH
Q 006918 224 VHGYSRTGLMVFDVAQR 240 (625)
Q Consensus 224 l~~~~~~~~~il~~a~~ 240 (625)
+.........++....+
T Consensus 163 VglG~PkQE~~~~~~~~ 179 (243)
T PRK03692 163 VAMGSPKQEIFMRDCRL 179 (243)
T ss_pred EECCCcHHHHHHHHHHH
Confidence 98887777777766554
No 251
>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=73.17 E-value=22 Score=36.42 Aligned_cols=85 Identities=11% Similarity=0.140 Sum_probs=57.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
.-+.+.++.+|.+++.+|++...+ ....+.+.+++.|+.+.....+... .+.+...+.++.+++.+++.||-.+.
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 456677888898999988855443 4566778888888765433334333 45677888888888889999987665
Q ss_pred h--hhHHHHHHH
Q 006918 228 S--RTGLMVFDV 237 (625)
Q Consensus 228 ~--~~~~~il~~ 237 (625)
+ -++..++..
T Consensus 87 Gs~~D~aK~ia~ 98 (367)
T cd08182 87 GSVLDTAKALAA 98 (367)
T ss_pred cHHHHHHHHHHH
Confidence 5 344444443
No 252
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=73.11 E-value=59 Score=32.90 Aligned_cols=76 Identities=11% Similarity=-0.010 Sum_probs=60.7
Q ss_pred ceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHH
Q 006918 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (625)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~ 104 (625)
..-++|.+..+..+.-.....+++..++..|. ..++...+..+-.|+..+.+.+..++++|+.+|.....+...
T Consensus 160 k~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np------~i~v~v~~~gsf~D~~k~k~~a~~li~~GaDVI~~~ag~~~~ 233 (345)
T COG1744 160 KSGKVGFVGGMDIPEVNRFINGFLAGAKSVNP------DIKVKVVYVGSFSDPAKGKEAANALIDQGADVIYPAAGGTGV 233 (345)
T ss_pred cCCceeEEecccchhhHHHHHHHHHHHHhhCC------CccEEEEEecCccChHHHHHHHHHHHhcCCCEEEecCCCCcc
Confidence 46678888777655555678899999999994 577888888888899999999999999999999986665544
Q ss_pred HH
Q 006918 105 HV 106 (625)
Q Consensus 105 ~~ 106 (625)
..
T Consensus 234 gv 235 (345)
T COG1744 234 GV 235 (345)
T ss_pred hH
Confidence 44
No 253
>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=72.46 E-value=18 Score=35.93 Aligned_cols=88 Identities=13% Similarity=0.016 Sum_probs=60.8
Q ss_pred EEEEEe---ecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHH
Q 006918 28 NVGAIF---SFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (625)
Q Consensus 28 ~IG~l~---~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~ 104 (625)
++|.+- ......-.....|+...++..| |+.++......+-.|+..+.+.+..++++|+.+|.... ....
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~n------p~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~~a-g~~~ 200 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVN------PDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFPVA-GGSG 200 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTT------TT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEEE--CCCH
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhC------cCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEECC-CCCc
Confidence 455555 5554444567889999999998 67888888888888999999999999999999988722 2344
Q ss_pred HHHHHhhhcCCCc--EEeec
Q 006918 105 HVLSHLANELQVP--LLSFT 122 (625)
Q Consensus 105 ~~va~~~~~~~iP--~Is~~ 122 (625)
..+...+.+.+.. .|...
T Consensus 201 ~gv~~aa~e~g~~~~~IG~d 220 (306)
T PF02608_consen 201 QGVIQAAKEAGVYGYVIGVD 220 (306)
T ss_dssp HHHHHHHHHHTHETEEEEEE
T ss_pred hHHHHHHHHcCCceEEEEec
Confidence 5556667777776 77653
No 254
>cd00755 YgdL_like Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of the substrate. The exact function of this family is unknown.
Probab=70.99 E-value=71 Score=30.16 Aligned_cols=116 Identities=14% Similarity=0.099 Sum_probs=65.7
Q ss_pred CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh-HHHHHHHHhhhcCCC
Q 006918 38 VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMAHVLSHLANELQV 116 (625)
Q Consensus 38 ~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s-~~~~~va~~~~~~~i 116 (625)
..|..-..++.-.+.+|| |..+++... ..-++ +...+++..+...||....+ ..-..+...|...++
T Consensus 61 diG~~Kae~~~~~l~~in------P~~~V~~~~--~~i~~----~~~~~l~~~~~D~VvdaiD~~~~k~~L~~~c~~~~i 128 (231)
T cd00755 61 TVGKPKVEVMAERIRDIN------PECEVDAVE--EFLTP----DNSEDLLGGDPDFVVDAIDSIRAKVALIAYCRKRKI 128 (231)
T ss_pred hCCCcHHHHHHHHHHHHC------CCcEEEEee--eecCH----hHHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHhCC
Confidence 346566677777788887 556665433 22222 23345565567777776555 444557888999999
Q ss_pred cEEeeccCCCCCCCCCCCceEEccCc----hHHHHHHHHHHHHHcCCc-EEEEEEecC
Q 006918 117 PLLSFTALDPTLSPLQYPFFVQTAPN----DLYLMSAIAEMVSYFGWG-EVIAIFNDD 169 (625)
Q Consensus 117 P~Is~~~~~~~ls~~~~~~~~r~~ps----~~~~~~al~~ll~~~~W~-~v~ii~~d~ 169 (625)
|+|+..+....+ .|.-+|..-- ..-+++.+-+-|++-+-. .+-++|+..
T Consensus 129 p~I~s~g~g~~~----dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E 182 (231)
T cd00755 129 PVISSMGAGGKL----DPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTE 182 (231)
T ss_pred CEEEEeCCcCCC----CCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCC
Confidence 999865443322 2443443311 112344455555554443 466666544
No 255
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=70.93 E-value=39 Score=29.66 Aligned_cols=80 Identities=11% Similarity=0.018 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHh-ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEE
Q 006918 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA-EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVV 224 (625)
Q Consensus 146 ~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~-~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl 224 (625)
.++.+....++.+-+++.++ +|........+.+.+.+. -.|+++... + .++....+++ +..+.+++++
T Consensus 17 HGQV~~~W~~~~~~~~IiVv-dD~vA~D~~~k~~lkma~~P~gvk~~i~---s------v~~a~~~l~~-~~~~~~vlvl 85 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVV-DDVVANDDIQQKLMGITAETYGFGIRFF---T------IEKTINVIGK-AAPHQKIFLI 85 (158)
T ss_pred hHHHHHhhhcccCCCEEEEE-cchhcCCHHHHHHHHhcCCCCCCEEEEE---E------HHHHHHHHHh-ccCCceEEEE
Confidence 47788899999999999655 454444456666666655 567776632 1 3455566666 5566789999
Q ss_pred EcchhhHHHHHH
Q 006918 225 HGYSRTGLMVFD 236 (625)
Q Consensus 225 ~~~~~~~~~il~ 236 (625)
+-++.++..+++
T Consensus 86 ~~~~~da~~l~~ 97 (158)
T PRK09756 86 CRTPQTVRKLVE 97 (158)
T ss_pred ECCHHHHHHHHH
Confidence 999999987765
No 256
>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=70.67 E-value=25 Score=36.22 Aligned_cols=87 Identities=14% Similarity=0.133 Sum_probs=58.4
Q ss_pred HHHHHHHHHc---CCcEEEEEEecCCCC-cchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEE
Q 006918 148 SAIAEMVSYF---GWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (625)
Q Consensus 148 ~al~~ll~~~---~W~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIv 223 (625)
..+.++++.+ |.+++.+|++..... ....+.+.+.+++.|+.+.....+.+. .+.+.+....+.+++.++++||
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 788998888544322 234678889999888866533233333 5577888889999988999998
Q ss_pred EEcch--hhHHHHHH
Q 006918 224 VHGYS--RTGLMVFD 236 (625)
Q Consensus 224 l~~~~--~~~~~il~ 236 (625)
-.+.+ -++..++.
T Consensus 90 aiGGGS~iD~aK~ia 104 (383)
T cd08186 90 AIGGGSPIDSAKSAA 104 (383)
T ss_pred EeCCccHHHHHHHHH
Confidence 76554 34444443
No 257
>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=70.66 E-value=22 Score=36.02 Aligned_cols=84 Identities=17% Similarity=0.144 Sum_probs=56.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
.-+.+.++.++ +++.+|++...+ ....+.+.+.+++.|+.+.....+... .+.+......+..++.+++.||-.+.
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 44566777777 888888754333 334677888888888876543344443 45677778888888889999997765
Q ss_pred hh--hHHHHH
Q 006918 228 SR--TGLMVF 235 (625)
Q Consensus 228 ~~--~~~~il 235 (625)
+. ++.+++
T Consensus 88 Gs~~D~aK~i 97 (345)
T cd08171 88 GKAIDTVKVL 97 (345)
T ss_pred cHHHHHHHHH
Confidence 53 344444
No 258
>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=70.12 E-value=28 Score=35.00 Aligned_cols=87 Identities=13% Similarity=0.186 Sum_probs=57.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.+.++.++.+++.+|++..... ...+.+.+.+++. +.+.....+... .+.++....++.+++.+++.||-.+.
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 3456777888999998888544333 5677888888876 554332222222 45777888888888888999887665
Q ss_pred h--hhHHHHHHHH
Q 006918 228 S--RTGLMVFDVA 238 (625)
Q Consensus 228 ~--~~~~~il~~a 238 (625)
+ -++..++...
T Consensus 88 Gs~~D~aK~ia~~ 100 (332)
T cd07766 88 GSTLDTAKAVAAL 100 (332)
T ss_pred chHHHHHHHHHHH
Confidence 5 3444444333
No 259
>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=70.09 E-value=26 Score=36.14 Aligned_cols=78 Identities=13% Similarity=0.185 Sum_probs=54.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCC-CcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
..+.++++.++ +++.||.+...+ .....+.+.+.+++.|+++.....+... ...+.....++.++..++|.||-.+
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 45667777775 898888754332 1235678889999888876543334333 4567788888889999999999776
Q ss_pred ch
Q 006918 227 YS 228 (625)
Q Consensus 227 ~~ 228 (625)
.+
T Consensus 95 GG 96 (382)
T cd08187 95 GG 96 (382)
T ss_pred Ch
Confidence 55
No 260
>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=69.81 E-value=83 Score=28.17 Aligned_cols=128 Identities=16% Similarity=0.236 Sum_probs=75.0
Q ss_pred CChHHHHHHHHHH-HhcCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHH
Q 006918 75 FNGFLSIMGALQF-METDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM 153 (625)
Q Consensus 75 ~~~~~a~~~~~~l-~~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~l 153 (625)
.+-..+++.+.++ ..+++.++|+-. .++.. +-+..++|+|... ++..+..+++.+.
T Consensus 17 ~~~e~~v~~a~~~~~~~g~dViIsRG--~ta~~---lr~~~~iPVV~I~------------------~s~~Dil~al~~a 73 (176)
T PF06506_consen 17 ASLEEAVEEARQLLESEGADVIISRG--GTAEL---LRKHVSIPVVEIP------------------ISGFDILRALAKA 73 (176)
T ss_dssp --HHHHHHHHHHHHTTTT-SEEEEEH--HHHHH---HHCC-SS-EEEE---------------------HHHHHHHHHHC
T ss_pred ecHHHHHHHHHHhhHhcCCeEEEECC--HHHHH---HHHhCCCCEEEEC------------------CCHhHHHHHHHHH
Confidence 3567888899998 788999999632 23333 3345589998742 2233444555543
Q ss_pred HHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHH
Q 006918 154 VSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLM 233 (625)
Q Consensus 154 l~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~ 233 (625)
- .++ ++++++...+.. .....+.+.+ |..+.... + .+..++...+++++..+.++||-...
T Consensus 74 ~-~~~-~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~-~-----~~~~e~~~~i~~~~~~G~~viVGg~~------ 134 (176)
T PF06506_consen 74 K-KYG-PKIAVVGYPNII--PGLESIEELL---GVDIKIYP-Y-----DSEEEIEAAIKQAKAEGVDVIVGGGV------ 134 (176)
T ss_dssp C-CCT-SEEEEEEESS-S--CCHHHHHHHH---T-EEEEEE-E-----SSHHHHHHHHHHHHHTT--EEEESHH------
T ss_pred H-hcC-CcEEEEeccccc--HHHHHHHHHh---CCceEEEE-E-----CCHHHHHHHHHHHHHcCCcEEECCHH------
Confidence 3 333 899999876543 2366666666 45554322 2 23778999999999999998875432
Q ss_pred HHHHHHHcCCC
Q 006918 234 VFDVAQRLGMM 244 (625)
Q Consensus 234 il~~a~~~g~~ 244 (625)
..+.|.+.|+.
T Consensus 135 ~~~~A~~~gl~ 145 (176)
T PF06506_consen 135 VCRLARKLGLP 145 (176)
T ss_dssp HHHHHHHTTSE
T ss_pred HHHHHHHcCCc
Confidence 34566777753
No 261
>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=69.67 E-value=94 Score=28.71 Aligned_cols=121 Identities=11% Similarity=0.075 Sum_probs=70.3
Q ss_pred hcCcEEEEcCCChHHHHHHHHhh-hcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEe
Q 006918 89 ETDTLAIVGPQSAVMAHVLSHLA-NELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 167 (625)
Q Consensus 89 ~~~v~aviG~~~s~~~~~va~~~-~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~ 167 (625)
..++.+|+-+ |++....+..+- ...++|+++. .++..+-+.+ +-++|+++..
T Consensus 63 ~~g~d~i~i~-C~s~~~~~~~~~~~~~~iPv~~~-------------------------~~a~~~~~~~-~~~ri~vl~t 115 (216)
T PF01177_consen 63 KAGVDAIVIA-CNSAHPFVDELRKERVGIPVVGI-------------------------VEAALEAAKA-GGKRIGVLTT 115 (216)
T ss_dssp HTTESEEEES-SHHHHHHHHHHHHHHHSSEEEES-------------------------HHHHHHHHHH-TSSEEEEEES
T ss_pred hCCCCEEEEc-CCchhhhHHHHhhhcCceEEEec-------------------------cHHHHHHHHh-cCCEEEEEec
Confidence 3488888764 344334444555 6779998863 2333444555 8999999985
Q ss_pred cCCCCcchHHHHHHHHhcc-ce--EEEEee--ecC----CCCCCChh---HHHHHHHHH-hcCCceEEEEEcchhh-HHH
Q 006918 168 DDDQGRNGVTALGDKLAEI-RC--KISYKS--ALP----PDQSVTET---DVRNELVKV-RMMEARVIVVHGYSRT-GLM 233 (625)
Q Consensus 168 d~~~g~~~~~~l~~~l~~~-g~--~v~~~~--~~~----~~~~~~~~---~~~~~l~~i-~~~~~~vIvl~~~~~~-~~~ 233 (625)
++......+.+.+++. |+ .+.... .+. .+. .+.. .+...++++ +..++++|++.|..-. ...
T Consensus 116 ---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~-~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~~~~ 191 (216)
T PF01177_consen 116 ---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGD-IPPEQIEILAEAARELIKEDGADAIILGCTHLPLLLG 191 (216)
T ss_dssp ---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTC-TTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGGGHH
T ss_pred ---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhc-CCHHHHHHHHHHHHHHhccCCCCEEEECCCchHHHHH
Confidence 3334566777777877 86 444311 111 220 1122 344445544 3789999999877643 335
Q ss_pred HHHHHHH
Q 006918 234 VFDVAQR 240 (625)
Q Consensus 234 il~~a~~ 240 (625)
..+.+.+
T Consensus 192 ~~~~l~~ 198 (216)
T PF01177_consen 192 AIEALEE 198 (216)
T ss_dssp HHHHHHH
T ss_pred HHHhhcc
Confidence 5655554
No 262
>cd00001 PTS_IIB_man PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. The active site histidine receives a phosphate group from the IIA subunit and transfers it to the substrate.
Probab=69.46 E-value=38 Score=29.50 Aligned_cols=81 Identities=11% Similarity=0.058 Sum_probs=57.3
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEE
Q 006918 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (625)
Q Consensus 146 ~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~ 225 (625)
.++.+....++++-+++.++ +|........+.+.+...-.|+++... + .++....+++-+..+.++++++
T Consensus 12 HGQV~~~W~~~~~~~~IvVv-dD~~A~D~~~k~~l~ma~P~gvk~~i~---s------ve~a~~~l~~~~~~~~~v~il~ 81 (151)
T cd00001 12 HGQVATTWTKELNANRIIVV-NDEVANDELRKTLLKLAAPPGVKLRIF---T------VEKAIEAINSPKYDKQRVFLLF 81 (151)
T ss_pred hhHhhhhhhcccCCCEEEEE-cccccCCHHHHHHHHhhCCCCCeEEEE---E------HHHHHHHHhCcCCCCceEEEEE
Confidence 47788889999999999655 455445556677777777778877642 1 3455555555445667899999
Q ss_pred cchhhHHHHHH
Q 006918 226 GYSRTGLMVFD 236 (625)
Q Consensus 226 ~~~~~~~~il~ 236 (625)
-++.++..+++
T Consensus 82 k~~~~~~~l~~ 92 (151)
T cd00001 82 KNPQDVLRLVE 92 (151)
T ss_pred CCHHHHHHHHH
Confidence 99999888765
No 263
>TIGR00854 pts-sorbose PTS system, mannose/fructose/sorbose family, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families.It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIB components of this family of PTS transporters.
Probab=68.89 E-value=41 Score=29.31 Aligned_cols=81 Identities=14% Similarity=0.118 Sum_probs=56.8
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEE
Q 006918 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (625)
Q Consensus 146 ~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~ 225 (625)
.++.+....++++-+++.++ +|........+.+.+.....|+++... + .++....+++-+..+.++++++
T Consensus 13 HGQV~~~W~~~~~~~~IiVv-dD~~A~D~~~k~~lkma~P~gvk~~i~---s------ve~a~~~l~~~~~~~~~v~vl~ 82 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVV-NDDVANDEVRQTLMGIVAPTGFKVRFV---S------LEKTINVIHKPAYHDQTIFLLF 82 (151)
T ss_pred hhHhhhhhhcccCCCEEEEE-cccccCCHHHHHHHHhhCCCCCEEEEE---E------HHHHHHHHhCcCCCCceEEEEE
Confidence 46778888999999999655 455445556777777777778877642 1 3344455555445667899999
Q ss_pred cchhhHHHHHH
Q 006918 226 GYSRTGLMVFD 236 (625)
Q Consensus 226 ~~~~~~~~il~ 236 (625)
-++.++..+++
T Consensus 83 k~~~da~~l~~ 93 (151)
T TIGR00854 83 RNPQDVLTLVE 93 (151)
T ss_pred CCHHHHHHHHH
Confidence 99999988765
No 264
>PRK07377 hypothetical protein; Provisional
Probab=68.05 E-value=15 Score=32.48 Aligned_cols=63 Identities=17% Similarity=0.218 Sum_probs=46.3
Q ss_pred ceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 006918 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (625)
Q Consensus 462 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~ 541 (625)
.++|+|+... .++ .+..-+.-++.++.+.++++.+ .+++++ .+-+.+...+.+|++|++++.-
T Consensus 75 ~~~Rlgv~~~--------~~~-~~~~~~~l~~~l~~~~~~y~~r--lElv~y------~~~~~l~~aL~~~eVh~~c~~~ 137 (184)
T PRK07377 75 LVMRLGVLEI--------ETE-TSSVFDQLIDQLRTILDKYHLR--LELVVY------PDLQALEQALRDKEVHAICLES 137 (184)
T ss_pred cEEEEEEEec--------ccc-ccccHHHHHHHHHHHHHHhCce--eeEEec------CCHHHHHHHHhcCCccEEecCC
Confidence 4589998643 011 2223344678888899999988 888887 4589999999999999997743
No 265
>PRK00865 glutamate racemase; Provisional
Probab=67.62 E-value=1.2e+02 Score=29.22 Aligned_cols=59 Identities=14% Similarity=0.094 Sum_probs=35.3
Q ss_pred CCCcEEEEEEecCCC------ChHHHHHHH----HHHHhcCcEEEEcCCChHHHHHHHHhhhcCCCcEEe
Q 006918 61 LGGRKLSITMHDAKF------NGFLSIMGA----LQFMETDTLAIVGPQSAVMAHVLSHLANELQVPLLS 120 (625)
Q Consensus 61 L~g~~l~~~~~D~~~------~~~~a~~~~----~~l~~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is 120 (625)
||+..+-| +.|+.. +.....+.+ ..+.+.++.+++=+-.+..+.++..+-+..++|+|+
T Consensus 28 lp~~~~iY-~~D~~~~PYG~ks~~~i~~~~~~~~~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 28 LPDEHIIY-VGDTARFPYGEKSEEEIRERTLEIVEFLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred CCCCCEEE-EecCCCCCCCCCCHHHHHHHHHHHHHHHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 47776665 345442 222323333 233445888888766666655666676778999996
No 266
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=67.07 E-value=51 Score=28.92 Aligned_cols=80 Identities=11% Similarity=0.076 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEE
Q 006918 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (625)
Q Consensus 146 ~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~ 225 (625)
.++.+....++++-+++.++ +|........+.+.+.....|+++... + .++....+++ +..+.++++++
T Consensus 15 HGQV~~~W~~~~~~~~IvVv-dD~~A~D~~~k~~l~ma~P~gvk~~i~---s------v~~a~~~l~~-~~~~~~v~il~ 83 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVA-NDEVAEDPVQQNLMEMVLAEGIAVRFW---T------LQKVIDNIHR-AADRQKILLVC 83 (157)
T ss_pred hHHhhhhhhcccCCCEEEEE-cchhcCCHHHHHHHHhhCCCCCeEEEE---E------HHHHHHHHhc-cCCCceEEEEE
Confidence 47788888999999998655 454444456667777776678877642 1 4455566666 55666899999
Q ss_pred cchhhHHHHHH
Q 006918 226 GYSRTGLMVFD 236 (625)
Q Consensus 226 ~~~~~~~~il~ 236 (625)
-++.++..+++
T Consensus 84 k~~~d~~~l~~ 94 (157)
T PRK11425 84 KTPADFLTLVK 94 (157)
T ss_pred CCHHHHHHHHH
Confidence 99998887765
No 267
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=66.38 E-value=29 Score=35.49 Aligned_cols=76 Identities=9% Similarity=0.131 Sum_probs=54.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.+.++.+| +++.+|++...+ ....+.+.+.+++.|+++.+. .+... ...+.....++.+++.++++||-.+.
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 44667788888 899888854433 236677888888888876543 34433 45667888888888889999998766
Q ss_pred h
Q 006918 228 S 228 (625)
Q Consensus 228 ~ 228 (625)
+
T Consensus 94 G 94 (366)
T PRK09423 94 G 94 (366)
T ss_pred h
Confidence 5
No 268
>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=65.72 E-value=30 Score=33.30 Aligned_cols=77 Identities=5% Similarity=0.026 Sum_probs=50.8
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc-hhhHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVA 238 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-~~~~~~il~~a 238 (625)
|+++.. ++.|.....+.+.+.+++.|+++.... .. .+.......++.+...+.+.||+... .......++++
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 455666778889999999999877532 11 22344456666666678898888643 33345667777
Q ss_pred HHcCC
Q 006918 239 QRLGM 243 (625)
Q Consensus 239 ~~~g~ 243 (625)
.+.|+
T Consensus 77 ~~~~i 81 (273)
T cd06305 77 LDAGI 81 (273)
T ss_pred HHcCC
Confidence 77664
No 269
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=65.41 E-value=9.6 Score=31.48 Aligned_cols=86 Identities=15% Similarity=0.072 Sum_probs=46.1
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHh--cCCceEEEEEcchhhHHHHHHH
Q 006918 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVR--MMEARVIVVHGYSRTGLMVFDV 237 (625)
Q Consensus 160 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~--~~~~~vIvl~~~~~~~~~il~~ 237 (625)
|++++|...+.-+. ....+.+.+.+.|.+|.. +.+. ...-+=......+. ....|.++++..++....++++
T Consensus 1 ksiAVvGaS~~~~~-~g~~v~~~l~~~G~~v~~---Vnp~--~~~i~G~~~y~sl~e~p~~iDlavv~~~~~~~~~~v~~ 74 (116)
T PF13380_consen 1 KSIAVVGASDNPGK-FGYRVLRNLKAAGYEVYP---VNPK--GGEILGIKCYPSLAEIPEPIDLAVVCVPPDKVPEIVDE 74 (116)
T ss_dssp -EEEEET--SSTTS-HHHHHHHHHHHTT-EEEE---ESTT--CSEETTEE-BSSGGGCSST-SEEEE-S-HHHHHHHHHH
T ss_pred CEEEEEcccCCCCC-hHHHHHHHHHhCCCEEEE---ECCC--ceEECcEEeeccccCCCCCCCEEEEEcCHHHHHHHHHH
Confidence 56788775544333 334445555557766653 2222 10000001222233 3578999999999999999999
Q ss_pred HHHcCCCCCCeEEEeeC
Q 006918 238 AQRLGMMDSGYVWIATT 254 (625)
Q Consensus 238 a~~~g~~~~~~~~i~~~ 254 (625)
+.++| .+.+|+.++
T Consensus 75 ~~~~g---~~~v~~~~g 88 (116)
T PF13380_consen 75 AAALG---VKAVWLQPG 88 (116)
T ss_dssp HHHHT----SEEEE-TT
T ss_pred HHHcC---CCEEEEEcc
Confidence 99987 568999877
No 270
>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=65.30 E-value=39 Score=34.70 Aligned_cols=81 Identities=10% Similarity=0.115 Sum_probs=56.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.+.++.++ +++.||++.... ..+.+.+.+++.|+.+.... +... ...+.+.+.++.+++.++|+||-.+.
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 34666777775 899888754432 67778888988888765332 3323 45677888888899899999998766
Q ss_pred hh--hHHHHH
Q 006918 228 SR--TGLMVF 235 (625)
Q Consensus 228 ~~--~~~~il 235 (625)
++ ++.+++
T Consensus 85 GS~~D~aK~i 94 (374)
T cd08183 85 GSVIDAGKAI 94 (374)
T ss_pred chHHHHHHHH
Confidence 53 444444
No 271
>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=65.16 E-value=69 Score=28.24 Aligned_cols=46 Identities=15% Similarity=0.326 Sum_probs=32.4
Q ss_pred HHHHh--cCcEEEEcCCCh--HHHHHHHHhhhcCCCcEEeeccCCCCCCC
Q 006918 85 LQFME--TDTLAIVGPQSA--VMAHVLSHLANELQVPLLSFTALDPTLSP 130 (625)
Q Consensus 85 ~~l~~--~~v~aviG~~~s--~~~~~va~~~~~~~iP~Is~~~~~~~ls~ 130 (625)
.+++. ++.+.++|+... .....+..+++.+++|+++.......+.+
T Consensus 21 a~lLk~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~ 70 (162)
T TIGR00315 21 AMMIKRAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIE 70 (162)
T ss_pred HHHHHcCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCcccccccc
Confidence 34444 489999997654 67788899999999999975433333443
No 272
>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=64.50 E-value=65 Score=30.01 Aligned_cols=75 Identities=13% Similarity=0.093 Sum_probs=51.1
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch--hhHHHHHHH
Q 006918 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGLMVFDV 237 (625)
Q Consensus 160 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~--~~~~~il~~ 237 (625)
.++++|....+ -.+...+.++..+..+.+...-|.. .+..++...-+++++.++++|++.|-+ ...+.++++
T Consensus 126 ~~vGVivP~~e----Q~~~~~~kW~~l~~~~~~a~asPy~--~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~ 199 (221)
T PF07302_consen 126 HQVGVIVPLPE----QIAQQAEKWQPLGNPVVVAAASPYE--GDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQR 199 (221)
T ss_pred CeEEEEecCHH----HHHHHHHHHHhcCCCeEEEEeCCCC--CCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHH
Confidence 89999997654 2333334444454455444333432 457888999999999999999997554 778888877
Q ss_pred HHH
Q 006918 238 AQR 240 (625)
Q Consensus 238 a~~ 240 (625)
+..
T Consensus 200 ~~g 202 (221)
T PF07302_consen 200 ALG 202 (221)
T ss_pred HhC
Confidence 653
No 273
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=63.90 E-value=60 Score=28.89 Aligned_cols=48 Identities=15% Similarity=0.134 Sum_probs=33.7
Q ss_pred HHHHHHh--cCcEEEEcCCChH---HHHHHHHhhhcCCCcEEeeccCCCCCCC
Q 006918 83 GALQFME--TDTLAIVGPQSAV---MAHVLSHLANELQVPLLSFTALDPTLSP 130 (625)
Q Consensus 83 ~~~~l~~--~~v~aviG~~~s~---~~~~va~~~~~~~iP~Is~~~~~~~ls~ 130 (625)
.+.+++. ++.+.++|..... ....+..+++.+++|+++.......|..
T Consensus 26 ~aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~ 78 (171)
T PRK00945 26 IAAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLID 78 (171)
T ss_pred HHHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEcccccccccc
Confidence 3344444 4889999976543 6677899999999999976554444544
No 274
>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=63.09 E-value=25 Score=33.35 Aligned_cols=76 Identities=8% Similarity=0.072 Sum_probs=48.2
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
++++... ..++....+.+++.+++.|+.+.... .. .+.+.....++++.+.+++.||+..........++.+.
T Consensus 2 ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~---~~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~ 76 (264)
T cd01537 2 IGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLAN---SQ--NDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLAR 76 (264)
T ss_pred eEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEe---CC--CCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhh
Confidence 6677754 55667778888888888888776432 12 22345566777777778888887654433333456665
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.+
T Consensus 77 ~~~ 79 (264)
T cd01537 77 KAG 79 (264)
T ss_pred hcC
Confidence 554
No 275
>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=62.93 E-value=15 Score=36.57 Aligned_cols=71 Identities=8% Similarity=-0.020 Sum_probs=43.7
Q ss_pred HHHHHHHHHHCC-CCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeec------------ccccceEeccccc
Q 006918 492 IDVFLAAVRLLP-YAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVT------------NRTKAVDFTQPYI 558 (625)
Q Consensus 492 idl~~~~~~~l~-~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~------------~R~~~vdfs~p~~ 558 (625)
.++.+.+.+.++ .+ +++++. +.....+..|.+|++|+++....... .+.+.+....++.
T Consensus 48 ~~la~~~~~~~~~i~--v~~~~~------~~~~~~~~~l~~G~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~ 119 (320)
T TIGR02122 48 GAIAQLINKKSGKLR--VRVQST------GGSVENVNLLEAGEADLAIVQSDVAYYAYEGDGEFEFEGPVEKLRALASLY 119 (320)
T ss_pred HHHHHHHhccCCCee--EEEEeC------cchHHHHHHHhCCCCcEEEEcchhHHHHhcCcCccccCCCCccHHhHHHhc
Confidence 466777777776 54 777763 33567889999999999987643211 1112222122445
Q ss_pred ccceEEEEecCC
Q 006918 559 ESGLVVVAPVRK 570 (625)
Q Consensus 559 ~~~~~~l~~~~~ 570 (625)
.....++++...
T Consensus 120 ~~~~~lvv~~d~ 131 (320)
T TIGR02122 120 PEYIQIVVRKDS 131 (320)
T ss_pred cccEEEEEECCC
Confidence 556677877654
No 276
>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=62.11 E-value=31 Score=33.15 Aligned_cols=78 Identities=9% Similarity=0.052 Sum_probs=52.1
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHhc-cceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHH
Q 006918 161 EVIAIFND--DDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFD 236 (625)
Q Consensus 161 ~v~ii~~d--~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~ 236 (625)
+|++|..+ +.|.....+.+.+.+++ .|+++..... . .+.......++++.+.+.+.||+.... .....++.
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 46777764 55666777888888888 8888775321 1 234455677777777889988876543 33456677
Q ss_pred HHHHcCC
Q 006918 237 VAQRLGM 243 (625)
Q Consensus 237 ~a~~~g~ 243 (625)
++.+.++
T Consensus 76 ~l~~~~i 82 (272)
T cd06301 76 AANAAGI 82 (272)
T ss_pred HHHHCCC
Confidence 7776553
No 277
>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=61.86 E-value=73 Score=28.65 Aligned_cols=127 Identities=13% Similarity=0.132 Sum_probs=62.8
Q ss_pred CcEEEEcCCChHHHHHHHHhhhcCC--Cc-EEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEE
Q 006918 91 DTLAIVGPQSAVMAHVLSHLANELQ--VP-LLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 166 (625)
Q Consensus 91 ~v~aviG~~~s~~~~~va~~~~~~~--iP-~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~ 166 (625)
++++++||.++.-......++..+. ++ .+++....|...+ ..-.|.|-+ . +.+-++++.-..=..+- +
T Consensus 3 r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fvs---~----~~f~~~~~~~~fie~~~-~ 74 (183)
T PF00625_consen 3 RPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFVS---K----EEFERMIKAGEFIEYGE-Y 74 (183)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE-----H----HHHHHHHHTTHEEEEEE-E
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEEe---e----chhhhhhccccEEEEee-e
Confidence 5789999999886666666666542 33 2444333333333 223454442 1 22333333322111111 3
Q ss_pred ecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 167 NDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 167 ~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
.+..||. ..+.+.+.+++...|+... + . .-++++++...+.++++..+.....+-+...
T Consensus 75 ~g~~YGt-~~~~i~~~~~~gk~~il~~---~------~----~g~~~L~~~~~~~~~IfI~~~s~~~l~~~l~ 133 (183)
T PF00625_consen 75 DGNYYGT-SKSAIDKVLEEGKHCILDV---D------P----EGVKQLKKAGFNPIVIFIKPPSPEVLKRRLR 133 (183)
T ss_dssp TTEEEEE-EHHHHHHHHHTTTEEEEEE---T------H----HHHHHHHHCTTTEEEEEEEESSHHHHHHHHH
T ss_pred cchhhhh-ccchhhHhhhcCCcEEEEc---c------H----HHHHHHHhcccCceEEEEEccchHHHHHHHh
Confidence 4556664 3577888888777776532 1 1 2244555545555555554433333333333
No 278
>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=61.66 E-value=77 Score=26.32 Aligned_cols=68 Identities=15% Similarity=0.145 Sum_probs=42.7
Q ss_pred cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch----hhHHHHHHHHHHcCC
Q 006918 168 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVFDVAQRLGM 243 (625)
Q Consensus 168 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~----~~~~~il~~a~~~g~ 243 (625)
..+.-.-+..-+...++..|+++.+--.. ......+..+++.++++|.+++.. ..+..++++.++.+.
T Consensus 8 ~gd~H~lG~~~~~~~l~~~G~~vi~lG~~--------vp~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 8 GLDGHDRGAKVIARALRDAGFEVIYTGLR--------QTPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred CCChhHHHHHHHHHHHHHCCCEEEECCCC--------CCHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 33333445677777888899988753221 122355666677889999987654 345666666666653
No 279
>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=61.19 E-value=35 Score=32.39 Aligned_cols=76 Identities=12% Similarity=0.072 Sum_probs=50.3
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|+++..+ +.|.....+.+++.+++.|+.+... ... .+.......++++...+.+.|++......... ++.+.
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 5677777888888888888887643 222 22344566677777778898888766554444 66677
Q ss_pred HcCC
Q 006918 240 RLGM 243 (625)
Q Consensus 240 ~~g~ 243 (625)
+.++
T Consensus 76 ~~~i 79 (264)
T cd06267 76 ALGI 79 (264)
T ss_pred HcCC
Confidence 6664
No 280
>PF03830 PTSIIB_sorb: PTS system sorbose subfamily IIB component; InterPro: IPR004720 Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families: It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This entry is specific for the IIB components of this family of PTS transporters [].; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 3LFJ_B 1BLE_A 3P3V_B 1NRZ_C 3EYE_A 1VSQ_C 2JZH_A 2JZN_C 2JZO_D.
Probab=60.58 E-value=21 Score=31.04 Aligned_cols=82 Identities=13% Similarity=0.128 Sum_probs=58.8
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
++.+...+++++-+++.++ +|........+.+.+.....|+++... + .++....+++....+.++++++-
T Consensus 14 GQV~~~W~~~~~~~~IiVv-dD~~A~D~~~k~~l~ma~P~gvk~~i~---s------v~~a~~~l~~~~~~~~~v~ii~k 83 (151)
T PF03830_consen 14 GQVATAWVKKLNANRIIVV-DDEVANDPFQKMILKMAAPAGVKLSIF---S------VEEAIEKLKKPEYSKKRVLIIVK 83 (151)
T ss_dssp TTHHHHHHHHHTTSEEEEE--HHHHHSHHHHHHHHHTSHTTSEEEEE----------HHHHHHHHCGGGGTTEEEEEEES
T ss_pred eeeeEEEhhhcccCEEEEE-CHHHhcCHHHHHHHHHhhcCCCceEEE---E------HHHHHHHHHhcccCCceEEEEEC
Confidence 5678889999999999655 454444456777777776778887642 1 44556666666667789999999
Q ss_pred chhhHHHHHHHH
Q 006918 227 YSRTGLMVFDVA 238 (625)
Q Consensus 227 ~~~~~~~il~~a 238 (625)
++.++..+++.-
T Consensus 84 ~~~d~~~l~~~g 95 (151)
T PF03830_consen 84 SPEDALRLVEAG 95 (151)
T ss_dssp SHHHHHHHHHTT
T ss_pred CHHHHHHHHhcC
Confidence 999988777543
No 281
>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=60.52 E-value=44 Score=33.91 Aligned_cols=76 Identities=20% Similarity=0.209 Sum_probs=51.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..+.++++.+| +++.+|++...+ ....+.+.+.+++.|+.+.... +... ...+......+.+++.+++.||-.+.
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 44667788888 888777743332 2456788888888887543322 3322 34567778888888888999887665
Q ss_pred h
Q 006918 228 S 228 (625)
Q Consensus 228 ~ 228 (625)
+
T Consensus 87 G 87 (349)
T cd08550 87 G 87 (349)
T ss_pred c
Confidence 5
No 282
>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=60.45 E-value=37 Score=32.72 Aligned_cols=79 Identities=11% Similarity=0.042 Sum_probs=50.6
Q ss_pred EEEEEEec---CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHH
Q 006918 161 EVIAIFND---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFD 236 (625)
Q Consensus 161 ~v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~ 236 (625)
+|++|..+ +.|.....+.+.+.+++.|..+.....- . .+.......++++...+.+.||+.... +.....++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~~-~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~ 76 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGPE-T---FDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIK 76 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECCC-C---CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHH
Confidence 46677653 3566677888889999999887643211 1 124455567777777789988886543 33445667
Q ss_pred HHHHcCC
Q 006918 237 VAQRLGM 243 (625)
Q Consensus 237 ~a~~~g~ 243 (625)
.+.+.|+
T Consensus 77 ~~~~~~i 83 (271)
T cd06312 77 RAVAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7766553
No 283
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=60.29 E-value=1.3e+02 Score=28.74 Aligned_cols=36 Identities=14% Similarity=0.195 Sum_probs=27.3
Q ss_pred HHHH-hcCcEEEEcCCChHHHHHHHHhhhcCCCcEEe
Q 006918 85 LQFM-ETDTLAIVGPQSAVMAHVLSHLANELQVPLLS 120 (625)
Q Consensus 85 ~~l~-~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is 120 (625)
..|. +.|+.+++=+-.+..+.....+-+..++|+|+
T Consensus 54 ~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~ 90 (251)
T TIGR00067 54 TFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVG 90 (251)
T ss_pred HHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEe
Confidence 3444 45898888777777667778888888999997
No 284
>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=59.40 E-value=48 Score=33.64 Aligned_cols=86 Identities=12% Similarity=0.154 Sum_probs=54.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
.-+.++++.++.+++.+|++.... ....+.+.+.+++.|+.+............+.+.....++.+++ ++++||-.+.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~-~~~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTY-AAAGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHH-HHHHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 446677888888999888743332 22357788888888886643222222112456677777777777 8898887665
Q ss_pred h--hhHHHHH
Q 006918 228 S--RTGLMVF 235 (625)
Q Consensus 228 ~--~~~~~il 235 (625)
+ -++..++
T Consensus 90 Gs~~D~aK~v 99 (348)
T cd08175 90 GTINDITKYV 99 (348)
T ss_pred cHHHHHHHHH
Confidence 5 3444444
No 285
>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=59.34 E-value=1.4e+02 Score=28.51 Aligned_cols=129 Identities=11% Similarity=0.006 Sum_probs=69.9
Q ss_pred ceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHH
Q 006918 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (625)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~ 104 (625)
+.-+||.+.+...........+++-++++.+. +.+..........+...+.+.+.++++.+..+|+... ...+
T Consensus 119 g~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai~~~~-d~~A 191 (260)
T cd06304 119 KTGKVGFVGGMPIPEVNRFINGFAAGAKSVNP------DITVLVIYTGSFFDPAKGKEAALALIDQGADVIFAAA-GGTG 191 (260)
T ss_pred cCCceEEEeccccHHHHHHHHHHHHHHHHhCC------CcEEEEEEecCccCcHHHHHHHHHHHhCCCCEEEEcC-CCCc
Confidence 34456666543222233446788888876431 2233222222322344566667777776667887744 3444
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEE
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEV 162 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v 162 (625)
..+...+...++-++++..+. ......|-+.....+...++...++.+..-.|+..
T Consensus 192 ~gv~~al~~~gv~vigfD~~~--~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~~ 247 (260)
T cd06304 192 PGVIQAAKEAGVYAIGVDSDQ--SALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKGG 247 (260)
T ss_pred hHHHHHHHHcCCEEEeecCch--hhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCCc
Confidence 445555556666666654432 22222465666666666666666666666666544
No 286
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=58.50 E-value=30 Score=32.97 Aligned_cols=47 Identities=17% Similarity=0.184 Sum_probs=31.7
Q ss_pred ceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHH
Q 006918 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIM 82 (625)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~ 82 (625)
..|+||+.--.++ ..++..++-+.++ .|++|+++.+++...|..|+.
T Consensus 29 ~~I~vg~~~~p~a---~ile~~~k~~~~k--------~Gi~l~i~~FtDY~~PN~AL~ 75 (268)
T COG1464 29 KTIKVGATPGPHA---EILEVVVKPALKK--------KGLDLKIVEFTDYVQPNEALA 75 (268)
T ss_pred CcEEEeecCCchH---HHHHHHHHHHHHh--------cCceEEEEEecCCcchhHHHh
Confidence 5899997644332 2344455566555 378999999988877776654
No 287
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=57.86 E-value=60 Score=31.43 Aligned_cols=94 Identities=11% Similarity=0.103 Sum_probs=65.9
Q ss_pred CceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHH
Q 006918 134 PFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVK 213 (625)
Q Consensus 134 ~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~ 213 (625)
.++.+-..+ +..++++.++.+++|.+.+.+|-+.+ ..+++.+.|+..|-+.++++.--. + ...++
T Consensus 162 D~vIQNgan-S~VG~~ViQlaka~GiktinvVRdR~-----~ieel~~~Lk~lGA~~ViTeeel~-----~----~~~~k 226 (354)
T KOG0025|consen 162 DSVIQNGAN-SGVGQAVIQLAKALGIKTINVVRDRP-----NIEELKKQLKSLGATEVITEEELR-----D----RKMKK 226 (354)
T ss_pred CeeeecCcc-cHHHHHHHHHHHHhCcceEEEeecCc-----cHHHHHHHHHHcCCceEecHHHhc-----c----hhhhh
Confidence 466666554 44689999999999999999998654 489999999999887665432111 1 11222
Q ss_pred H--hcCCceEEEEEcchhhHHHHHHHHHHcC
Q 006918 214 V--RMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (625)
Q Consensus 214 i--~~~~~~vIvl~~~~~~~~~il~~a~~~g 242 (625)
. ...+++.-+-|..+..+..+.+...+-|
T Consensus 227 ~~~~~~~prLalNcVGGksa~~iar~L~~Gg 257 (354)
T KOG0025|consen 227 FKGDNPRPRLALNCVGGKSATEIARYLERGG 257 (354)
T ss_pred hhccCCCceEEEeccCchhHHHHHHHHhcCc
Confidence 2 3346677777788888888888887644
No 288
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=57.30 E-value=43 Score=32.21 Aligned_cols=80 Identities=10% Similarity=0.015 Sum_probs=49.8
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHH
Q 006918 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVA 238 (625)
Q Consensus 161 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a 238 (625)
+|++|..+ +.|.......+++.+++.|..+.....-. . .+...-...++.+...+++.||+..........++++
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~--~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~ 77 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-Y--PNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQ 77 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-C--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHH
Confidence 36777753 45666777888888999998876532111 0 1233445667777778899888865433332246677
Q ss_pred HHcCC
Q 006918 239 QRLGM 243 (625)
Q Consensus 239 ~~~g~ 243 (625)
.+.|+
T Consensus 78 ~~~gi 82 (268)
T cd06306 78 VAASI 82 (268)
T ss_pred HHCCC
Confidence 76664
No 289
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=57.27 E-value=71 Score=30.11 Aligned_cols=87 Identities=18% Similarity=0.187 Sum_probs=60.6
Q ss_pred CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHH-HHHHHhhhcCCC
Q 006918 38 VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA-HVLSHLANELQV 116 (625)
Q Consensus 38 ~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~-~~va~~~~~~~i 116 (625)
..|+.-..+++-.+.+|| |..++.. . +.+...+...+++..+..-||-...+-.+ .++...|...++
T Consensus 80 ~iGk~Kv~vm~eri~~In------P~c~V~~--~----~~f~t~en~~~~~~~~~DyvIDaiD~v~~Kv~Li~~c~~~ki 147 (263)
T COG1179 80 DIGKPKVEVMKERIKQIN------PECEVTA--I----NDFITEENLEDLLSKGFDYVIDAIDSVRAKVALIAYCRRNKI 147 (263)
T ss_pred hcccHHHHHHHHHHHhhC------CCceEee--h----HhhhCHhHHHHHhcCCCCEEEEchhhhHHHHHHHHHHHHcCC
Confidence 347777788888899988 5555442 2 33444556678888899999987777554 446788999999
Q ss_pred cEEeeccCCCCCCCCCCCceEEcc
Q 006918 117 PLLSFTALDPTLSPLQYPFFVQTA 140 (625)
Q Consensus 117 P~Is~~~~~~~ls~~~~~~~~r~~ 140 (625)
|+||.++....+. |+-+++.
T Consensus 148 ~vIss~Gag~k~D----PTri~v~ 167 (263)
T COG1179 148 PVISSMGAGGKLD----PTRIQVA 167 (263)
T ss_pred CEEeeccccCCCC----CceEEee
Confidence 9999766654443 4445543
No 290
>PRK03515 ornithine carbamoyltransferase subunit I; Provisional
Probab=57.04 E-value=2.2e+02 Score=28.66 Aligned_cols=134 Identities=16% Similarity=0.095 Sum_probs=75.9
Q ss_pred EEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
-.++.+|...+ .+.+..|+.|+.++ +|..+.+...++.-.-.+.++-+.+.++.-+.+|+-= ......
T Consensus 46 k~l~~lF~epS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~s~~~kgEsl~Dtarvls~y~D~Iv~R--~~~~~~ 113 (336)
T PRK03515 46 KNIALIFEKDS---TRTRCSFEVAAYDQ-------GARVTYLGPSGSQIGHKESIKDTARVLGRMYDGIQYR--GYGQEI 113 (336)
T ss_pred CEEEEEecCCC---hhHHHHHHHHHHHc-------CCcEEEeCCccccCCCCCCHHHHHHHHHHhCcEEEEE--eCChHH
Confidence 34777888765 37789999999885 3555554332222222344444555555534444321 112334
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHH---HHHcC---C--cEEEEEEecCCCCcchHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM---VSYFG---W--GEVIAIFNDDDQGRNGVTA 178 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~l---l~~~~---W--~~v~ii~~d~~~g~~~~~~ 178 (625)
+..++....+|+|.- .+ +...| .++++++ .+++| + .+|+++. |..+ .....
T Consensus 114 ~~~~a~~~~vPVINa--~~----~~~HP------------tQaLaDl~Ti~e~~g~~~l~g~~ia~vG-D~~~--~v~~S 172 (336)
T PRK03515 114 VETLAEYAGVPVWNG--LT----NEFHP------------TQLLADLLTMQEHLPGKAFNEMTLAYAG-DARN--NMGNS 172 (336)
T ss_pred HHHHHHhCCCCEEEC--CC----CCCCh------------HHHHHHHHHHHHHhCCCCcCCCEEEEeC-CCcC--cHHHH
Confidence 566777788999963 21 22233 2456655 35675 3 3666664 3212 36777
Q ss_pred HHHHHhccceEEEEe
Q 006918 179 LGDKLAEIRCKISYK 193 (625)
Q Consensus 179 l~~~l~~~g~~v~~~ 193 (625)
+...+...|.++...
T Consensus 173 l~~~~~~~g~~v~~~ 187 (336)
T PRK03515 173 LLEAAALTGLDLRLV 187 (336)
T ss_pred HHHHHHHcCCEEEEE
Confidence 777888888877653
No 291
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=56.74 E-value=50 Score=31.43 Aligned_cols=77 Identities=5% Similarity=-0.024 Sum_probs=49.2
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHH
Q 006918 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 237 (625)
Q Consensus 161 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~ 237 (625)
+|++|..+ +.|.....+.+++.+++.|+.+.... .. .+.......++++...+.+.||+.... ......++.
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~ 75 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLD---AQ--NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKK 75 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEEC---CC--CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHH
Confidence 46777764 45666778888899998898876532 11 123444567777777788988876543 333345666
Q ss_pred HHHcC
Q 006918 238 AQRLG 242 (625)
Q Consensus 238 a~~~g 242 (625)
+.+.+
T Consensus 76 l~~~~ 80 (267)
T cd01536 76 ANAAG 80 (267)
T ss_pred HHHCC
Confidence 66544
No 292
>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=56.58 E-value=50 Score=31.51 Aligned_cols=77 Identities=10% Similarity=0.012 Sum_probs=45.8
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|++|.. .+.|.....+.+.+.+++.|+++... ... .+...-...++++.+.+.+.|++..........++++.
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 455654 34555566778888888888776532 211 12334456667777777887777654333334666666
Q ss_pred HcCC
Q 006918 240 RLGM 243 (625)
Q Consensus 240 ~~g~ 243 (625)
+.|.
T Consensus 77 ~~~i 80 (268)
T cd06289 77 ESGI 80 (268)
T ss_pred hcCC
Confidence 6553
No 293
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=56.47 E-value=1.3e+02 Score=30.62 Aligned_cols=93 Identities=11% Similarity=0.039 Sum_probs=57.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCC-CCCChhHHHHHHHHHhcCCc---eEEE
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPD-QSVTETDVRNELVKVRMMEA---RVIV 223 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~~~~~~l~~i~~~~~---~vIv 223 (625)
..+.+.++.++.+++.+|++... .....+.+.+.+++.|+.+... .++.. ...+.+.+...++.+++.+. +.||
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 44666777778899988885443 3346777888888888765421 12221 11346677778888776554 8888
Q ss_pred EEcch--hhHHHHHHHHHHcC
Q 006918 224 VHGYS--RTGLMVFDVAQRLG 242 (625)
Q Consensus 224 l~~~~--~~~~~il~~a~~~g 242 (625)
-.+.+ -++..++......+
T Consensus 98 avGGGsv~D~aK~iA~~~~~g 118 (358)
T PRK00002 98 ALGGGVIGDLAGFAAATYMRG 118 (358)
T ss_pred EEcCcHHHHHHHHHHHHhcCC
Confidence 76655 34444544333333
No 294
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=56.06 E-value=60 Score=32.72 Aligned_cols=82 Identities=11% Similarity=0.037 Sum_probs=54.9
Q ss_pred CCcEEEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc-chhhHHHH
Q 006918 158 GWGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG-YSRTGLMV 234 (625)
Q Consensus 158 ~W~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~-~~~~~~~i 234 (625)
.-.+++++.. +..|.....+.+++.+++.|+++... .+.. .+...-...++.+...+.+.|++.. +++.....
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~--~~~~--~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~ 97 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYD--GPTE--PSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPA 97 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEE--CCCC--CCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHH
Confidence 3457888875 35676677788889999999888642 2222 2233334667777778899888864 33445678
Q ss_pred HHHHHHcCC
Q 006918 235 FDVAQRLGM 243 (625)
Q Consensus 235 l~~a~~~g~ 243 (625)
++++.+.|+
T Consensus 98 l~~a~~~gI 106 (336)
T PRK15408 98 LKRAMQRGV 106 (336)
T ss_pred HHHHHHCCC
Confidence 888888774
No 295
>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=55.52 E-value=50 Score=31.75 Aligned_cols=79 Identities=10% Similarity=0.072 Sum_probs=48.0
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh-HHHHHHH
Q 006918 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDV 237 (625)
Q Consensus 161 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~-~~~il~~ 237 (625)
||++|..+ +.|.......+.+.+++.|..+.....-. . .+.......++++...+.+.||+...... ....++.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~-~--~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~ 77 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPAS-E--TDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKE 77 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCcc-C--CCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHH
Confidence 46777754 44556677888888888898876542111 1 12344456677777778888877543322 2456666
Q ss_pred HHHcC
Q 006918 238 AQRLG 242 (625)
Q Consensus 238 a~~~g 242 (625)
+.+.+
T Consensus 78 ~~~~~ 82 (273)
T cd06310 78 AKDAG 82 (273)
T ss_pred HHHCC
Confidence 66554
No 296
>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=54.94 E-value=66 Score=31.33 Aligned_cols=77 Identities=9% Similarity=0.098 Sum_probs=51.6
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc-hhhHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVA 238 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-~~~~~~il~~a 238 (625)
|++|..+ +.|.....+.+.+.+++.|+.+..... . .+.......++++.+.+++.||+... .+.....++++
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 456667778899999999988775322 1 22344556777777788998887653 34456677777
Q ss_pred HHcCC
Q 006918 239 QRLGM 243 (625)
Q Consensus 239 ~~~g~ 243 (625)
.+.|.
T Consensus 77 ~~~~i 81 (288)
T cd01538 77 ADAGI 81 (288)
T ss_pred HHCCC
Confidence 77663
No 297
>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=54.70 E-value=43 Score=33.81 Aligned_cols=85 Identities=11% Similarity=0.064 Sum_probs=54.8
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
.+.+.+.++.++.+++.+|++...+-. ..+.+.+.+++.+..+ +. .+... ...+.+....+.+++.+++.||-.+
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~~-~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 85 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-FD-GAVMH--TPVEVTEAAVAAAREAGADGIVAIG 85 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-eC-CCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 345677889999999988875443332 5666777777664432 22 22222 4466788888888888999998776
Q ss_pred chh--hHHHHHH
Q 006918 227 YSR--TGLMVFD 236 (625)
Q Consensus 227 ~~~--~~~~il~ 236 (625)
.+. ++.+++.
T Consensus 86 GGs~iD~aK~ia 97 (337)
T cd08177 86 GGSTIDLAKAIA 97 (337)
T ss_pred CcHHHHHHHHHH
Confidence 553 4444443
No 298
>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=54.60 E-value=60 Score=33.62 Aligned_cols=78 Identities=15% Similarity=0.064 Sum_probs=53.1
Q ss_pred cCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch--hhHHHH
Q 006918 157 FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGLMV 234 (625)
Q Consensus 157 ~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~--~~~~~i 234 (625)
.+.+++.+|++.........+.+.+.+++.|+++.....+... .+.+.....++.+++.++++||-.+.+ -++..+
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 4668988887543333346778899999888876543334433 456778888888998999999976554 344444
Q ss_pred HH
Q 006918 235 FD 236 (625)
Q Consensus 235 l~ 236 (625)
+.
T Consensus 97 iA 98 (398)
T cd08178 97 MW 98 (398)
T ss_pred HH
Confidence 43
No 299
>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=54.30 E-value=60 Score=31.06 Aligned_cols=77 Identities=4% Similarity=0.007 Sum_probs=46.0
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|+++..+ +.|.....+.+.+.+++.|.++..... ... ........++.+...+.+.||+..........++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~~~---~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 77 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPC-DSG---SPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLD 77 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeC-CCC---chHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHH
Confidence 5666643 567777788888888888887764321 111 1223445556666677887777543222344556665
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.+
T Consensus 78 ~~~ 80 (270)
T cd01545 78 EAG 80 (270)
T ss_pred hcC
Confidence 555
No 300
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=54.04 E-value=20 Score=35.63 Aligned_cols=67 Identities=9% Similarity=0.126 Sum_probs=40.5
Q ss_pred HHHHHHHC-CCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccc--c----ceEecccccccceEEEEe
Q 006918 495 FLAAVRLL-PYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRT--K----AVDFTQPYIESGLVVVAP 567 (625)
Q Consensus 495 ~~~~~~~l-~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~--~----~vdfs~p~~~~~~~~l~~ 567 (625)
...+.+.. +.+ +++++. .+...++..|.+|++|+++.. .....+. . .+..+.|+...+..++++
T Consensus 46 ~~~~~~~~p~v~--ie~~~~------~~~~~~~~aL~~G~iDia~~~-~~~~~~~~~~g~~~~~v~~~~~~~~~~~lvv~ 116 (314)
T PRK11553 46 HQLLEKRFPQTK--ISWVEF------PAGPQMLEALNVGSIDLGSTG-DIPPIFAQAAGADLVYVGVEPPKPKAEVILVA 116 (314)
T ss_pred hCHHHHhCCCCe--eEEEEC------CCcHHHHHHHHcCCCCEEccC-CHHHHHHHhCCCCEEEEEEecCCCcceEEEEe
Confidence 33455444 444 777764 235789999999999999764 2323221 1 122245666666788887
Q ss_pred cCC
Q 006918 568 VRK 570 (625)
Q Consensus 568 ~~~ 570 (625)
+..
T Consensus 117 ~~s 119 (314)
T PRK11553 117 ENS 119 (314)
T ss_pred CCC
Confidence 643
No 301
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=53.85 E-value=32 Score=30.98 Aligned_cols=29 Identities=31% Similarity=0.493 Sum_probs=25.1
Q ss_pred EEEEcCCChHHHHHHHHhhhcCCCcEEee
Q 006918 93 LAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (625)
Q Consensus 93 ~aviG~~~s~~~~~va~~~~~~~iP~Is~ 121 (625)
+.|+||..+.=+.....+++.+++|+|+.
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlst 31 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDT 31 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcH
Confidence 68999999987777788888899999973
No 302
>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=53.54 E-value=58 Score=31.03 Aligned_cols=77 Identities=5% Similarity=0.015 Sum_probs=47.7
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|+++.. ++.|.....+.+.+.+++.|+.+..... . .+.......++++...+.+.||+..........++.+.
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 3455566778888888888888765321 1 12344456677777778888887543222234667777
Q ss_pred HcCC
Q 006918 240 RLGM 243 (625)
Q Consensus 240 ~~g~ 243 (625)
+.|+
T Consensus 77 ~~~i 80 (266)
T cd06282 77 AERV 80 (266)
T ss_pred hCCC
Confidence 6664
No 303
>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=52.60 E-value=98 Score=27.35 Aligned_cols=77 Identities=12% Similarity=0.120 Sum_probs=49.7
Q ss_pred CcEEEEEEecCCCCc---chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhc-CCceEEEEEcch-----h
Q 006918 159 WGEVIAIFNDDDQGR---NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYS-----R 229 (625)
Q Consensus 159 W~~v~ii~~d~~~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~~~-----~ 229 (625)
.-++++|...|.-+. .....+...+++.|.++.....++.+ .+.+.+.+++..+ .+.|+||+.+.. +
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~Dd----~~~i~~~l~~~~~~~~~DlVIttGGtg~g~~D 79 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKDD----IYQIRAQVSAWIADPDVQVILITGGTGFTGRD 79 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCCC----HHHHHHHHHHHHhcCCCCEEEECCCcCCCCCC
Confidence 457777765443222 23557778888999998877777644 6778888877643 568988886443 3
Q ss_pred hHHHHHHHHH
Q 006918 230 TGLMVFDVAQ 239 (625)
Q Consensus 230 ~~~~il~~a~ 239 (625)
.....+..+.
T Consensus 80 ~t~eal~~l~ 89 (163)
T TIGR02667 80 VTPEALEPLF 89 (163)
T ss_pred CcHHHHHHHH
Confidence 4455554443
No 304
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=51.76 E-value=31 Score=32.99 Aligned_cols=88 Identities=13% Similarity=0.171 Sum_probs=54.4
Q ss_pred CceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe-
Q 006918 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG- 539 (625)
Q Consensus 461 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~- 539 (625)
..+||||....+.+.|+ .+-.-+.+.++.|++ ++++.+ .++..++..+..|++|++..
T Consensus 5 ~~~l~ig~~~~~~~~p~-------------~~a~~~g~f~~~G~~--ve~~~~------~~g~~~~~al~~G~iD~a~~~ 63 (252)
T PF13379_consen 5 PTTLRIGYLPGPDYAPL-------------YVAQEKGLFEKEGLD--VEWVQF------ASGADILEALAAGEIDIAFVL 63 (252)
T ss_dssp ESEEEEEETSSGGGHHH-------------HHHHHTTHHHHTTSC--EEEEEE------SSHHHHHHHHHCTSSSEEEEC
T ss_pred CcEEEEEeecchHHHHH-------------HHHHHcChHHHcCCE--EEEEEc------CCHHHHHHHHHcCCCCEEEec
Confidence 46799999643333222 222223466777888 566665 45999999999999999987
Q ss_pred -eeeeeccccc-----ceEecccccccceEEEEecC
Q 006918 540 -DIAIVTNRTK-----AVDFTQPYIESGLVVVAPVR 569 (625)
Q Consensus 540 -~~~~t~~R~~-----~vdfs~p~~~~~~~~l~~~~ 569 (625)
++.+-..+-. .+-.-......+..++++..
T Consensus 64 ~~~~~~~~~g~~~~~~~~~~~~~~~~~g~~lvv~~~ 99 (252)
T PF13379_consen 64 APALIAIAKGAGGPDVDIVVLAGLSQNGNALVVRND 99 (252)
T ss_dssp THHHHHHHTTTTT----EEEEEECSBSSEEEEECGG
T ss_pred hHHHHHHHcCCCCcccceEEeeccCCCceEEEEcCc
Confidence 1122223332 23333445667888888764
No 305
>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=51.66 E-value=62 Score=30.37 Aligned_cols=78 Identities=12% Similarity=0.075 Sum_probs=49.8
Q ss_pred EEEEEEec---CCCCcchHHHHHHHHhc--cceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHH
Q 006918 161 EVIAIFND---DDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVF 235 (625)
Q Consensus 161 ~v~ii~~d---~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il 235 (625)
+|++|... ..++....+.++..+++ .++++.... .. .+..+....++++...+.+.|++.........+.
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 35666677788888888 677665432 22 2234566777777777888888876655544466
Q ss_pred HHHHHcCC
Q 006918 236 DVAQRLGM 243 (625)
Q Consensus 236 ~~a~~~g~ 243 (625)
..+.+.+.
T Consensus 76 ~~~~~~~i 83 (269)
T cd01391 76 ELAAAAGI 83 (269)
T ss_pred HHHHHcCC
Confidence 66666553
No 306
>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=51.65 E-value=92 Score=27.44 Aligned_cols=69 Identities=13% Similarity=0.172 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++.++.+... .+++++.. +..+.+...+.+|++|+++..... ....+ .+.|+....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08415 13 SLLPRAIARFRARHP-DVRISLHT-------LSSSTVVEAVLSGQADLGLASLPL---DHPGL-ESEPLASGRAVCVLPP 80 (196)
T ss_pred cccHHHHHHHHHHCC-CcEEEEEe-------cchHHHHHHHHcCCccEEEEeCCC---CCCcc-eeeeecccceEEEEcC
Confidence 455688888887653 33366666 457889999999999999864322 12223 3456777777777754
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 81 ~ 81 (196)
T cd08415 81 G 81 (196)
T ss_pred C
Confidence 3
No 307
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=51.62 E-value=76 Score=30.36 Aligned_cols=74 Identities=11% Similarity=0.023 Sum_probs=44.4
Q ss_pred EEEEEec-----CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHH
Q 006918 162 VIAIFND-----DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (625)
Q Consensus 162 v~ii~~d-----~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~ 236 (625)
|+++..+ +.|.....+.+.+.+++.|..+.... .... .......++.+...+.+.||+....... .++
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 55666777888888888888776432 2211 2233345555666778888876543322 356
Q ss_pred HHHHcC
Q 006918 237 VAQRLG 242 (625)
Q Consensus 237 ~a~~~g 242 (625)
.+.+.+
T Consensus 75 ~l~~~~ 80 (268)
T cd06277 75 EIKELG 80 (268)
T ss_pred HHhhcC
Confidence 666555
No 308
>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=51.41 E-value=74 Score=30.32 Aligned_cols=76 Identities=12% Similarity=0.033 Sum_probs=48.8
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|++|.. ++.|.....+.+.+.+++.|+.+..... . .+.......++.+...+.+.||+....... ..++++.
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 3456667778888888888988764321 1 223445567777777888888876543332 3467777
Q ss_pred HcCC
Q 006918 240 RLGM 243 (625)
Q Consensus 240 ~~g~ 243 (625)
+.+.
T Consensus 76 ~~~i 79 (265)
T cd06299 76 KRGI 79 (265)
T ss_pred hCCC
Confidence 6653
No 309
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=51.15 E-value=2.6e+02 Score=27.69 Aligned_cols=133 Identities=19% Similarity=0.207 Sum_probs=77.7
Q ss_pred EEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
-.++.+|...+ .+.+..|+.|+.++ +|..+.+...++.-.-.+.++-+.+.++.-+.+|+-=.. ....
T Consensus 39 k~~~~lF~epS---TRTR~SFE~A~~~L-------Gg~~i~l~~~~ss~~kgEsl~Dt~~vls~y~D~iviR~~--~~~~ 106 (302)
T PRK14805 39 KSVVMLFEKPS---LRTRVSFDIGINKL-------GGHCLYLDQQNGALGKRESVADFAANLSCWADAIVARVF--SHST 106 (302)
T ss_pred CEEEEEecCCC---chHHHHHHHHHHHc-------CCcEEECCCCcCcCCCCcCHHHHHHHHHHhCCEEEEeCC--ChhH
Confidence 44777887754 37789999999986 344454432223222234455555556655555553111 2234
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH---HHcCC---cEEEEEEecCCCCcchHHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFGW---GEVIAIFNDDDQGRNGVTALG 180 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll---~~~~W---~~v~ii~~d~~~g~~~~~~l~ 180 (625)
+..+++...+|+|.-++ + ...| .+++++++ +++|- .+|+++.+ +......+.
T Consensus 107 ~~~~a~~~~vPVINa~~-~-----~~HP------------tQaL~Dl~Ti~e~~g~l~g~kva~vGD----~~~v~~S~~ 164 (302)
T PRK14805 107 IEQLAEHGSVPVINALC-D-----LYHP------------CQALADFLTLAEQFGDVSKVKLAYVGD----GNNVTHSLM 164 (302)
T ss_pred HHHHHHhCCCCEEECCC-C-----CCCh------------HHHHHHHHHHHHHhCCcCCcEEEEEcC----CCccHHHHH
Confidence 55666677899997322 1 1223 25566553 45552 57887763 234667777
Q ss_pred HHHhccceEEEEe
Q 006918 181 DKLAEIRCKISYK 193 (625)
Q Consensus 181 ~~l~~~g~~v~~~ 193 (625)
..+...|.++...
T Consensus 165 ~~~~~~g~~v~~~ 177 (302)
T PRK14805 165 YGAAILGATMTVI 177 (302)
T ss_pred HHHHHcCCEEEEE
Confidence 7888888887654
No 310
>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=50.78 E-value=1.5e+02 Score=27.09 Aligned_cols=85 Identities=12% Similarity=0.034 Sum_probs=44.3
Q ss_pred EEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch----hhHHHHHH
Q 006918 161 EVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVFD 236 (625)
Q Consensus 161 ~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~----~~~~~il~ 236 (625)
+|.+.+...+.-.-+..-+...++..|+++.+- -. .......++.+++.++++|.+.+.. ..+..+++
T Consensus 86 ~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~L---G~-----~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~ 157 (197)
T TIGR02370 86 KVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDL---GR-----DVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDIND 157 (197)
T ss_pred eEEEEeCCCchhHHHHHHHHHHHHhCCcEEEEC---CC-----CCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHHH
Confidence 444444444444445666666777777776532 11 1122344555566667777665432 44566666
Q ss_pred HHHHcCCCCCCeEEEee
Q 006918 237 VAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 237 ~a~~~g~~~~~~~~i~~ 253 (625)
+.++.+....-.+|+..
T Consensus 158 ~l~~~~~~~~v~i~vGG 174 (197)
T TIGR02370 158 KLKEEGYRDSVKFMVGG 174 (197)
T ss_pred HHHHcCCCCCCEEEEEC
Confidence 66666543333444443
No 311
>PRK00856 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=50.15 E-value=2.7e+02 Score=27.61 Aligned_cols=136 Identities=15% Similarity=0.164 Sum_probs=79.1
Q ss_pred eEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcC-cEEEEcCCChHHH
Q 006918 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETD-TLAIVGPQSAVMA 104 (625)
Q Consensus 26 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~-v~aviG~~~s~~~ 104 (625)
.-.|+.+|...+ .+.+.+|+.|+.++ +|..+.+...++...-.+.++-+.+.++.- +.+|+-=.. .-
T Consensus 45 gk~~~~lF~~pS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~~~~~kgEs~~Dta~vls~y~~D~iv~R~~--~~ 112 (305)
T PRK00856 45 GKTVANLFFEPS---TRTRLSFELAAKRL-------GADVINFSASTSSVSKGETLADTIRTLSAMGADAIVIRHP--QS 112 (305)
T ss_pred CcEEEEEeccCC---cchHHHHHHHHHHc-------CCcEEEeCCCcccCCCCcCHHHHHHHHHhcCCCEEEEeCC--Ch
Confidence 345788887654 36789999999986 344454433333333334555555666653 666664222 22
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHH---HHHcC-C--cEEEEEEecCCCCcchHHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM---VSYFG-W--GEVIAIFNDDDQGRNGVTA 178 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~l---l~~~~-W--~~v~ii~~d~~~g~~~~~~ 178 (625)
..+..++...++|+|.-+..+ ...| .++++++ .+++| + .+|+++. |..++ .....
T Consensus 113 ~~~~~~a~~~~vPVINa~~g~-----~~HP------------tQ~LaDl~Ti~e~~G~l~g~kv~~vG-D~~~~-~v~~S 173 (305)
T PRK00856 113 GAARLLAESSDVPVINAGDGS-----HQHP------------TQALLDLLTIREEFGRLEGLKVAIVG-DIKHS-RVARS 173 (305)
T ss_pred HHHHHHHHHCCCCEEECCCCC-----CCCc------------HHHHHHHHHHHHHhCCCCCCEEEEEC-CCCCC-cHHHH
Confidence 345666677899999743211 1123 2455555 35565 3 4676665 33333 45677
Q ss_pred HHHHHhccceEEEE
Q 006918 179 LGDKLAEIRCKISY 192 (625)
Q Consensus 179 l~~~l~~~g~~v~~ 192 (625)
+...+...|.++..
T Consensus 174 l~~~~~~~g~~~~~ 187 (305)
T PRK00856 174 NIQALTRLGAEVRL 187 (305)
T ss_pred HHHHHHHcCCEEEE
Confidence 77778888887664
No 312
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=50.14 E-value=32 Score=33.43 Aligned_cols=57 Identities=16% Similarity=0.140 Sum_probs=30.6
Q ss_pred CCceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE
Q 006918 23 KPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV 96 (625)
Q Consensus 23 ~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~avi 96 (625)
..++|+||..--.+ .. ..+++.+.+-++. |++++++.+++...+.. .+.++.+.+-.
T Consensus 29 ~~~~I~IG~~~~~~------~~-~~~~~~~~l~~~~----G~~Vel~~f~~~~~~~~------ALa~GdID~~~ 85 (271)
T PRK11063 29 DPNHIKVGVIVGAE------QQ-VAEVAQKVAKEKY----GLDVELVTFNDYVLPNE------ALSKGDIDANA 85 (271)
T ss_pred CCCcEEEEeCCCCh------HH-HHHHHHHHHHHhc----CCeEEEEEecCcHHHHH------HHHcCCcceec
Confidence 33569999873211 11 2344445554442 67899988875433322 33344566543
No 313
>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=49.86 E-value=19 Score=30.71 Aligned_cols=56 Identities=20% Similarity=0.306 Sum_probs=38.7
Q ss_pred HHHHHHHhc--CcEEEEcCCCh--HHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEE
Q 006918 82 MGALQFMET--DTLAIVGPQSA--VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQ 138 (625)
Q Consensus 82 ~~~~~l~~~--~v~aviG~~~s--~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r 138 (625)
+.+.+++.+ +++.++|.... .....+..+++..++|+++.... ...-+..+|.+.-
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~-kg~i~~~hp~~~G 61 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMG-KGVIPEDHPLFLG 61 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGG-TTSSTTTSTTEEE
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCcc-ccccCCCCchhcc
Confidence 455666654 88999997765 78889999999999999975433 3333334576655
No 314
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=49.75 E-value=1.1e+02 Score=26.66 Aligned_cols=95 Identities=9% Similarity=-0.064 Sum_probs=54.3
Q ss_pred cCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccce--EEEEeeecCCCCCCChhHHHHHHHHHhcC
Q 006918 140 APNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRC--KISYKSALPPDQSVTETDVRNELVKVRMM 217 (625)
Q Consensus 140 ~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~--~v~~~~~~~~~~~~~~~~~~~~l~~i~~~ 217 (625)
.+....+++.+++.++..+...-.|+.+......+.++.+.+ ..+. .+.....+.+. .+..++...++++...
T Consensus 24 t~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~---~~~~~~~~~~~~~l~p~--~~~~~~~~~l~~~~~~ 98 (152)
T TIGR00249 24 TTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVGD---CLNLPSSAEVLEGLTPC--GDIGLVSDYLEALTNE 98 (152)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHH---HcCCCcceEEccCcCCC--CCHHHHHHHHHHHHhc
Confidence 445567888899999886654444555554433233333332 2343 23222233322 3455667777777654
Q ss_pred CceEEEEEcchhhHHHHHHHHH
Q 006918 218 EARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 218 ~~~vIvl~~~~~~~~~il~~a~ 239 (625)
..+.+++++.......++..+.
T Consensus 99 ~~~~vliVgH~P~i~~l~~~l~ 120 (152)
T TIGR00249 99 GVASVLLVSHLPLVGYLVAELC 120 (152)
T ss_pred CCCEEEEEeCCCCHHHHHHHHh
Confidence 4567777788777888877765
No 315
>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=49.74 E-value=85 Score=28.12 Aligned_cols=72 Identities=15% Similarity=0.185 Sum_probs=45.4
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++.++.++.. ++++++.. ++.+.+++.|.+|++|+++........-.+.+.+ .+.......++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~ 83 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVH-------AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIEE-RDWWEDTYVVIASR 83 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEE-------CChHhHHHHHHCCCccEEEecccccccCCCCEEE-EEEecCcEEEEEeC
Confidence 455678888877663 23466666 5588999999999999998643221000223433 35666666666654
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 84 ~ 84 (202)
T cd08468 84 D 84 (202)
T ss_pred C
Confidence 3
No 316
>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=49.70 E-value=61 Score=31.40 Aligned_cols=80 Identities=9% Similarity=0.079 Sum_probs=47.5
Q ss_pred EEEEEec---CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHH
Q 006918 162 VIAIFND---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVA 238 (625)
Q Consensus 162 v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a 238 (625)
|++|..+ +.|.....+.+.+.+++.|..+......... ..+...-...++.+...+.+.||+..........++.+
T Consensus 2 Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l 80 (280)
T cd06303 2 IAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRP-GIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERV 80 (280)
T ss_pred eeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCc-ccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHH
Confidence 6777764 3466666778888888888776543211110 01233345666777778899888865433233455565
Q ss_pred HHcC
Q 006918 239 QRLG 242 (625)
Q Consensus 239 ~~~g 242 (625)
.+.+
T Consensus 81 ~~~~ 84 (280)
T cd06303 81 LASG 84 (280)
T ss_pred HhCC
Confidence 5544
No 317
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=49.64 E-value=3.7e+02 Score=29.12 Aligned_cols=128 Identities=19% Similarity=0.242 Sum_probs=76.6
Q ss_pred ChHHHHHHHHH-HHhcCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH
Q 006918 76 NGFLSIMGALQ-FMETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV 154 (625)
Q Consensus 76 ~~~~a~~~~~~-l~~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll 154 (625)
.-..+++.+.+ +..+++.+||.-.++. ..+. +...||+|...-+ ..+..+++. ..
T Consensus 48 ~~~~~v~~~~~~~~~~~~dviIsrG~ta--~~i~---~~~~iPVv~i~~s------------------~~Dil~al~-~a 103 (538)
T PRK15424 48 GFEKAVTYIRKRLATERCDAIIAAGSNG--AYLK---SRLSVPVILIKPS------------------GFDVMQALA-RA 103 (538)
T ss_pred hHHHHHHHHHHHHhhCCCcEEEECchHH--HHHH---hhCCCCEEEecCC------------------HhHHHHHHH-HH
Confidence 34567777744 5566899999754433 2222 3568999974222 122344543 33
Q ss_pred HHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHH
Q 006918 155 SYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMV 234 (625)
Q Consensus 155 ~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~i 234 (625)
+.++ .++++|...... ..++.+.+.+ ++++.... + .+.++....++++++.+.++||-.+. .
T Consensus 104 ~~~~-~~iavv~~~~~~--~~~~~~~~~l---~~~i~~~~-~-----~~~~e~~~~v~~lk~~G~~~vvG~~~------~ 165 (538)
T PRK15424 104 RKLT-SSIGVVTYQETI--PALVAFQKTF---NLRIEQRS-Y-----VTEEDARGQINELKANGIEAVVGAGL------I 165 (538)
T ss_pred HhcC-CcEEEEecCccc--HHHHHHHHHh---CCceEEEE-e-----cCHHHHHHHHHHHHHCCCCEEEcCch------H
Confidence 5554 567777654432 2455565555 44554322 2 23678999999999999998884322 3
Q ss_pred HHHHHHcCCCC
Q 006918 235 FDVAQRLGMMD 245 (625)
Q Consensus 235 l~~a~~~g~~~ 245 (625)
...|.+.||.+
T Consensus 166 ~~~A~~~g~~g 176 (538)
T PRK15424 166 TDLAEEAGMTG 176 (538)
T ss_pred HHHHHHhCCce
Confidence 45677777654
No 318
>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=49.44 E-value=74 Score=31.24 Aligned_cols=78 Identities=10% Similarity=0.019 Sum_probs=49.4
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a 238 (625)
|++|.. .+.|.....+.+++.+++.|..+.... +.. .+.......++.+...+++.||+.... +.....++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~--~~~--~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~ 77 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVG--PTT--ADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKA 77 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEEC--CCC--CCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHH
Confidence 566654 345666777888888999998876321 111 224445567777777788988886433 3345677777
Q ss_pred HHcCC
Q 006918 239 QRLGM 243 (625)
Q Consensus 239 ~~~g~ 243 (625)
.+.++
T Consensus 78 ~~~~i 82 (298)
T cd06302 78 REAGI 82 (298)
T ss_pred HHCCC
Confidence 76664
No 319
>cd08486 PBP2_CbnR The C-terminal substrate binding domain of LysR-type transcriptional regulator, CbnR, involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of LysR-type regulator CbnR which is involved in the regulation of chlorocatechol breakdown. The chlorocatechol-degradative pathway is often found in bacteria that can use chlorinated aromatic compounds as carbon and energy sources. CbnR is found in the 3-chlorobenzoate degradative bacterium Ralstonia eutropha NH9 and forms a tetramer. CbnR activates the expression of the cbnABCD genes, which are responsible for the degradation of chlorocatechol converted from 3-chlorobenzoate and are transcribed divergently from cbnR. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccha
Probab=49.29 E-value=58 Score=29.23 Aligned_cols=68 Identities=10% Similarity=0.092 Sum_probs=44.1
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.++++++.++.. ++++++.. ++.+.++..|.+|++|+++..- ......++ +.++....+.++++.
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 344577777777652 33466665 5689999999999999998532 11222233 335666677777764
No 320
>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=49.13 E-value=79 Score=30.18 Aligned_cols=77 Identities=8% Similarity=0.021 Sum_probs=48.3
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a 238 (625)
|+++..+ +.|.....+.+.+.+++.|..+.... .. .+.......++++...+++.||+.... ......++++
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 45666777888888888898776432 11 123445566777777788988885433 3334566777
Q ss_pred HHcCC
Q 006918 239 QRLGM 243 (625)
Q Consensus 239 ~~~g~ 243 (625)
.+.|+
T Consensus 77 ~~~~i 81 (267)
T cd06322 77 KKAGI 81 (267)
T ss_pred HHCCC
Confidence 66553
No 321
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=48.83 E-value=2.3e+02 Score=26.36 Aligned_cols=45 Identities=16% Similarity=0.118 Sum_probs=27.0
Q ss_pred CChHHHHHHHHHHHhc----CcEEEEcCCChHHHHHHHHhhhcCCCcEEee
Q 006918 75 FNGFLSIMGALQFMET----DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (625)
Q Consensus 75 ~~~~~a~~~~~~l~~~----~v~aviG~~~s~~~~~va~~~~~~~iP~Is~ 121 (625)
.|...++......+.+ |+.|++=.-.++ ..+..+=+...+|+|..
T Consensus 49 ~de~~a~~~~l~ei~~~~~~GvdaiiIaCf~D--Pgl~~~Re~~~~PviGi 97 (230)
T COG4126 49 EDEALAAPGLLREIADGEEQGVDAIIIACFSD--PGLAAARERAAIPVIGI 97 (230)
T ss_pred chHHHhhhHHHHHhhcccccCCcEEEEEecCC--hHHHHHHHHhCCCceeh
Confidence 3445555555555543 788887544455 34445556788998864
No 322
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=48.71 E-value=2.1e+02 Score=26.07 Aligned_cols=102 Identities=12% Similarity=0.039 Sum_probs=58.1
Q ss_pred HHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHH
Q 006918 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (625)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~ 182 (625)
....+..+++..+||++.... +. ++ ....+.+.+.++...-+.+-.|...+.+.......+.+.
T Consensus 46 ~~e~~~~~A~~lgipl~~i~~-~~--~~-------------e~~~~~l~~~l~~~~~~g~~~vv~G~i~sd~~~~~~e~~ 109 (194)
T cd01994 46 NHELLELQAEAMGIPLIRIEI-SG--EE-------------EDEVEDLKELLRKLKEEGVDAVVFGAILSEYQRTRVERV 109 (194)
T ss_pred CHHHHHHHHHHcCCcEEEEeC-CC--Cc-------------hHHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHHH
Confidence 345566788899999875422 11 11 112244444443332111222333333444467778888
Q ss_pred HhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 006918 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (625)
Q Consensus 183 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 228 (625)
.++.|++... |.. ..+-..+++++-+.+-+++|+....
T Consensus 110 ~~~~gl~~~~----PLW----~~~~~~ll~e~~~~g~~~~iv~v~~ 147 (194)
T cd01994 110 CERLGLEPLA----PLW----GRDQEELLREMIEAGFKAIIIKVAA 147 (194)
T ss_pred HHHcCCEEEe----ccc----CCCHHHHHHHHHHcCCeEEEEEecc
Confidence 8888887654 333 2344568888888889988876654
No 323
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=48.71 E-value=1.8e+02 Score=25.25 Aligned_cols=121 Identities=13% Similarity=0.152 Sum_probs=71.7
Q ss_pred HHHHhc--CcEEEEcCCCh--HHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCc
Q 006918 85 LQFMET--DTLAIVGPQSA--VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWG 160 (625)
Q Consensus 85 ~~l~~~--~v~aviG~~~s--~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~ 160 (625)
..++.+ ....|+||.-- ..-+-+..+.+.+++|.+..+++...+.+..-. +......++..+++.-+|.
T Consensus 29 ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~~~~~~~~~i~-------~~~~~lh~it~~l~Dp~w~ 101 (170)
T COG1880 29 AMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASSMGNLIGRGIG-------SEYINLHAITQYLTDPNWP 101 (170)
T ss_pred HHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchhhcchhhcccc-------cchhHHHHHHHHhcCCCCC
Confidence 344443 78999998865 455667789999999999876666666553211 3344567888889887775
Q ss_pred E---------EEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCC-----CCChhHHHHHHHHH
Q 006918 161 E---------VIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-----SVTETDVRNELVKV 214 (625)
Q Consensus 161 ~---------v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~-----~~~~~~~~~~l~~i 214 (625)
- |.++..-..|....++.++... +=..++....+.+.. +...+++-..|+++
T Consensus 102 G~dg~g~yDlviflG~~~yy~sq~Ls~lKhFs--~i~tiaId~~Y~pnAd~SFpNl~kde~~~~L~el 167 (170)
T COG1880 102 GFDGNGNYDLVIFLGSIYYYLSQVLSGLKHFS--NIKTIAIDRYYQPNADYSFPNLSKDEYLAYLDEL 167 (170)
T ss_pred CcCCCCCcceEEEEeccHHHHHHHHHHhhhhh--cceEEEeccccCcCccccCCCcCHHHHHHHHHHH
Confidence 4 5555555555444455444433 112344444443321 12355566666655
No 324
>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=48.66 E-value=67 Score=31.39 Aligned_cols=79 Identities=8% Similarity=0.137 Sum_probs=47.5
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHH
Q 006918 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 237 (625)
Q Consensus 161 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~ 237 (625)
+|++|..+ +.|.......+.+.+++.|..+... .... .+.......++.+...+++.||+.... ......+++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~--~~~~--~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~ 76 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVAT--TDAQ--FDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKK 76 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEe--cCCC--CCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHH
Confidence 46666643 3344456677888888889877532 1111 223344566666666788888775433 224566777
Q ss_pred HHHcCC
Q 006918 238 AQRLGM 243 (625)
Q Consensus 238 a~~~g~ 243 (625)
+.+.|+
T Consensus 77 ~~~~~i 82 (294)
T cd06316 77 VAEAGI 82 (294)
T ss_pred HHHcCC
Confidence 777664
No 325
>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=48.25 E-value=94 Score=27.45 Aligned_cols=69 Identities=16% Similarity=0.162 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.+... ++++++.. ++...++..|.+|++|+++... ......+. +.|+....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~~~~~ 80 (198)
T cd08412 13 YYLPGLLRRFREAYP-GVEVRVVE-------GNQEELEEGLRSGELDLALTYD---LDLPEDIA-FEPLARLPPYVWLPA 80 (198)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEcC---CCCCcccc-eeeeeccceEEEecC
Confidence 455678888877663 23366666 5578899999999999998632 22223333 367777777777755
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 81 ~ 81 (198)
T cd08412 81 D 81 (198)
T ss_pred C
Confidence 4
No 326
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=47.93 E-value=84 Score=29.78 Aligned_cols=86 Identities=8% Similarity=-0.046 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHc--CCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEE
Q 006918 146 LMSAIAEMVSYF--GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (625)
Q Consensus 146 ~~~al~~ll~~~--~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIv 223 (625)
.++.+++++... .-++|.++..+. ..+.+.+.+++.|..|.....|... ....+.......+++.+.++|+
T Consensus 103 ~~e~L~~~~~~~~~~~~~vL~~rg~~-----~r~~l~~~L~~~G~~v~~~~vY~~~--~~~~~~~~~~~~l~~~~~d~i~ 175 (240)
T PRK09189 103 DGVRLAETVAAALAPTARLLYLAGRP-----RAPVFEDRLAAAGIPFRVAECYDML--PVMYSPATLSAILGGAPFDAVL 175 (240)
T ss_pred CHHHHHHHHHHhcCCCCcEEEeccCc-----ccchhHHHHHhCCCeeEEEEEEEee--cCCCChHHHHHHHhcCCCCEEE
Confidence 467788777553 446776666433 4577888999999887665555322 1111122344455555666655
Q ss_pred EEcchhhHHHHHHHHH
Q 006918 224 VHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 224 l~~~~~~~~~il~~a~ 239 (625)
+. +++.+..+++...
T Consensus 176 f~-S~~~~~~f~~~~~ 190 (240)
T PRK09189 176 LY-SRVAARRFFALMR 190 (240)
T ss_pred Ee-CHHHHHHHHHHHh
Confidence 54 5667788877664
No 327
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=47.56 E-value=2.2e+02 Score=28.42 Aligned_cols=124 Identities=10% Similarity=0.022 Sum_probs=64.6
Q ss_pred CceEEEEEEeec-CCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCCChHHHHHHHHHHHhc----CcEEEEc
Q 006918 24 PEVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHD-AKFNGFLSIMGALQFMET----DTLAIVG 97 (625)
Q Consensus 24 ~~~i~IG~l~~~-~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D-~~~~~~~a~~~~~~l~~~----~v~aviG 97 (625)
.+.+.|+.+... ..........+++-|+++.+ .++.....+ ...+...+.+.+.+++++ ++.+|+.
T Consensus 160 ~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g--------~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~ 231 (330)
T PRK15395 160 DGKIQYVLLKGEPGHPDAEARTTYVIKELNDKG--------IKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIA 231 (330)
T ss_pred CCceEEEEEecCCCCchHHHHHHHHHHHHHhcC--------CCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEE
Confidence 356666666443 22223345678888877632 222222222 233455667777788764 4788887
Q ss_pred CCChHHHHHHHHhhhcC---CCcEEeeccCCCCCCC-CCCCceEEccCchHHHHHHHHHHHHH
Q 006918 98 PQSAVMAHVLSHLANEL---QVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSY 156 (625)
Q Consensus 98 ~~~s~~~~~va~~~~~~---~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~al~~ll~~ 156 (625)
..+ ..+..+...+... .+|++++......... ..-+.+.....+...++...++++..
T Consensus 232 ~~d-~~A~gvl~al~~~Gl~~vpVvg~D~~~~~~~~~~~g~~~ttv~~~~~~~G~~a~~~l~~ 293 (330)
T PRK15395 232 NND-AMAMGAVEALKAHNKSSIPVFGVDALPEALALVKSGAMAGTVLNDANNQAKATFDLAKN 293 (330)
T ss_pred CCc-hHHHHHHHHHHhcCCCCCeEEeeCCCHHHHHHHHhCCceEEEecCHHHHHHHHHHHHHH
Confidence 543 3444444444444 5588876443321111 11123444445556666666666544
No 328
>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=47.51 E-value=62 Score=32.57 Aligned_cols=71 Identities=13% Similarity=0.093 Sum_probs=46.2
Q ss_pred HHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 006918 155 SYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (625)
Q Consensus 155 ~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 228 (625)
..++.+++.+|++.........+.+.+.+++. +.+.....+... .+.+...+.++.+++.+++.||-.+.+
T Consensus 18 ~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IiaiGGG 88 (332)
T cd08180 18 KELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPD--PPIEVVAKGIKKFLDFKPDIVIALGGG 88 (332)
T ss_pred HHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEECCc
Confidence 45556899888854333223567788888765 544322223322 456778888888888999999976554
No 329
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=47.51 E-value=87 Score=32.95 Aligned_cols=140 Identities=13% Similarity=0.089 Sum_probs=84.4
Q ss_pred cEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-C-CCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecC
Q 006918 92 TLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-L-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 169 (625)
Q Consensus 92 v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~-~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~ 169 (625)
.+.++|...+.....+.++++..+|-...+.. +....+ . -....+.. +-....+++...|-++++-..+.+= .
T Consensus 195 ~vnl~G~~~~~~~~~i~~lL~~lGI~v~~~lp-~~~~~eL~~~~~~~~~c-~~~P~ls~aa~~Le~~~gvp~~~~P---~ 269 (457)
T CHL00073 195 PLVLFGSLPSTVASQLTLELKRQGIKVSGWLP-SQRYTDLPSLGEGVYVC-GVNPFLSRTATTLMRRRKCKLIGAP---F 269 (457)
T ss_pred cEEEEEecCcccHHHHHHHHHHcCCeEeEEeC-CCCHHHHHhhCcccEEE-EcCcchHHHHHHHHHHhCCceeecC---C
Confidence 48889998888889999999999999876544 444443 1 11222222 1112234566666688887776643 3
Q ss_pred CCCcchHHHHHHHHhcc-ceEEEEeeecCCCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCC
Q 006918 170 DQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 170 ~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~ 244 (625)
.+|......+...+.+. |.. .+.+.. ....+.+.+...++ .+-++. +.+.+.....+.+.+.++||.
T Consensus 270 PiGi~~Td~fLr~Ia~~~G~~---pe~l~~----Er~rl~dal~d~~~~L~GKrva-i~Gdp~~~i~LarfL~elGme 339 (457)
T CHL00073 270 PIGPDGTRAWIEKICSVFGIE---PQGLEE----REEQIWESLKDYLDLVRGKSVF-FMGDNLLEISLARFLIRCGMI 339 (457)
T ss_pred cCcHHHHHHHHHHHHHHhCcC---HHHHHH----HHHHHHHHHHHHHHHHCCCEEE-EECCCcHHHHHHHHHHHCCCE
Confidence 47877776666666654 532 222211 12233333333222 344554 788888888888998888874
No 330
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=47.38 E-value=91 Score=30.43 Aligned_cols=82 Identities=11% Similarity=0.117 Sum_probs=53.3
Q ss_pred ceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 006918 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (625)
Q Consensus 462 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~ 541 (625)
++++||+... -...+-.+++..+.+... .+.+++.. +....++..|.+|++|+++...
T Consensus 91 ~~i~I~~~~~--------------~~~~~l~~~l~~~~~~~p-~~~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (296)
T PRK11242 91 GSLRLAMTPT--------------FTAYLIGPLIDAFHARYP-GITLTIRE-------MSQERIEALLADDELDVGIAFA 148 (296)
T ss_pred eEEEEEeccc--------------hhhhhhHHHHHHHHHHCC-CCEEEEEe-------CCHHHHHHHHHCCCCcEEEEec
Confidence 5688888421 112445677888887753 44466655 4478899999999999998532
Q ss_pred eeecccccceEecccccccceEEEEecC
Q 006918 542 AIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (625)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~l~~~~ 569 (625)
+.+.+.+.. .++....+.++++..
T Consensus 149 ---~~~~~~l~~-~~l~~~~~~~~~~~~ 172 (296)
T PRK11242 149 ---PVHSPEIEA-QPLFTETLALVVGRH 172 (296)
T ss_pred ---CCCCcceeE-EEeeeccEEEEEcCC
Confidence 233333333 567777788777654
No 331
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=47.21 E-value=67 Score=31.16 Aligned_cols=76 Identities=11% Similarity=0.004 Sum_probs=49.1
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a 238 (625)
|++|..+ +.|.....+.+.+.+++.|..+... ... +.......++++...+++.||+.... .....+++++
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~---~~~---~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~ 75 (289)
T cd01540 2 IGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKI---DVP---DGEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKA 75 (289)
T ss_pred eeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEc---cCC---CHHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHH
Confidence 5666653 3466667788888999999887642 111 13344456777777888988886543 3455677787
Q ss_pred HHcCC
Q 006918 239 QRLGM 243 (625)
Q Consensus 239 ~~~g~ 243 (625)
.+.|+
T Consensus 76 ~~~~i 80 (289)
T cd01540 76 KAYNM 80 (289)
T ss_pred HhCCC
Confidence 77663
No 332
>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=47.20 E-value=1.2e+02 Score=26.80 Aligned_cols=69 Identities=12% Similarity=0.114 Sum_probs=45.1
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-..++..+.++.. ++++++.. +....+...|.+|++|+++... +.....+++ .++....+.++++.
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~~-~~l~~~~~~~v~~~ 81 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLRE-------MPQERIEAALADDRLDLGIAFA---PVRSPDIDA-QPLFDERLALVVGA 81 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE-------CcHHHHHHHHHcCCccEEEEec---CCCCCCcEE-EEeccccEEEEecC
Confidence 344577888877653 34466665 4467899999999999998532 222333333 46777777777754
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 82 ~ 82 (197)
T cd08425 82 T 82 (197)
T ss_pred C
Confidence 4
No 333
>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=47.05 E-value=92 Score=29.83 Aligned_cols=80 Identities=9% Similarity=0.013 Sum_probs=47.6
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHhcc---ceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHH
Q 006918 161 EVIAIFND--DDQGRNGVTALGDKLAEI---RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMV 234 (625)
Q Consensus 161 ~v~ii~~d--~~~g~~~~~~l~~~l~~~---g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~i 234 (625)
+|+++..+ +.|.....+.+.+.+++. |.++.... .+.. .+.+.....++++...+.+.||+.... ......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i-~~~~--~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIV-TSAD--GDVAQQIADIRNLIAQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEE-ecCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHH
Confidence 46666643 345556677888888888 86432221 2222 234555677777777788888886543 333446
Q ss_pred HHHHHHcCC
Q 006918 235 FDVAQRLGM 243 (625)
Q Consensus 235 l~~a~~~g~ 243 (625)
+..+.+.|.
T Consensus 78 l~~~~~~~i 86 (272)
T cd06300 78 IEEACEAGI 86 (272)
T ss_pred HHHHHHCCC
Confidence 667766553
No 334
>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=46.84 E-value=2.5e+02 Score=26.93 Aligned_cols=19 Identities=16% Similarity=0.232 Sum_probs=11.4
Q ss_pred HHHHHHHHHcCCcEEEEEEe
Q 006918 148 SAIAEMVSYFGWGEVIAIFN 167 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~ 167 (625)
..+++++++++..-| +++.
T Consensus 110 ~~~~~l~~~~~~~vV-~m~~ 128 (258)
T cd00423 110 PEMAPLAAEYGAPVV-LMHM 128 (258)
T ss_pred hHHHHHHHHcCCCEE-EECc
Confidence 456777777776444 4443
No 335
>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=46.70 E-value=72 Score=27.81 Aligned_cols=70 Identities=21% Similarity=0.325 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.++++.+.+... ++++++.. .....++..|.+|++|+++..... ....+++ .++....+.+++++
T Consensus 13 ~~l~~~i~~~~~~~p-~i~i~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~~-~~l~~~~~~~~~~~ 80 (197)
T cd05466 13 YLLPPLLAAFRQRYP-GVELSLVE-------GGSSELLEALLEGELDLAIVALPV---DDPGLES-EPLFEEPLVLVVPP 80 (197)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEE-------CChHHHHHHHHcCCceEEEEcCCC---CCCcceE-eeeeccceEEEecC
Confidence 344567777766553 24466666 347789999999999999865443 3333443 35666777777765
Q ss_pred CC
Q 006918 569 RK 570 (625)
Q Consensus 569 ~~ 570 (625)
..
T Consensus 81 ~~ 82 (197)
T cd05466 81 DH 82 (197)
T ss_pred CC
Confidence 43
No 336
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=45.44 E-value=1.3e+02 Score=26.04 Aligned_cols=64 Identities=19% Similarity=0.261 Sum_probs=41.7
Q ss_pred EEEEEEecCC--CCc---chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhc-CCceEEEEEcch
Q 006918 161 EVIAIFNDDD--QGR---NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYS 228 (625)
Q Consensus 161 ~v~ii~~d~~--~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~~~ 228 (625)
++++|...++ .|+ .....+.+.+++.|.++.....++.+ .+++.+.+++..+ ++.|+||..+..
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~l~~~~~~~~~DlVittGG~ 71 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVPDD----KDEIREALIEWADEDGVDLILTTGGT 71 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcCCC----HHHHHHHHHHHHhcCCCCEEEECCCc
Confidence 4666655442 222 23456888899999888877666644 6677777776644 368888886443
No 337
>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=45.26 E-value=2.6e+02 Score=28.42 Aligned_cols=102 Identities=15% Similarity=0.109 Sum_probs=61.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCC-CCCChhHHHHHHHHHhcCCce---EEE
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPD-QSVTETDVRNELVKVRMMEAR---VIV 223 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~~~~~~l~~i~~~~~~---vIv 223 (625)
.-+.++++.++-+++.++++.... ....+.+.+.+++.|+.+... .++.. ...+.+.+...++.+++.+.+ +||
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 335566777777899888865443 235677888888888765322 23322 123466788888888887776 777
Q ss_pred EEcch--hhHHHHHHHHHHcCCCCCCeEEEeeC
Q 006918 224 VHGYS--RTGLMVFDVAQRLGMMDSGYVWIATT 254 (625)
Q Consensus 224 l~~~~--~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (625)
-.+.+ -++..++......| ..++.|-+.
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 66554 34555544333223 345555543
No 338
>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=45.17 E-value=62 Score=33.21 Aligned_cols=71 Identities=13% Similarity=0.080 Sum_probs=48.7
Q ss_pred HcCCcEEEEEEecCCCC-cchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 006918 156 YFGWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (625)
Q Consensus 156 ~~~W~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 228 (625)
.++-+++.+|++....- ....+.+.+.+++.|+.+.....+... .+.+.+.+.++.+++.+++.||-.+.+
T Consensus 20 ~~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavGGG 91 (375)
T cd08179 20 TLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPD--PSVETVLKGAEAMREFEPDWIIALGGG 91 (375)
T ss_pred HhcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 33458888887543222 235678888898888876533333333 557778888999999999999987665
No 339
>PRK15088 PTS system mannose-specific transporter subunits IIAB; Provisional
Probab=44.96 E-value=1.4e+02 Score=29.76 Aligned_cols=81 Identities=7% Similarity=0.001 Sum_probs=56.6
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEE
Q 006918 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (625)
Q Consensus 146 ~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~ 225 (625)
.++.+..+.++++-+++.++ +|..-.....+.+.+...-.|+++... + .++....+++-+..+.++++++
T Consensus 176 HGQV~~~W~~~~~~~~IiVv-dD~vA~D~~~k~~lk~A~P~gvk~~i~---s------v~~a~~~l~~~~~~~~~vlil~ 245 (322)
T PRK15088 176 HGQVATRWTKETNVSRIIVV-SDEVAADTVRKTLLTQVAPPGVTAHVV---D------VAKMIRVYNNPKYAGERVMLLF 245 (322)
T ss_pred hHHHHHHHhhccCCCEEEEe-CccccCCHHHHHHHHhcCCCCCeEEEE---E------HHHHHHHHhCCCCCCCeEEEEE
Confidence 47778899999999999655 455445556677777777778877642 1 3344445544344567899999
Q ss_pred cchhhHHHHHH
Q 006918 226 GYSRTGLMVFD 236 (625)
Q Consensus 226 ~~~~~~~~il~ 236 (625)
-++.++..+++
T Consensus 246 k~p~d~~~l~~ 256 (322)
T PRK15088 246 TNPTDVERLVE 256 (322)
T ss_pred CCHHHHHHHHH
Confidence 99999988865
No 340
>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=44.91 E-value=1e+02 Score=31.04 Aligned_cols=85 Identities=8% Similarity=0.105 Sum_probs=53.3
Q ss_pred HHHHHHHHHcCC-cEEEEEEecCCCCcchHHHHHHHHhccceEEEEee-ecCCCCCCChhHHHHHHHHHhcCCceEEEEE
Q 006918 148 SAIAEMVSYFGW-GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKS-ALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (625)
Q Consensus 148 ~al~~ll~~~~W-~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~-~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~ 225 (625)
..+.++++.++. +++.+|++...+.. ..+.+.+.+++.|+.+.... .... ..+.+.+....+.+++ +.++||-.
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~-~~~~i~~~L~~~~~~~~i~~~~~~~--~p~~~~v~~~~~~~~~-~~d~IIai 87 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKV-AGKEIIERLESNNFTKEVLERDSLL--IPDEYELGEVLIKLDK-DTEFLLGI 87 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHH-HHHHHHHHHHHcCCeEEEEecCCCC--CCCHHHHHHHHHHhhc-CCCEEEEE
Confidence 345667777776 78888875444322 34778888888887554211 1111 1346777788888887 88888877
Q ss_pred cch--hhHHHHHH
Q 006918 226 GYS--RTGLMVFD 236 (625)
Q Consensus 226 ~~~--~~~~~il~ 236 (625)
+.+ -++..++.
T Consensus 88 GGGsv~D~aK~iA 100 (332)
T cd08549 88 GSGTIIDLVKFVS 100 (332)
T ss_pred CCcHHHHHHHHHH
Confidence 655 34444443
No 341
>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=44.68 E-value=1.1e+02 Score=30.19 Aligned_cols=78 Identities=9% Similarity=0.059 Sum_probs=49.7
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHhc--cceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc-chhhHHHHH
Q 006918 161 EVIAIFND--DDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG-YSRTGLMVF 235 (625)
Q Consensus 161 ~v~ii~~d--~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~-~~~~~~~il 235 (625)
+|++|..+ +.|.....+.+.+.+++ .|+.+... +.. .+...-...++++...+++.||+.. .+......+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~---~~~--~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~ 75 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFY---DAK--NNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVI 75 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEe---cCC--CCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHH
Confidence 36666653 44555667788888888 77776543 211 2234445667777788899888754 333346677
Q ss_pred HHHHHcCC
Q 006918 236 DVAQRLGM 243 (625)
Q Consensus 236 ~~a~~~g~ 243 (625)
+++.+.|+
T Consensus 76 ~~~~~~gi 83 (303)
T cd01539 76 NKAKQKNI 83 (303)
T ss_pred HHHHHCCC
Confidence 77777664
No 342
>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=44.51 E-value=1.1e+02 Score=29.17 Aligned_cols=76 Identities=9% Similarity=0.010 Sum_probs=44.2
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|++|..+ +.|.....+.+.+.+++.|..+..... . .+...-...++.+...+.+.||+.........+++.+.
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANS---L--NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALA 76 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeC---C--CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHH
Confidence 5666643 455556677888888888877654321 1 12333455666677677777777543333344555555
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.+
T Consensus 77 ~~~ 79 (269)
T cd06281 77 SLD 79 (269)
T ss_pred hCC
Confidence 544
No 343
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=44.16 E-value=1e+02 Score=29.38 Aligned_cols=76 Identities=7% Similarity=0.024 Sum_probs=47.3
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVA 238 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~-~~~~il~~a 238 (625)
|++|.. ++.|.....+.+.+.+++.|..+... ... .+..+....++++...+.+.||+..... .....++.+
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 35566677788888888888877542 222 2344556677777777888877754332 234566666
Q ss_pred HHcC
Q 006918 239 QRLG 242 (625)
Q Consensus 239 ~~~g 242 (625)
.+.+
T Consensus 77 ~~~~ 80 (268)
T cd06323 77 NEAG 80 (268)
T ss_pred HHCC
Confidence 6655
No 344
>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=43.82 E-value=92 Score=30.03 Aligned_cols=77 Identities=6% Similarity=-0.049 Sum_probs=48.3
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a 238 (625)
|+++..+ +.|.......+.+.+++.|..+.... .. .+...-...++.+...+++.||+.... +.....++.+
T Consensus 2 igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~---~~--~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~ 76 (282)
T cd06318 2 IGFSQYTLNSPFFAALTEAAKAHAKALGYELISTD---AQ--GDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAA 76 (282)
T ss_pred eeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEc---CC--CCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHH
Confidence 5566543 45566677888888999998876432 11 223444567777778888988876433 3234566776
Q ss_pred HHcCC
Q 006918 239 QRLGM 243 (625)
Q Consensus 239 ~~~g~ 243 (625)
.+.|.
T Consensus 77 ~~~~i 81 (282)
T cd06318 77 KAAGV 81 (282)
T ss_pred HHCCC
Confidence 66553
No 345
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=43.78 E-value=59 Score=24.45 Aligned_cols=41 Identities=22% Similarity=0.330 Sum_probs=32.8
Q ss_pred HHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEE
Q 006918 150 IAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKIS 191 (625)
Q Consensus 150 l~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 191 (625)
..++++.+ -++|.+.+++|.-|....+.+.+.+.+.|..+.
T Consensus 35 ~~~~L~~~-~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~ 75 (79)
T cd03364 35 QAELLKRL-AKEVILAFDGDEAGQKAALRALELLLKLGLNVR 75 (79)
T ss_pred HHHHHHhc-CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEE
Confidence 35555555 588998988898899999999999999887764
No 346
>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=43.72 E-value=98 Score=29.61 Aligned_cols=77 Identities=8% Similarity=-0.006 Sum_probs=48.8
Q ss_pred EEEEEec---CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHH
Q 006918 162 VIAIFND---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 237 (625)
Q Consensus 162 v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~ 237 (625)
|++|..+ +.|.....+.+.+.+++.|+.+.... .. .+.+.....++.+...+++.||+.... +.....++.
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~ 76 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLD---AN--GDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRK 76 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEc---CC--cCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHH
Confidence 4566643 45677778888888889998876532 11 224445566777777788988776543 333456677
Q ss_pred HHHcCC
Q 006918 238 AQRLGM 243 (625)
Q Consensus 238 a~~~g~ 243 (625)
+.+.++
T Consensus 77 ~~~~~i 82 (275)
T cd06317 77 AKQAGI 82 (275)
T ss_pred HHHCCC
Confidence 776653
No 347
>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=43.17 E-value=1.7e+02 Score=23.90 Aligned_cols=66 Identities=14% Similarity=0.094 Sum_probs=38.9
Q ss_pred CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch----hhHHHHHHHHHHcC
Q 006918 169 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVFDVAQRLG 242 (625)
Q Consensus 169 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~----~~~~~il~~a~~~g 242 (625)
.+.-.-+...+...++..|+++.+-. .. ......++.+.+.++++|.+.+.. ..+..++++.++.+
T Consensus 9 ~e~H~lG~~~~~~~l~~~G~~V~~lg---~~-----~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~ 78 (119)
T cd02067 9 GDGHDIGKNIVARALRDAGFEVIDLG---VD-----VPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAG 78 (119)
T ss_pred CchhhHHHHHHHHHHHHCCCEEEECC---CC-----CCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence 33344456677778888888875321 11 122345566666778888887652 34555666666654
No 348
>PRK13805 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional
Probab=43.16 E-value=2.5e+02 Score=32.62 Aligned_cols=76 Identities=18% Similarity=0.139 Sum_probs=51.6
Q ss_pred CCcEEEEEEecCCCCcchHHHHHHHHh--ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch--hhHHH
Q 006918 158 GWGEVIAIFNDDDQGRNGVTALGDKLA--EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGLM 233 (625)
Q Consensus 158 ~W~~v~ii~~d~~~g~~~~~~l~~~l~--~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~--~~~~~ 233 (625)
+.+++.+|++.........+.+.+.++ +.|+.+.....+.+. .+.+.+.+.++.+++.+++.||-.+.+ -++.+
T Consensus 479 ~~~~~lvVtd~~~~~~g~~~~v~~~L~~~~~~i~~~~~~~v~~n--p~~~~v~~~~~~~~~~~~D~IIaiGGGSviD~AK 556 (862)
T PRK13805 479 GKKRAFIVTDRFMVELGYVDKVTDVLKKRENGVEYEVFSEVEPD--PTLSTVRKGAELMRSFKPDTIIALGGGSPMDAAK 556 (862)
T ss_pred CCCEEEEEECcchhhcchHHHHHHHHhcccCCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCchHHHHHH
Confidence 668998888544333346778888888 667766533334333 457778888899999999999977655 34444
Q ss_pred HH
Q 006918 234 VF 235 (625)
Q Consensus 234 il 235 (625)
++
T Consensus 557 ~i 558 (862)
T PRK13805 557 IM 558 (862)
T ss_pred HH
Confidence 44
No 349
>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=43.12 E-value=1.3e+02 Score=28.76 Aligned_cols=77 Identities=12% Similarity=0.000 Sum_probs=45.1
Q ss_pred CcEEEEEEec---------CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh
Q 006918 159 WGEVIAIFND---------DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR 229 (625)
Q Consensus 159 W~~v~ii~~d---------~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~ 229 (625)
.+.|++|..+ +.|.....+.+.+.+++.|+.+.... .. . . +.....+.+.+.+++.||+.....
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~---~~--~-~-~~~~~~~~l~~~~~dgiii~~~~~ 75 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSF---VS--S-P-DRDWLARYLASGRADGVILIGQHD 75 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEe---CC--c-h-hHHHHHHHHHhCCCCEEEEeCCCC
Confidence 4678888853 23455567778888888888876432 11 1 1 223344455556788887764332
Q ss_pred hHHHHHHHHHHcCC
Q 006918 230 TGLMVFDVAQRLGM 243 (625)
Q Consensus 230 ~~~~il~~a~~~g~ 243 (625)
. ...++++.+.|.
T Consensus 76 ~-~~~~~~~~~~~i 88 (275)
T cd06295 76 Q-DPLPERLAETGL 88 (275)
T ss_pred C-hHHHHHHHhCCC
Confidence 2 234666766554
No 350
>PRK09701 D-allose transporter subunit; Provisional
Probab=43.10 E-value=1.3e+02 Score=29.78 Aligned_cols=84 Identities=11% Similarity=0.070 Sum_probs=55.0
Q ss_pred cCCcEEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHH
Q 006918 157 FGWGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLM 233 (625)
Q Consensus 157 ~~W~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~ 233 (625)
+.-..|++|..+ +.|.....+.+.+.+++.|..+..... +.. .+...-...++.+...+++.||+.... .....
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 556799999964 556667788899999999988764321 111 223445567777777889988887543 33334
Q ss_pred HHHHHHHcCC
Q 006918 234 VFDVAQRLGM 243 (625)
Q Consensus 234 il~~a~~~g~ 243 (625)
.+.++.+.|+
T Consensus 99 ~l~~~~~~gi 108 (311)
T PRK09701 99 PVARAWKKGI 108 (311)
T ss_pred HHHHHHHCCC
Confidence 4566666654
No 351
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=43.02 E-value=2.6e+02 Score=25.50 Aligned_cols=65 Identities=14% Similarity=0.033 Sum_probs=41.9
Q ss_pred CcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 006918 159 WGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (625)
Q Consensus 159 W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 228 (625)
-++|++|..|. |-....+.++...+..|+.+....... .........+++.+..+.++|++...+
T Consensus 29 ~~~v~lis~D~-~R~ga~eQL~~~a~~l~vp~~~~~~~~----~~~~~~~~~l~~~~~~~~D~vlIDT~G 93 (196)
T PF00448_consen 29 GKKVALISADT-YRIGAVEQLKTYAEILGVPFYVARTES----DPAEIAREALEKFRKKGYDLVLIDTAG 93 (196)
T ss_dssp T--EEEEEEST-SSTHHHHHHHHHHHHHTEEEEESSTTS----CHHHHHHHHHHHHHHTTSSEEEEEE-S
T ss_pred cccceeecCCC-CCccHHHHHHHHHHHhccccchhhcch----hhHHHHHHHHHHHhhcCCCEEEEecCC
Confidence 57788888654 555678899999998888765322111 112334566777777788999998664
No 352
>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=42.81 E-value=1.3e+02 Score=30.28 Aligned_cols=81 Identities=14% Similarity=0.089 Sum_probs=52.9
Q ss_pred HHHHHHH-HcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 149 AIAEMVS-YFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 149 al~~ll~-~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
-+.++++ ..+.+++.+|++... .....+.+.+.+++.| .+... +... .+.+.+...++.+++.++++||-.+.
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~-~~~~~~~v~~~l~~~~-~~~~~--~~~~--~~~~~v~~~~~~~~~~~~d~iIaiGG 87 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTT-KSIAGKKVEALLEDEG-EVDVV--IVED--ATYEEVEKVESSARDIGADFVIGVGG 87 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCch-HHHHHHHHHHHHHhcC-CeEEE--EeCC--CCHHHHHHHHHHhhhcCCCEEEEeCC
Confidence 3566676 357789988885433 2345677888888877 44322 2222 45777888888888888998887765
Q ss_pred h--hhHHHHH
Q 006918 228 S--RTGLMVF 235 (625)
Q Consensus 228 ~--~~~~~il 235 (625)
+ -++..++
T Consensus 88 Gs~~D~aK~~ 97 (339)
T cd08173 88 GRVIDVAKVA 97 (339)
T ss_pred chHHHHHHHH
Confidence 5 3444444
No 353
>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=42.51 E-value=1.2e+02 Score=28.91 Aligned_cols=75 Identities=4% Similarity=-0.052 Sum_probs=46.3
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|++|.. ++.|.....+.+.+.+++.|..+..... . .+.+.-...++.+...+.+.||+....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~ 75 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAG---H--HSAEKEREAIEFLLERRCDALILHSKALSD-DELIELA 75 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeC---C--CchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 455554 3566667788888889999888764321 1 123334566777777788988886543222 2266666
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.|
T Consensus 76 ~~~ 78 (268)
T cd06270 76 AQV 78 (268)
T ss_pred hCC
Confidence 655
No 354
>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=42.51 E-value=1e+02 Score=29.59 Aligned_cols=76 Identities=7% Similarity=-0.028 Sum_probs=46.3
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVA 238 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~-~~~~il~~a 238 (625)
|++|.. ++.|.....+.+.+.+++.|.++... ... .+...-...++++...+.+.||+..... .....++.+
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 34566667788888888888877542 211 2233344566666667889887754332 234566666
Q ss_pred HHcC
Q 006918 239 QRLG 242 (625)
Q Consensus 239 ~~~g 242 (625)
.+.+
T Consensus 77 ~~~~ 80 (277)
T cd06319 77 AQAK 80 (277)
T ss_pred HHCC
Confidence 6655
No 355
>PRK00779 ornithine carbamoyltransferase; Provisional
Probab=42.44 E-value=3.5e+02 Score=26.77 Aligned_cols=134 Identities=16% Similarity=0.159 Sum_probs=77.2
Q ss_pred eEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHH
Q 006918 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (625)
Q Consensus 26 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~ 105 (625)
.-.++.+|...+ .+.+.+|+.|+.++ +|..+.+....+...-.+.+.-+.+.++.-+++|+--.. ...
T Consensus 43 gk~v~~lF~e~S---TRTR~SFe~A~~~L-------Gg~~i~l~~~~ss~~kgEsl~Dt~~~l~~~~D~iv~R~~--~~~ 110 (304)
T PRK00779 43 GKTLAMIFEKPS---TRTRVSFEVGMAQL-------GGHAIFLSPRDTQLGRGEPIEDTARVLSRYVDAIMIRTF--EHE 110 (304)
T ss_pred CCEEEEEecCCC---chHHHHHHHHHHHc-------CCcEEEECcccccCCCCcCHHHHHHHHHHhCCEEEEcCC--Chh
Confidence 445778887765 37789999999985 344455433223222233444444555554555542111 223
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH---HHcC-C--cEEEEEEecCCCCcchHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFG-W--GEVIAIFNDDDQGRNGVTAL 179 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll---~~~~-W--~~v~ii~~d~~~g~~~~~~l 179 (625)
.+..+++..++|+|.-+ + +...| .+++++++ +++| + .+|+++.+ .+ .....+
T Consensus 111 ~~~~~a~~~~vPVINag--~----~~~HP------------tQaL~Dl~Ti~e~~g~l~gl~i~~vGd---~~-~v~~Sl 168 (304)
T PRK00779 111 TLEELAEYSTVPVINGL--T----DLSHP------------CQILADLLTIYEHRGSLKGLKVAWVGD---GN-NVANSL 168 (304)
T ss_pred HHHHHHHhCCCCEEeCC--C----CCCCh------------HHHHHHHHHHHHHhCCcCCcEEEEEeC---CC-ccHHHH
Confidence 45666777899999743 2 11223 25566653 4454 3 47777763 22 367777
Q ss_pred HHHHhccceEEEEe
Q 006918 180 GDKLAEIRCKISYK 193 (625)
Q Consensus 180 ~~~l~~~g~~v~~~ 193 (625)
...+...|.++...
T Consensus 169 ~~~l~~~g~~v~~~ 182 (304)
T PRK00779 169 LLAAALLGFDLRVA 182 (304)
T ss_pred HHHHHHcCCEEEEE
Confidence 77888888887653
No 356
>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=42.27 E-value=2.2e+02 Score=24.34 Aligned_cols=93 Identities=12% Similarity=0.018 Sum_probs=54.3
Q ss_pred HHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecC--CC-CCCChhHHHHHHHHHhcCCceEEEEE
Q 006918 149 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALP--PD-QSVTETDVRNELVKVRMMEARVIVVH 225 (625)
Q Consensus 149 al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~--~~-~~~~~~~~~~~l~~i~~~~~~vIvl~ 225 (625)
.+.+.+...+-....-+|.+.... .....+.+.+++.|..+....... .. ...+..-..+.++.+.....+.|++.
T Consensus 28 ~l~~~~~~~~~~~~~r~y~~~~~~-~~~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLv 106 (149)
T cd06167 28 KLLEFLRDGGEIVLARAYGNWTSP-ERQRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVLV 106 (149)
T ss_pred HHHHHHHhCCeEEEEEEEEecCCc-hhHHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEEE
Confidence 344444443223333344433211 357788899999999887654321 11 11222222344444444567888888
Q ss_pred cchhhHHHHHHHHHHcC
Q 006918 226 GYSRTGLMVFDVAQRLG 242 (625)
Q Consensus 226 ~~~~~~~~il~~a~~~g 242 (625)
+...+....++.+++.|
T Consensus 107 SgD~Df~~~i~~lr~~G 123 (149)
T cd06167 107 SGDSDFVPLVERLRELG 123 (149)
T ss_pred ECCccHHHHHHHHHHcC
Confidence 88888889999999876
No 357
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=42.02 E-value=1.1e+02 Score=32.09 Aligned_cols=147 Identities=16% Similarity=0.152 Sum_probs=81.4
Q ss_pred CcEEEEcCCCh------HHHHHHHHhhhcCCCcEEeeccCCCCCCC-CC-CCceEEccCchHHHHHHHHHHHH-HcCCcE
Q 006918 91 DTLAIVGPQSA------VMAHVLSHLANELQVPLLSFTALDPTLSP-LQ-YPFFVQTAPNDLYLMSAIAEMVS-YFGWGE 161 (625)
Q Consensus 91 ~v~aviG~~~s------~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~-~~~~~r~~ps~~~~~~al~~ll~-~~~W~~ 161 (625)
+.+-+||.... .....+.++++..++......+....+.+ .. -.--+...... ..+..+++.|+ +||-..
T Consensus 162 ~~VNliG~~~~~~~~~~~d~~ei~~lL~~~Gi~v~~~~~~~~~~~ei~~~~~A~lniv~~~-~~g~~~a~~Lee~~GiP~ 240 (426)
T cd01972 162 DSVNIIGLWGGPERTEQEDVDEFKRLLNELGLRVNAIIAGGCSVEELERASEAAANVTLCL-DLGYYLGAALEQRFGVPE 240 (426)
T ss_pred CCEEEEccCCCccccccccHHHHHHHHHHcCCeEEEEeCCCCCHHHHHhcccCCEEEEECh-hHHHHHHHHHHHHhCCCe
Confidence 35788886654 45677899999999988765444444443 11 11123332222 24567788875 588776
Q ss_pred EEEEEecCCCCcchHHHHHHHHhc-cceEEEEeeecCCCCCCChhHHHHHHHHHhc-CCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFNDDDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
+.+ .-.+|......+.+.+.+ .|......+.+.. ....+.+.+.+.+. ..-+-+++.+.+..+..+.+.+.
T Consensus 241 ~~~---~~P~G~~~T~~~l~~ia~~~g~~~~~e~~i~~----e~~~~~~~l~~~~~~l~Gk~~~i~~~~~~~~~~~~~l~ 313 (426)
T cd01972 241 IKA---PQPYGIEATDKWLREIAKVLGMEAEAEAVIER----EHERVAPEIEELRKALKGKKAIVETGAAYGHLLIAVLR 313 (426)
T ss_pred Eec---CCccCHHHHHHHHHHHHHHhCCcHHHHHHHHH----HHHHHHHHHHHHHHHhCCCEEEEEeCCccHHHHHHHHH
Confidence 532 346777666655555544 3532111111111 12233334443322 12334456677788888888888
Q ss_pred HcC-CCC
Q 006918 240 RLG-MMD 245 (625)
Q Consensus 240 ~~g-~~~ 245 (625)
++| |..
T Consensus 314 elG~~~v 320 (426)
T cd01972 314 ELGFGEV 320 (426)
T ss_pred HcCCceE
Confidence 998 643
No 358
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=42.00 E-value=97 Score=31.13 Aligned_cols=60 Identities=20% Similarity=0.244 Sum_probs=36.0
Q ss_pred eEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE
Q 006918 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAI 95 (625)
Q Consensus 26 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~av 95 (625)
.++.+...|.+ .+.-.++...-+.++++. |-+|++.++.+..-. .-+...+.+..|.+-+
T Consensus 29 ~l~~~~~~~~~----~p~~~~~~~fa~~v~ekt----~G~l~i~vfP~~qLG--~~~~~ie~l~~G~id~ 88 (332)
T COG1638 29 VLRFSHVTPEG----HPKGKAAKKFAELVEEKT----GGRLKIEVFPNSQLG--GEAEMIEQLRSGTLDI 88 (332)
T ss_pred EEeecccCCCC----CcHHHHHHHHHHHHHHHh----CCeEEEEECCCcccC--cHHHHHHHHhcCCeeE
Confidence 56666666444 356678888888898876 446777777665321 2233445555554433
No 359
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=41.97 E-value=1.6e+02 Score=29.16 Aligned_cols=80 Identities=9% Similarity=-0.018 Sum_probs=48.8
Q ss_pred CCcEEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHH
Q 006918 158 GWGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVF 235 (625)
Q Consensus 158 ~W~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il 235 (625)
.-+.|+++..+ +.|.....+.+.+.+++.|..+..... . .+...-...++.+...+.+.||+..........+
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~ 134 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACS---D--DQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFY 134 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHH
Confidence 34578888753 445556778888888899988765321 1 1233334566677677888888764322223445
Q ss_pred HHHHHcC
Q 006918 236 DVAQRLG 242 (625)
Q Consensus 236 ~~a~~~g 242 (625)
+++.+.+
T Consensus 135 ~~l~~~~ 141 (328)
T PRK11303 135 QRLQNDG 141 (328)
T ss_pred HHHHhcC
Confidence 5665555
No 360
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=41.83 E-value=1.4e+02 Score=29.84 Aligned_cols=79 Identities=13% Similarity=0.078 Sum_probs=53.5
Q ss_pred CcEEEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHH
Q 006918 159 WGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVF 235 (625)
Q Consensus 159 W~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~-~~~~il 235 (625)
-.+|+++.. ++.|.....+.+.+.+++.|..+.... .. .+.....+.++.+...+.+.||+..... .....+
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 367777775 456777888899999999998877532 11 2344566778888888899888875432 234556
Q ss_pred HHHHHcC
Q 006918 236 DVAQRLG 242 (625)
Q Consensus 236 ~~a~~~g 242 (625)
+.+.+.+
T Consensus 100 ~~~~~~~ 106 (330)
T PRK10355 100 KEAKQEG 106 (330)
T ss_pred HHHHHCC
Confidence 6666655
No 361
>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=41.59 E-value=1.5e+02 Score=28.19 Aligned_cols=76 Identities=9% Similarity=0.057 Sum_probs=43.3
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|++|..+ +.+.....+.+.+.+++.|+.+..... .. .+...-...++.+.+.+.+.|++........ .+.++.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~--~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~ 76 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSML--AE--ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAA 76 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeC--CC--CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHH
Confidence 4566643 345566778888888888887654321 11 1123455667777777788887765433322 233344
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.|
T Consensus 77 ~~~ 79 (264)
T cd01574 77 PAD 79 (264)
T ss_pred hcC
Confidence 444
No 362
>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=41.56 E-value=1.2e+02 Score=25.53 Aligned_cols=49 Identities=22% Similarity=0.472 Sum_probs=34.5
Q ss_pred hHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 006918 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (625)
Q Consensus 175 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 228 (625)
....+.+.+++.|.++.....++.+ ...+.+.+++..+. .|+||..+..
T Consensus 20 n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~i~~~~~~-~DlvittGG~ 68 (133)
T cd00758 20 NGPALEALLEDLGCEVIYAGVVPDD----ADSIRAALIEASRE-ADLVLTTGGT 68 (133)
T ss_pred hHHHHHHHHHHCCCEEEEeeecCCC----HHHHHHHHHHHHhc-CCEEEECCCC
Confidence 3567778888899888766556533 66777777776544 8888886443
No 363
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=41.30 E-value=1.4e+02 Score=29.76 Aligned_cols=78 Identities=12% Similarity=0.063 Sum_probs=49.9
Q ss_pred cEEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHH
Q 006918 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 237 (625)
Q Consensus 160 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~ 237 (625)
+.++++..+ +.|.....+.+.+.+++.|..+.... .. .+.......++.+...+.+.||+..........++.
T Consensus 65 ~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~ 139 (342)
T PRK10014 65 GVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQ---GG--KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREM 139 (342)
T ss_pred CEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEe---CC--CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHH
Confidence 468888763 45666677888888888887765321 11 123445567777777788988886543333455666
Q ss_pred HHHcC
Q 006918 238 AQRLG 242 (625)
Q Consensus 238 a~~~g 242 (625)
+.+.+
T Consensus 140 l~~~~ 144 (342)
T PRK10014 140 AEEKG 144 (342)
T ss_pred HhhcC
Confidence 66555
No 364
>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=41.04 E-value=1.1e+02 Score=29.24 Aligned_cols=80 Identities=8% Similarity=0.078 Sum_probs=46.2
Q ss_pred EEEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHH
Q 006918 161 EVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 237 (625)
Q Consensus 161 ~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~ 237 (625)
++++|.. ++.|.....+.+.+.+++.|..+..... +.. .+...-...++++...+.+.||+.... ......++.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~~~--~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~ 77 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAA-PSE--GDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVER 77 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEcc-CCC--CCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHH
Confidence 3566665 3445556677888888888887764321 111 123334456667766778877765432 333445666
Q ss_pred HHHcCC
Q 006918 238 AQRLGM 243 (625)
Q Consensus 238 a~~~g~ 243 (625)
+.+.+.
T Consensus 78 ~~~~~i 83 (275)
T cd06320 78 AKKKGI 83 (275)
T ss_pred HHHCCC
Confidence 666553
No 365
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=41.02 E-value=1.4e+02 Score=24.42 Aligned_cols=45 Identities=13% Similarity=0.114 Sum_probs=20.8
Q ss_pred chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 174 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
.++..+...+++.|.++..... . .+.....+.+++.++++|.+.+
T Consensus 15 lGl~~la~~l~~~G~~v~~~d~---~-----~~~~~l~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 15 LGLLYLAAYLRKAGHEVDILDA---N-----VPPEELVEALRAERPDVVGISV 59 (121)
T ss_dssp HHHHHHHHHHHHTTBEEEEEES---S-----B-HHHHHHHHHHTTCSEEEEEE
T ss_pred HHHHHHHHHHHHCCCeEEEECC---C-----CCHHHHHHHHhcCCCcEEEEEc
Confidence 3455555555555655543211 0 0113344444555566655544
No 366
>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=40.91 E-value=46 Score=32.82 Aligned_cols=65 Identities=12% Similarity=0.130 Sum_probs=39.9
Q ss_pred HHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeee-cccccceE----ecccccccceEEEEecC
Q 006918 497 AAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIV-TNRTKAVD----FTQPYIESGLVVVAPVR 569 (625)
Q Consensus 497 ~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t-~~R~~~vd----fs~p~~~~~~~~l~~~~ 569 (625)
.+++++|.+ ++++.+ .++..++..|..|++|+++.+.+.. ..+.+-++ +...+......++++..
T Consensus 20 ~~~k~~Gl~--Ve~~~~------~~~~~~~~al~~G~iD~~~~~~~~~~~a~~~g~~~~~v~~~~~~~~~~~lv~~~~ 89 (300)
T TIGR01729 20 AAAKEAGAT--IDWRKF------DSGADISTALASGNVPIGVIGSSPLAAAASRGVPIELFWILDNIGKSEALVAREG 89 (300)
T ss_pred chHHhcCCe--eEEEec------CcHHHHHHHHHcCCCCEeccCCCHHHHHHHCCCCeEEEEEeccCCccceEEecCC
Confidence 366678887 666665 4478999999999999997554321 12222222 23333334456777654
No 367
>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=40.63 E-value=89 Score=28.49 Aligned_cols=69 Identities=19% Similarity=0.194 Sum_probs=44.8
Q ss_pred HHHHhcCCCCCCCcEEEEEEe-cCCCChHHHHHHHHHHHh----cCcEEEEcCCChHHHHHHHHhhhcCCCcEEe
Q 006918 51 QDDINSDPRVLGGRKLSITMH-DAKFNGFLSIMGALQFME----TDTLAIVGPQSAVMAHVLSHLANELQVPLLS 120 (625)
Q Consensus 51 v~~IN~~~~iL~g~~l~~~~~-D~~~~~~~a~~~~~~l~~----~~v~aviG~~~s~~~~~va~~~~~~~iP~Is 120 (625)
.+.||+.+.++||--|....+ |.+.+|......+..+.. .++.+|+|+.......+ ..++...++|++-
T Consensus 5 ~~~~~~~~~~~~~~~i~~~~~~~~~~~p~~l~~v~~~l~~~~~~~~~d~Vv~~ea~Gi~la-~~lA~~Lg~p~v~ 78 (191)
T TIGR01744 5 KQKIKEEGVVLPGGILKVDSFLNHQIDPKLMQEVGEEFARRFADDGITKIVTIEASGIAPA-IMTGLKLGVPVVF 78 (191)
T ss_pred HHHHhcCCEEcCCCEEEEehhhccccCHHHHHHHHHHHHHHhccCCCCEEEEEccccHHHH-HHHHHHHCCCEEE
Confidence 578999999999887777554 555566544333333322 27889999776654333 2355667899885
No 368
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=40.54 E-value=1.3e+02 Score=30.21 Aligned_cols=80 Identities=9% Similarity=-0.023 Sum_probs=50.7
Q ss_pred cEEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHH
Q 006918 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFD 236 (625)
Q Consensus 160 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~ 236 (625)
+.|++|..+ +.|.....+.+++.+++.|..+.....-.. .+.......++.+...+.+.||+.... ......+
T Consensus 47 ~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~~---~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l- 122 (343)
T PRK10936 47 WKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGGY---YNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL- 122 (343)
T ss_pred eEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCCC---CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-
Confidence 688888864 455566778888899999988765432111 123344566777777889988886543 3333445
Q ss_pred HHHHcCC
Q 006918 237 VAQRLGM 243 (625)
Q Consensus 237 ~a~~~g~ 243 (625)
++.+.|.
T Consensus 123 ~~~~~gi 129 (343)
T PRK10936 123 ELQAANI 129 (343)
T ss_pred HHHHCCC
Confidence 6666553
No 369
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=40.40 E-value=3.2e+02 Score=25.66 Aligned_cols=97 Identities=9% Similarity=0.033 Sum_probs=57.9
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHh
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~ 184 (625)
..+...++..++|++..... .+.....+.+.+.+++.|-+- +...|-+.......+....+
T Consensus 48 ~~~~~qA~algipl~~~~~~----------------~~~e~~~e~l~~~l~~~gv~~---vv~GdI~s~~qr~~~e~v~~ 108 (223)
T TIGR00290 48 HLTDLQAESIGIPLIKLYTE----------------GTEEDEVEELKGILHTLDVEA---VVFGAIYSEYQKTRIERVCR 108 (223)
T ss_pred HHHHHHHHHcCCCeEEeecC----------------CCccHHHHHHHHHHHHcCCCE---EEECCcccHHHHHHHHHHHH
Confidence 44556778888887752110 112335567777777776333 33344455556777777888
Q ss_pred ccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 006918 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (625)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 228 (625)
+.|++... |.- ..+-...++++-+.+-+++|+....
T Consensus 109 ~lgl~~~~----PLW----~~~~~~ll~e~i~~G~~aiIv~v~a 144 (223)
T TIGR00290 109 ELGLKSFA----PLW----HRDPEKLMEEFVEEKFEARIIAVAA 144 (223)
T ss_pred hcCCEEec----ccc----CCCHHHHHHHHHHcCCeEEEEEEec
Confidence 88887653 322 2233457777777788887776543
No 370
>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=40.07 E-value=37 Score=22.86 Aligned_cols=25 Identities=20% Similarity=0.493 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccC
Q 006918 585 LMWAVTGVFFLVVGTVVWILEHRLN 609 (625)
Q Consensus 585 ~vW~~~~~~~~~~~~~~~~~~~~~~ 609 (625)
++|..+...++.+++++|.+..++.
T Consensus 12 ~~~~l~~~~~~Figiv~wa~~p~~k 36 (48)
T cd01324 12 DSWGLLYLALFFLGVVVWAFRPGRK 36 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 7898888888999999999965443
No 371
>PRK13054 lipid kinase; Reviewed
Probab=40.06 E-value=1.9e+02 Score=28.56 Aligned_cols=75 Identities=12% Similarity=0.094 Sum_probs=45.6
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 160 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
+++.+|+....-+......+.+.+++.|+.+....+-. ..+...+.+++...+.++||+.+.......++..+.
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 46667775333233445666677888888755422222 223455666665566788888777777777777765
Q ss_pred H
Q 006918 240 R 240 (625)
Q Consensus 240 ~ 240 (625)
+
T Consensus 78 ~ 78 (300)
T PRK13054 78 Q 78 (300)
T ss_pred h
Confidence 4
No 372
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=39.92 E-value=1.4e+02 Score=29.04 Aligned_cols=80 Identities=1% Similarity=-0.003 Sum_probs=50.3
Q ss_pred CcEEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHH
Q 006918 159 WGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVF 235 (625)
Q Consensus 159 W~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il 235 (625)
-+.++++..+ +.|.....+.+.+.+++.|+.+.... .. .+.......++++...+.+.|++.... +.....+
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~---~~--~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l 100 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLD---SQ--NNPAKELANVQDLTVRGTKILLINPTDSDAVGNAV 100 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEec---CC--CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHH
Confidence 4678888753 45566778888889999998876432 11 123444566677766778877765433 2333556
Q ss_pred HHHHHcCC
Q 006918 236 DVAQRLGM 243 (625)
Q Consensus 236 ~~a~~~g~ 243 (625)
+.+.+.|+
T Consensus 101 ~~~~~~~i 108 (295)
T PRK10653 101 KMANQANI 108 (295)
T ss_pred HHHHHCCC
Confidence 66666553
No 373
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=39.90 E-value=88 Score=29.83 Aligned_cols=87 Identities=17% Similarity=0.107 Sum_probs=62.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEE--
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH-- 225 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~-- 225 (625)
..+++...++|-.-+++++ |..|.....+.++..-+...+.|.-..-+- + . -++...+..+++.|++.
T Consensus 69 ~~ia~~Ye~~GAa~iSVLT-d~~~F~Gs~e~L~~v~~~v~~PvL~KDFii-D------~--yQI~~Ar~~GADavLLI~~ 138 (254)
T COG0134 69 VEIAKAYEEGGAAAISVLT-DPKYFQGSFEDLRAVRAAVDLPVLRKDFII-D------P--YQIYEARAAGADAVLLIVA 138 (254)
T ss_pred HHHHHHHHHhCCeEEEEec-CccccCCCHHHHHHHHHhcCCCeeeccCCC-C------H--HHHHHHHHcCcccHHHHHH
Confidence 4477888899999999887 556777788888777666666654332221 1 1 24556667789988774
Q ss_pred -cchhhHHHHHHHHHHcCCC
Q 006918 226 -GYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 226 -~~~~~~~~il~~a~~~g~~ 244 (625)
.+......++..|.++||.
T Consensus 139 ~L~~~~l~el~~~A~~LGm~ 158 (254)
T COG0134 139 ALDDEQLEELVDRAHELGME 158 (254)
T ss_pred hcCHHHHHHHHHHHHHcCCe
Confidence 4446689999999999986
No 374
>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=39.80 E-value=1.5e+02 Score=28.18 Aligned_cols=75 Identities=15% Similarity=0.104 Sum_probs=45.4
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|+++.. ++.|.......+.+.+++.|..+... ... .+.......++++.+.+.+.|++..... ....++.+.
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~---~~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~ 75 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVA---SSG--YDLDREYAQARKLLERGVDGLALIGLDH-SPALLDLLA 75 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEe---cCC--CCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHH
Confidence 566665 34566667788888888888877642 211 2234445667777777788777754322 234455555
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.+
T Consensus 76 ~~~ 78 (268)
T cd06273 76 RRG 78 (268)
T ss_pred hCC
Confidence 555
No 375
>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=39.79 E-value=1.6e+02 Score=25.30 Aligned_cols=49 Identities=27% Similarity=0.304 Sum_probs=35.8
Q ss_pred hHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 006918 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (625)
Q Consensus 175 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 228 (625)
....+.+.+++.|.++.....++.+ .+++.+.++++.+ +.|+||+.+..
T Consensus 28 n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~l~~~~~-~~DliIttGG~ 76 (144)
T TIGR00177 28 NGPLLAALLEEAGFNVSRLGIVPDD----PEEIREILRKAVD-EADVVLTTGGT 76 (144)
T ss_pred cHHHHHHHHHHCCCeEEEEeecCCC----HHHHHHHHHHHHh-CCCEEEECCCC
Confidence 3567888899999998877666644 6677777777654 68988886543
No 376
>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=39.59 E-value=1.4e+02 Score=28.47 Aligned_cols=75 Identities=9% Similarity=0.067 Sum_probs=45.2
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
++++.. ++.|.....+.+.+.+++.|+++.....- .+.......++.+...+.+.||+....... ..++.+.
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 35677777888888888888887643211 112334456677777778877765433222 3466665
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.+
T Consensus 76 ~~~ 78 (270)
T cd06296 76 RTG 78 (270)
T ss_pred cCC
Confidence 544
No 377
>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=39.47 E-value=1.9e+02 Score=29.28 Aligned_cols=75 Identities=11% Similarity=0.016 Sum_probs=47.6
Q ss_pred HHHHHHHHHcCC--cEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC---CceEE
Q 006918 148 SAIAEMVSYFGW--GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVI 222 (625)
Q Consensus 148 ~al~~ll~~~~W--~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vI 222 (625)
..+.++++.++. +++.+++ |...- ...+.+.+++.|+.+.....+... .+.++.....+..++. ++|.|
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvt-d~~~~---~~~v~~~L~~~g~~~~~f~~v~~n--Pt~~~v~~~~~~~~~~~~~~~D~I 85 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFV-DDVFQ---GKDLISRLPVESEDMIIWVDATEE--PKTDQIDALTAQVKSFDGKLPCAI 85 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEE-Ccchh---hhHHHHHHHhcCCcEEEEcCCCCC--cCHHHHHHHHHHHHhhCCCCCCEE
Confidence 456667777764 5666666 32221 156677788777765433334443 5567778888888776 89999
Q ss_pred EEEcch
Q 006918 223 VVHGYS 228 (625)
Q Consensus 223 vl~~~~ 228 (625)
|-.+.+
T Consensus 86 IaiGGG 91 (347)
T cd08184 86 VGIGGG 91 (347)
T ss_pred EEeCCc
Confidence 976655
No 378
>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=39.46 E-value=1.4e+02 Score=28.31 Aligned_cols=75 Identities=15% Similarity=0.125 Sum_probs=45.0
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|+++..+ +.|.....+.+.+.+++.|..+.... . . .+. +....++++.+.+.+.||+....... ..++.+.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~-~--~--~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~ 74 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQPLLIN-T--D--DDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECR 74 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCeEEEEc-C--C--CCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 4555543 45666677788888888888776432 1 1 112 45566777777788877776433222 3466666
Q ss_pred HcCC
Q 006918 240 RLGM 243 (625)
Q Consensus 240 ~~g~ 243 (625)
+.|+
T Consensus 75 ~~~i 78 (266)
T cd06278 75 RNGI 78 (266)
T ss_pred hcCC
Confidence 6553
No 379
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=39.19 E-value=1.9e+02 Score=22.77 Aligned_cols=57 Identities=11% Similarity=0.138 Sum_probs=36.1
Q ss_pred hHHHHHHHHhccce-EEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc--chhhHHHHHHHHHHcC
Q 006918 175 GVTALGDKLAEIRC-KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG--YSRTGLMVFDVAQRLG 242 (625)
Q Consensus 175 ~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~--~~~~~~~il~~a~~~g 242 (625)
..+.+++.++..|. .+.. . .+..+.+..+++..+++|++.. ...+...++++.++.+
T Consensus 10 ~~~~l~~~l~~~~~~~v~~---~--------~~~~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~ 69 (112)
T PF00072_consen 10 IRELLEKLLERAGYEEVTT---A--------SSGEEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQIN 69 (112)
T ss_dssp HHHHHHHHHHHTTEEEEEE---E--------SSHHHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHT
T ss_pred HHHHHHHHHHhCCCCEEEE---E--------CCHHHHHHHhcccCceEEEEEeeecccccccccccccccc
Confidence 56677777777776 4432 1 1234555666667788888863 3456777777777766
No 380
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=39.06 E-value=1.3e+02 Score=31.27 Aligned_cols=57 Identities=12% Similarity=0.130 Sum_probs=43.5
Q ss_pred cEEEEEEecCCCChHHHHH-HHHHHHhc--CcEEEEcCCChHHHHHHHHhhhcCCCcEEe
Q 006918 64 RKLSITMHDAKFNGFLSIM-GALQFMET--DTLAIVGPQSAVMAHVLSHLANELQVPLLS 120 (625)
Q Consensus 64 ~~l~~~~~D~~~~~~~a~~-~~~~l~~~--~v~aviG~~~s~~~~~va~~~~~~~iP~Is 120 (625)
..=++.++|+=|++.+--+ ++.+|..+ .+..|||+..|+.+..++.+|...++|..-
T Consensus 334 ~~~~~~vfnTIC~ATqeRQdA~~~L~~~~vDlmiVVGG~NSSNT~~L~eIa~~~g~~sy~ 393 (460)
T PLN02821 334 VNDHFMSFNTICDATQERQDAMYKLVEEKLDLMLVVGGWNSSNTSHLQEIAEHKGIPSYW 393 (460)
T ss_pred cCccccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCCCCccHHHHHHHHHHhCCCEEE
Confidence 3345567888887766555 45566544 788899999999999999999999998643
No 381
>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=39.03 E-value=1.1e+02 Score=30.10 Aligned_cols=71 Identities=10% Similarity=0.057 Sum_probs=45.7
Q ss_pred cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHHHHHcCC
Q 006918 168 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVAQRLGM 243 (625)
Q Consensus 168 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~~~g~ 243 (625)
+.+|.....+.+++.+++.|..+.... .. .+...-.+.++.+...+++.||+.... ......++.+.+.++
T Consensus 9 ~~~~~~~~~~~i~~~a~~~g~~v~~~~---~~--~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~i 80 (302)
T TIGR02634 9 RLERWQKDRDIFVAAAESLGAKVFVQS---AN--GNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGI 80 (302)
T ss_pred chhhHHHHHHHHHHHHHhcCCEEEEEe---CC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCC
Confidence 455666777888888888888776432 11 223344567777777888888876543 334566777776553
No 382
>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=39.00 E-value=1.9e+02 Score=27.95 Aligned_cols=79 Identities=14% Similarity=0.133 Sum_probs=49.9
Q ss_pred cEEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh-HHHHHH
Q 006918 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFD 236 (625)
Q Consensus 160 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~-~~~il~ 236 (625)
+.|++|..+ +.|.....+.+.+.+++.|..+.... .. .+.+.-...++.+...+.+.||+...... ....++
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~---~~--~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~ 75 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILD---GR--GSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELE 75 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEEC---CC--CCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHH
Confidence 457777764 44555677888888999998876432 11 23444557778888888998888654322 234455
Q ss_pred HHHHcCC
Q 006918 237 VAQRLGM 243 (625)
Q Consensus 237 ~a~~~g~ 243 (625)
.+.+.++
T Consensus 76 ~~~~~~i 82 (280)
T cd06315 76 LAQKAGI 82 (280)
T ss_pred HHHHCCC
Confidence 5655553
No 383
>PF13396 PLDc_N: Phospholipase_D-nuclease N-terminal
Probab=38.75 E-value=29 Score=22.90 Aligned_cols=29 Identities=21% Similarity=0.700 Sum_probs=23.8
Q ss_pred ccCccHHHHHHHHHHHHHHHHHHHhhhcc
Q 006918 579 LRPFTPLMWAVTGVFFLVVGTVVWILEHR 607 (625)
Q Consensus 579 l~pf~~~vW~~~~~~~~~~~~~~~~~~~~ 607 (625)
.+|-..-.|+.+++.+..+|.++|++-++
T Consensus 17 ~~~~~k~~W~~~i~~~P~iG~i~Yl~~gr 45 (46)
T PF13396_consen 17 RSPSSKILWLIVILFFPIIGPILYLIFGR 45 (46)
T ss_pred CCCchhhHHHHHHHHHHHHHHhheEEEeC
Confidence 35666789999999999999999987543
No 384
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=38.66 E-value=2.7e+02 Score=24.26 Aligned_cols=73 Identities=12% Similarity=0.020 Sum_probs=43.8
Q ss_pred EEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHH
Q 006918 161 EVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 237 (625)
Q Consensus 161 ~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~ 237 (625)
+|+||...+ ......+...+.+++.|+...... .+.. ...+.+...++++.+.+.++||.....+....=+-.
T Consensus 2 ~V~Ii~gs~-SD~~~~~~a~~~L~~~gi~~~~~V-~saH--R~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lpgvva 74 (150)
T PF00731_consen 2 KVAIIMGST-SDLPIAEEAAKTLEEFGIPYEVRV-ASAH--RTPERLLEFVKEYEARGADVIIAVAGMSAALPGVVA 74 (150)
T ss_dssp EEEEEESSG-GGHHHHHHHHHHHHHTT-EEEEEE---TT--TSHHHHHHHHHHTTTTTESEEEEEEESS--HHHHHH
T ss_pred eEEEEeCCH-HHHHHHHHHHHHHHHcCCCEEEEE-Eecc--CCHHHHHHHHHHhccCCCEEEEEECCCcccchhhhe
Confidence 577777432 334578888899999987655432 2221 235667778888877778888876655544433333
No 385
>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=38.56 E-value=5.4e+02 Score=27.83 Aligned_cols=134 Identities=17% Similarity=0.242 Sum_probs=79.7
Q ss_pred CChHHHHHHHHH-HHhcCcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHH
Q 006918 75 FNGFLSIMGALQ-FMETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM 153 (625)
Q Consensus 75 ~~~~~a~~~~~~-l~~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~l 153 (625)
.+-..+++.+.+ +..+++.+||.-..+ +..+. +...+|+|...-+. .+..+++. .
T Consensus 37 ~~~~~~~~~a~~~~~~~~~dviIsrG~t--a~~i~---~~~~iPVv~i~~s~------------------~Dil~al~-~ 92 (526)
T TIGR02329 37 LGFEDAVREIRQRLGAERCDVVVAGGSN--GAYLK---SRLSLPVIVIKPTG------------------FDVMQALA-R 92 (526)
T ss_pred ccHHHHHHHHHHHHHhCCCcEEEECchH--HHHHH---HhCCCCEEEecCCh------------------hhHHHHHH-H
Confidence 345667777755 556699999975443 33333 34579998742221 22344443 3
Q ss_pred HHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHH
Q 006918 154 VSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLM 233 (625)
Q Consensus 154 l~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~ 233 (625)
.+.++ .++++|...... ...+.+.+.+ ++.+... .+ .+..+....++++++.+.++||-.. .
T Consensus 93 a~~~~-~~ia~vg~~~~~--~~~~~~~~ll---~~~i~~~-~~-----~~~~e~~~~~~~l~~~G~~~viG~~------~ 154 (526)
T TIGR02329 93 ARRIA-SSIGVVTHQDTP--PALRRFQAAF---NLDIVQR-SY-----VTEEDARSCVNDLRARGIGAVVGAG------L 154 (526)
T ss_pred HHhcC-CcEEEEecCccc--HHHHHHHHHh---CCceEEE-Ee-----cCHHHHHHHHHHHHHCCCCEEECCh------H
Confidence 35554 567777754432 2455565555 3444432 22 2367899999999999999888432 2
Q ss_pred HHHHHHHcCCCCCCeEEEee
Q 006918 234 VFDVAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 234 il~~a~~~g~~~~~~~~i~~ 253 (625)
....|.++||.+ +.+.+
T Consensus 155 ~~~~A~~~gl~~---ili~s 171 (526)
T TIGR02329 155 ITDLAEQAGLHG---VFLYS 171 (526)
T ss_pred HHHHHHHcCCce---EEEec
Confidence 346778888753 45544
No 386
>PRK01713 ornithine carbamoyltransferase; Provisional
Probab=38.45 E-value=4.3e+02 Score=26.60 Aligned_cols=133 Identities=17% Similarity=0.108 Sum_probs=76.7
Q ss_pred EEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
-.++.+|...+ .+.+.+|+.|+.++ +|..+.+...++.-.-.+.++-+.+.++.-+.+|+-= ......
T Consensus 47 k~v~~lF~epS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~ss~~kgEsl~DTarvls~y~D~iv~R--~~~~~~ 114 (334)
T PRK01713 47 KNIALIFEKTS---TRTRCAFEVAAYDQ-------GAQVTYIDPNSSQIGHKESMKDTARVLGRMYDAIEYR--GFKQSI 114 (334)
T ss_pred CEEEEEeCCCC---chHHHHHHHHHHHc-------CCeEEEcCCccccCCCCcCHHHHHHHHHHhCCEEEEE--cCchHH
Confidence 34777888765 37789999999885 3555554333332222344444555555545555431 123344
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHH---HHHcC--C--cEEEEEEecCCCCcchHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM---VSYFG--W--GEVIAIFNDDDQGRNGVTAL 179 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~l---l~~~~--W--~~v~ii~~d~~~g~~~~~~l 179 (625)
+..+++...+|+|.-. + +...| .++++++ .+++| . .+|+++. |-.+ .....+
T Consensus 115 ~~~~a~~~~vPVINa~--~----~~~HP------------tQaL~Dl~Ti~e~~g~~l~gl~ia~vG-D~~~--~v~~Sl 173 (334)
T PRK01713 115 VNELAEYAGVPVFNGL--T----DEFHP------------TQMLADVLTMIENCDKPLSEISYVYIG-DARN--NMGNSL 173 (334)
T ss_pred HHHHHHhCCCCEEECC--C----CCCCh------------HHHHHHHHHHHHHcCCCcCCcEEEEEC-CCcc--CHHHHH
Confidence 5667777889999732 1 22223 2556665 35565 2 4677665 3223 266777
Q ss_pred HHHHhccceEEEE
Q 006918 180 GDKLAEIRCKISY 192 (625)
Q Consensus 180 ~~~l~~~g~~v~~ 192 (625)
...+...|.++..
T Consensus 174 ~~~~~~~g~~v~~ 186 (334)
T PRK01713 174 LLIGAKLGMDVRI 186 (334)
T ss_pred HHHHHHcCCEEEE
Confidence 7788888887765
No 387
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=38.33 E-value=2e+02 Score=27.54 Aligned_cols=96 Identities=13% Similarity=0.011 Sum_probs=55.7
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhcc--ceEEEEee--ecCCCCCCChhHHHHHHHHHhcCCce
Q 006918 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKS--ALPPDQSVTETDVRNELVKVRMMEAR 220 (625)
Q Consensus 145 ~~~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~--~~~~~~~~~~~~~~~~l~~i~~~~~~ 220 (625)
++..++.+.+..-+ ++|.++....+ ..+.....+++. +..|+... .+. ..++ ..++++|++++++
T Consensus 95 Dl~~~Ll~~a~~~~-~~vfllGgkp~----V~~~a~~~l~~~~p~l~ivg~h~GYf~-----~~e~-~~i~~~I~~s~pd 163 (253)
T COG1922 95 DLVEALLKRAAEEG-KRVFLLGGKPG----VAEQAAAKLRAKYPGLKIVGSHDGYFD-----PEEE-EAIVERIAASGPD 163 (253)
T ss_pred HHHHHHHHHhCccC-ceEEEecCCHH----HHHHHHHHHHHHCCCceEEEecCCCCC-----hhhH-HHHHHHHHhcCCC
Confidence 34555555554444 45656664433 344444445544 34555433 222 2333 6899999999999
Q ss_pred EEEEEcchhhHHHHHHHHHHcCCCCCCeEEEeeC
Q 006918 221 VIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (625)
Q Consensus 221 vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (625)
++++.+....-..++.+-.+.- +.-+++..+
T Consensus 164 il~VgmG~P~QE~wi~~~~~~~---~~~v~igVG 194 (253)
T COG1922 164 ILLVGMGVPRQEIWIARNRQQL---PVAVAIGVG 194 (253)
T ss_pred EEEEeCCCchhHHHHHHhHHhc---CCceEEecc
Confidence 9999877766666665554422 233566554
No 388
>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=38.29 E-value=1.6e+02 Score=28.20 Aligned_cols=76 Identities=9% Similarity=0.004 Sum_probs=46.5
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhc--cceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFD 236 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~ 236 (625)
|+++..+ +.|.......+.+.+++ .|.++... ... .+.......++.+...+++.||+.... +.....++
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~---~~~--~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~ 76 (271)
T cd06321 2 IGVSVGDLGNPFFVALAKGAEAAAKKLNPGVKVTVV---SAD--YDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVK 76 (271)
T ss_pred eEEEecccCCHHHHHHHHHHHHHHHHhCCCeEEEEc---cCC--CCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHH
Confidence 5666653 45666778888888888 66665432 111 223344566777777788888776433 22355667
Q ss_pred HHHHcC
Q 006918 237 VAQRLG 242 (625)
Q Consensus 237 ~a~~~g 242 (625)
.+.+.+
T Consensus 77 ~~~~~~ 82 (271)
T cd06321 77 RAQAAG 82 (271)
T ss_pred HHHHCC
Confidence 776655
No 389
>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=38.28 E-value=1.2e+02 Score=27.18 Aligned_cols=68 Identities=24% Similarity=0.309 Sum_probs=44.1
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.+... .+++++.. ++...++..+.+|++|++++.... ....+. +.|+....+.++++.
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 455677888877653 33366655 457899999999999999853221 122233 335666677777764
No 390
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=38.24 E-value=1.3e+02 Score=29.44 Aligned_cols=71 Identities=11% Similarity=0.087 Sum_probs=39.5
Q ss_pred CCCCcchHHHHHHHHhccce-EEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc-hhhHHHHHHHHHHcCC
Q 006918 169 DDQGRNGVTALGDKLAEIRC-KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVAQRLGM 243 (625)
Q Consensus 169 ~~~g~~~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-~~~~~~il~~a~~~g~ 243 (625)
+.|.....+.+.+.+++.|. .+... .+.. .+...-...++.+...+++.||+... .+.....++++.+.|.
T Consensus 10 ~~f~~~~~~gi~~~a~~~g~~~~i~~--~~~~--~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~gi 82 (302)
T TIGR02637 10 NPFFEAANKGAEEAAKELGSVYIIYT--GPTG--TTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGI 82 (302)
T ss_pred CHHHHHHHHHHHHHHHHhCCeeEEEE--CCCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCC
Confidence 44555566777777777773 33321 1111 12334445667776677887777543 2334556677766553
No 391
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=38.17 E-value=4.1e+02 Score=26.29 Aligned_cols=120 Identities=13% Similarity=0.130 Sum_probs=70.8
Q ss_pred EEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHHHcCCcEEEEEEecCCCC
Q 006918 93 LAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQG 172 (625)
Q Consensus 93 ~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~~d~~~g 172 (625)
++|++...........++++..+.|+++ .+.+ .+.+.+.+=+..++-..|.||...-.
T Consensus 30 ~VIlvsDn~aD~~lA~~iaellNA~Vlt-tpwg-------------------~ynes~~~eI~~lnpd~VLIIGGp~A-- 87 (337)
T COG2247 30 VVILVSDNEADLLLALPIAELLNAPVLT-TPWG-------------------IYNESVLDEIIELNPDLVLIIGGPIA-- 87 (337)
T ss_pred EEEEecchHHHHHHhhHHHHHhCCeeEe-cCcc-------------------cccHHHHHHHHhhCCceEEEECCCCc--
Confidence 4445544455555567888888999884 2211 13456666677889999988875443
Q ss_pred cchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhc------CCceEEEEEcchhhHHHHHHHHHHcCC
Q 006918 173 RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM------MEARVIVVHGYSRTGLMVFDVAQRLGM 243 (625)
Q Consensus 173 ~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~------~~~~vIvl~~~~~~~~~il~~a~~~g~ 243 (625)
......+.++..|+.|... --. ...+.-....+.+++ .+..+++++++.-.. .++...++ |.
T Consensus 88 --Vs~~yE~~Lks~GitV~Ri---gG~--nR~ETa~~v~~~~~~~yp~af~n~kvvvv~GwDy~~-~~~e~~k~-~~ 155 (337)
T COG2247 88 --VSPNYENALKSLGITVKRI---GGA--NRYETAEKVAKFFREDYPNAFKNVKVVVVYGWDYAD-ALMELMKE-GI 155 (337)
T ss_pred --CChhHHHHHHhCCcEEEEe---cCc--chHHHHHHHHHHHHhhchhhhcCeEEEEEeccccHH-HHHHHHhc-Cc
Confidence 4556677888889887632 211 112223344455541 345777777765333 55555554 54
No 392
>PF08194 DIM: DIM protein; InterPro: IPR013172 Drosophila immune-induced molecules (DIMs) are short proteins induced during the immune response of Drosophila []. This entry includes DIMs 1 to 4 and DIM23.
Probab=38.10 E-value=27 Score=21.76 Aligned_cols=10 Identities=10% Similarity=0.218 Sum_probs=7.6
Q ss_pred CCCceEEEEE
Q 006918 22 LKPEVLNVGA 31 (625)
Q Consensus 22 ~~~~~i~IG~ 31 (625)
..++.+.|.+
T Consensus 21 ~~pG~ViING 30 (36)
T PF08194_consen 21 ATPGNVIING 30 (36)
T ss_pred CCCCeEEECc
Confidence 5588888875
No 393
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=37.84 E-value=1.5e+02 Score=29.15 Aligned_cols=85 Identities=16% Similarity=0.194 Sum_probs=52.3
Q ss_pred ceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 006918 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (625)
Q Consensus 462 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~ 541 (625)
++++||+.... ...+-.+++..+.+... .+++++.. +....++..|.+|++|+++..-
T Consensus 95 g~l~ig~~~~~--------------~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 152 (305)
T CHL00180 95 GTLIIGASQTT--------------GTYLMPRLIGLFRQRYP-QINVQLQV-------HSTRRIAWNVANGQIDIAIVGG 152 (305)
T ss_pred ceEEEEEcCcc--------------hHhHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEEcC
Confidence 67899984210 12344577777776643 23366655 4488999999999999998632
Q ss_pred eeecccccceEecccccccceEEEEecC
Q 006918 542 AIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (625)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~l~~~~ 569 (625)
....+..+.+ .+.++....+.++++..
T Consensus 153 ~~~~~~~~~~-~~~~l~~~~~~~v~~~~ 179 (305)
T CHL00180 153 EVPTELKKIL-EITPYVEDELALIIPKS 179 (305)
T ss_pred ccCcccccce-eEEEeccCcEEEEECCC
Confidence 2222111222 24567777888887653
No 394
>PRK10481 hypothetical protein; Provisional
Probab=37.61 E-value=2.4e+02 Score=26.44 Aligned_cols=68 Identities=18% Similarity=0.120 Sum_probs=43.7
Q ss_pred CCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhH
Q 006918 158 GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTG 231 (625)
Q Consensus 158 ~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~ 231 (625)
+-++++++....+. .+.-.+.+.+.|..+.+...-|.. .....+.+..++++..++++|++.|-+-..
T Consensus 128 ~g~riGVitP~~~q----i~~~~~kw~~~G~~v~~~~aspy~--~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~ 195 (224)
T PRK10481 128 GGHQVGVIVPVEEQ----LAQQAQKWQVLQKPPVFALASPYH--GSEEELIDAGKELLDQGADVIVLDCLGYHQ 195 (224)
T ss_pred CCCeEEEEEeCHHH----HHHHHHHHHhcCCceeEeecCCCC--CCHHHHHHHHHHhhcCCCCEEEEeCCCcCH
Confidence 34899999975442 333333444447776654332322 345567778888888999999998877443
No 395
>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=37.58 E-value=1.1e+02 Score=29.44 Aligned_cols=71 Identities=10% Similarity=0.101 Sum_probs=46.6
Q ss_pred cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh-HHHHHHHHHHcCC
Q 006918 168 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDVAQRLGM 243 (625)
Q Consensus 168 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~-~~~il~~a~~~g~ 243 (625)
++.|.....+.+.+.+++.|.++.... .. .+.......++.+...+.+.||+...... ....++++.+.++
T Consensus 10 ~~~~~~~~~~~~~~~a~~~g~~~~~~~---~~--~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~i 81 (273)
T cd06309 10 ESPWRTAETKSIKDAAEKRGFDLKFAD---AQ--QKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGI 81 (273)
T ss_pred CCHHHHHHHHHHHHHHHhcCCEEEEeC---CC--CCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCC
Confidence 455666778889999999999887532 11 12444556777777778888887543322 3456677776663
No 396
>PRK12562 ornithine carbamoyltransferase subunit F; Provisional
Probab=37.54 E-value=4.4e+02 Score=26.50 Aligned_cols=133 Identities=16% Similarity=0.073 Sum_probs=75.7
Q ss_pred EEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
-.++.+|...+ .+.+.+|+.|+.++ +|..+.+...++.-.-.+.++-+.+.++.-+.+|+-=. .....
T Consensus 46 k~l~~lF~epS---TRTR~SFE~A~~~L-------Gg~~i~l~~~~s~~~kgEsl~Dtarvls~y~D~iviR~--~~~~~ 113 (334)
T PRK12562 46 KNIALIFEKDS---TRTRCSFEVAAYDQ-------GARVTYLGPSGSQIGHKESIKDTARVLGRMYDGIQYRG--HGQEV 113 (334)
T ss_pred CEEEEEECCCC---chhHHHHHHHHHHc-------CCeEEEeCCccccCCCCcCHHHHHHHHHHhCCEEEEEC--CchHH
Confidence 34777888765 37789999999985 45555443333332223444555555555344444211 12234
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHH---HHHcCC-----cEEEEEEecCCCCcchHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM---VSYFGW-----GEVIAIFNDDDQGRNGVTA 178 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~l---l~~~~W-----~~v~ii~~d~~~g~~~~~~ 178 (625)
+..+++...+|+|.-. ++...| .++++++ .+++|+ .+++++. |-.+ .....
T Consensus 114 ~~~~a~~~~vPVINa~------~~~~HP------------tQaLaDl~Ti~e~~g~~~l~gl~va~vG-D~~~--~v~~S 172 (334)
T PRK12562 114 VETLAEYAGVPVWNGL------TNEFHP------------TQLLADLLTMQEHLPGKAFNEMTLVYAG-DARN--NMGNS 172 (334)
T ss_pred HHHHHHhCCCCEEECC------CCCCCh------------HHHHHHHHHHHHHhCCCCcCCcEEEEEC-CCCC--CHHHH
Confidence 5667777889999732 122233 2556665 356753 3666655 2222 36677
Q ss_pred HHHHHhccceEEEE
Q 006918 179 LGDKLAEIRCKISY 192 (625)
Q Consensus 179 l~~~l~~~g~~v~~ 192 (625)
+...+...|.++..
T Consensus 173 ~~~~~~~~G~~v~~ 186 (334)
T PRK12562 173 MLEAAALTGLDLRL 186 (334)
T ss_pred HHHHHHHcCCEEEE
Confidence 77777888887765
No 397
>PHA02650 hypothetical protein; Provisional
Probab=37.49 E-value=63 Score=24.10 Aligned_cols=29 Identities=7% Similarity=0.037 Sum_probs=19.0
Q ss_pred cCccHHHHHHHHHHHHHHHHHHHhhhccc
Q 006918 580 RPFTPLMWAVTGVFFLVVGTVVWILEHRL 608 (625)
Q Consensus 580 ~pf~~~vW~~~~~~~~~~~~~~~~~~~~~ 608 (625)
.++.+..|+.++++.+++.+++++.-...
T Consensus 45 ~~~~~~~~ii~i~~v~i~~l~~flYLK~~ 73 (81)
T PHA02650 45 SWFNGQNFIFLIFSLIIVALFSFFVFKGY 73 (81)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56777777777766666666666654433
No 398
>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=37.49 E-value=1.5e+02 Score=26.15 Aligned_cols=68 Identities=16% Similarity=0.257 Sum_probs=45.7
Q ss_pred eeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEecC
Q 006918 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (625)
Q Consensus 490 ~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~ 569 (625)
+-.+++..+.+... .+++++.. ++...++..+.+|++|+++... ......+.+ .+.....+.+++++.
T Consensus 14 ~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~~-~~l~~~~~~~v~~~~ 81 (198)
T cd08421 14 FLPEDLASFLAAHP-DVRIDLEE-------RLSADIVRAVAEGRADLGIVAG---NVDAAGLET-RPYRTDRLVVVVPRD 81 (198)
T ss_pred hhHHHHHHHHHHCC-CceEEEEe-------cCcHHHHHHHhcCCceEEEEec---CCCCCCcEE-EEeecCcEEEEeCCC
Confidence 34577888877653 33366665 4478899999999999998633 233344444 567777888877654
No 399
>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=37.32 E-value=1.2e+02 Score=27.20 Aligned_cols=70 Identities=17% Similarity=0.186 Sum_probs=48.5
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
-+-.+++..+.+... .+++++.. +....++..|.+|++|+++..... ....+. ..|+....+.+++++
T Consensus 19 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 86 (209)
T PF03466_consen 19 SLLPPLLAEFRERHP-NIRIEIRE-------GDSDELIEALRSGELDLAITFGPP---PPPGLE-SEPLGEEPLVLVVSP 86 (209)
T ss_dssp HTHHHHHHHHHHHST-TEEEEEEE-------ESHHHHHHHHHTTSSSEEEESSSS---SSTTEE-EEEEEEEEEEEEEET
T ss_pred HHHHHHHHHHHHHCC-CcEEEEEe-------ccchhhhHHHhcccccEEEEEeec---cccccc-cccccceeeeeeeec
Confidence 344577888877664 23466665 558899999999999999765443 434444 346778888888876
Q ss_pred CC
Q 006918 569 RK 570 (625)
Q Consensus 569 ~~ 570 (625)
..
T Consensus 87 ~~ 88 (209)
T PF03466_consen 87 DH 88 (209)
T ss_dssp TS
T ss_pred cc
Confidence 54
No 400
>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=37.32 E-value=1.4e+02 Score=28.19 Aligned_cols=75 Identities=11% Similarity=0.006 Sum_probs=45.3
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|+++..+ +.|.....+.+++.+++.|.++.... .. .+.......++++...+.+.||+...... ..+++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~--~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~ 75 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQMLLMN---TN--FSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIK 75 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCEEEEEe---CC--CCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHh
Confidence 4566653 34445677888888888888876432 11 12344556677777778888888654322 23455555
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.+
T Consensus 76 ~~~ 78 (259)
T cd01542 76 KLN 78 (259)
T ss_pred cCC
Confidence 444
No 401
>cd08195 DHQS Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis. 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, which involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds, is found in bacteria, microbial eukaryotes, and plants, but not in mammals. Therefore, enzymes of this pathway are attractive targets for the development of non-toxic antimicrobial compounds, herbicides and anti-parasitic agents. The activity of DHQS requires nicotinamide adenine dinucleotide (NAD) as cofactor. A single active site in DHQS catalyzes five sequential reactions involving alcohol oxidation, phosphate elimination, carbonyl reduction, ring opening, and intramolecular aldol
Probab=36.93 E-value=4.4e+02 Score=26.60 Aligned_cols=91 Identities=9% Similarity=0.055 Sum_probs=55.4
Q ss_pred HHHHHHH-cCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCC-CCCChhHHHHHHHHHhcCCc---eEEEE
Q 006918 150 IAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPD-QSVTETDVRNELVKVRMMEA---RVIVV 224 (625)
Q Consensus 150 l~~ll~~-~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~~~~~~l~~i~~~~~---~vIvl 224 (625)
+.+++.. .+.+++.+|++...+ ....+.+.+.+++.|+.+... .++.. ...+.+.+...++.+++.+. +.||-
T Consensus 14 l~~~~~~~~~~~~~livtd~~~~-~~~~~~l~~~L~~~g~~~~~~-~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIa 91 (345)
T cd08195 14 LGELLAKLPKGSKILIVTDENVA-PLYLEKLKAALEAAGFEVEVI-VIPAGEASKSLETLEKLYDALLEAGLDRKSLIIA 91 (345)
T ss_pred HHHHHHhccCCCeEEEEECCchH-HHHHHHHHHHHHhcCCceEEE-EeCCCCCcCCHHHHHHHHHHHHHcCCCCCCeEEE
Confidence 4444443 456889888854433 356778888888887665432 23322 12456778888888877655 77777
Q ss_pred Ecch--hhHHHHHHHHHHcC
Q 006918 225 HGYS--RTGLMVFDVAQRLG 242 (625)
Q Consensus 225 ~~~~--~~~~~il~~a~~~g 242 (625)
.+.+ -++..++......|
T Consensus 92 iGGGsv~D~ak~vA~~~~rg 111 (345)
T cd08195 92 LGGGVVGDLAGFVAATYMRG 111 (345)
T ss_pred ECChHHHhHHHHHHHHHhcC
Confidence 6655 45555555444444
No 402
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=36.85 E-value=4.2e+02 Score=26.02 Aligned_cols=92 Identities=13% Similarity=0.117 Sum_probs=59.2
Q ss_pred CcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEE--cc---Cc---hHHHHHHHHHHHHHcC----
Q 006918 91 DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQ--TA---PN---DLYLMSAIAEMVSYFG---- 158 (625)
Q Consensus 91 ~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r--~~---ps---~~~~~~al~~ll~~~~---- 158 (625)
-++-++||........++.++...++=++....... ...-.+|.| .. |. ...+-.++.++.+.+|
T Consensus 10 ~iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~~d---~~~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~~ 86 (289)
T PRK13010 10 YVLTLACPSAPGIVAAVSGFLAEKGCYIVELTQFDD---DESGRFFMRVSFHAQSAEAASVDTFRQEFQPVAEKFDMQWA 86 (289)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHCCCCEEecccccc---cccCcEEEEEEEEcCCCCCCCHHHHHHHHHHHHHHhCCeEE
Confidence 378889999999999999999998887775433311 112245555 22 22 3455667777777764
Q ss_pred ------CcEEEEEEecCCCCcchHHHHHHHHhccce
Q 006918 159 ------WGEVIAIFNDDDQGRNGVTALGDKLAEIRC 188 (625)
Q Consensus 159 ------W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~ 188 (625)
.++++|+.+.... .++.+.+..++..+
T Consensus 87 i~~~~~~~kiavl~Sg~g~---nl~al~~~~~~~~l 119 (289)
T PRK13010 87 IHPDGQRPKVVIMVSKFDH---CLNDLLYRWRMGEL 119 (289)
T ss_pred EecCCCCeEEEEEEeCCCc---cHHHHHHHHHCCCC
Confidence 4689988876532 46666666665443
No 403
>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=36.82 E-value=1.3e+02 Score=29.68 Aligned_cols=77 Identities=4% Similarity=0.022 Sum_probs=43.6
Q ss_pred EEEEEec---CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHH
Q 006918 162 VIAIFND---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFD 236 (625)
Q Consensus 162 v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~ 236 (625)
|+++..+ +.|.....+.+++.+++.|..+.... .. .+...-...++.+... +.+.||+..........++
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~v~~~~---~~--~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~ 76 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIELEVLY---AE--RDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLR 76 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCeEEEEe---CC--CCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHH
Confidence 4555533 34555666777778888887765432 11 1233344566666666 7887777543323445566
Q ss_pred HHHHcCC
Q 006918 237 VAQRLGM 243 (625)
Q Consensus 237 ~a~~~g~ 243 (625)
.+.+.|+
T Consensus 77 ~~~~~gi 83 (305)
T cd06324 77 LAEGAGV 83 (305)
T ss_pred HHHhCCC
Confidence 6666553
No 404
>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=36.61 E-value=3.5e+02 Score=27.32 Aligned_cols=100 Identities=11% Similarity=0.017 Sum_probs=56.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhc-cceEEEEeeecCCCCCCChhHHHHHHHHHhcC---CceEEE
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIV 223 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIv 223 (625)
..+.++++.++-+++.+|++.... ....+.+.+.+++ .++.+......... .+.+.+...++.+++. +.+.||
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 345566777777899888754332 2456777778876 56554321112222 3566677777777753 478888
Q ss_pred EEcch--hhHHHHHHHHHHcCCCCCCeEEEee
Q 006918 224 VHGYS--RTGLMVFDVAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 224 l~~~~--~~~~~il~~a~~~g~~~~~~~~i~~ 253 (625)
..+.+ -++..++......| ..++-|-+
T Consensus 89 aiGGGsv~D~ak~vA~~~~rg---ip~i~VPT 117 (344)
T cd08169 89 AVGGGATGDVAGFVASTLFRG---IAFIRVPT 117 (344)
T ss_pred EECCcHHHHHHHHHHHHhccC---CcEEEecC
Confidence 76655 34555554443333 34444444
No 405
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=36.58 E-value=2.5e+02 Score=23.72 Aligned_cols=62 Identities=10% Similarity=0.119 Sum_probs=41.5
Q ss_pred chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch----hhHHHHHHHHHHcCC
Q 006918 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVFDVAQRLGM 243 (625)
Q Consensus 174 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~----~~~~~il~~a~~~g~ 243 (625)
...+-+...++..|.+|...-.. ......++..++.++++|.+++.. +.+..++++.++.+.
T Consensus 17 ~g~~iv~~~l~~~GfeVi~lg~~--------~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~ 82 (132)
T TIGR00640 17 RGAKVIATAYADLGFDVDVGPLF--------QTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGR 82 (132)
T ss_pred HHHHHHHHHHHhCCcEEEECCCC--------CCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCC
Confidence 44566777888899998754322 123356677778899999998655 345566666666664
No 406
>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=36.44 E-value=1.6e+02 Score=28.03 Aligned_cols=75 Identities=13% Similarity=0.099 Sum_probs=45.8
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|++|..+ +.|.....+.+.+.+++.|..+..... . .+.......++.+...+.+.|++......... ++.+.
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~-~~~~~ 75 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARERGYQLLIACS---D--DDPETERETVETLIARQVDALIVAGSLPPDDP-YYLCQ 75 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHHCCCEEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCCCchHH-HHHHH
Confidence 4555543 455556677888888888888765321 1 12344456777777888998887654322222 55565
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.+
T Consensus 76 ~~~ 78 (264)
T cd06274 76 KAG 78 (264)
T ss_pred hcC
Confidence 555
No 407
>TIGR03884 sel_bind_Methan selenium-binding protein. This model describes a homopentameric selenium-binding protein with a suggested role in selenium transport and delivery to selenophosphate synthase, the SelD protein. This protein family is closely related to pfam01906, but is shorter because of several deleted regions. It is restricted to the archaeal genus Methanococcus.
Probab=36.36 E-value=1e+02 Score=22.85 Aligned_cols=43 Identities=7% Similarity=0.003 Sum_probs=28.5
Q ss_pred CCCcEEEEE--EecCCCChHHHHHHHHHHHhc-CcEEEEcCCChHH
Q 006918 61 LGGRKLSIT--MHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (625)
Q Consensus 61 L~g~~l~~~--~~D~~~~~~~a~~~~~~l~~~-~v~aviG~~~s~~ 103 (625)
+||++|.+. +--...|+..|.+...+-..+ |..||||-....+
T Consensus 9 i~G~ei~yl~iv~~~~~d~d~Al~eM~e~A~~lGAnAVVGvr~d~s 54 (74)
T TIGR03884 9 IPGLQLYYLGIVSTESDNVDEIVENLREKVKAKGGMGLIAFRITCA 54 (74)
T ss_pred CCCeEEEEEEEEEEecCCHHHHHHHHHHHHHHcCCCEEEEEEEEcC
Confidence 478877542 112223888888888777655 9999999654443
No 408
>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=36.27 E-value=1.5e+02 Score=28.06 Aligned_cols=75 Identities=9% Similarity=0.097 Sum_probs=43.8
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|++|..+ +.+.....+.+.+.+++.|.++..... . .+.......++.+...+.+.||+...... ...++.+.
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 4566643 345556667888888888887754221 1 12334556677777778888877653322 23444454
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.+
T Consensus 76 ~~~ 78 (268)
T cd01575 76 AAG 78 (268)
T ss_pred hcC
Confidence 444
No 409
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=36.20 E-value=1.7e+02 Score=29.60 Aligned_cols=82 Identities=11% Similarity=0.120 Sum_probs=53.1
Q ss_pred HHHHHHHHHcCC-cEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 148 SAIAEMVSYFGW-GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 148 ~al~~ll~~~~W-~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
..+.++++.++. +++.+|++...+. ...+.+.+.+++.| .+... +... .+.+.+...++.+++.+.++||-.+
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~~-~~~~~l~~~l~~~~-~~~~~--~~~~--~t~~~v~~~~~~~~~~~~d~IIaiG 95 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTKK-IAGDRVEENLEDAG-DVEVV--IVDE--ATMEEVEKVEEKAKDVNAGFLIGVG 95 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHHH-HHHHHHHHHHHhcC-CeeEE--eCCC--CCHHHHHHHHHHhhccCCCEEEEeC
Confidence 456677787776 7888887554432 24567777887776 44321 2222 4577788888888888889888766
Q ss_pred ch--hhHHHHH
Q 006918 227 YS--RTGLMVF 235 (625)
Q Consensus 227 ~~--~~~~~il 235 (625)
.+ -++..++
T Consensus 96 GGsv~D~ak~v 106 (350)
T PRK00843 96 GGKVIDVAKLA 106 (350)
T ss_pred CchHHHHHHHH
Confidence 55 3444444
No 410
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=36.14 E-value=77 Score=27.35 Aligned_cols=35 Identities=17% Similarity=0.236 Sum_probs=26.1
Q ss_pred cEEEEEEecCCC-CcchHHHHHHHHhcc-ceEEEEee
Q 006918 160 GEVIAIFNDDDQ-GRNGVTALGDKLAEI-RCKISYKS 194 (625)
Q Consensus 160 ~~v~ii~~d~~~-g~~~~~~l~~~l~~~-g~~v~~~~ 194 (625)
++|-|+|+.|.- -......|.+.|++. |++|....
T Consensus 1 ~kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~ 37 (150)
T PF08357_consen 1 RKVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQ 37 (150)
T ss_pred CeEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecH
Confidence 478899986543 336678899999999 99887654
No 411
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=35.90 E-value=2.9e+02 Score=28.37 Aligned_cols=96 Identities=5% Similarity=-0.025 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHc--CCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEE
Q 006918 146 LMSAIAEMVSYF--GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (625)
Q Consensus 146 ~~~al~~ll~~~--~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIv 223 (625)
.++.+++.+... .-++|.+......-|......+.+.+++.|..+.....|..............+..+.+.+.++ |
T Consensus 127 ~~e~L~~~l~~~~~~g~~vli~~~~~~~~~~~~~~L~~~L~~~G~~V~~~~vY~~~~~~~~~~~~~~~~~l~~~~~d~-v 205 (381)
T PRK07239 127 SSAEVLEYLLEEGVAGKRIAVQLHGATDEWEPLPEFLEALRAAGAEVVPVPVYRWVPPPDPGPLDRLVDAIASRGLDA-V 205 (381)
T ss_pred ccHHHHHHHhcCCCCCCEEEEEcCCCccccCchHHHHHHHHHCCCEEEEeCcEEEcCCCChhHHHHHHHHHHcCCccE-E
Confidence 467777777653 3356655433312222335678899999999887655443220011222344555665545554 4
Q ss_pred EEcchhhHHHHHHHHHHcC
Q 006918 224 VHGYSRTGLMVFDVAQRLG 242 (625)
Q Consensus 224 l~~~~~~~~~il~~a~~~g 242 (625)
++.++..+..+++.+.+.+
T Consensus 206 ~FtS~stv~~f~~~l~~~~ 224 (381)
T PRK07239 206 TFTSAPAVAALLERAREMG 224 (381)
T ss_pred EEcCHHHHHHHHHHHHHcC
Confidence 5566778888888776544
No 412
>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=35.81 E-value=1.8e+02 Score=27.64 Aligned_cols=75 Identities=9% Similarity=0.014 Sum_probs=46.6
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|+++..+ +.|.......+.+.+++.|..+... ... .+...-...++.+...+.+.|++....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~---~~~--~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYSTFVA---NTG--DNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELT 75 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEE---eCC--CCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHH
Confidence 5666653 4566667788888888888876532 111 223445566777777888888876533222 3466666
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.+
T Consensus 76 ~~~ 78 (265)
T cd06285 76 RRG 78 (265)
T ss_pred HcC
Confidence 655
No 413
>PF13362 Toprim_3: Toprim domain
Probab=35.77 E-value=1.2e+02 Score=23.84 Aligned_cols=52 Identities=17% Similarity=0.192 Sum_probs=37.3
Q ss_pred cCCcEEEEEEecCCC--CcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHH
Q 006918 157 FGWGEVIAIFNDDDQ--GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVK 213 (625)
Q Consensus 157 ~~W~~v~ii~~d~~~--g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~ 213 (625)
..+++|.|..++|.. |......+.+.+.+.|..+..... +. ...|+.+.+++
T Consensus 39 ~~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~p-~~----~g~D~ND~l~~ 92 (96)
T PF13362_consen 39 EPGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVEP-GP----EGKDWNDLLQA 92 (96)
T ss_pred CCCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEECC-CC----CCchHHHHHHh
Confidence 367889777777777 888889999999998888765433 12 24577777654
No 414
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=35.72 E-value=88 Score=30.49 Aligned_cols=53 Identities=13% Similarity=0.197 Sum_probs=36.5
Q ss_pred EEecCCCChHHHHHHHHHHHhc--CcEEEEcCCChHHHHHHHHhhhcCCCcEEee
Q 006918 69 TMHDAKFNGFLSIMGALQFMET--DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (625)
Q Consensus 69 ~~~D~~~~~~~a~~~~~~l~~~--~v~aviG~~~s~~~~~va~~~~~~~iP~Is~ 121 (625)
.++|+=|++..--+.+..-+.+ .++.|||+..|+.+..++.++...+.|.+-.
T Consensus 187 ~~~nTIC~aT~~RQ~a~~~La~~vD~miVIGg~~SsNT~kL~eia~~~~~~t~~I 241 (281)
T PF02401_consen 187 PVFNTICYATQNRQEAARELAKEVDAMIVIGGKNSSNTRKLAEIAKEHGKPTYHI 241 (281)
T ss_dssp SCC-S--CHHHHHHHHHHHHHCCSSEEEEES-TT-HHHHHHHHHHHHCTTCEEEE
T ss_pred CCCCCCCHhHHHHHHHHHHHHhhCCEEEEecCCCCccHHHHHHHHHHhCCCEEEe
Confidence 5778888776655555444444 6788899999999999999999998876643
No 415
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=35.16 E-value=54 Score=31.10 Aligned_cols=41 Identities=20% Similarity=0.262 Sum_probs=30.3
Q ss_pred HHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 006918 493 DVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (625)
Q Consensus 493 dl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~ 541 (625)
.+.+.+.+.+|.+ +++... .++..++..+.+|++|+++.+-
T Consensus 18 ~l~~~L~~~~g~~--v~~~~~------~~~~~~~~~l~~g~~D~~~~~~ 58 (243)
T PF12974_consen 18 PLADYLSKQLGVP--VELVPA------DDYAEFIEALRSGEIDLAFMGP 58 (243)
T ss_dssp HHHHHHHHHHTSE--EEEE--------SSHHHHHHHHHTTS-SEEE--H
T ss_pred HHHHHHHHHhCCC--EEEEEc------CCHHHHHHHHHcCCccEEEECc
Confidence 6788889999988 666654 4599999999999999997643
No 416
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=34.82 E-value=2.9e+02 Score=26.66 Aligned_cols=60 Identities=17% Similarity=0.168 Sum_probs=39.2
Q ss_pred CCCcEEEEEEecCCC------ChHHHHHHHH----HHHhcCcEEEEcCCChHHHHHHHHhhhcCCCcEEee
Q 006918 61 LGGRKLSITMHDAKF------NGFLSIMGAL----QFMETDTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (625)
Q Consensus 61 L~g~~l~~~~~D~~~------~~~~a~~~~~----~l~~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~ 121 (625)
||+..+-| +.|+.. ++..-.+.+. .++.+++.++|=.-++.++.++..+=+.+.+|+|..
T Consensus 28 LP~e~~iY-~~D~a~~PYG~ks~e~I~~~~~~i~~~l~~~~ik~lVIACNTASa~al~~LR~~~~iPVvGv 97 (269)
T COG0796 28 LPDEDIIY-VGDTARFPYGEKSEEEIRERTLEIVDFLLERGIKALVIACNTASAVALEDLREKFDIPVVGV 97 (269)
T ss_pred CCCCcEEE-EecCCCCCCCCCCHHHHHHHHHHHHHHHHHcCCCEEEEecchHHHHHHHHHHHhCCCCEEEe
Confidence 57777766 345542 2233333332 334457877777677788888888888999999964
No 417
>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=34.65 E-value=1.4e+02 Score=28.49 Aligned_cols=75 Identities=9% Similarity=0.054 Sum_probs=44.1
Q ss_pred EEEEEe-cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHHHH
Q 006918 162 VIAIFN-DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~-d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~ 239 (625)
|++|.. .+.|.......+.+.+++.|..+.... +.. .+...-...++.+...+.+.+|+.... ......++++.
T Consensus 2 i~~v~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~--~~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~ 77 (271)
T cd06314 2 IAVVTNGASPFWKIAEAGVKAAGKELGVDVEFVV--PQQ--GTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAA 77 (271)
T ss_pred eEEEcCCCcHHHHHHHHHHHHHHHHcCCeEEEeC--CCC--CCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHh
Confidence 455543 344556667788888888888766431 111 123344566777777788877776433 22345666665
Q ss_pred H
Q 006918 240 R 240 (625)
Q Consensus 240 ~ 240 (625)
+
T Consensus 78 ~ 78 (271)
T cd06314 78 A 78 (271)
T ss_pred c
Confidence 4
No 418
>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=34.64 E-value=2.4e+02 Score=28.01 Aligned_cols=78 Identities=19% Similarity=0.193 Sum_probs=51.7
Q ss_pred cCCcEEEEEEecCC--CCc---chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hh
Q 006918 157 FGWGEVIAIFNDDD--QGR---NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RT 230 (625)
Q Consensus 157 ~~W~~v~ii~~d~~--~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~ 230 (625)
|.-.++++|...++ .|. .....+...+++.|.++.....++.+ ...+...++++.+.++++||+.+.. ..
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 34458888876442 222 23557788888999998877777644 7778888888776668988886554 33
Q ss_pred HHHHHHHH
Q 006918 231 GLMVFDVA 238 (625)
Q Consensus 231 ~~~il~~a 238 (625)
-..+..++
T Consensus 233 ~~D~tp~A 240 (312)
T cd03522 233 PDDVTPAA 240 (312)
T ss_pred CcchHHHH
Confidence 34444444
No 419
>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=34.59 E-value=1.9e+02 Score=27.34 Aligned_cols=75 Identities=8% Similarity=0.061 Sum_probs=44.6
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|++|.. ++.|.....+.+.+.+++.|+.+.... .. .+.......++.+...+.+.|++....... ..++++.
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~~dgiii~~~~~~~-~~l~~~~ 75 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAHGYQVLVCN---SD--NDPEKEKEYLESLLAYQVDGLIVNPTGNNK-ELYQRLA 75 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEc---CC--CCHHHHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHh
Confidence 455554 345666677888888888888775321 11 123444566777777788888776543222 2355555
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.+
T Consensus 76 ~~~ 78 (267)
T cd06283 76 KNG 78 (267)
T ss_pred cCC
Confidence 544
No 420
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=34.49 E-value=1.8e+02 Score=29.07 Aligned_cols=84 Identities=17% Similarity=0.087 Sum_probs=54.4
Q ss_pred CceEEEEecCCCCccccEEeeCCcceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEee
Q 006918 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (625)
Q Consensus 461 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~ 540 (625)
.++++||+... -...+-.++++.+.+... .+++++.. +..+.++..|.+|++|+++..
T Consensus 92 ~g~lrIg~~~~--------------~~~~~l~~~l~~f~~~~P-~v~i~l~~-------~~~~~~~~~l~~g~~Dl~i~~ 149 (327)
T PRK12680 92 QGQLTLTTTHT--------------QARFVLPPAVAQIKQAYP-QVSVHLQQ-------AAESAALDLLGQGDADIAIVS 149 (327)
T ss_pred ceEEEEEecch--------------hHHHhhHHHHHHHHHHCC-CcEEEEEe-------CChHHHHHHHHCCCCcEEEEe
Confidence 36799999521 112345577888877664 23366666 558999999999999999853
Q ss_pred eeeecccccceEecccccccceEEEEecC
Q 006918 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (625)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~l~~~~ 569 (625)
-.. ....... ..|++...+.++++..
T Consensus 150 ~~~--~~~~~~~-~~~l~~~~~~l~~~~~ 175 (327)
T PRK12680 150 TAG--GEPSAGI-AVPLYRWRRLVVVPRG 175 (327)
T ss_pred cCC--CCCCcce-EEEeeccceEEEEeCC
Confidence 211 1112223 4678888888887654
No 421
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=34.41 E-value=2.8e+02 Score=27.46 Aligned_cols=54 Identities=19% Similarity=0.203 Sum_probs=33.8
Q ss_pred CcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH---HHHhhhcCCCcEEe
Q 006918 63 GRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV---LSHLANELQVPLLS 120 (625)
Q Consensus 63 g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~---va~~~~~~~iP~Is 120 (625)
|.++.-....+-.+.. .+.+.+.+++.+|.+|.+.....+ +...+...+||+|.
T Consensus 188 Gl~vve~~v~~~ndi~----~a~~~l~g~~d~i~~p~dn~i~s~~~~l~~~a~~~kiPli~ 244 (322)
T COG2984 188 GLEVVEAAVTSVNDIP----RAVQALLGKVDVIYIPTDNLIVSAIESLLQVANKAKIPLIA 244 (322)
T ss_pred CCEEEEEecCcccccH----HHHHHhcCCCcEEEEecchHHHHHHHHHHHHHHHhCCCeec
Confidence 4555444443333333 334444578999999998765544 44556789999996
No 422
>PRK04284 ornithine carbamoyltransferase; Provisional
Probab=34.24 E-value=5e+02 Score=26.12 Aligned_cols=134 Identities=16% Similarity=0.080 Sum_probs=76.3
Q ss_pred EEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
-.++.+|...+ .+.+..|+.|+.++ +|..+.+...++.-.-.+.++-+.+.++.-+.+|+--.. ....
T Consensus 46 k~l~~lF~epS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~ss~~kgEsl~DTarvls~y~D~iviR~~--~~~~ 113 (332)
T PRK04284 46 KNIALIFEKDS---TRTRCAFEVAAYDQ-------GAHVTYLGPTGSQMGKKESTKDTARVLGGMYDGIEYRGF--SQRT 113 (332)
T ss_pred CEEEEEecCCC---hhHHHHHHHHHHHc-------CCeEEEcCCccccCCCCcCHHHHHHHHHHhCCEEEEecC--chHH
Confidence 34777887765 37789999999985 344443322223222234444455555554555553222 2334
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHH---HHH-cC-C--cEEEEEEecCCCCcchHHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM---VSY-FG-W--GEVIAIFNDDDQGRNGVTAL 179 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~l---l~~-~~-W--~~v~ii~~d~~~g~~~~~~l 179 (625)
+..+++...+|+|.- .+ +...| .++++++ .++ +| + .+|+++.+ . .. .....+
T Consensus 114 ~~~~a~~s~vPVINa--~~----~~~HP------------tQaL~Dl~Ti~e~~~g~l~g~kia~vGD-~-~~-~v~~Sl 172 (332)
T PRK04284 114 VETLAEYSGVPVWNG--LT----DEDHP------------TQVLADFLTAKEHLKKPYKDIKFTYVGD-G-RN-NVANAL 172 (332)
T ss_pred HHHHHHhCCCCEEEC--CC----CCCCh------------HHHHHHHHHHHHHhcCCcCCcEEEEecC-C-Cc-chHHHH
Confidence 566677788999972 11 22233 2455555 355 34 3 47777753 2 12 366777
Q ss_pred HHHHhccceEEEEe
Q 006918 180 GDKLAEIRCKISYK 193 (625)
Q Consensus 180 ~~~l~~~g~~v~~~ 193 (625)
...+...|.++...
T Consensus 173 ~~~~~~~g~~v~~~ 186 (332)
T PRK04284 173 MQGAAIMGMDFHLV 186 (332)
T ss_pred HHHHHHcCCEEEEE
Confidence 77788888887653
No 423
>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=34.24 E-value=1.9e+02 Score=27.55 Aligned_cols=77 Identities=9% Similarity=-0.024 Sum_probs=45.8
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-h---hHHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-R---TGLMVF 235 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~---~~~~il 235 (625)
|++|.. ++.|.....+.+.+.+++.|..+.... .. .+.+.....++.+...+.+.||+.... . .....+
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~--~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i 76 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQYGYTVLLCN---TY--RGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHY 76 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHCCCEEEEEe---CC--CChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHH
Confidence 455554 345666777888888888888775422 11 123445566777777888887775421 1 122345
Q ss_pred HHHHHcCC
Q 006918 236 DVAQRLGM 243 (625)
Q Consensus 236 ~~a~~~g~ 243 (625)
.++.+.|+
T Consensus 77 ~~~~~~~i 84 (273)
T cd06292 77 ERLAERGL 84 (273)
T ss_pred HHHHhCCC
Confidence 55555553
No 424
>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=34.22 E-value=2.6e+02 Score=27.71 Aligned_cols=79 Identities=8% Similarity=0.015 Sum_probs=48.5
Q ss_pred CcEEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHH
Q 006918 159 WGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (625)
Q Consensus 159 W~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~ 236 (625)
-+.|+++..+ +.|.....+.+.+.+++.|..+..... . .+.......++.+...+.+.||+..........++
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~-~----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 134 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACS-D----DNPDQEKVVIENLLARQVDALIVASCMPPEDAYYQ 134 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC-C----CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHH
Confidence 3578888763 456666788888888899988764321 1 12333445667777778888777643321234455
Q ss_pred HHHHcC
Q 006918 237 VAQRLG 242 (625)
Q Consensus 237 ~a~~~g 242 (625)
.+.+.+
T Consensus 135 ~l~~~~ 140 (327)
T TIGR02417 135 KLQNEG 140 (327)
T ss_pred HHHhcC
Confidence 555544
No 425
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=34.16 E-value=1.1e+02 Score=29.14 Aligned_cols=48 Identities=17% Similarity=0.297 Sum_probs=39.5
Q ss_pred chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 174 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
...+.|.+.|.+.|+.+.....+... .+++.+.++.+.+. +|+||+.+
T Consensus 21 tNa~~la~~L~~~G~~v~~~~~VgD~----~~~I~~~l~~a~~r-~D~vI~tG 68 (255)
T COG1058 21 TNAAFLADELTELGVDLARITTVGDN----PDRIVEALREASER-ADVVITTG 68 (255)
T ss_pred chHHHHHHHHHhcCceEEEEEecCCC----HHHHHHHHHHHHhC-CCEEEECC
Confidence 35788999999999999988888754 78888888888766 99888854
No 426
>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=33.98 E-value=2.6e+02 Score=22.79 Aligned_cols=82 Identities=12% Similarity=0.135 Sum_probs=42.1
Q ss_pred HHHHcCCcEEEEEEecCC-CCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhH
Q 006918 153 MVSYFGWGEVIAIFNDDD-QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTG 231 (625)
Q Consensus 153 ll~~~~W~~v~ii~~d~~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~ 231 (625)
-++..|.+.|.-+-.|.+ .+....+.+.+.+++.|+...+. .+... ..+..++....+.+......|.+.|-++..+
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 356689999977766643 34445667888999999986642 22222 1345566666556665544555555555555
Q ss_pred HHHHH
Q 006918 232 LMVFD 236 (625)
Q Consensus 232 ~~il~ 236 (625)
..+..
T Consensus 100 ~~l~~ 104 (110)
T PF04273_consen 100 SALWA 104 (110)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 55543
No 427
>cd08429 PBP2_NhaR The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold. NhaR is a positive regulator of the LysR family and is known to be an activator of the nhaA gene encoding a Na(+)/H(+) antiporter. In Escherichia coli, NhaA is the vital antiporter that protects against high sodium stress, and it is essential for growth in high sodium levels, while NhaB becomes essential only if NhaA is not available. The nhaA gene of nhaAR operon is induced by monovalent cations. The nhaR of the operon activates nhaAR, as well as the osmC transcription which is induced at elevated osmolarity. OsmC is transcribed from the two overlapping promoters (osmCp1 and osmP2) and that NhaR is shown to activate only the expression of osmCp1. NhaR also activates the transcription of the pgaABCD operon which is required for production of the biofilm adhesion, poly-beta-1,6-N-acetyl-d-glucosamine
Probab=33.91 E-value=1.7e+02 Score=26.31 Aligned_cols=70 Identities=11% Similarity=0.118 Sum_probs=42.6
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEe
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAP 567 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~ 567 (625)
.+-.++++.+.+... .+++++.. ++.+.++..|.+|++|+++.......+-...+. ..|.....+.++.+
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~~-~~~l~~~~~~~~~~ 82 (204)
T cd08429 13 SIAYRLLEPAMDLHE-PIRLVCRE-------GKLEQLLADLALHRLDMVLADRPMPSSLDVKGY-SHRLGECGVSFFAA 82 (204)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEecCCCccccchhee-eccccccceEEEec
Confidence 445677777777653 33466665 669999999999999999853322111001112 33666666666554
No 428
>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=33.90 E-value=1.7e+02 Score=27.70 Aligned_cols=75 Identities=11% Similarity=0.002 Sum_probs=39.7
Q ss_pred EEEEEec------CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHH
Q 006918 162 VIAIFND------DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVF 235 (625)
Q Consensus 162 v~ii~~d------~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il 235 (625)
|++|..+ +.|.....+.+.+.+++.|+.+..... . . .........+.+...+.+.||+....... ..+
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~-~---~~~~~~~~~~~~~~~~vdgiii~~~~~~~-~~~ 75 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAEHGYDLVLLPV-D-P---DEDPLEVYRRLVESGLVDGVIISRTRPDD-PRV 75 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHHCCceEEEecC-C-C---cHHHHHHHHHHHHcCCCCEEEEecCCCCC-hHH
Confidence 4555544 566667778888888888887764321 1 1 12222223333444567877775432221 224
Q ss_pred HHHHHcC
Q 006918 236 DVAQRLG 242 (625)
Q Consensus 236 ~~a~~~g 242 (625)
+.+.+.+
T Consensus 76 ~~~~~~~ 82 (268)
T cd06271 76 ALLLERG 82 (268)
T ss_pred HHHHhcC
Confidence 4455444
No 429
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=33.56 E-value=1.6e+02 Score=28.21 Aligned_cols=80 Identities=8% Similarity=-0.034 Sum_probs=47.3
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeec-CCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHH
Q 006918 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSAL-PPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFD 236 (625)
Q Consensus 161 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~-~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~ 236 (625)
+|+++..+ +.|.....+.+.+.+++.|.++...... ... .+.......++.+.. +.+.|++.... ......++
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~ 77 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDARIRVRIHFVES--FDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVA 77 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhccCceEEEEEccC--CCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHH
Confidence 46777754 3455567778888888887543322211 111 123344566777776 88988876543 33346677
Q ss_pred HHHHcCC
Q 006918 237 VAQRLGM 243 (625)
Q Consensus 237 ~a~~~g~ 243 (625)
++.+.|.
T Consensus 78 ~~~~~~i 84 (275)
T cd06307 78 RLAAAGV 84 (275)
T ss_pred HHHHCCC
Confidence 7777653
No 430
>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=33.54 E-value=2.1e+02 Score=24.98 Aligned_cols=69 Identities=12% Similarity=0.070 Sum_probs=45.8
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.+... ++++++.. ++...+...+.+|++|+++... ......+++ .++....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~~~-~~l~~~~~~~~~~~ 80 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHE-------MSSAEQIEALLRGELDLGFVHS---RRLPAGLSA-RLLHREPFVCCLPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCcceEEEeC---CCCCcCceE-EEEecCcEEEEeeC
Confidence 445677888877663 23366665 5588999999999999997532 222333433 46677777777654
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 81 ~ 81 (197)
T cd08448 81 G 81 (197)
T ss_pred C
Confidence 3
No 431
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=33.40 E-value=1.7e+02 Score=27.97 Aligned_cols=86 Identities=14% Similarity=0.091 Sum_probs=48.4
Q ss_pred HHHHHHHHH--HHHc---CCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCc
Q 006918 145 YLMSAIAEM--VSYF---GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEA 219 (625)
Q Consensus 145 ~~~~al~~l--l~~~---~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~ 219 (625)
..++.++++ +... .-.+|.++..+ .....+.+.+++.|..|.....|... ............++....
T Consensus 111 ~~se~Ll~~~~l~~~~~~~~~~vLi~rg~-----~~r~~L~~~L~~~G~~v~~~~vY~~~--~~~~~~~~~~~~~~~~~~ 183 (255)
T PRK05752 111 DDSEALLALPALRQALAVPDPRVLIMRGE-----GGRELLAERLREQGASVDYLELYRRC--LPDYPAGTLLQRVEAERL 183 (255)
T ss_pred CCcHHHHhChhhhccccCCCCEEEEEccC-----ccHHHHHHHHHHCCCEEeEEEEEeec--CCCCCHHHHHHHHHhCCC
Confidence 345666665 3332 33566655533 35677899999999988766555422 111122334445555556
Q ss_pred eEEEEEcchhhHHHHHHHH
Q 006918 220 RVIVVHGYSRTGLMVFDVA 238 (625)
Q Consensus 220 ~vIvl~~~~~~~~~il~~a 238 (625)
++|++ .+++.+..+++..
T Consensus 184 d~v~f-tS~~~~~~~~~~~ 201 (255)
T PRK05752 184 NGLVV-SSGQGFEHLQQLA 201 (255)
T ss_pred CEEEE-CCHHHHHHHHHHh
Confidence 65554 4666777776544
No 432
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=33.35 E-value=46 Score=28.74 Aligned_cols=58 Identities=16% Similarity=0.261 Sum_probs=35.2
Q ss_pred ccccceEecccccccceEEEEecCCCCcCcchhccCccHHHHHHHHHHHHHHHHHHHhhhcc
Q 006918 546 NRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHR 607 (625)
Q Consensus 546 ~R~~~vdfs~p~~~~~~~~l~~~~~~~~~~~~~l~pf~~~vW~~~~~~~~~~~~~~~~~~~~ 607 (625)
...+...|+..|.... .........-..--.|.++.+|++|+++++++++++|.+.|.
T Consensus 85 ~~~k~~LFs~~y~~~~----~~~~~s~~~~~~~~~~~~~~i~~~i~g~ll~i~~giy~~~r~ 142 (145)
T PF10661_consen 85 KETKDSLFSSDYQVKA----DEVASSPNTENKTKKPISPTILLSIGGILLAICGGIYVVLRK 142 (145)
T ss_pred HHHHHHhhccccccch----hhhhcchhhhhhhccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456778887764443 111110001112235777788888888889999999988764
No 433
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=33.30 E-value=1.7e+02 Score=27.29 Aligned_cols=70 Identities=13% Similarity=0.027 Sum_probs=31.3
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
.+.+.+.+++.+ |-.+...|-+.......+....++.|++.. .|.- ..+-..+++++-+.+-+++|+..
T Consensus 74 ~~~l~~~l~~~~---v~~vv~GdI~~~~~r~~~e~vc~~lGl~~~----~PLW----~~d~~~ll~e~i~~Gf~aiIv~V 142 (218)
T PF01902_consen 74 VEDLKEALKELK---VEAVVFGDIDSEYQRNWVERVCERLGLEAV----FPLW----GRDREELLREFIESGFEAIIVKV 142 (218)
T ss_dssp HHHHHHHHCTC-----SEEE--TTS-HHHHHHHHHHHHHCT-EEE-----TTT----T--HHHHHHHHHHTT-EEEEEEE
T ss_pred hHHHHHHHHHcC---CCEEEECcCCcHHHHHHHHHHHHHcCCEEE----eccc----CCCHHHHHHHHHHCCCeEEEEEE
Confidence 345555555555 222223333334445556666666666554 2332 23444556666666666666554
Q ss_pred c
Q 006918 227 Y 227 (625)
Q Consensus 227 ~ 227 (625)
.
T Consensus 143 ~ 143 (218)
T PF01902_consen 143 D 143 (218)
T ss_dssp E
T ss_pred e
Confidence 4
No 434
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=33.17 E-value=4.2e+02 Score=25.45 Aligned_cols=88 Identities=11% Similarity=0.091 Sum_probs=55.3
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
...++......|-.-++++++ ..|.....+.+...-+..++.+.....+- +. -++.+.+..+++.|++..
T Consensus 70 ~~~~a~~y~~~GA~aiSVlTe-~~~F~Gs~~dL~~v~~~~~~PvL~KDFIi-------d~--~QI~eA~~~GADaVLLI~ 139 (254)
T PF00218_consen 70 PAEIAKAYEEAGAAAISVLTE-PKFFGGSLEDLRAVRKAVDLPVLRKDFII-------DP--YQIYEARAAGADAVLLIA 139 (254)
T ss_dssp HHHHHHHHHHTT-SEEEEE---SCCCHHHHHHHHHHHHHSSS-EEEES----------SH--HHHHHHHHTT-SEEEEEG
T ss_pred HHHHHHHHHhcCCCEEEEECC-CCCCCCCHHHHHHHHHHhCCCcccccCCC-------CH--HHHHHHHHcCCCEeehhH
Confidence 355667777889999998884 45555677777776666666665432221 11 245566778999988864
Q ss_pred c---hhhHHHHHHHHHHcCCC
Q 006918 227 Y---SRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 227 ~---~~~~~~il~~a~~~g~~ 244 (625)
. .+....++..|..+||.
T Consensus 140 ~~L~~~~l~~l~~~a~~lGle 160 (254)
T PF00218_consen 140 AILSDDQLEELLELAHSLGLE 160 (254)
T ss_dssp GGSGHHHHHHHHHHHHHTT-E
T ss_pred HhCCHHHHHHHHHHHHHcCCC
Confidence 4 35668999999999985
No 435
>PRK13808 adenylate kinase; Provisional
Probab=33.15 E-value=2e+02 Score=28.86 Aligned_cols=29 Identities=24% Similarity=0.316 Sum_probs=25.0
Q ss_pred EEEEcCCChHHHHHHHHhhhcCCCcEEee
Q 006918 93 LAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (625)
Q Consensus 93 ~aviG~~~s~~~~~va~~~~~~~iP~Is~ 121 (625)
+.|+||.+|.-+.....++..+++++|+.
T Consensus 3 Iiv~GpPGSGK~T~a~~LA~~ygl~~is~ 31 (333)
T PRK13808 3 LILLGPPGAGKGTQAQRLVQQYGIVQLST 31 (333)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCceecc
Confidence 57899999988877788899999999974
No 436
>PRK01215 competence damage-inducible protein A; Provisional
Probab=33.03 E-value=4.5e+02 Score=25.41 Aligned_cols=64 Identities=14% Similarity=0.129 Sum_probs=42.8
Q ss_pred cEEEEEEecCC--CCc---chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 006918 160 GEVIAIFNDDD--QGR---NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (625)
Q Consensus 160 ~~v~ii~~d~~--~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 228 (625)
.+++||...++ .|. .....+.+.+.+.|+.+.....++.+ ..++...++++.+ ..|+||+.+..
T Consensus 4 ~~v~Ii~~GdEll~G~i~dtn~~~l~~~L~~~G~~v~~~~~v~Dd----~~~I~~~l~~a~~-~~DlVIttGG~ 72 (264)
T PRK01215 4 WFAWIITIGNELLIGRTVNTNASWIARRLTYLGYTVRRITVVMDD----IEEIVSAFREAID-RADVVVSTGGL 72 (264)
T ss_pred CEEEEEEEChhccCCeEEEhhHHHHHHHHHHCCCeEEEEEEeCCC----HHHHHHHHHHHhc-CCCEEEEeCCC
Confidence 35666655443 233 23567888888999998877667644 7778888887765 46888876443
No 437
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=33.01 E-value=3.6e+02 Score=25.99 Aligned_cols=87 Identities=15% Similarity=0.093 Sum_probs=57.6
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
..++......|-.-+.++++...| ....+.+...-+...+.|.....+ .+.+ ++......+++.|.+.+.
T Consensus 73 ~~~A~~~~~~GA~aisvlte~~~f-~g~~~~l~~v~~~v~iPvl~kdfi-------~~~~--qi~~a~~~GAD~VlLi~~ 142 (260)
T PRK00278 73 VEIAKAYEAGGAACLSVLTDERFF-QGSLEYLRAARAAVSLPVLRKDFI-------IDPY--QIYEARAAGADAILLIVA 142 (260)
T ss_pred HHHHHHHHhCCCeEEEEecccccC-CCCHHHHHHHHHhcCCCEEeeeec-------CCHH--HHHHHHHcCCCEEEEEec
Confidence 466677777888888888755444 344666665544445665532211 1122 577778889999988754
Q ss_pred h---hhHHHHHHHHHHcCCC
Q 006918 228 S---RTGLMVFDVAQRLGMM 244 (625)
Q Consensus 228 ~---~~~~~il~~a~~~g~~ 244 (625)
. .....+++.++++||.
T Consensus 143 ~l~~~~l~~li~~a~~lGl~ 162 (260)
T PRK00278 143 ALDDEQLKELLDYAHSLGLD 162 (260)
T ss_pred cCCHHHHHHHHHHHHHcCCe
Confidence 4 5788999999998864
No 438
>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=32.99 E-value=1.1e+02 Score=29.86 Aligned_cols=65 Identities=6% Similarity=-0.007 Sum_probs=44.9
Q ss_pred cEEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh
Q 006918 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT 230 (625)
Q Consensus 160 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~ 230 (625)
+.+++|..+ +.|.......+.+.+++.|..+.....-. ..+....++.+.+.+.+-||+.+...+
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~~------~~~~e~~i~~l~~~~vDGiI~~s~~~~ 68 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTGD------DEEKEEYIELLLQRRVDGIILASSEND 68 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEETT------THHHHHHHHHHHHTTSSEEEEESSSCT
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCCC------chHHHHHHHHHHhcCCCEEEEecccCC
Confidence 367888875 45566778888899999998876533222 223337788888888998888866555
No 439
>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=32.97 E-value=2.1e+02 Score=25.22 Aligned_cols=72 Identities=15% Similarity=0.173 Sum_probs=43.8
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.+... .+++++.. +....+...|.+|++|+++..-....+....++ +.|.....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~~-~~~l~~~~~~~v~~~ 83 (200)
T cd08453 13 SVLPELVRRFREAYP-DVELQLRE-------ATSDVQLEALLAGEIDAGIVIPPPGASAPPALA-YRPLLSEPLVLAVPA 83 (200)
T ss_pred HHHHHHHHHHHHhCC-CceEEEEe-------CCHHHHHHHHHcCCCCEEEEecCcccCCCccee-EEEeeeCceEEEEEC
Confidence 344577777776652 23366665 447789999999999999853221111122233 345666677777654
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 84 ~ 84 (200)
T cd08453 84 A 84 (200)
T ss_pred C
Confidence 3
No 440
>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=32.96 E-value=1.7e+02 Score=25.75 Aligned_cols=69 Identities=17% Similarity=0.264 Sum_probs=44.7
Q ss_pred eeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEecC
Q 006918 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (625)
Q Consensus 490 ~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~ 569 (625)
+-.++++++.++.. .+++++.. ++.+.+...+.+|++|+++...... ....+ -+.+.+...+.++++..
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 45577888877763 23366665 4578899999999999998643221 12223 23567777777777543
No 441
>PRK10386 curli assembly protein CsgE; Provisional
Probab=32.89 E-value=1.2e+02 Score=25.41 Aligned_cols=47 Identities=11% Similarity=-0.050 Sum_probs=24.8
Q ss_pred CcchhhHHHHHhhhcccccccCCCceEEEEEEee-cC-CCCchhHHHHHH
Q 006918 1 MNLWWLVSIFSFCIGTAIQGALKPEVLNVGAIFS-FG-TVNGQVSRIAMK 48 (625)
Q Consensus 1 m~~~~~l~~~~~~l~~~~~~~~~~~~i~IG~l~~-~~-~~~g~~~~~a~~ 48 (625)
|++++..++|.++++++.+. .+++++-|+|+.= .+ +..|...-..+-
T Consensus 1 ~~r~~~~~l~~~~l~~~~~~-~a~~eiEi~GLIiD~T~Tr~G~DFY~~Fs 49 (130)
T PRK10386 1 MKRYLRWIVAAELLFAAGNL-HAAVEVEVPGLLTDHTVSSIGHDFYRAFS 49 (130)
T ss_pred ChhHHHHHHHHHHHHhCccc-cccccccccceEeccccccccHhHHHHHH
Confidence 78877666655555332222 2335666655544 43 455655544443
No 442
>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=32.71 E-value=1.7e+02 Score=25.80 Aligned_cols=69 Identities=14% Similarity=0.151 Sum_probs=44.2
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++.++.++.. .+++++.. +.+..+...+.+|++|+++..... ....+. +.++....+.++++.
T Consensus 14 ~~l~~~i~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08446 14 DTVPRLLRAFLTARP-DVTVSLHN-------MTKDEQIEALRAGRIHIGFGRFYP---VEPDIA-VENVAQERLYLAVPK 81 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEee-------CCHHHHHHHHHCCCccEEEEecCC---CCCCce-eEEeeeccEEEEEeC
Confidence 344577788877663 33466665 568889999999999999853221 222222 345666677777654
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 82 ~ 82 (198)
T cd08446 82 S 82 (198)
T ss_pred C
Confidence 3
No 443
>TIGR01357 aroB 3-dehydroquinate synthase. This model represents 3-dehydroquinate synthase, the enzyme catalyzing the second of seven steps in the shikimate pathway of chorismate biosynthesis. Chorismate is the last common intermediate in the biosynthesis of all three aromatic amino acids.
Probab=32.60 E-value=4.2e+02 Score=26.73 Aligned_cols=89 Identities=11% Similarity=0.046 Sum_probs=52.4
Q ss_pred HHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCC-CCCChhHHHHHHHHHhcCCc---eEEEEE
Q 006918 150 IAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPD-QSVTETDVRNELVKVRMMEA---RVIVVH 225 (625)
Q Consensus 150 l~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~~~~~~l~~i~~~~~---~vIvl~ 225 (625)
+.+.++. .+++.+|++...+ ....+.+.+.+++.|+.+... .++.. ...+.+.+...++.+++.+. +.||-.
T Consensus 13 l~~~l~~--~~~~livtd~~~~-~~~~~~v~~~L~~~g~~~~~~-~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIav 88 (344)
T TIGR01357 13 LVEELAE--PSKLVIITDETVA-DLYADKLLEALQALGYNVLKL-TVPDGEESKSLETVQRLYDQLLEAGLDRSSTIIAL 88 (344)
T ss_pred HHHHhhc--CCeEEEEECCchH-HHHHHHHHHHHHhcCCceeEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEE
Confidence 4455555 3889888854433 335677888888888765322 13221 12346677777888876554 777776
Q ss_pred cch--hhHHHHHHHHHHcC
Q 006918 226 GYS--RTGLMVFDVAQRLG 242 (625)
Q Consensus 226 ~~~--~~~~~il~~a~~~g 242 (625)
+.+ -++..++......+
T Consensus 89 GGGsv~D~aK~iA~~~~~~ 107 (344)
T TIGR01357 89 GGGVVGDLAGFVAATYMRG 107 (344)
T ss_pred cChHHHHHHHHHHHHHccC
Confidence 655 34555554434333
No 444
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=32.57 E-value=41 Score=31.57 Aligned_cols=94 Identities=12% Similarity=0.100 Sum_probs=55.1
Q ss_pred cceeeeeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEee-ee------eecccccceEeccc
Q 006918 484 TDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD-IA------IVTNRTKAVDFTQP 556 (625)
Q Consensus 484 ~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~-~~------~t~~R~~~vdfs~p 556 (625)
+-+++|+.--|.+.+.+ .+..+.+-+.. | -..-++.|.+|++|+|+.+ ++ -..+.+-.++|..-
T Consensus 23 Sr~YEGLATGl~~~f~~-~~ip~~~aymR-------G-a~~Rie~l~~g~yDfaVvS~lAA~~~i~~~~~l~i~~~fG~~ 93 (232)
T PF14503_consen 23 SRRYEGLATGLYEQFEE-SGIPLNFAYMR-------G-AENRIEALKNGRYDFAVVSKLAAEHYIEEGEDLEIVLEFGPG 93 (232)
T ss_dssp SHHHHHHHHHHHCTTT---TS-EEEEE-S---------HHHHHHHHHTTS-SEEEEEHHHHCCCCCC-SSEEEEEE--TT
T ss_pred hhhhHHHHHHHHHHhcc-CCCceEEEeec-------c-chHHHHHHHhCCcceEeehHHHHHHHHhhccCeEEEEeeCCC
Confidence 35788998888777765 66665466655 3 5778899999999999977 22 23445567889887
Q ss_pred ccccceEEEEecCCCC---cCcchhccCccHHH
Q 006918 557 YIESGLVVVAPVRKLN---SSAWAFLRPFTPLM 586 (625)
Q Consensus 557 ~~~~~~~~l~~~~~~~---~~~~~~l~pf~~~v 586 (625)
-+.+.-.++++.+... .....=++|.|.+=
T Consensus 94 sYvs~Hvli~~~~~~~~i~dGmRVGiD~~S~Dq 126 (232)
T PF14503_consen 94 SYVSEHVLIFRDGEKKEIEDGMRVGIDPSSIDQ 126 (232)
T ss_dssp SSS--EEEEEETT-GGG-----EEEE-TT-HHH
T ss_pred CcccceEEEEecCCccceeeeeEeecCCCCccH
Confidence 7777888888776622 22445567777743
No 445
>PLN02342 ornithine carbamoyltransferase
Probab=32.20 E-value=5.5e+02 Score=26.01 Aligned_cols=132 Identities=14% Similarity=0.117 Sum_probs=73.7
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~v 107 (625)
.++.+|...+ ...+.+|+.|+.++ +|..+.+...++.-.-.+.++-+.+.++.-+++|+-=.. ....+
T Consensus 87 ~va~lF~epS---TRTR~SFE~A~~~L-------Gg~~i~l~~~~ss~~kGESl~DTarvLs~y~D~IviR~~--~~~~~ 154 (348)
T PLN02342 87 SMAMIFTKPS---MRTRVSFETGFFLL-------GGHALYLGPDDIQLGKREETRDIARVLSRYNDIIMARVF--AHQDV 154 (348)
T ss_pred EEEEEecCCC---cchHHHHHHHHHHc-------CCcEEEeCcccccCCCCcCHHHHHHHHHHhCCEEEEeCC--ChHHH
Confidence 4666777654 36788888888875 355555533333322233444445555554555553111 22234
Q ss_pred HHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH---HHcC---CcEEEEEEecCCCCcchHHHHHH
Q 006918 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFG---WGEVIAIFNDDDQGRNGVTALGD 181 (625)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll---~~~~---W~~v~ii~~d~~~g~~~~~~l~~ 181 (625)
..+++...+|+|.-+ + +...| .+++++++ +++| -.+|+++.+ . ......+..
T Consensus 155 ~~la~~~~vPVINA~--~----~~~HP------------tQaLaDl~Ti~e~~G~l~glkva~vGD-~---~nva~Sli~ 212 (348)
T PLN02342 155 LDLAEYSSVPVINGL--T----DYNHP------------CQIMADALTIIEHIGRLEGTKVVYVGD-G---NNIVHSWLL 212 (348)
T ss_pred HHHHHhCCCCEEECC--C----CCCCh------------HHHHHHHHHHHHHhCCcCCCEEEEECC-C---chhHHHHHH
Confidence 556667789999732 1 11123 24555553 4554 357777753 2 236777777
Q ss_pred HHhccceEEEEe
Q 006918 182 KLAEIRCKISYK 193 (625)
Q Consensus 182 ~l~~~g~~v~~~ 193 (625)
.+...|.++...
T Consensus 213 ~~~~~G~~v~~~ 224 (348)
T PLN02342 213 LAAVLPFHFVCA 224 (348)
T ss_pred HHHHcCCEEEEE
Confidence 888888877653
No 446
>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=31.93 E-value=4.6e+02 Score=24.99 Aligned_cols=125 Identities=8% Similarity=-0.085 Sum_probs=62.8
Q ss_pred ceEEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHH
Q 006918 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (625)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~ 104 (625)
+.=+||.+.+...........|++-++++.|... + ..+..........+...+.+.+.++++.+..||+... ...+
T Consensus 120 G~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~-~--~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~n-d~~A 195 (265)
T cd06354 120 KTGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGV-P--DIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAAA-GGTG 195 (265)
T ss_pred CCCeEEEEecccChHHHHHHHHHHHHHHHHhccC-C--CceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEECC-CCCc
Confidence 4456777754322222222368888888765210 0 1222222221112234555667777776678888753 4444
Q ss_pred HHHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHHH
Q 006918 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVS 155 (625)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll~ 155 (625)
..+...+...++.++++.... ......|.+..+...-..++.-++..+.
T Consensus 196 ~gv~~al~~~gisIvGfD~~~--~~~~~~p~lttv~~~~~~~~~~~~~~~~ 244 (265)
T cd06354 196 NGVFQAAKEAGVYAIGVDSDQ--YYLAPGVVLTSMVKRVDVAVYDAIKSAA 244 (265)
T ss_pred hHHHHHHHhcCCeEEEecCcc--cccCCCcEEEEEeehhHHHHHHHHHHHH
Confidence 455566667778778765432 2222245555554433333333333333
No 447
>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=31.92 E-value=3.4e+02 Score=24.00 Aligned_cols=70 Identities=16% Similarity=0.141 Sum_probs=44.9
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.+... ++++++.. ++.+.++..+.+|++|+++.... ......++ +.++....+.++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~~~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~--~~~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08443 13 YVLPPVIKGFIERYP-RVSLQMHQ-------GSPTQIAEMVSKGLVDFAIATEA--LHDYDDLI-TLPCYHWNRCVVVKR 81 (198)
T ss_pred eECcHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEEecc--ccccCCce-EeeeeeceEEEEEcC
Confidence 455678888877653 23366655 55788999999999999985321 11223343 356777777777654
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 82 ~ 82 (198)
T cd08443 82 D 82 (198)
T ss_pred C
Confidence 3
No 448
>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=31.71 E-value=2.2e+02 Score=25.26 Aligned_cols=68 Identities=12% Similarity=0.112 Sum_probs=41.6
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.++.. ++++++.. +.-+.++..|.+|++|+++..... . ...+.+ .++....+.+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~--~-~~~l~~-~~l~~~~~~~~~~~ 81 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ-------MSKNRQIEALDAGTIDIGFGRFYP--Y-QEGVVV-RNVTNERLFLGAQK 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE-------CCHHHHHHHHHcCCccEEEecCCC--C-CCCeEE-EEeeccceEEEeCC
Confidence 344577777766542 33466665 447789999999999999864221 1 122333 35556666666543
No 449
>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=31.55 E-value=1.9e+02 Score=25.79 Aligned_cols=69 Identities=13% Similarity=0.138 Sum_probs=43.5
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
++-.+++..+.++.. .+++++.. ++...++..|.+|++|+++..... ....+++. +.......++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~L~~g~~Dl~i~~~~~---~~~~~~~~-~l~~~~~~lv~~~ 80 (200)
T cd08465 13 LVLPALMRQLRAEAP-GIDLAVSQ-------ASREAMLAQVADGEIDLALGVFPE---LPEELHAE-TLFEERFVCLADR 80 (200)
T ss_pred HhhhHHHHHHHHHCC-CcEEEEec-------CChHhHHHHHHCCCccEEEecccc---CCcCeeEE-EeeeccEEEEEeC
Confidence 445577777766543 33466655 558999999999999999863321 12334443 4555666666654
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 81 ~ 81 (200)
T cd08465 81 A 81 (200)
T ss_pred C
Confidence 3
No 450
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=31.53 E-value=2.3e+02 Score=26.66 Aligned_cols=77 Identities=21% Similarity=0.213 Sum_probs=44.5
Q ss_pred CCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHH
Q 006918 158 GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 237 (625)
Q Consensus 158 ~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~ 237 (625)
.-+++.++..+. ....+.+.+++.|..+.....+... .........+..+...+.++ |++.++..+..+++.
T Consensus 124 ~~~~ili~~~~~-----~~~~l~~~L~~~G~~v~~~~~Y~~~--~~~~~~~~~~~~~~~~~~d~-ivftS~~~v~~~~~~ 195 (249)
T PRK05928 124 KGKRVLYLRGNG-----GREVLGDTLEERGAEVDECEVYERV--PPKLDGAELLARLQSGEVDA-VIFTSPSTVRAFFSL 195 (249)
T ss_pred CCCEEEEECCCC-----CHHHHHHHHHHCCCEEeEEEEEEee--CCCCChHHHHHHHHhCCCCE-EEECCHHHHHHHHHH
Confidence 456776665433 4677888899988887655444432 11112223334443345555 455667777778777
Q ss_pred HHHcC
Q 006918 238 AQRLG 242 (625)
Q Consensus 238 a~~~g 242 (625)
+.+.+
T Consensus 196 ~~~~~ 200 (249)
T PRK05928 196 APELG 200 (249)
T ss_pred hcccc
Confidence 66544
No 451
>cd08452 PBP2_AlsR The C-terminal substrate binding domain of LysR-type trnascriptional regulator AlsR, which regulates acetoin formation under stationary phase growth conditions; contains the type 2 periplasmic binding fold. AlsR is responsible for activating the expression of the acetoin operon (alsSD) in response to inducing signals such as glucose and acetate. Like many other LysR family proteins, AlsR is transcribed divergently from the alsSD operon. The alsS gene encodes acetolactate synthase, an enzyme involved in the production of acetoin in cells of stationary-phase. AlsS catalyzes the conversion of two pyruvate molecules to acetolactate and carbon dioxide. Acetolactate is then converted to acetoin at low pH by acetolactate decarboxylase which encoded by the alsD gene. Acetoin is an important physiological metabolite excreted by many microorganisms grown on glucose or other fermentable carbon sources. This substrate-binding domain shows significant homology to the type 2 perip
Probab=31.52 E-value=2.5e+02 Score=24.78 Aligned_cols=68 Identities=12% Similarity=0.172 Sum_probs=43.9
Q ss_pred eeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEecC
Q 006918 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (625)
Q Consensus 490 ~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~~ 569 (625)
+-.+++..+.+... ++++++.. +....+...|.+|++|+++.. .......+.+ .++....+.++++..
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~---~~~~~~~~~~-~~l~~~~~~lv~~~~ 81 (197)
T cd08452 14 FLPPIVREYRKKFP-SVKVELRE-------LSSPDQVEELLKGRIDIGFLH---PPIQHTALHI-ETVQSSPCVLALPKQ 81 (197)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEe-------cChHHHHHHHHCCCccEEEee---CCCCCCCeeE-EEeeeccEEEEEeCC
Confidence 34577777777653 23466665 558889999999999999853 2222233443 466666777776543
No 452
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=31.47 E-value=1.8e+02 Score=28.00 Aligned_cols=70 Identities=10% Similarity=0.023 Sum_probs=45.1
Q ss_pred CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc-hhhHHHHHHHHHHcCC
Q 006918 169 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVAQRLGM 243 (625)
Q Consensus 169 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-~~~~~~il~~a~~~g~ 243 (625)
+.|.....+.+.+.+++.|.++..... . .+...-...++.+...+.+.||+... .......++++.+.++
T Consensus 11 ~~f~~~~~~gi~~~~~~~G~~~~~~~~---~--~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~i 81 (272)
T cd06313 11 ATWCAQGKQAADEAGKLLGVDVTWYGG---A--LDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGI 81 (272)
T ss_pred ChHHHHHHHHHHHHHHHcCCEEEEecC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCC
Confidence 345556677888888888988775421 1 22444556777777788888888643 2334566777776653
No 453
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=31.34 E-value=3.8e+02 Score=23.84 Aligned_cols=46 Identities=20% Similarity=0.335 Sum_probs=27.0
Q ss_pred HHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 176 VTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 176 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
...+.+.+++.|+++.....++.. ...+...++++.+ ..++||+.+
T Consensus 21 ~~~l~~~L~~~G~~v~~~~~v~Dd----~~~I~~~l~~~~~-~~dlVIttG 66 (170)
T cd00885 21 AAFLAKELAELGIEVYRVTVVGDD----EDRIAEALRRASE-RADLVITTG 66 (170)
T ss_pred HHHHHHHHHHCCCEEEEEEEeCCC----HHHHHHHHHHHHh-CCCEEEECC
Confidence 446666677777776665555533 5556666665543 456666543
No 454
>TIGR03316 ygeW probable carbamoyltransferase YgeW. Members of this protein family include the ygeW gene product of Escherichia coli. The function is unknown. Members show homology to ornithine carbamoyltransferase (TIGR00658) and aspartate carbamoyltransferase (carbamoyltransferase), and therefore may belong to the carbamoyltransferases in function. Members often are found in a large, conserved genomic region associated with purine catabolism.
Probab=31.01 E-value=5.8e+02 Score=25.94 Aligned_cols=138 Identities=11% Similarity=0.119 Sum_probs=75.8
Q ss_pred EEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc--CCC-hHHH
Q 006918 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG--PQS-AVMA 104 (625)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG--~~~-s~~~ 104 (625)
.++.+|...+ ...+.+|+.|+.++ +|..+.+...++.-.-.+.++-+.+.++.-+.+|+- |.. ....
T Consensus 44 ~v~~lF~epS---TRTR~SFE~A~~~L-------Gg~~i~l~~~~s~~~kgEsl~Dtarvls~y~D~Iv~R~~~~~~~~~ 113 (357)
T TIGR03316 44 LGISLFRDNS---TRTRFSFASAMNLL-------GLHAQDLDEGKSQIGHGETVRETAEMISFFADGIGIRDDMYIGVGN 113 (357)
T ss_pred EEEEEEcCCC---cchHHHHHHHHHHc-------CCcEEEeCCccccCCCCCCHHHHHHHHHHhCcEEEEeCCCcccccc
Confidence 4666777654 36789999999985 455666544333322234455555555554444442 210 0112
Q ss_pred HHHHHhhhc-----------CCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH---HHcCC------cEEEE
Q 006918 105 HVLSHLANE-----------LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFGW------GEVIA 164 (625)
Q Consensus 105 ~~va~~~~~-----------~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll---~~~~W------~~v~i 164 (625)
..+..+++. ..+|+|.-+ + +...| .+++++++ ++||. .+|++
T Consensus 114 ~~l~~~a~~~~~~~~~~~~~s~vPVINa~--~----~~~HP------------tQaLaDl~Ti~e~~G~~~~l~g~kvai 175 (357)
T TIGR03316 114 AYMREVAKYVQEGYKDGVLEQRPPLVNLQ--C----DIDHP------------TQAMADIMTLQEKFGGIENLKGKKFAM 175 (357)
T ss_pred HHHHHHHHhhhhccccccccCCCCEEECC--C----CCCCc------------hHHHHHHHHHHHHhCCccccCCCEEEE
Confidence 223334444 579999742 1 22223 25666663 56774 37888
Q ss_pred EEe-cCCCCc--chHHHHHHHHhccceEEEEe
Q 006918 165 IFN-DDDQGR--NGVTALGDKLAEIRCKISYK 193 (625)
Q Consensus 165 i~~-d~~~g~--~~~~~l~~~l~~~g~~v~~~ 193 (625)
++. +-.+|+ .....+...+...|.++...
T Consensus 176 ~~~~d~~~gr~~~v~~Sl~~~~~~~G~~v~~~ 207 (357)
T TIGR03316 176 TWAYSPSYGKPLSVPQGIIGLMTRFGMDVTLA 207 (357)
T ss_pred EeccccccCccchHHHHHHHHHHHcCCEEEEE
Confidence 764 323443 33466677777888887654
No 455
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=30.88 E-value=66 Score=24.59 Aligned_cols=23 Identities=13% Similarity=0.403 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcc
Q 006918 585 LMWAVTGVFFLVVGTVVWILEHR 607 (625)
Q Consensus 585 ~vW~~~~~~~~~~~~~~~~~~~~ 607 (625)
++|..+++-+++..+++|+++.+
T Consensus 34 gm~~lvI~~iFil~VilwfvCC~ 56 (94)
T PF05393_consen 34 GMWFLVICGIFILLVILWFVCCK 56 (94)
T ss_pred chhHHHHHHHHHHHHHHHHHHHH
Confidence 67888888888888889987764
No 456
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=30.82 E-value=3.2e+02 Score=25.39 Aligned_cols=88 Identities=8% Similarity=-0.023 Sum_probs=51.7
Q ss_pred HHHHHHHHHHHHc--CCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEE
Q 006918 145 YLMSAIAEMVSYF--GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVI 222 (625)
Q Consensus 145 ~~~~al~~ll~~~--~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vI 222 (625)
.-++.+++++... .-+++.++..+ .....+.+.+++.|..+.....+........ ....+.+.+...+ +
T Consensus 106 ~~~~~L~~~i~~~~~~~~~il~~~g~-----~~~~~l~~~L~~~g~~v~~~~~Y~~~~~~~~---~~~~~~l~~~~~~-~ 176 (239)
T cd06578 106 GDSEGLLELLELQDGKGKRILRPRGG-----RAREDLAEALRERGAEVDEVEVYRTVPPDLD---AELLELLEEGAID-A 176 (239)
T ss_pred cCHHHHHHHHHhcCCCCCEEEEEcCc-----chhHHHHHHHHHCCCEEEEEEEEEEECCCCc---HHHHHHHHcCCCc-E
Confidence 3467788887774 34555444432 2456788888888887766554443211111 2233444443333 6
Q ss_pred EEEcchhhHHHHHHHHHHc
Q 006918 223 VVHGYSRTGLMVFDVAQRL 241 (625)
Q Consensus 223 vl~~~~~~~~~il~~a~~~ 241 (625)
|++.++..+..+++...+.
T Consensus 177 iiftS~~~v~~f~~~~~~~ 195 (239)
T cd06578 177 VLFTSPSTVRNLLELLGKE 195 (239)
T ss_pred EEEeCHHHHHHHHHHHhhh
Confidence 6777788888888877653
No 457
>TIGR00670 asp_carb_tr aspartate carbamoyltransferase. Ornithine carbamoyltransferases are in the same superfamily and form an outgroup.
Probab=30.79 E-value=5.4e+02 Score=25.45 Aligned_cols=136 Identities=14% Similarity=0.182 Sum_probs=76.8
Q ss_pred EEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEE-ecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHH
Q 006918 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITM-HDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (625)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~-~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~ 105 (625)
-.++.+|...+ .+.+..|+.|+.++ +|..+.+.. .++.-.-.+.++-+.+.++.-+.+|+-=.. ...
T Consensus 40 k~v~~lF~~pS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~~s~~~kgEsi~Dta~vls~y~D~iviR~~--~~~ 107 (301)
T TIGR00670 40 KILANLFFEPS---TRTRLSFETAMKRL-------GGDVVNFSDSETSSVAKGETLADTIKTLSGYSDAIVIRHP--LEG 107 (301)
T ss_pred CEEEEEeccCC---chhHhHHHHHHHHc-------CCcEEEcCCCCcccCCCCcCHHHHHHHHHHhCCEEEEECC--chh
Confidence 34777887654 36789999999985 455555444 333322234445555555554444443111 233
Q ss_pred HHHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH---HHcCC---cEEEEEEecCCCCcchHHHH
Q 006918 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFGW---GEVIAIFNDDDQGRNGVTAL 179 (625)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll---~~~~W---~~v~ii~~d~~~g~~~~~~l 179 (625)
.+..+++...+|+|.-+..+ ...| .+++++++ ++||- .+|+++.+ ...+ .....+
T Consensus 108 ~~~~~a~~s~vPVINa~~g~-----~~HP------------tQ~LaDl~Ti~e~~g~l~g~~va~vGD-~~~~-~v~~Sl 168 (301)
T TIGR00670 108 AARLAAEVSEVPVINAGDGS-----NQHP------------TQTLLDLYTIYEEFGRLDGLKIALVGD-LKYG-RTVHSL 168 (301)
T ss_pred HHHHHHhhCCCCEEeCCCCC-----CCCc------------HHHHHHHHHHHHHhCCCCCCEEEEEcc-CCCC-cHHHHH
Confidence 45566777789999742211 1123 24555553 55652 57777763 2112 456677
Q ss_pred HHHHhccceEEEEe
Q 006918 180 GDKLAEIRCKISYK 193 (625)
Q Consensus 180 ~~~l~~~g~~v~~~ 193 (625)
...+...|.++...
T Consensus 169 ~~~~a~~g~~v~~~ 182 (301)
T TIGR00670 169 AEALTRFGVEVYLI 182 (301)
T ss_pred HHHHHHcCCEEEEE
Confidence 77778888877653
No 458
>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=30.74 E-value=2.3e+02 Score=26.88 Aligned_cols=75 Identities=13% Similarity=0.021 Sum_probs=44.7
Q ss_pred EEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 006918 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~ 239 (625)
|++|..+ +.|.....+.+.+.+++.|..+..... . .+...-...++++...+.+.||+..... ...+++.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~~~~~l~ 75 (268)
T cd06298 2 VGVIIPDITNSYFAELARGIDDIATMYKYNIILSNS---D--NDKEKELKVLNNLLAKQVDGIIFMGGKI-SEEHREEFK 75 (268)
T ss_pred EEEEECCCcchHHHHHHHHHHHHHHHcCCeEEEEeC---C--CCHHHHHHHHHHHHHhcCCEEEEeCCCC-cHHHHHHHh
Confidence 4566643 456666778888888888887764421 1 1234445667777777888888764321 123455554
Q ss_pred HcC
Q 006918 240 RLG 242 (625)
Q Consensus 240 ~~g 242 (625)
+.+
T Consensus 76 ~~~ 78 (268)
T cd06298 76 RSP 78 (268)
T ss_pred cCC
Confidence 444
No 459
>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=30.74 E-value=2.2e+02 Score=25.09 Aligned_cols=69 Identities=16% Similarity=0.209 Sum_probs=44.7
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.++.. .+++++.. ++...++..|.+|++|+++... ......+. +.|+....+.++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~lv~~~ 80 (200)
T cd08466 13 LLLPRLLARLKQLAP-NISLRESP-------SSEEDLFEDLRLQEVDLVIDYV---PFRDPSFK-SELLFEDELVCVARK 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CchHhHHHHHHcCCccEEEecc---cCCCCCce-eeeecccceEEEEeC
Confidence 444577777777653 33366665 5578899999999999998532 22222332 246677777777754
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 81 ~ 81 (200)
T cd08466 81 D 81 (200)
T ss_pred C
Confidence 4
No 460
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=30.73 E-value=3.1e+02 Score=28.74 Aligned_cols=142 Identities=15% Similarity=0.133 Sum_probs=75.0
Q ss_pred CcEEEEcCCChHHHHHHHHhhhcCCCcEEeeccCCCCCCC-CCC---CceEEccCchHHHHHHHHHHHHHcCCcEEEEEE
Q 006918 91 DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQY---PFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 166 (625)
Q Consensus 91 ~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~---~~~~r~~ps~~~~~~al~~ll~~~~W~~v~ii~ 166 (625)
+.+.++|.........+.++++..++..+..... ..+.+ ... ....-..|.. . ..++.|++||-..+.
T Consensus 167 ~~VniiG~~~~~d~~el~~lL~~~Gi~v~~~lp~-~~~~d~~~~~~~~~~~~~~~~~---~-~~A~~L~~~GiP~~~--- 238 (427)
T PRK02842 167 PSLVLVGSLADVVEDQLTLEFKKLGIGVVGFLPA-RRFTELPAIGPGTVVALAQPFL---S-DTARALRERGAKVLT--- 238 (427)
T ss_pred CcEEEEEeCCcchHHHHHHHHHHcCCeeEEEeCC-ccHHHHhhcCcCcEEEEeCHHH---H-HHHHHHHHcCCcccc---
Confidence 4458899776655677899999999987643322 22222 111 1111122221 2 356677888765553
Q ss_pred ecCCCCcchHHHHHHHHhcc-ceEEE-EeeecCCCCCCChhHHHHHHHHHhc-CCceEEEEEcchhhHHHHHHHHHH-cC
Q 006918 167 NDDDQGRNGVTALGDKLAEI-RCKIS-YKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYSRTGLMVFDVAQR-LG 242 (625)
Q Consensus 167 ~d~~~g~~~~~~l~~~l~~~-g~~v~-~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~~~~~~~~il~~a~~-~g 242 (625)
..-.+|......+.+.+.+. |..+. ..+.+.. ....+.+.+...++ -.-+-+++++.+..+..+.+.+.+ +|
T Consensus 239 ~~~P~G~~~T~~~L~~la~~~g~~~~~~~~~~~~----er~~~~~~l~~~~~~l~Gkrvai~g~~~~~~~la~~L~eelG 314 (427)
T PRK02842 239 APFPLGPEGTRAWLEAAAAAFGIDPDGLEEREAP----AWERARKALEPYRELLRGKRVFFLPDSQLEIPLARFLSRECG 314 (427)
T ss_pred CCCCcChHHHHHHHHHHHHHhCcCHhHHHHHHHH----HHHHHHHHHHHhhhhcCCcEEEEECCchhHHHHHHHHHHhCC
Confidence 24567877776666666553 43322 0011110 01122222333222 122345556777778888888877 88
Q ss_pred CC
Q 006918 243 MM 244 (625)
Q Consensus 243 ~~ 244 (625)
|.
T Consensus 315 m~ 316 (427)
T PRK02842 315 ME 316 (427)
T ss_pred CE
Confidence 75
No 461
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=30.68 E-value=1e+02 Score=29.23 Aligned_cols=68 Identities=15% Similarity=0.177 Sum_probs=47.2
Q ss_pred hHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHHHHHhhhcCCC
Q 006918 42 VSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVLSHLANELQV 116 (625)
Q Consensus 42 ~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~va~~~~~~~i 116 (625)
....=+-.||++|++..++- -++ -++..|..-|+..++...++=.+.+++++-| +.+.|..+|..+++
T Consensus 157 dELeKm~~~Vd~i~~~~~~~-~~P-lFIsvDPeRD~~~~~~eY~~eF~pkllGLTG-----T~eqvk~vak~yRV 224 (280)
T KOG2792|consen 157 DELEKMSAVVDEIEAKPGLP-PVP-LFISVDPERDSVEVVAEYVSEFHPKLLGLTG-----TTEQVKQVAKKYRV 224 (280)
T ss_pred HHHHHHHHHHHHHhccCCCC-ccc-eEEEeCcccCCHHHHHHHHHhcChhhhcccC-----CHHHHHHHHHHhEE
Confidence 34566778999999998763 233 3456677667666666665555556666666 55788899998887
No 462
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=30.64 E-value=4.2e+02 Score=24.21 Aligned_cols=75 Identities=13% Similarity=0.085 Sum_probs=43.3
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch----hhHHHHH
Q 006918 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVF 235 (625)
Q Consensus 160 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~----~~~~~il 235 (625)
.+|.+.....+.-.-+..-+...++..|+++.+- ... . .....++.+++.++++|-+.+.. ..+..++
T Consensus 83 ~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~l---G~~--~---p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i 154 (201)
T cd02070 83 GKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDL---GRD--V---PPEEFVEAVKEHKPDILGLSALMTTTMGGMKEVI 154 (201)
T ss_pred CeEEEEecCCccchHHHHHHHHHHHHCCCEEEEC---CCC--C---CHHHHHHHHHHcCCCEEEEeccccccHHHHHHHH
Confidence 3554444444444455677777888888887532 111 1 22345556666778888776532 4566666
Q ss_pred HHHHHcC
Q 006918 236 DVAQRLG 242 (625)
Q Consensus 236 ~~a~~~g 242 (625)
++.++.+
T Consensus 155 ~~lr~~~ 161 (201)
T cd02070 155 EALKEAG 161 (201)
T ss_pred HHHHHCC
Confidence 6666655
No 463
>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=30.61 E-value=2.2e+02 Score=24.83 Aligned_cols=69 Identities=19% Similarity=0.352 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.+... ++++++.. ++...+...+.+|++|+++.... .....+.+ .++....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~~~-~~l~~~~~~~~~~~ 80 (197)
T cd08440 13 TLLPPVLAAFRRRHP-GIRVRLRD-------VSAEQVIEAVRSGEVDFGIGSEP---EADPDLEF-EPLLRDPFVLVCPK 80 (197)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEEe-------CChHHHHHHHHcCCccEEEEeCC---CCCCCeeE-EEeecccEEEEecC
Confidence 455678888877653 33466665 45788999999999999986432 22233333 46667777777754
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 81 ~ 81 (197)
T cd08440 81 D 81 (197)
T ss_pred C
Confidence 3
No 464
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=30.51 E-value=4.5e+02 Score=24.43 Aligned_cols=85 Identities=16% Similarity=0.120 Sum_probs=51.3
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch----hhHHHHH
Q 006918 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVF 235 (625)
Q Consensus 160 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~----~~~~~il 235 (625)
.++.+.+...+.-.-+..-+...++..|+++.+-- .+ ... ...++.+++.++++|.+.+.. ..+..++
T Consensus 89 ~~vvl~t~~gd~HdiG~~iv~~~l~~~G~~Vi~LG---~~--vp~---e~~v~~~~~~~~~~V~lS~~~~~~~~~~~~~i 160 (213)
T cd02069 89 GKIVLATVKGDVHDIGKNLVGVILSNNGYEVIDLG---VM--VPI---EKILEAAKEHKADIIGLSGLLVPSLDEMVEVA 160 (213)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCCEEEECC---CC--CCH---HHHHHHHHHcCCCEEEEccchhccHHHHHHHH
Confidence 35555554555555567778888888898877421 11 123 345566666788888876443 4566667
Q ss_pred HHHHHcCCCCCCeEEEeeC
Q 006918 236 DVAQRLGMMDSGYVWIATT 254 (625)
Q Consensus 236 ~~a~~~g~~~~~~~~i~~~ 254 (625)
++.++.+. .-.+|+...
T Consensus 161 ~~L~~~~~--~~~i~vGG~ 177 (213)
T cd02069 161 EEMNRRGI--KIPLLIGGA 177 (213)
T ss_pred HHHHhcCC--CCeEEEECh
Confidence 77776664 344555543
No 465
>TIGR03702 lip_kinase_YegS lipid kinase YegS. Members of this protein family are designated YegS, an apparent lipid kinase family in the Proteobacteria. Bakali, et al. report phosphatidylglycerol kinase activity for the member from Escherichia coli, but refrain from calling that activity synonymous with its biological role. Note that a broader, subfamily-type model (TIGR00147), includes this family but also multiple paralogs in some species and varied functions.
Probab=30.45 E-value=3.1e+02 Score=26.90 Aligned_cols=73 Identities=11% Similarity=0.127 Sum_probs=42.1
Q ss_pred EEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHH
Q 006918 162 VIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQR 240 (625)
Q Consensus 162 v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~ 240 (625)
+.+|+....-+......+.+.+++.|+++....+-. ..+...+.+++...+.++||+.+.......++..+.+
T Consensus 2 ~~~I~N~~~~~~~~~~~~~~~l~~~g~~~~v~~t~~------~~~a~~~a~~~~~~~~d~vv~~GGDGTi~ev~ngl~~ 74 (293)
T TIGR03702 2 ALLILNGKQADNEDVREAVGDLRDEGIQLHVRVTWE------KGDAQRYVAEALALGVSTVIAGGGDGTLREVATALAQ 74 (293)
T ss_pred EEEEEeCCccchhHHHHHHHHHHHCCCeEEEEEecC------CCCHHHHHHHHHHcCCCEEEEEcCChHHHHHHHHHHh
Confidence 345554322222345666777888888755332221 2234455666655667888877776677777766654
No 466
>PRK11914 diacylglycerol kinase; Reviewed
Probab=30.42 E-value=3.3e+02 Score=26.91 Aligned_cols=76 Identities=14% Similarity=0.090 Sum_probs=47.6
Q ss_pred CCcEEEEEEecCC-CCc--chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHH
Q 006918 158 GWGEVIAIFNDDD-QGR--NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMV 234 (625)
Q Consensus 158 ~W~~v~ii~~d~~-~g~--~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~i 234 (625)
.-+++.+|+.-.. .|. ...+.+.+.+++.|.++....+- ...+...+.+++...+.++||+.+.......+
T Consensus 7 ~~~~~~iI~NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~t~------~~~~~~~~a~~~~~~~~d~vvv~GGDGTi~ev 80 (306)
T PRK11914 7 EIGKVTVLTNPLSGHGAAPHAAERAIARLHHRGVDVVEIVGT------DAHDARHLVAAALAKGTDALVVVGGDGVISNA 80 (306)
T ss_pred CCceEEEEECCCCCCCcHHHHHHHHHHHHHHcCCeEEEEEeC------CHHHHHHHHHHHHhcCCCEEEEECCchHHHHH
Confidence 3478888885332 122 33556777888888775432211 14566677777766677888887777677777
Q ss_pred HHHHH
Q 006918 235 FDVAQ 239 (625)
Q Consensus 235 l~~a~ 239 (625)
+..+.
T Consensus 81 v~~l~ 85 (306)
T PRK11914 81 LQVLA 85 (306)
T ss_pred hHHhc
Confidence 76654
No 467
>cd08172 GlyDH-like1 Glycerol dehydrogenases-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=30.35 E-value=2e+02 Score=29.14 Aligned_cols=82 Identities=13% Similarity=0.137 Sum_probs=51.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 227 (625)
+.+.++++.++ +++.+|++...+ ....+.+.+.+++.++.+. .+... .+.+.+....+.+++.++++||-.+.
T Consensus 13 ~~l~~~~~~~~-~~~liv~d~~~~-~~~~~~l~~~L~~~~~~~~---~~~~~--p~~~~v~~~~~~~~~~~~D~iIavGG 85 (347)
T cd08172 13 DELGELLKRFG-KRPLIVTGPRSW-AAAKPYLPESLAAGEAFVL---RYDGE--CSEENIERLAAQAKENGADVIIGIGG 85 (347)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH-HHHHHHHHHHHhcCeEEEE---EeCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 34556677775 888888864433 2455666666655555432 22211 34778888888888889998887765
Q ss_pred h--hhHHHHHH
Q 006918 228 S--RTGLMVFD 236 (625)
Q Consensus 228 ~--~~~~~il~ 236 (625)
+ -++..++.
T Consensus 86 Gs~~D~aK~ia 96 (347)
T cd08172 86 GKVLDTAKAVA 96 (347)
T ss_pred cHHHHHHHHHH
Confidence 5 34444443
No 468
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=30.33 E-value=78 Score=31.12 Aligned_cols=51 Identities=18% Similarity=0.186 Sum_probs=38.3
Q ss_pred EecCCCChHHHHHHH-HHHHhc-CcEEEEcCCChHHHHHHHHhhhcCCCcEEe
Q 006918 70 MHDAKFNGFLSIMGA-LQFMET-DTLAIVGPQSAVMAHVLSHLANELQVPLLS 120 (625)
Q Consensus 70 ~~D~~~~~~~a~~~~-~~l~~~-~v~aviG~~~s~~~~~va~~~~~~~iP~Is 120 (625)
.+|+=|++..--+.+ .+|..+ .+..|||+..|+.+..++.+|...+.|..-
T Consensus 189 ~~nTIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~kL~~i~~~~~~~t~~ 241 (298)
T PRK01045 189 PKDDICYATQNRQEAVKELAPQADLVIVVGSKNSSNSNRLREVAEEAGAPAYL 241 (298)
T ss_pred CCCCcchhhHHHHHHHHHHHhhCCEEEEECCCCCccHHHHHHHHHHHCCCEEE
Confidence 378877766555544 444443 788899999999999999999998877543
No 469
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=30.29 E-value=2.3e+02 Score=23.90 Aligned_cols=99 Identities=12% Similarity=0.034 Sum_probs=46.1
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecC---CCCCCChhHHH---HHHHHHhcCCce
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALP---PDQSVTETDVR---NELVKVRMMEAR 220 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~---~~~~~~~~~~~---~~l~~i~~~~~~ 220 (625)
...+.+.+...+--....+|.+ ........+...+++.|+.+....... .. ....|.. +.+..+.+...+
T Consensus 22 ~~~l~~~i~~~~~~~~~~~y~~--~~~~~~~~~~~~L~~~g~~v~~~~~~~~~~~~--k~~~D~~l~~d~~~~~~~~~~d 97 (146)
T PF01936_consen 22 FERLLEEIRKYGPLVRIRAYGN--WDDPNQKSFQEALQRAGIKVRHFPLRKRGGGG--KKGVDVALAVDILELAYENPPD 97 (146)
T ss_dssp HHHHHHHHTTTEEEEEEEEEE------HHHHHHHHHHHHHT-EEEE------S-----S---HHHHHHHHHHHG--GG-S
T ss_pred HHHHHHHHHhcCCeEEEEEEee--ccccchhhHHHHHHhCeeeEEeeecccccccc--cCCcHHHHHHHHHHHhhccCCC
Confidence 3455555555443323445544 222346778888898999775443211 11 1122332 333333223357
Q ss_pred EEEEEcchhhHHHHHHHHHHcCCCCCCeEEEee
Q 006918 221 VIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (625)
Q Consensus 221 vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (625)
.+++.+...+...+++.+++.| ..+++..
T Consensus 98 ~ivLvSgD~Df~~~v~~l~~~g----~~V~v~~ 126 (146)
T PF01936_consen 98 TIVLVSGDSDFAPLVRKLRERG----KRVIVVG 126 (146)
T ss_dssp EEEEE---GGGHHHHHHHHHH------EEEEEE
T ss_pred EEEEEECcHHHHHHHHHHHHcC----CEEEEEE
Confidence 7777777788888999998876 3356655
No 470
>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=30.25 E-value=2e+02 Score=25.00 Aligned_cols=69 Identities=20% Similarity=0.364 Sum_probs=44.1
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-..++..+.+... .+++++.. +....++.++.+|++|+++... ......+++ .++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~l~~-~~l~~~~~~~v~~~ 80 (195)
T cd08434 13 SLVPDLIRAFRKEYP-NVTFELHQ-------GSTDELLDDLKNGELDLALCSP---VPDEPDIEW-IPLFTEELVLVVPK 80 (195)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEec-------CcHHHHHHHHHcCCccEEEEcc---CCCCCCeeE-EEeecceEEEEecC
Confidence 344567777777652 23366655 4577899999999999997543 223344443 46677777777754
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 81 ~ 81 (195)
T cd08434 81 D 81 (195)
T ss_pred C
Confidence 3
No 471
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=29.67 E-value=3.6e+02 Score=23.05 Aligned_cols=76 Identities=21% Similarity=0.149 Sum_probs=43.8
Q ss_pred EEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhc-CCceEEEEEcch-hhHHHHHHHHH
Q 006918 162 VIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYS-RTGLMVFDVAQ 239 (625)
Q Consensus 162 v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~~~-~~~~~il~~a~ 239 (625)
|++|.+... ....+...+.+.|+-+.....+-.. . .-++.+.++.+.+ .+.++|+++... .+.+.+++.++
T Consensus 4 valisQSG~----~~~~~~~~~~~~g~g~s~~vs~Gn~--~-dv~~~d~l~~~~~D~~t~~I~ly~E~~~d~~~f~~~~~ 76 (138)
T PF13607_consen 4 VALISQSGA----LGTAILDWAQDRGIGFSYVVSVGNE--A-DVDFADLLEYLAEDPDTRVIVLYLEGIGDGRRFLEAAR 76 (138)
T ss_dssp EEEEES-HH----HHHHHHHHHHHTT-EESEEEE-TT---S-SS-HHHHHHHHCT-SS--EEEEEES--S-HHHHHHHHH
T ss_pred EEEEECCHH----HHHHHHHHHHHcCCCeeEEEEeCcc--c-cCCHHHHHHHHhcCCCCCEEEEEccCCCCHHHHHHHHH
Confidence 566664432 3445666777777776655444333 2 3345666666654 568899998886 66888999998
Q ss_pred HcCCC
Q 006918 240 RLGMM 244 (625)
Q Consensus 240 ~~g~~ 244 (625)
+....
T Consensus 77 ~a~~~ 81 (138)
T PF13607_consen 77 RAARR 81 (138)
T ss_dssp HHCCC
T ss_pred HHhcC
Confidence 87644
No 472
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=29.65 E-value=76 Score=30.90 Aligned_cols=50 Identities=8% Similarity=0.115 Sum_probs=36.7
Q ss_pred EecCCCChHHHHHH-HHHHHhc-CcEEEEcCCChHHHHHHHHhhhcCCCcEE
Q 006918 70 MHDAKFNGFLSIMG-ALQFMET-DTLAIVGPQSAVMAHVLSHLANELQVPLL 119 (625)
Q Consensus 70 ~~D~~~~~~~a~~~-~~~l~~~-~v~aviG~~~s~~~~~va~~~~~~~iP~I 119 (625)
+.|+=|++..--+. +.+|..+ .+..|||+..|+.+..++.+|...+.|..
T Consensus 188 v~~TIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~rL~eia~~~~~~t~ 239 (281)
T PRK12360 188 FFNTICSATKKRQESAKELSKEVDVMIVIGGKHSSNTQKLVKICEKNCPNTF 239 (281)
T ss_pred cCCCcchhhhhHHHHHHHHHHhCCEEEEecCCCCccHHHHHHHHHHHCCCEE
Confidence 36776766554444 4444433 78889999999999999999999887644
No 473
>cd01569 PBEF_like pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general, nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis.
Probab=29.58 E-value=6.1e+02 Score=26.29 Aligned_cols=101 Identities=14% Similarity=0.131 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCCCcc---hHHHHHHHHhccceEEEEeeecCCCCCCChhHH----HHHHHHH---
Q 006918 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRN---GVTALGDKLAEIRCKISYKSALPPDQSVTETDV----RNELVKV--- 214 (625)
Q Consensus 145 ~~~~al~~ll~~~~W~~v~ii~~d~~~g~~---~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~----~~~l~~i--- 214 (625)
...+|...++..|.=.-++++.+..+.... ..+.+++.+.+.|..+ ..+.+.+ +..++ +..|.+.
T Consensus 239 ~E~~AF~~~~~~fp~~~~~lv~DTYD~~~~~~~~~~~lk~~i~~~g~~l--viRpDSG---D~~~l~~~~~~~L~~~FG~ 313 (407)
T cd01569 239 RELEAFRNLLEQFGPGIVSVVSDSYDFWNALTLWGPRLKDEILARGGTL--VIRPDSG---DPVDIICGVLEILGEIFGG 313 (407)
T ss_pred cHHHHHHHHHHHcCCCcEEEEecCccHHHHHHHHHHHHHHHHHhcCCcE--EEECCCC---CHHHHHHHHHHHHHHHhCC
Confidence 356888999999876667777765554322 1234444444456665 3344443 22222 2223221
Q ss_pred --hcCC-----ceEEEEEcch---hhHHHHHHHHHHcCCCCCCeEE
Q 006918 215 --RMME-----ARVIVVHGYS---RTGLMVFDVAQRLGMMDSGYVW 250 (625)
Q Consensus 215 --~~~~-----~~vIvl~~~~---~~~~~il~~a~~~g~~~~~~~~ 250 (625)
.+.+ +++-|+.++. ..+..|+....+.|....+-+|
T Consensus 314 ~~n~kGykvl~~~v~Ii~gd~ide~~i~~Il~~L~~~G~~~dNi~f 359 (407)
T cd01569 314 TVNSKGYKVLNPHVRIIQGDGITLERIEEILERLKAKGFASENIVF 359 (407)
T ss_pred cccCCcccccCCceEEEEcCCCCHHHHHHHHHHHHHCCCccccceE
Confidence 0013 4666666554 5677777778887765544333
No 474
>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=29.56 E-value=3.1e+02 Score=22.27 Aligned_cols=71 Identities=14% Similarity=0.102 Sum_probs=43.7
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeee-cCCCCCCChhHHHHHHHHHhcCCceEEEEE
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSA-LPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~-~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~ 225 (625)
...++.++++.||. |.++-.+. ..+.+.+.+.+.+.++..... ... ........++.+|+..+++.++.
T Consensus 17 l~~la~~l~~~G~~-v~~~d~~~-----~~~~l~~~~~~~~pd~V~iS~~~~~----~~~~~~~l~~~~k~~~p~~~iv~ 86 (121)
T PF02310_consen 17 LLYLAAYLRKAGHE-VDILDANV-----PPEELVEALRAERPDVVGISVSMTP----NLPEAKRLARAIKERNPNIPIVV 86 (121)
T ss_dssp HHHHHHHHHHTTBE-EEEEESSB------HHHHHHHHHHTTCSEEEEEESSST----HHHHHHHHHHHHHTTCTTSEEEE
T ss_pred HHHHHHHHHHCCCe-EEEECCCC-----CHHHHHHHHhcCCCcEEEEEccCcC----cHHHHHHHHHHHHhcCCCCEEEE
Confidence 45677888999994 43442222 236677777777666655433 332 35667788888888777755554
Q ss_pred cc
Q 006918 226 GY 227 (625)
Q Consensus 226 ~~ 227 (625)
+.
T Consensus 87 GG 88 (121)
T PF02310_consen 87 GG 88 (121)
T ss_dssp EE
T ss_pred EC
Confidence 43
No 475
>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=29.40 E-value=4.9e+02 Score=24.52 Aligned_cols=120 Identities=13% Similarity=0.097 Sum_probs=55.3
Q ss_pred EEEEEEeecCC--CCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CcEEEEcCCChH
Q 006918 27 LNVGAIFSFGT--VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET--DTLAIVGPQSAV 102 (625)
Q Consensus 27 i~IG~l~~~~~--~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~--~v~aviG~~~s~ 102 (625)
=+|+.+..... ........|++-++++-+ + .+.........+...+.+.+.+++.+ .+.+|++....
T Consensus 113 ~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~----~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~- 183 (265)
T cd06291 113 KHIAHIGGPNNTVSPTNLRYEGFLDVLKENG----L----EVRIIEIQENFDDAEKKEEIKELLEEYPDIDGIFASNDL- 183 (265)
T ss_pred cEEEEEccCcccccchHHHHHHHHHHHHHcC----C----CCChheeeccccchHHHHHHHHHHhCCCCCCEEEECChH-
Confidence 35666654332 333455677777776532 1 11111111122223355666777754 46888875433
Q ss_pred HHHHHHHhhhcCCC--c-EEeeccCCCC-CCCCCCCceEEccCchHHHHHHHHHHHH
Q 006918 103 MAHVLSHLANELQV--P-LLSFTALDPT-LSPLQYPFFVQTAPNDLYLMSAIAEMVS 155 (625)
Q Consensus 103 ~~~~va~~~~~~~i--P-~Is~~~~~~~-ls~~~~~~~~r~~ps~~~~~~al~~ll~ 155 (625)
.+..+...+...++ | -|+..+.+.. ......|.+.....+...++...++.+.
T Consensus 184 ~a~~~~~al~~~g~~vp~di~v~g~d~~~~~~~~~~~~~tv~~~~~~~g~~a~~~l~ 240 (265)
T cd06291 184 TAILVLKEAQQRGIRVPEDLQIIGYDGTKLTRLYTPELTTIRQPIEEIAKTAVDLLI 240 (265)
T ss_pred HHHHHHHHHHHcCCCCCcceEEeccCChHHHhhcCCCceeecCCHHHHHHHHHHHHH
Confidence 44445555554443 4 1332222211 1112234344444555555665555543
No 476
>PRK14804 ornithine carbamoyltransferase; Provisional
Probab=29.37 E-value=5.8e+02 Score=25.37 Aligned_cols=132 Identities=15% Similarity=0.193 Sum_probs=76.4
Q ss_pred EEEEEEeecCCCCchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChHHHHH
Q 006918 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (625)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~IN~~~~iL~g~~l~~~~~D~~~~~~~a~~~~~~l~~~~v~aviG~~~s~~~~~ 106 (625)
-.|+.+|...+ .+.+..|+.|+.++ +|..+.+....+... ...++.+.+.++..+.+|+-=..... .
T Consensus 44 k~l~~lF~epS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~~~~~-~~~~~dt~~vls~~~D~iv~R~~~~~--~ 110 (311)
T PRK14804 44 RSLAMLFQKTS---TRTRVSFEVAMTEM-------GGHGIYLDWMASNFQ-LSDIDLEARYLSRNVSVIMARLKKHE--D 110 (311)
T ss_pred CEEEEEEcCCc---hhHHHHHHHHHHHc-------CCeEEEeCCCccccc-cccHHHHHHHHHhcCCEEEEeCCChH--H
Confidence 34777777654 37789999999985 455555432211111 12233345666667777664222222 3
Q ss_pred HHHhhhcCCCcEEeeccCCCCCCCCCCCceEEccCchHHHHHHHHHHH---HHcC---C--cEEEEEEecCCCCcchHHH
Q 006918 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFG---W--GEVIAIFNDDDQGRNGVTA 178 (625)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~al~~ll---~~~~---W--~~v~ii~~d~~~g~~~~~~ 178 (625)
+..++....+|+|.-+ ++ ...| .+++++++ +++| + .+|+++. | +......
T Consensus 111 ~~~~a~~~~vPVINag-~~-----~~HP------------tQaL~Dl~Ti~e~~g~~~l~g~~va~vG-d---~~rv~~S 168 (311)
T PRK14804 111 LLVMKNGSQVPVINGC-DN-----MFHP------------CQSLADIMTIALDSPEIPLNQKQLTYIG-V---HNNVVNS 168 (311)
T ss_pred HHHHHHHCCCCEEECC-CC-----CCCh------------HHHHHHHHHHHHHhCCCCCCCCEEEEEC-C---CCcHHHH
Confidence 4556677789999732 21 1123 25666663 5566 3 4777776 2 2356777
Q ss_pred HHHHHhccceEEEEe
Q 006918 179 LGDKLAEIRCKISYK 193 (625)
Q Consensus 179 l~~~l~~~g~~v~~~ 193 (625)
+...+...|.++...
T Consensus 169 l~~~~~~~G~~v~~~ 183 (311)
T PRK14804 169 LIGITAALGIHLTLV 183 (311)
T ss_pred HHHHHHHcCCEEEEE
Confidence 777888888877653
No 477
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=29.25 E-value=3.6e+02 Score=22.96 Aligned_cols=85 Identities=14% Similarity=0.047 Sum_probs=50.5
Q ss_pred EEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch----hhHHHHHH
Q 006918 161 EVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVFD 236 (625)
Q Consensus 161 ~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~----~~~~~il~ 236 (625)
+|.+.....+.-..+...+...++..|.++.+-- .. ....+.++.+++.++++|.+.+.. ..+..+++
T Consensus 5 ~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG---~~-----vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~ 76 (137)
T PRK02261 5 TVVLGVIGADCHAVGNKILDRALTEAGFEVINLG---VM-----TSQEEFIDAAIETDADAILVSSLYGHGEIDCRGLRE 76 (137)
T ss_pred EEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECC---CC-----CCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHH
Confidence 4433333444444556778888889999887532 11 123345666667789988886433 46777777
Q ss_pred HHHHcCCCCCCeEEEeeC
Q 006918 237 VAQRLGMMDSGYVWIATT 254 (625)
Q Consensus 237 ~a~~~g~~~~~~~~i~~~ 254 (625)
+.++.+... -.+|+...
T Consensus 77 ~L~~~~~~~-~~i~vGG~ 93 (137)
T PRK02261 77 KCIEAGLGD-ILLYVGGN 93 (137)
T ss_pred HHHhcCCCC-CeEEEECC
Confidence 777776432 23444443
No 478
>PRK15138 aldehyde reductase; Provisional
Probab=29.22 E-value=2.5e+02 Score=28.93 Aligned_cols=75 Identities=12% Similarity=0.155 Sum_probs=46.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCC-CcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 006918 148 SAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (625)
Q Consensus 148 ~al~~ll~~~~W~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 226 (625)
+.+.+++++ + +++.+++.+... .....+.+.+.++ |+.+.....+.+. ...++.....+..++.++|+||-.+
T Consensus 20 ~~l~~~l~~-~-~~~livt~~~~~~~~g~~~~v~~~L~--~~~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 93 (387)
T PRK15138 20 AGLREQIPA-D-ARVLITYGGGSVKKTGVLDQVLDALK--GMDVLEFGGIEPN--PTYETLMKAVKLVREEKITFLLAVG 93 (387)
T ss_pred HHHHHHHhc-C-CeEEEECCCchHHhcCcHHHHHHHhc--CCeEEEECCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 444556665 4 888877643322 1234566777775 5544332233333 4577888888888889999999766
Q ss_pred ch
Q 006918 227 YS 228 (625)
Q Consensus 227 ~~ 228 (625)
.+
T Consensus 94 GG 95 (387)
T PRK15138 94 GG 95 (387)
T ss_pred Ch
Confidence 54
No 479
>PF13155 Toprim_2: Toprim-like
Probab=29.20 E-value=74 Score=24.87 Aligned_cols=41 Identities=17% Similarity=0.326 Sum_probs=34.1
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHhccc
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIR 187 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g 187 (625)
...+.+++...+-++|.+..++|.-|+...+.+.+.+.+.+
T Consensus 35 ~~~~~~~l~~~~~~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 35 EKQQIKFLKENPYKKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred HHHHHHHHHhCCCCcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 35778888776668888888889999999999999998876
No 480
>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=29.19 E-value=2.4e+02 Score=24.97 Aligned_cols=70 Identities=19% Similarity=0.150 Sum_probs=45.2
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.+... .+++++.. +....+...|.+|++|+++..... .....+.+ .+.......++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~~-~~l~~~~~~~v~~~ 81 (198)
T cd08413 13 YVLPPVIAAFRKRYP-KVKLSLHQ-------GTPSQIAEMVLKGEADIAIATEAL--DDHPDLVT-LPCYRWNHCVIVPP 81 (198)
T ss_pred hhccHHHHHHHHhCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEEccCC--CCCCCcEE-EEeeeeeEEEEecC
Confidence 344577888877764 23366665 558889999999999999853221 11223443 56667777777754
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 82 ~ 82 (198)
T cd08413 82 G 82 (198)
T ss_pred C
Confidence 3
No 481
>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=29.04 E-value=1.9e+02 Score=25.86 Aligned_cols=70 Identities=11% Similarity=0.235 Sum_probs=45.0
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++.++.+... .+++++... ++.+.++..|.+|++|+++.... ...+.+++ .|+......++++.
T Consensus 13 ~~~~~~l~~~~~~~P-~~~v~~~~~------~~~~~l~~~L~~g~lDl~i~~~~---~~~~~l~~-~~l~~~~~~lv~~~ 81 (203)
T cd08463 13 LFLPELVARFRREAP-GARLEIHPL------GPDFDYERALASGELDLVIGNWP---EPPEHLHL-SPLFSDEIVCLMRA 81 (203)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEeC------CcchhHHHHHhcCCeeEEEeccc---cCCCCcEE-eEeecCceEEEEeC
Confidence 455688888887664 233666652 23678999999999999986321 12233444 35666677777654
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 82 ~ 82 (203)
T cd08463 82 D 82 (203)
T ss_pred C
Confidence 4
No 482
>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=28.93 E-value=2.1e+02 Score=25.03 Aligned_cols=69 Identities=16% Similarity=0.229 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.++++.+.+... .+++++.. ++...++..|.+|++|+++..... ....+++ .|+....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~~-~~l~~~~~~~v~~~ 80 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE-------YGGKKVEQAVLNGELDVGITVLPV---DEEEFDS-QPLCNEPLVAVLPR 80 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE-------cCcHHHHHHHHcCCCCEEEEeccc---ccCCcee-EEeccccEEEEecC
Confidence 455688888887753 33466665 457889999999999999864322 2233333 35666777777754
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 81 ~ 81 (197)
T cd08438 81 G 81 (197)
T ss_pred C
Confidence 3
No 483
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=28.87 E-value=58 Score=27.62 Aligned_cols=30 Identities=20% Similarity=0.329 Sum_probs=23.8
Q ss_pred cEEEEcCCChHHHHHHHHhhhcCCCcEEee
Q 006918 92 TLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (625)
Q Consensus 92 v~aviG~~~s~~~~~va~~~~~~~iP~Is~ 121 (625)
++.++|+..|.=+.-+..++...+.++|+.
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~~~~~i~~ 30 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRLGAVVISQ 30 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHSTEEEEEH
T ss_pred CEEEECCCCCCHHHHHHHHHHHCCCEEEeH
Confidence 467899999987777788887888778764
No 484
>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=28.78 E-value=3.2e+02 Score=26.03 Aligned_cols=79 Identities=11% Similarity=-0.008 Sum_probs=45.2
Q ss_pred EEEEEec----CCCCcchHHHHHHHHhc-------cceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh
Q 006918 162 VIAIFND----DDQGRNGVTALGDKLAE-------IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT 230 (625)
Q Consensus 162 v~ii~~d----~~~g~~~~~~l~~~l~~-------~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~ 230 (625)
|+++... ..+|......++..+++ .|.++.... .... .+.......++++.+.+.++||.......
T Consensus 2 ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~-~d~~--~~~~~~~~~~~~l~~~~v~~iig~~~~~~ 78 (298)
T cd06268 2 IGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVV-EDTQ--GDPEAAAAAARELVDDGVDAVIGPLSSGV 78 (298)
T ss_pred eeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEE-ecCC--CCHHHHHHHHHHHHhCCceEEEcCCcchh
Confidence 5566653 34666666666666655 344554432 2222 23445556677777667887776555555
Q ss_pred HHHHHHHHHHcCC
Q 006918 231 GLMVFDVAQRLGM 243 (625)
Q Consensus 231 ~~~il~~a~~~g~ 243 (625)
+..+...+.+.++
T Consensus 79 ~~~~~~~~~~~~i 91 (298)
T cd06268 79 ALAAAPVAEEAGV 91 (298)
T ss_pred HHhhHHHHHhCCC
Confidence 5566667766663
No 485
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=28.75 E-value=4.2e+02 Score=26.23 Aligned_cols=78 Identities=3% Similarity=-0.011 Sum_probs=48.5
Q ss_pred cEEEEEEec--CCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHH
Q 006918 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 237 (625)
Q Consensus 160 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~ 237 (625)
+.|+++..+ +.|.....+.+.+.+++.|..+.... . . .+.......++.+...+.+.||+..... ....++.
T Consensus 64 ~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~-~--~--~~~~~~~~~~~~~~~~~vdgiI~~~~~~-~~~~~~~ 137 (331)
T PRK14987 64 RAIGVLLPSLTNQVFAEVLRGIESVTDAHGYQTMLAH-Y--G--YKPEMEQERLESMLSWNIDGLILTERTH-TPRTLKM 137 (331)
T ss_pred CEEEEEeCCCcchhHHHHHHHHHHHHHHCCCEEEEec-C--C--CCHHHHHHHHHHHHhcCCCEEEEcCCCC-CHHHHHH
Confidence 478888764 45666778889999999998876432 1 1 1233334566667777889888864221 2344566
Q ss_pred HHHcCC
Q 006918 238 AQRLGM 243 (625)
Q Consensus 238 a~~~g~ 243 (625)
+.+.++
T Consensus 138 l~~~~i 143 (331)
T PRK14987 138 IEVAGI 143 (331)
T ss_pred HHhCCC
Confidence 666553
No 486
>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=28.71 E-value=2.7e+02 Score=24.18 Aligned_cols=69 Identities=20% Similarity=0.216 Sum_probs=44.8
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.+... .+++++.. ++...+...+.+|++|+++... ......+. ..+.....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (193)
T cd08442 13 VRLPPLLAAYHARYP-KVDLSLST-------GTTGALIQAVLEGRLDGAFVAG---PVEHPRLE-QEPVFQEELVLVSPK 80 (193)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEEeC---CCCCCCcE-EEEeecCcEEEEecC
Confidence 445678888877663 23366665 5578899999999999998532 22223333 335666677777755
Q ss_pred C
Q 006918 569 R 569 (625)
Q Consensus 569 ~ 569 (625)
.
T Consensus 81 ~ 81 (193)
T cd08442 81 G 81 (193)
T ss_pred C
Confidence 3
No 487
>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=28.62 E-value=2.5e+02 Score=24.58 Aligned_cols=69 Identities=20% Similarity=0.236 Sum_probs=44.0
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.++.. .+++++.. +++..++..+.+|++|+++..-... ....+.+ .++....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~~-~~l~~~~~~~~~~~ 81 (199)
T cd08430 13 SFLPPILERFRAQHP-QVEIKLHT-------GDPADAIDKVLNGEADIAIAARPDK--LPARLAF-LPLATSPLVFIAPN 81 (199)
T ss_pred eeccHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHCCCCCEEEEecCCC--CCcccEE-EeeccceEEEEEeC
Confidence 444577888888773 23377765 5588899999999999998532111 1122332 45666666666654
No 488
>PRK13337 putative lipid kinase; Reviewed
Probab=28.49 E-value=3.8e+02 Score=26.44 Aligned_cols=74 Identities=15% Similarity=0.113 Sum_probs=45.0
Q ss_pred cEEEEEEecCCCCc----chHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHH
Q 006918 160 GEVIAIFNDDDQGR----NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVF 235 (625)
Q Consensus 160 ~~v~ii~~d~~~g~----~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il 235 (625)
+++.+|+... .|. ...+.+.+.+++.|+++....+-. ..+.....+++.+.+.++||+.+.......++
T Consensus 2 ~r~~~I~Np~-aG~~~~~~~~~~~~~~l~~~~~~~~~~~t~~------~~~a~~~a~~~~~~~~d~vvv~GGDGTl~~vv 74 (304)
T PRK13337 2 KRARIIYNPT-SGRELFKKNLPDVLQKLEQAGYETSAHATTG------PGDATLAAERAVERKFDLVIAAGGDGTLNEVV 74 (304)
T ss_pred ceEEEEECCc-ccchhHHHHHHHHHHHHHHcCCEEEEEEecC------CCCHHHHHHHHHhcCCCEEEEEcCCCHHHHHH
Confidence 4677777433 343 234566778888888755432222 23455566666556678888877777777777
Q ss_pred HHHHH
Q 006918 236 DVAQR 240 (625)
Q Consensus 236 ~~a~~ 240 (625)
.....
T Consensus 75 ~gl~~ 79 (304)
T PRK13337 75 NGIAE 79 (304)
T ss_pred HHHhh
Confidence 66553
No 489
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=28.37 E-value=3.7e+02 Score=22.82 Aligned_cols=22 Identities=5% Similarity=0.205 Sum_probs=12.1
Q ss_pred hhHHHHHHHHHhcCCceEEEEE
Q 006918 204 ETDVRNELVKVRMMEARVIVVH 225 (625)
Q Consensus 204 ~~~~~~~l~~i~~~~~~vIvl~ 225 (625)
.+.+..+++.++..+.++|++.
T Consensus 54 Rp~l~~ll~~~~~g~vd~vvv~ 75 (140)
T cd03770 54 RPGFNRMIEDIEAGKIDIVIVK 75 (140)
T ss_pred CHHHHHHHHHHHcCCCCEEEEe
Confidence 4455556666655555555554
No 490
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=28.30 E-value=3.2e+02 Score=25.99 Aligned_cols=91 Identities=15% Similarity=0.097 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHHHcC--CcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceE
Q 006918 144 LYLMSAIAEMVSYFG--WGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARV 221 (625)
Q Consensus 144 ~~~~~al~~ll~~~~--W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v 221 (625)
...+..++..+..+. -++|.++..+. ..+.+.+.+.+.|+.+.....|... ....+.......++..+.++
T Consensus 106 ~~~~~~l~~~l~~~~~~~~~vl~~~~~~-----~r~~l~~~L~~~G~~v~~~~~Y~~~--~~~~~~~~~~~~~~~~~~d~ 178 (248)
T COG1587 106 DGDSEGLLEELPELLKGGKRVLILRGNG-----GREVLEEKLEERGAEVREVEVYRTE--PPPLDEATLIELLKLGEVDA 178 (248)
T ss_pred ccchHHHHHHhhhhccCCCeEEEEcCCC-----chHHHHHHHHhCCCEEEEEeeeeec--CCCccHHHHHHHHHhCCCCE
Confidence 344677777777664 36777766443 3578999999999998877666644 11222333444555555554
Q ss_pred EEEEcchhhHHHHHHHHHHcC
Q 006918 222 IVVHGYSRTGLMVFDVAQRLG 242 (625)
Q Consensus 222 Ivl~~~~~~~~~il~~a~~~g 242 (625)
|++.++..++.++..+.+.+
T Consensus 179 -v~ftS~~~v~~~~~~~~~~~ 198 (248)
T COG1587 179 -VVFTSSSAVRALLALAPESG 198 (248)
T ss_pred -EEEeCHHHHHHHHHHccccc
Confidence 45567778888888877654
No 491
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=28.18 E-value=3.9e+02 Score=29.30 Aligned_cols=95 Identities=15% Similarity=0.112 Sum_probs=58.9
Q ss_pred HHHHHHHHH-cCCcEEEEEEecCCCCcchHHHHHHHHhccce-EEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEE
Q 006918 148 SAIAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRC-KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (625)
Q Consensus 148 ~al~~ll~~-~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~ 225 (625)
+++..+.+. .+-.+|.|..+-|..|......+...+++.|. .+.+ .+|........--...++++.+.+.+.||.+
T Consensus 57 ~a~~ri~~ai~~~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~--~IP~R~~eGYGl~~~~i~~~~~~~~~LiItv 134 (575)
T PRK11070 57 KAVELLYNALREGTRIIVVGDFDADGATSTALSVLALRSLGCSNVDY--LVPNRFEDGYGLSPEVVDQAHARGAQLIVTV 134 (575)
T ss_pred HHHHHHHHHHHCCCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEE--EeCCCCcCCCCCCHHHHHHHHhcCCCEEEEE
Confidence 333333333 23468876665566788888888899999888 4544 2342110000001245666666778888887
Q ss_pred cchhhHHHHHHHHHHcCCC
Q 006918 226 GYSRTGLMVFDVAQRLGMM 244 (625)
Q Consensus 226 ~~~~~~~~il~~a~~~g~~ 244 (625)
-.+..+...++.|+++|+.
T Consensus 135 D~Gi~~~e~i~~a~~~gid 153 (575)
T PRK11070 135 DNGISSHAGVAHAHALGIP 153 (575)
T ss_pred cCCcCCHHHHHHHHHCCCC
Confidence 6676777788888988875
No 492
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming). Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response.
Probab=28.12 E-value=81 Score=30.69 Aligned_cols=51 Identities=12% Similarity=0.141 Sum_probs=38.0
Q ss_pred EecCCCChHHHHH-HHHHHHhc-CcEEEEcCCChHHHHHHHHhhhcCCCcEEe
Q 006918 70 MHDAKFNGFLSIM-GALQFMET-DTLAIVGPQSAVMAHVLSHLANELQVPLLS 120 (625)
Q Consensus 70 ~~D~~~~~~~a~~-~~~~l~~~-~v~aviG~~~s~~~~~va~~~~~~~iP~Is 120 (625)
+.|+=|++..--+ ++.+|..+ .+..|||+..|+.+.-++.+|...+.|..-
T Consensus 187 ~~nTIC~AT~~RQ~a~~~la~~vD~miVVGg~nSsNT~rL~ei~~~~~~~t~~ 239 (280)
T TIGR00216 187 VFNTICYATQNRQDAVKELAPEVDLMIVIGGKNSSNTTRLYEIAEEHGPPSYL 239 (280)
T ss_pred CCCCcccccHHHHHHHHHHHhhCCEEEEECCCCCchHHHHHHHHHHhCCCEEE
Confidence 4677676555444 44455444 788999999999999999999999887553
No 493
>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=28.11 E-value=2.2e+02 Score=24.90 Aligned_cols=68 Identities=10% Similarity=0.095 Sum_probs=43.5
Q ss_pred eeeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
.+-.+++..+.+... ++++++.. +....++..+.+|++|+++..... ....+. +.+.....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~~~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08456 13 SFLPRAIKAFLQRHP-DVTISIHT-------RDSPTVEQWLSAQQCDLGLVSTLH---EPPGIE-RERLLRIDGVCVLPP 80 (196)
T ss_pred hhHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEecCC---CCCCee-EEEeeccCeEEEecC
Confidence 455677888887763 33477766 457788999999999999853221 122232 345566666666644
No 494
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=27.84 E-value=3.6e+02 Score=26.34 Aligned_cols=75 Identities=16% Similarity=0.105 Sum_probs=44.4
Q ss_pred cEEEEEEecCCC---CcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHH
Q 006918 160 GEVIAIFNDDDQ---GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (625)
Q Consensus 160 ~~v~ii~~d~~~---g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~ 236 (625)
+++.+|+..... +....+.+.+.+++.|+.+.....-..+ +....+++..+.+.++||+.+.......++.
T Consensus 2 ~~~~ii~Np~sg~~~~~~~~~~i~~~l~~~~~~~~~~~t~~~~------~~~~~~~~~~~~~~d~ivv~GGDGTl~~v~~ 75 (293)
T TIGR00147 2 AEAPAILNPTAGKSNDNKPLREVIMLLREEGMEIHVRVTWEKG------DAARYVEEARKFGVDTVIAGGGDGTINEVVN 75 (293)
T ss_pred ceEEEEECCCccchhhHHHHHHHHHHHHHCCCEEEEEEecCcc------cHHHHHHHHHhcCCCEEEEECCCChHHHHHH
Confidence 467777743221 1234567788888888876543333221 2233444444456788888777777777777
Q ss_pred HHHH
Q 006918 237 VAQR 240 (625)
Q Consensus 237 ~a~~ 240 (625)
.+..
T Consensus 76 ~l~~ 79 (293)
T TIGR00147 76 ALIQ 79 (293)
T ss_pred HHhc
Confidence 6654
No 495
>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=27.70 E-value=3e+02 Score=26.19 Aligned_cols=76 Identities=12% Similarity=0.078 Sum_probs=44.4
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh----HHHHH
Q 006918 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT----GLMVF 235 (625)
Q Consensus 162 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~----~~~il 235 (625)
|+++.. ++.|.....+.+.+.+++.|+.+..... . .+...-.+.++.+.+.+.+.||+...... ....+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEKGYSLLLAST-N----NDPERERKCLENMLSQGIDGLIIEPTKSALPNPNIDLY 76 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHcCCEEEEEeC-C----CCHHHHHHHHHHHHHcCCCEEEEeccccccccccHHHH
Confidence 455554 3455556777888888888887764321 1 12333445667777778888887543221 22455
Q ss_pred HHHHHcC
Q 006918 236 DVAQRLG 242 (625)
Q Consensus 236 ~~a~~~g 242 (625)
+++.+.+
T Consensus 77 ~~~~~~~ 83 (273)
T cd01541 77 LKLEKLG 83 (273)
T ss_pred HHHHHCC
Confidence 6665555
No 496
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=27.64 E-value=3.6e+02 Score=22.42 Aligned_cols=25 Identities=16% Similarity=-0.117 Sum_probs=16.1
Q ss_pred chHHHHHHHHHHHHHcCCcEEEEEE
Q 006918 142 NDLYLMSAIAEMVSYFGWGEVIAIF 166 (625)
Q Consensus 142 s~~~~~~al~~ll~~~~W~~v~ii~ 166 (625)
+-..|-..+-++....||.-+.++.
T Consensus 15 s~~~Q~~~~~~~a~~~g~~i~~~~~ 39 (137)
T cd00338 15 SLERQREALREYAARNGLEVVGEYE 39 (137)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEEEE
Confidence 3445667777777777887655443
No 497
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=27.52 E-value=1.2e+02 Score=28.42 Aligned_cols=102 Identities=14% Similarity=0.065 Sum_probs=61.1
Q ss_pred HHHHHHHHHHHHH-cCCcEEEEEEecCCCCcchHHHHHHHHhccceEEEEeeecCCCCCCChhHHHHHHHHHhcCCceEE
Q 006918 144 LYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVI 222 (625)
Q Consensus 144 ~~~~~al~~ll~~-~~W~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vI 222 (625)
..-++.+++.+.. ..-+++.++..+. ....+.+.+++.|..|.....|... .........+.++..+.++
T Consensus 101 ~~~s~~L~~~l~~~~~~~~vl~~~g~~-----~~~~l~~~L~~~g~~v~~~~vY~~~---~~~~~~~~~~~l~~~~~~~- 171 (231)
T PF02602_consen 101 EGSSEGLAELLKEQLRGKRVLILRGEG-----GRPDLPEKLREAGIEVTEVIVYETP---PEELSPELKEALDRGEIDA- 171 (231)
T ss_dssp SSSHHHHHGGHHHCCTTEEEEEEESSS-----SCHHHHHHHHHTTEEEEEEECEEEE---EHHHHHHHHHHHHHTTTSE-
T ss_pred CCCHHHHHHHHHhhCCCCeEEEEcCCC-----ccHHHHHHHHHCCCeEEEEEEeecc---cccchHHHHHHHHcCCCCE-
Confidence 3346778887774 4348888777544 3667888999999888765555431 1233344555565556654
Q ss_pred EEEcchhhHHHHHHHHHHcCCCCCCeEEEeeC
Q 006918 223 VVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (625)
Q Consensus 223 vl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (625)
|++.++..+..+++...+.+-......++..+
T Consensus 172 v~ftS~~~~~~~~~~~~~~~~~~~~~~~~~ig 203 (231)
T PF02602_consen 172 VVFTSPSAVRAFLELLKKNGALLKRVPIVAIG 203 (231)
T ss_dssp EEESSHHHHHHHHHHSSGHHHHHTTSEEEESS
T ss_pred EEECCHHHHHHHHHHhHhhhhhhhCCEEEEEC
Confidence 55667777777777665421112344555544
No 498
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=27.51 E-value=55 Score=26.82 Aligned_cols=32 Identities=25% Similarity=0.461 Sum_probs=26.9
Q ss_pred cEEEEcCCChHHHHHHHHhhhcCCCcEEeecc
Q 006918 92 TLAIVGPQSAVMAHVLSHLANELQVPLLSFTA 123 (625)
Q Consensus 92 v~aviG~~~s~~~~~va~~~~~~~iP~Is~~~ 123 (625)
+++|.|+.+|.=+.....+++.+++++++...
T Consensus 1 vI~I~G~~gsGKST~a~~La~~~~~~~i~~d~ 32 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAERLGFPVISMDD 32 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTCEEEEEHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHHCCeEEEecc
Confidence 57889999998888888888888999997654
No 499
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=27.29 E-value=2.2e+02 Score=21.20 Aligned_cols=49 Identities=18% Similarity=0.186 Sum_probs=33.5
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCC----cchHHHHHHHHhccceEEEEeeec
Q 006918 147 MSAIAEMVSYFGWGEVIAIFNDDDQG----RNGVTALGDKLAEIRCKISYKSAL 196 (625)
Q Consensus 147 ~~al~~ll~~~~W~~v~ii~~d~~~g----~~~~~~l~~~l~~~g~~v~~~~~~ 196 (625)
+--++..+.+++ .+|.+|...+... ....+.+.+.+++.|+++.....+
T Consensus 11 g~E~A~~l~~~g-~~vtli~~~~~~~~~~~~~~~~~~~~~l~~~gV~v~~~~~v 63 (80)
T PF00070_consen 11 GIELAEALAELG-KEVTLIERSDRLLPGFDPDAAKILEEYLRKRGVEVHTNTKV 63 (80)
T ss_dssp HHHHHHHHHHTT-SEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEEEESEEE
T ss_pred HHHHHHHHHHhC-cEEEEEeccchhhhhcCHHHHHHHHHHHHHCCCEEEeCCEE
Confidence 445666777777 6777777655433 456677888888888888765443
No 500
>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=27.24 E-value=2e+02 Score=25.58 Aligned_cols=66 Identities=18% Similarity=0.257 Sum_probs=40.5
Q ss_pred eeHHHHHHHHHHCCCCccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecccccceEecccccccceEEEEec
Q 006918 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (625)
Q Consensus 490 ~~idl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~l~~~ 568 (625)
+-..++..+.+... ++++++.. ++. .++..|.+|++|+++..-.. ....+.+ .|+....+.++++.
T Consensus 14 ~l~~~i~~~~~~~P-~i~l~i~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~~-~~l~~~~~~~v~~~ 79 (200)
T cd08462 14 LLPPVIERVAREAP-GVRFELLP-------PDD-QPHELLERGEVDLLIAPERF---MSDGHPS-EPLFEEEFVCVVWA 79 (200)
T ss_pred HHHHHHHHHHHHCC-CCEEEEec-------CCh-hHHHHHhcCCeeEEEecCCC---CCCCcee-eeeeccceEEEEcC
Confidence 34567777776653 23366654 335 89999999999999863221 1222332 35666677776654
Done!