Query 006733
Match_columns 633
No_of_seqs 275 out of 3538
Neff 10.1
Searched_HMMs 46136
Date Thu Mar 28 13:42:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006733.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006733hhsearch_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 5.3E-59 1.1E-63 454.8 38.1 545 29-633 23-601 (897)
2 KOG4440 NMDA selective glutama 100.0 3.2E-58 6.9E-63 451.4 37.2 523 27-633 30-619 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 7.3E-49 1.6E-53 399.7 47.1 476 80-633 82-615 (1258)
4 cd06362 PBP1_mGluR Ligand bind 100.0 4E-47 8.6E-52 403.3 40.7 376 31-426 1-451 (452)
5 cd06374 PBP1_mGluR_groupI Liga 100.0 9.9E-47 2.1E-51 400.6 40.1 379 28-427 5-469 (472)
6 cd06375 PBP1_mGluR_groupII Lig 100.0 2.6E-46 5.7E-51 393.7 41.5 369 31-421 1-454 (458)
7 cd06364 PBP1_CaSR Ligand-bindi 100.0 6.2E-46 1.3E-50 394.8 42.5 379 27-422 7-494 (510)
8 cd06376 PBP1_mGluR_groupIII Li 100.0 5.1E-46 1.1E-50 394.5 41.5 371 31-421 1-452 (463)
9 cd06393 PBP1_iGluR_Kainate_Glu 100.0 4.3E-46 9.2E-51 385.9 39.7 370 32-426 2-382 (384)
10 cd06392 PBP1_iGluR_delta_1 N-t 100.0 1.1E-45 2.5E-50 375.2 39.3 368 34-426 1-399 (400)
11 cd06365 PBP1_Pheromone_recepto 100.0 1.1E-45 2.3E-50 390.8 37.9 371 31-422 1-453 (469)
12 cd06361 PBP1_GPC6A_like Ligand 100.0 3.6E-45 7.7E-50 378.6 40.5 333 46-423 34-395 (403)
13 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 7.4E-45 1.6E-49 376.5 40.6 336 30-422 17-364 (377)
14 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 5.1E-45 1.1E-49 370.9 38.5 360 34-425 1-363 (364)
15 cd06367 PBP1_iGluR_NMDA N-term 100.0 1.6E-44 3.4E-49 372.4 37.1 339 32-421 2-351 (362)
16 cd06386 PBP1_NPR_C_like Ligand 100.0 7E-44 1.5E-48 369.1 39.3 357 36-423 3-380 (387)
17 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 1.4E-43 3.1E-48 359.0 40.0 366 34-425 1-371 (372)
18 cd06380 PBP1_iGluR_AMPA N-term 100.0 1.4E-43 3E-48 368.2 40.6 375 34-425 1-381 (382)
19 cd06366 PBP1_GABAb_receptor Li 100.0 1E-43 2.2E-48 365.3 36.7 342 34-426 1-347 (350)
20 cd06370 PBP1_Speract_GC_like L 100.0 3.3E-43 7.1E-48 366.9 38.2 356 33-417 1-390 (404)
21 cd06363 PBP1_Taste_receptor Li 100.0 7.6E-43 1.7E-47 364.9 39.6 351 29-422 3-396 (410)
22 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 1.1E-42 2.5E-47 355.5 39.6 365 34-426 1-370 (371)
23 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 1.1E-42 2.3E-47 356.7 39.3 363 34-426 1-369 (370)
24 cd06385 PBP1_NPR_A Ligand-bind 100.0 4.6E-43 1E-47 366.8 36.0 362 34-423 1-392 (405)
25 cd06391 PBP1_iGluR_delta_2 N-t 100.0 2.2E-42 4.8E-47 355.3 39.8 368 34-425 1-398 (400)
26 cd06373 PBP1_NPR_like Ligand b 100.0 6.5E-43 1.4E-47 364.8 36.3 363 34-423 1-390 (396)
27 cd06372 PBP1_GC_G_like Ligand- 100.0 1.3E-42 2.9E-47 361.7 38.5 362 34-423 1-387 (391)
28 cd06352 PBP1_NPR_GC_like Ligan 100.0 5.4E-42 1.2E-46 357.7 38.1 364 34-423 1-383 (389)
29 cd06371 PBP1_sensory_GC_DEF_li 100.0 1.3E-41 2.8E-46 351.3 36.8 353 34-419 1-369 (382)
30 cd06382 PBP1_iGluR_Kainate N-t 100.0 1.5E-41 3.2E-46 345.6 32.7 321 34-425 1-326 (327)
31 cd06384 PBP1_NPR_B Ligand-bind 100.0 5.8E-41 1.3E-45 349.7 37.4 362 34-423 1-393 (399)
32 KOG1056 Glutamate-gated metabo 100.0 6.5E-41 1.4E-45 353.8 36.8 398 27-465 26-495 (878)
33 cd06394 PBP1_iGluR_Kainate_KA1 100.0 3.8E-41 8.3E-46 336.0 29.2 325 34-426 1-332 (333)
34 PF01094 ANF_receptor: Recepto 100.0 3.2E-39 7E-44 332.4 33.4 340 48-409 1-348 (348)
35 PRK15404 leucine ABC transport 100.0 1.5E-38 3.2E-43 327.0 36.9 336 29-411 22-362 (369)
36 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 1.2E-37 2.6E-42 318.5 34.6 328 34-408 1-334 (334)
37 cd06368 PBP1_iGluR_non_NMDA_li 100.0 1.1E-37 2.4E-42 317.0 32.6 321 34-425 1-323 (324)
38 cd06381 PBP1_iGluR_delta_like 100.0 4.2E-37 9.1E-42 312.8 36.4 336 34-425 1-362 (363)
39 cd06345 PBP1_ABC_ligand_bindin 100.0 8.8E-37 1.9E-41 312.8 34.1 320 34-399 1-337 (344)
40 cd06338 PBP1_ABC_ligand_bindin 100.0 7.6E-37 1.6E-41 313.8 33.3 328 34-407 1-344 (345)
41 cd06346 PBP1_ABC_ligand_bindin 100.0 1E-36 2.2E-41 307.6 30.9 305 34-406 1-311 (312)
42 cd06348 PBP1_ABC_ligand_bindin 100.0 3.5E-36 7.6E-41 308.5 34.6 334 34-405 1-343 (344)
43 cd06350 PBP1_GPCR_family_C_lik 100.0 4.7E-36 1E-40 308.4 31.7 308 34-422 1-340 (348)
44 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 2.6E-35 5.7E-40 299.1 33.4 303 79-427 43-355 (362)
45 cd06340 PBP1_ABC_ligand_bindin 100.0 3.3E-35 7E-40 301.1 31.1 324 34-401 1-342 (347)
46 cd06355 PBP1_FmdD_like Peripla 100.0 1E-34 2.2E-39 297.1 34.5 337 34-416 1-345 (348)
47 cd06344 PBP1_ABC_ligand_bindin 100.0 5.2E-35 1.1E-39 298.0 31.1 320 34-401 1-327 (332)
48 TIGR03669 urea_ABC_arch urea A 100.0 2.2E-34 4.9E-39 295.0 35.3 341 33-420 1-349 (374)
49 COG0683 LivK ABC-type branched 100.0 2.5E-34 5.4E-39 295.0 34.9 338 30-411 8-355 (366)
50 cd06329 PBP1_SBP_like_3 Peripl 100.0 1.9E-34 4.2E-39 294.9 32.2 315 34-396 1-332 (342)
51 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 2E-33 4.3E-38 280.1 37.4 335 30-425 16-374 (382)
52 cd06347 PBP1_ABC_ligand_bindin 100.0 5.7E-34 1.2E-38 291.4 34.0 320 34-401 1-329 (334)
53 cd06331 PBP1_AmiC_like Type I 100.0 4.8E-34 1.1E-38 291.1 32.9 320 34-399 1-326 (333)
54 cd06383 PBP1_iGluR_AMPA_Like N 100.0 8.3E-35 1.8E-39 296.5 25.8 336 43-406 8-358 (368)
55 cd06343 PBP1_ABC_ligand_bindin 100.0 1.6E-33 3.5E-38 290.9 35.8 342 30-413 4-362 (362)
56 TIGR03407 urea_ABC_UrtA urea A 100.0 2E-33 4.4E-38 288.6 35.1 330 33-408 1-337 (359)
57 cd06349 PBP1_ABC_ligand_bindin 100.0 2.4E-33 5.2E-38 287.0 34.3 330 34-412 1-339 (340)
58 cd06327 PBP1_SBP_like_1 Peripl 100.0 1.3E-33 2.8E-38 288.1 30.6 318 34-399 1-328 (334)
59 cd06336 PBP1_ABC_ligand_bindin 100.0 1.7E-33 3.7E-38 288.4 30.4 322 34-401 1-342 (347)
60 PF13458 Peripla_BP_6: Peripla 100.0 3.6E-33 7.8E-38 286.6 31.1 332 32-409 1-339 (343)
61 cd06330 PBP1_Arsenic_SBP_like 100.0 6.4E-33 1.4E-37 284.7 32.8 322 34-397 1-335 (346)
62 cd06359 PBP1_Nba_like Type I p 100.0 7.8E-33 1.7E-37 282.1 32.9 324 34-406 1-331 (333)
63 cd06357 PBP1_AmiC Periplasmic 100.0 2.1E-32 4.6E-37 281.2 36.3 340 34-417 1-347 (360)
64 cd06328 PBP1_SBP_like_2 Peripl 100.0 3.1E-32 6.7E-37 277.2 33.6 315 34-396 1-323 (333)
65 cd06360 PBP1_alkylbenzenes_lik 100.0 3.2E-32 7E-37 278.6 33.7 323 34-401 1-330 (336)
66 KOG1052 Glutamate-gated kainat 100.0 2.2E-32 4.9E-37 302.3 34.9 354 215-620 6-370 (656)
67 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 4.5E-32 9.8E-37 276.7 33.2 317 34-421 1-322 (328)
68 cd06334 PBP1_ABC_ligand_bindin 100.0 3.5E-32 7.6E-37 277.7 30.4 335 34-397 1-347 (351)
69 cd06335 PBP1_ABC_ligand_bindin 100.0 8.5E-32 1.8E-36 275.8 33.1 324 34-398 1-338 (347)
70 cd06356 PBP1_Amide_Urea_BP_lik 100.0 1E-31 2.2E-36 273.5 33.3 317 34-397 1-325 (334)
71 cd06358 PBP1_NHase Type I peri 100.0 6.8E-32 1.5E-36 275.2 31.6 316 34-397 1-324 (333)
72 cd06332 PBP1_aromatic_compound 100.0 7.1E-31 1.5E-35 268.4 33.4 319 34-400 1-326 (333)
73 PF13433 Peripla_BP_5: Peripla 100.0 2.4E-31 5.1E-36 258.8 27.4 352 33-464 1-359 (363)
74 KOG1055 GABA-B ion channel rec 100.0 4.1E-32 8.8E-37 277.6 18.3 371 27-424 36-432 (865)
75 cd06337 PBP1_ABC_ligand_bindin 100.0 2.6E-30 5.6E-35 265.6 28.8 331 34-412 1-356 (357)
76 cd06326 PBP1_STKc_like Type I 100.0 1.1E-28 2.4E-33 252.4 32.7 320 33-397 1-329 (336)
77 cd06339 PBP1_YraM_LppC_lipopro 100.0 4.2E-29 9.1E-34 254.0 26.5 303 34-398 1-329 (336)
78 TIGR03863 PQQ_ABC_bind ABC tra 100.0 7.1E-28 1.5E-32 243.3 26.9 297 46-407 10-314 (347)
79 cd06341 PBP1_ABC_ligand_bindin 100.0 5E-27 1.1E-31 240.5 30.7 319 34-398 1-331 (341)
80 cd06269 PBP1_glutamate_recepto 100.0 7.3E-27 1.6E-31 234.7 28.5 223 34-262 1-234 (298)
81 cd06333 PBP1_ABC-type_HAAT_lik 100.0 1.6E-26 3.4E-31 233.7 29.8 279 34-331 1-293 (312)
82 cd04509 PBP1_ABC_transporter_G 100.0 1.6E-26 3.5E-31 232.2 27.4 280 34-329 1-290 (299)
83 cd06369 PBP1_GC_C_enterotoxin_ 99.9 5.5E-25 1.2E-29 213.4 30.1 324 46-423 17-366 (380)
84 cd06268 PBP1_ABC_transporter_L 99.9 9.2E-25 2E-29 219.3 28.4 280 34-331 1-287 (298)
85 cd01391 Periplasmic_Binding_Pr 99.7 4.1E-14 8.8E-19 139.1 24.7 216 34-261 1-220 (269)
86 PF04348 LppC: LppC putative l 99.4 8.2E-12 1.8E-16 132.6 20.2 310 30-409 217-534 (536)
87 PRK11917 bifunctional adhesin/ 99.4 3.6E-12 7.9E-17 124.3 11.4 102 468-578 36-138 (259)
88 PRK10797 glutamate and asparta 99.3 6.4E-12 1.4E-16 125.2 10.9 100 469-578 39-143 (302)
89 PRK15437 histidine ABC transpo 99.3 8E-12 1.7E-16 122.4 9.5 98 469-578 25-122 (259)
90 PRK15010 ABC transporter lysin 99.3 1.6E-11 3.4E-16 120.4 11.3 98 469-578 25-122 (260)
91 PRK09495 glnH glutamine ABC tr 99.3 1.4E-11 3E-16 119.8 10.4 107 469-588 24-130 (247)
92 PF00497 SBP_bac_3: Bacterial 99.2 2.5E-11 5.4E-16 116.2 8.1 94 472-577 1-94 (225)
93 PRK15007 putative ABC transpor 99.2 7E-11 1.5E-15 114.7 10.3 98 469-578 20-117 (243)
94 TIGR02995 ectoine_ehuB ectoine 99.2 4.8E-11 1E-15 117.9 8.4 99 468-578 31-129 (275)
95 PRK11260 cystine transporter s 99.2 1.7E-10 3.6E-15 113.5 10.8 99 468-578 39-137 (266)
96 TIGR01096 3A0103s03R lysine-ar 99.1 2.1E-10 4.6E-15 111.8 10.2 98 469-578 23-120 (250)
97 TIGR03870 ABC_MoxJ methanol ox 99.1 2.3E-10 4.9E-15 110.9 7.5 88 471-578 1-91 (246)
98 PF10613 Lig_chan-Glu_bd: Liga 99.0 1.9E-10 4.1E-15 83.0 3.4 47 491-539 14-65 (65)
99 cd01537 PBP1_Repressors_Sugar_ 99.0 4.6E-08 9.9E-13 96.0 20.3 200 34-251 1-206 (264)
100 PRK10859 membrane-bound lytic 99.0 1.4E-09 3.1E-14 115.6 9.2 98 468-578 41-138 (482)
101 cd01536 PBP1_ABC_sugar_binding 99.0 1.8E-07 3.9E-12 92.0 22.9 207 34-258 1-215 (267)
102 TIGR02285 conserved hypothetic 98.9 3.9E-09 8.5E-14 103.9 8.4 96 469-578 17-114 (268)
103 cd06267 PBP1_LacI_sugar_bindin 98.9 1.9E-07 4.2E-12 91.5 20.3 202 34-253 1-207 (264)
104 cd06300 PBP1_ABC_sugar_binding 98.9 4.7E-07 1E-11 89.4 22.5 202 34-250 1-211 (272)
105 PRK09959 hybrid sensory histid 98.8 1.2E-08 2.6E-13 122.2 10.3 98 469-578 301-398 (1197)
106 PRK09959 hybrid sensory histid 98.8 1.2E-08 2.6E-13 122.3 9.9 101 468-578 54-154 (1197)
107 COG0834 HisJ ABC-type amino ac 98.8 1.8E-08 3.9E-13 99.7 9.6 118 469-594 33-151 (275)
108 TIGR03871 ABC_peri_MoxJ_2 quin 98.7 2.4E-08 5.3E-13 96.1 8.1 89 472-578 2-90 (232)
109 COG2984 ABC-type uncharacteriz 98.7 6.3E-06 1.4E-10 78.9 23.8 204 28-247 26-240 (322)
110 cd06325 PBP1_ABC_uncharacteriz 98.7 1.4E-06 3E-11 86.5 20.7 201 34-247 1-208 (281)
111 cd06320 PBP1_allose_binding Pe 98.7 5.8E-06 1.3E-10 81.8 23.4 208 34-258 1-216 (275)
112 cd00134 PBPb Bacterial peripla 98.6 1.9E-07 4.2E-12 88.2 9.8 96 472-579 1-96 (218)
113 PRK10653 D-ribose transporter 98.6 3.4E-05 7.4E-10 77.2 26.2 209 31-258 25-240 (295)
114 cd06282 PBP1_GntR_like_2 Ligan 98.6 6.5E-06 1.4E-10 80.9 19.9 198 34-251 1-204 (266)
115 COG3107 LppC Putative lipoprot 98.5 9.1E-06 2E-10 82.0 19.0 255 29-302 254-538 (604)
116 smart00062 PBPb Bacterial peri 98.5 4.1E-07 9E-12 85.8 9.4 96 471-578 1-96 (219)
117 cd06323 PBP1_ribose_binding Pe 98.5 4.1E-05 8.9E-10 75.2 22.4 205 34-258 1-214 (268)
118 cd06317 PBP1_ABC_sugar_binding 98.4 4.2E-05 9.1E-10 75.5 21.7 210 34-258 1-221 (275)
119 cd06273 PBP1_GntR_like_1 This 98.4 3.1E-05 6.7E-10 76.2 20.6 200 34-251 1-206 (268)
120 cd06310 PBP1_ABC_sugar_binding 98.4 0.00012 2.6E-09 72.2 24.3 209 34-258 1-217 (273)
121 cd06319 PBP1_ABC_sugar_binding 98.4 5.7E-05 1.2E-09 74.7 22.0 208 34-258 1-219 (277)
122 cd06312 PBP1_ABC_sugar_binding 98.4 8.6E-05 1.9E-09 73.2 22.8 209 34-258 1-217 (271)
123 cd06305 PBP1_methylthioribose_ 98.4 8.4E-05 1.8E-09 73.3 22.3 209 34-259 1-218 (273)
124 cd06301 PBP1_rhizopine_binding 98.4 0.00013 2.9E-09 71.8 23.7 210 34-259 1-219 (272)
125 PRK10936 TMAO reductase system 98.3 0.00041 8.8E-09 70.9 26.2 202 29-248 43-255 (343)
126 PF13407 Peripla_BP_4: Peripla 98.3 0.00014 3.1E-09 70.9 22.0 201 35-249 1-208 (257)
127 PRK09701 D-allose transporter 98.3 0.00076 1.7E-08 67.9 27.2 213 34-258 26-250 (311)
128 cd01545 PBP1_SalR Ligand-bindi 98.3 0.00012 2.6E-09 72.0 20.9 208 34-258 1-215 (270)
129 PRK15395 methyl-galactoside AB 98.2 0.00062 1.3E-08 69.2 25.6 208 30-247 22-249 (330)
130 cd06298 PBP1_CcpA_like Ligand- 98.2 0.00017 3.7E-09 70.8 20.4 207 34-258 1-213 (268)
131 cd06309 PBP1_YtfQ_like Peripla 98.2 0.00039 8.4E-09 68.6 22.6 210 34-258 1-221 (273)
132 cd06289 PBP1_MalI_like Ligand- 98.2 0.00021 4.6E-09 70.2 20.2 208 34-258 1-214 (268)
133 cd06284 PBP1_LacI_like_6 Ligan 98.2 0.00037 8E-09 68.4 21.2 205 35-258 2-212 (267)
134 cd06303 PBP1_LuxPQ_Quorum_Sens 98.1 0.00081 1.8E-08 66.6 23.4 212 34-258 1-224 (280)
135 cd01539 PBP1_GGBP Periplasmic 98.1 0.00082 1.8E-08 67.4 23.5 216 34-258 1-240 (303)
136 COG4623 Predicted soluble lyti 98.1 3.5E-06 7.7E-11 81.2 5.3 108 468-588 21-128 (473)
137 cd01540 PBP1_arabinose_binding 98.1 0.0011 2.4E-08 65.9 22.7 214 34-258 1-229 (289)
138 cd06311 PBP1_ABC_sugar_binding 98.1 0.0017 3.7E-08 64.0 23.7 212 34-258 1-219 (274)
139 cd06288 PBP1_sucrose_transcrip 98.1 0.00052 1.1E-08 67.4 19.9 204 34-256 1-210 (269)
140 cd06321 PBP1_ABC_sugar_binding 98.0 0.0014 3.1E-08 64.4 22.8 206 34-258 1-214 (271)
141 COG1879 RbsB ABC-type sugar tr 98.0 0.0018 3.9E-08 65.6 24.0 206 31-249 32-245 (322)
142 cd06275 PBP1_PurR Ligand-bindi 98.0 0.00074 1.6E-08 66.4 20.5 207 34-257 1-213 (269)
143 cd01575 PBP1_GntR Ligand-bindi 98.0 0.001 2.2E-08 65.3 21.2 207 34-258 1-213 (268)
144 cd06322 PBP1_ABC_sugar_binding 98.0 0.0023 5E-08 62.8 23.5 203 35-258 2-212 (267)
145 TIGR01481 ccpA catabolite cont 98.0 0.0012 2.5E-08 67.2 21.9 210 31-258 58-272 (329)
146 PF00532 Peripla_BP_1: Peripla 98.0 0.00076 1.6E-08 66.6 19.7 203 34-253 3-211 (279)
147 cd06306 PBP1_TorT-like TorT-li 98.0 0.002 4.4E-08 63.3 22.7 204 34-256 1-215 (268)
148 cd06283 PBP1_RegR_EndR_KdgR_li 98.0 0.0016 3.4E-08 63.9 21.8 202 34-253 1-208 (267)
149 PRK10355 xylF D-xylose transpo 98.0 0.0041 8.9E-08 63.1 24.7 202 30-248 23-236 (330)
150 cd06271 PBP1_AglR_RafR_like Li 98.0 0.0012 2.5E-08 64.9 20.3 205 35-258 2-217 (268)
151 cd01574 PBP1_LacI Ligand-bindi 97.9 0.0028 6E-08 62.1 22.7 198 34-251 1-202 (264)
152 cd06285 PBP1_LacI_like_7 Ligan 97.9 0.0014 3E-08 64.2 20.6 205 34-258 1-211 (265)
153 cd06293 PBP1_LacI_like_11 Liga 97.9 0.0023 5E-08 62.8 21.9 203 34-254 1-208 (269)
154 cd06324 PBP1_ABC_sugar_binding 97.9 0.003 6.5E-08 63.4 22.8 211 35-258 2-238 (305)
155 cd06270 PBP1_GalS_like Ligand 97.9 0.0024 5.2E-08 62.7 21.7 200 34-251 1-205 (268)
156 cd06308 PBP1_sensor_kinase_lik 97.9 0.0032 7E-08 61.9 22.5 208 34-259 1-217 (270)
157 cd06316 PBP1_ABC_sugar_binding 97.9 0.0039 8.5E-08 62.2 23.3 212 34-258 1-219 (294)
158 cd06274 PBP1_FruR Ligand bindi 97.9 0.0027 5.9E-08 62.2 21.8 204 34-254 1-209 (264)
159 cd06281 PBP1_LacI_like_5 Ligan 97.9 0.001 2.2E-08 65.5 18.7 206 34-258 1-212 (269)
160 PRK10703 DNA-binding transcrip 97.9 0.0018 3.9E-08 66.2 21.2 206 31-253 58-269 (341)
161 cd06299 PBP1_LacI_like_13 Liga 97.9 0.0018 3.8E-08 63.5 20.2 200 34-251 1-203 (265)
162 cd01542 PBP1_TreR_like Ligand- 97.9 0.002 4.4E-08 62.8 20.5 199 35-256 2-206 (259)
163 cd06295 PBP1_CelR Ligand bindi 97.9 0.002 4.4E-08 63.5 20.7 206 32-258 3-222 (275)
164 PRK10014 DNA-binding transcrip 97.9 0.003 6.6E-08 64.5 22.3 203 31-250 63-270 (342)
165 cd06278 PBP1_LacI_like_2 Ligan 97.9 0.0024 5.2E-08 62.5 20.7 190 35-245 2-196 (266)
166 PF04392 ABC_sub_bind: ABC tra 97.8 0.0018 4E-08 64.5 19.3 185 34-232 1-194 (294)
167 PRK15408 autoinducer 2-binding 97.8 0.011 2.3E-07 60.0 25.1 200 33-248 24-234 (336)
168 cd06292 PBP1_LacI_like_10 Liga 97.8 0.0042 9.1E-08 61.1 21.8 203 35-253 2-211 (273)
169 cd01538 PBP1_ABC_xylose_bindin 97.8 0.0059 1.3E-07 60.7 22.8 199 34-249 1-216 (288)
170 PRK11303 DNA-binding transcrip 97.8 0.0061 1.3E-07 61.9 23.3 202 31-252 60-267 (328)
171 cd06296 PBP1_CatR_like Ligand- 97.8 0.0027 5.9E-08 62.3 19.9 207 34-258 1-214 (270)
172 cd06290 PBP1_LacI_like_9 Ligan 97.8 0.0039 8.4E-08 61.1 20.6 206 34-258 1-212 (265)
173 cd06318 PBP1_ABC_sugar_binding 97.8 0.0088 1.9E-07 59.1 23.2 208 34-257 1-223 (282)
174 PRK10423 transcriptional repre 97.8 0.0057 1.2E-07 62.1 22.2 203 31-252 55-264 (327)
175 cd06291 PBP1_Qymf_like Ligand 97.7 0.0039 8.5E-08 61.0 20.0 195 34-251 1-201 (265)
176 cd06307 PBP1_uncharacterized_s 97.7 0.013 2.9E-07 57.6 23.7 210 34-258 1-219 (275)
177 cd06286 PBP1_CcpB_like Ligand- 97.7 0.004 8.7E-08 60.8 19.7 204 34-257 1-210 (260)
178 cd06314 PBP1_tmGBP Periplasmic 97.7 0.017 3.8E-07 56.7 24.0 205 34-258 1-213 (271)
179 COG1609 PurR Transcriptional r 97.7 0.0096 2.1E-07 60.3 22.1 207 31-257 57-272 (333)
180 cd06294 PBP1_ycjW_transcriptio 97.7 0.0052 1.1E-07 60.3 20.0 207 34-258 1-219 (270)
181 cd06313 PBP1_ABC_sugar_binding 97.7 0.018 4E-07 56.6 23.6 180 69-258 29-216 (272)
182 TIGR02417 fruct_sucro_rep D-fr 97.7 0.0094 2E-07 60.5 21.9 207 31-258 59-273 (327)
183 cd06280 PBP1_LacI_like_4 Ligan 97.7 0.0078 1.7E-07 58.9 20.5 203 34-258 1-208 (263)
184 cd06272 PBP1_hexuronate_repres 97.7 0.0048 1E-07 60.3 19.0 202 34-258 1-208 (261)
185 TIGR02955 TMAO_TorT TMAO reduc 97.6 0.017 3.7E-07 57.6 23.0 195 34-247 1-207 (295)
186 cd06354 PBP1_BmpA_PnrA_like Pe 97.6 0.0095 2.1E-07 58.4 20.5 195 34-246 1-206 (265)
187 PRK10727 DNA-binding transcrip 97.6 0.01 2.2E-07 60.6 21.3 203 31-252 58-266 (343)
188 cd06302 PBP1_LsrB_Quorum_Sensi 97.6 0.023 4.9E-07 56.8 23.3 210 34-258 1-219 (298)
189 cd06277 PBP1_LacI_like_1 Ligan 97.6 0.012 2.6E-07 57.7 20.9 205 34-258 1-213 (268)
190 PRK09526 lacI lac repressor; R 97.6 0.02 4.3E-07 58.5 23.2 206 31-258 62-276 (342)
191 cd06279 PBP1_LacI_like_3 Ligan 97.6 0.01 2.2E-07 58.8 20.3 201 35-258 2-231 (283)
192 cd06304 PBP1_BmpA_like Peripla 97.6 0.014 3.1E-07 57.0 21.0 198 34-246 1-202 (260)
193 cd06297 PBP1_LacI_like_12 Liga 97.6 0.012 2.6E-07 57.7 20.5 203 34-258 1-216 (269)
194 cd01541 PBP1_AraR Ligand-bindi 97.5 0.015 3.3E-07 57.1 20.9 202 35-253 2-213 (273)
195 PRK09492 treR trehalose repres 97.5 0.023 5E-07 57.3 22.1 192 31-247 61-256 (315)
196 cd01543 PBP1_XylR Ligand-bindi 97.5 0.0091 2E-07 58.5 18.5 201 34-258 1-207 (265)
197 PRK14987 gluconate operon tran 97.4 0.037 8.1E-07 56.2 22.4 203 32-253 63-269 (331)
198 PRK10401 DNA-binding transcrip 97.4 0.029 6.3E-07 57.4 21.5 203 31-252 58-266 (346)
199 PRK11041 DNA-binding transcrip 97.4 0.034 7.4E-07 55.8 21.3 206 31-254 34-244 (309)
200 TIGR02405 trehalos_R_Ecol treh 97.2 0.099 2.1E-06 52.6 21.9 191 31-247 58-253 (311)
201 TIGR02634 xylF D-xylose ABC tr 97.2 0.11 2.3E-06 52.0 22.0 197 35-248 1-209 (302)
202 TIGR02637 RhaS rhamnose ABC tr 97.0 0.42 9.2E-06 47.7 24.4 197 35-248 1-210 (302)
203 cd01544 PBP1_GalR Ligand-bindi 97.0 0.087 1.9E-06 51.7 18.9 200 34-258 1-215 (270)
204 cd06315 PBP1_ABC_sugar_binding 96.8 0.33 7.2E-06 47.9 21.5 204 34-250 2-216 (280)
205 cd06353 PBP1_BmpA_Med_like Per 96.6 0.19 4E-06 48.9 17.8 193 34-246 1-200 (258)
206 TIGR01098 3A0109s03R phosphate 96.5 0.0058 1.3E-07 59.5 6.6 92 469-578 31-131 (254)
207 TIGR02990 ectoine_eutA ectoine 96.3 0.094 2E-06 49.9 13.0 92 152-246 107-206 (239)
208 cd06287 PBP1_LacI_like_8 Ligan 95.9 1.2 2.7E-05 43.5 19.7 152 94-253 53-208 (269)
209 cd06276 PBP1_FucR_like Ligand- 95.3 2.2 4.8E-05 41.1 18.7 143 90-251 45-190 (247)
210 COG1744 Med Uncharacterized AB 95.2 4 8.7E-05 41.4 21.3 205 29-247 32-244 (345)
211 PRK10339 DNA-binding transcrip 95.2 2 4.3E-05 43.4 18.9 153 96-258 113-270 (327)
212 COG4213 XylF ABC-type xylose t 94.8 3 6.5E-05 40.4 17.1 205 27-249 20-243 (341)
213 COG3473 Maleate cis-trans isom 93.7 2.3 5.1E-05 38.5 12.9 89 153-244 106-201 (238)
214 PRK00489 hisG ATP phosphoribos 93.6 0.07 1.5E-06 52.8 3.8 61 528-589 51-113 (287)
215 PF02608 Bmp: Basic membrane p 93.0 9.7 0.00021 38.0 18.3 197 33-247 2-212 (306)
216 COG1794 RacX Aspartate racemas 92.7 1.7 3.7E-05 40.0 10.8 86 82-197 59-146 (230)
217 PF13377 Peripla_BP_3: Peripla 92.6 0.59 1.3E-05 41.4 8.2 100 157-258 1-104 (160)
218 TIGR00035 asp_race aspartate r 92.4 1.3 2.9E-05 42.0 10.6 86 83-197 60-146 (229)
219 COG1454 EutG Alcohol dehydroge 91.9 1.9 4.1E-05 43.9 11.4 92 153-244 17-110 (377)
220 PRK09860 putative alcohol dehy 91.1 2 4.2E-05 44.5 11.0 88 154-241 20-109 (383)
221 cd06353 PBP1_BmpA_Med_like Per 91.0 3.5 7.5E-05 40.0 12.0 87 34-129 122-208 (258)
222 PF03808 Glyco_tran_WecB: Glyc 91.0 4.6 9.9E-05 36.4 11.9 99 151-259 35-135 (172)
223 cd08192 Fe-ADH7 Iron-containin 89.9 3.1 6.7E-05 42.9 11.1 90 154-243 13-104 (370)
224 PRK15454 ethanol dehydrogenase 89.5 1.8 4E-05 44.9 9.1 88 154-241 38-127 (395)
225 cd08190 HOT Hydroxyacid-oxoaci 89.4 3 6.5E-05 43.7 10.7 87 154-240 12-100 (414)
226 cd08189 Fe-ADH5 Iron-containin 89.3 5.6 0.00012 41.0 12.6 90 154-243 15-106 (374)
227 TIGR03431 PhnD phosphonate ABC 89.0 0.8 1.7E-05 45.4 5.9 88 470-578 27-125 (288)
228 cd08193 HVD 5-hydroxyvalerate 88.9 3.4 7.4E-05 42.7 10.6 89 154-242 15-105 (376)
229 PRK10624 L-1,2-propanediol oxi 88.6 2.3 5E-05 44.0 9.1 87 154-240 19-107 (382)
230 cd08551 Fe-ADH iron-containing 88.3 4.3 9.2E-05 41.9 10.9 90 154-243 12-103 (370)
231 cd08194 Fe-ADH6 Iron-containin 88.2 4.7 0.0001 41.7 11.1 88 154-241 12-101 (375)
232 PRK10200 putative racemase; Pr 87.8 5.6 0.00012 37.8 10.4 86 82-196 59-146 (230)
233 cd06533 Glyco_transf_WecG_TagA 87.6 7 0.00015 35.2 10.5 100 150-259 32-133 (171)
234 TIGR02638 lactal_redase lactal 86.9 3.2 6.8E-05 43.0 8.9 88 154-241 18-107 (379)
235 PF00465 Fe-ADH: Iron-containi 86.3 3.8 8.2E-05 42.2 9.2 89 154-244 12-102 (366)
236 cd08185 Fe-ADH1 Iron-containin 86.1 6.5 0.00014 40.7 10.8 88 154-242 15-105 (380)
237 PF12683 DUF3798: Protein of u 85.6 35 0.00075 32.7 18.7 206 32-247 2-224 (275)
238 cd08188 Fe-ADH4 Iron-containin 84.8 5 0.00011 41.5 9.1 88 154-241 17-106 (377)
239 cd08176 LPO Lactadehyde:propan 84.1 4.6 0.0001 41.7 8.6 88 154-241 17-106 (377)
240 PF01177 Asp_Glu_race: Asp/Glu 83.7 27 0.00058 32.6 13.1 124 91-244 59-198 (216)
241 PRK07475 hypothetical protein; 83.6 4.7 0.0001 38.7 7.8 82 82-195 62-146 (245)
242 cd08181 PPD-like 1,3-propanedi 83.5 11 0.00024 38.5 11.0 86 154-240 15-103 (357)
243 cd08191 HHD 6-hydroxyhexanoate 83.3 12 0.00026 38.9 11.2 89 154-243 12-102 (386)
244 cd08182 HEPD Hydroxyethylphosp 83.0 9.7 0.00021 39.2 10.4 86 154-242 12-99 (367)
245 cd07766 DHQ_Fe-ADH Dehydroquin 81.9 13 0.00029 37.6 10.8 91 154-246 12-104 (332)
246 cd08170 GlyDH Glycerol dehydro 81.6 5.9 0.00013 40.5 8.1 85 154-241 12-98 (351)
247 PF06506 PrpR_N: Propionate ca 81.6 31 0.00068 31.1 12.0 128 81-248 17-145 (176)
248 PF02608 Bmp: Basic membrane p 81.4 9.8 0.00021 38.0 9.5 90 34-130 128-222 (306)
249 KOG3857 Alcohol dehydrogenase, 81.0 13 0.00027 36.7 9.3 94 139-232 40-137 (465)
250 PF13407 Peripla_BP_4: Peripla 80.7 4.1 8.9E-05 39.3 6.4 78 168-247 1-81 (257)
251 cd08186 Fe-ADH8 Iron-containin 80.2 14 0.00031 38.2 10.4 88 154-241 12-105 (383)
252 PRK05452 anaerobic nitric oxid 79.6 83 0.0018 33.7 16.1 141 101-260 198-348 (479)
253 PF13685 Fe-ADH_2: Iron-contai 79.3 17 0.00036 35.0 9.7 89 155-246 9-99 (250)
254 cd08171 GlyDH-like2 Glycerol d 79.2 9.3 0.0002 38.9 8.6 87 154-242 12-100 (345)
255 cd08187 BDH Butanol dehydrogen 78.8 9.9 0.00021 39.4 8.8 98 140-241 7-107 (382)
256 cd02071 MM_CoA_mut_B12_BD meth 78.3 26 0.00057 29.3 9.7 68 174-247 8-79 (122)
257 PRK03692 putative UDP-N-acetyl 77.8 31 0.00066 33.0 11.0 87 151-244 92-179 (243)
258 cd08183 Fe-ADH2 Iron-containin 77.7 20 0.00044 37.0 10.6 84 154-242 12-97 (374)
259 PRK00865 glutamate racemase; P 77.5 29 0.00064 33.6 11.1 36 91-126 61-96 (261)
260 TIGR00696 wecB_tagA_cpsF bacte 77.4 49 0.0011 29.9 11.7 87 150-244 34-122 (177)
261 COG1744 Med Uncharacterized AB 77.1 42 0.00092 34.1 12.5 96 32-134 161-256 (345)
262 cd06305 PBP1_methylthioribose_ 77.0 12 0.00027 36.2 8.6 78 167-247 1-81 (273)
263 PRK15116 sulfur acceptor prote 76.8 63 0.0014 31.4 12.9 115 45-175 81-208 (268)
264 PRK09423 gldA glycerol dehydro 76.4 12 0.00025 38.6 8.4 84 154-240 19-104 (366)
265 cd00755 YgdL_like Family of ac 76.3 55 0.0012 31.0 12.2 117 43-175 60-182 (231)
266 cd06301 PBP1_rhizopine_binding 75.5 11 0.00025 36.5 7.9 78 167-247 1-82 (272)
267 PRK15408 autoinducer 2-binding 74.5 17 0.00037 36.9 9.0 82 164-247 22-106 (336)
268 PF04273 DUF442: Putative phos 74.4 38 0.00081 27.8 9.2 85 159-243 22-107 (110)
269 cd01538 PBP1_ABC_xylose_bindin 74.3 16 0.00035 36.0 8.7 77 168-247 2-81 (288)
270 TIGR02370 pyl_corrinoid methyl 73.7 40 0.00086 31.1 10.4 88 166-259 85-176 (197)
271 cd01537 PBP1_Repressors_Sugar_ 73.4 12 0.00026 35.8 7.5 78 167-247 1-80 (264)
272 cd06267 PBP1_LacI_sugar_bindin 73.3 13 0.00029 35.5 7.7 76 168-247 2-79 (264)
273 cd08178 AAD_C C-terminal alcoh 72.6 29 0.00063 36.2 10.3 79 163-241 19-99 (398)
274 cd08550 GlyDH-like Glycerol_de 72.4 17 0.00037 37.1 8.5 84 154-240 12-97 (349)
275 TIGR00315 cdhB CO dehydrogenas 71.8 43 0.00093 29.7 9.5 86 97-189 29-125 (162)
276 cd06312 PBP1_ABC_sugar_binding 70.8 18 0.0004 35.0 8.1 79 167-247 1-83 (271)
277 cd01536 PBP1_ABC_sugar_binding 70.4 19 0.00042 34.5 8.2 78 167-247 1-81 (267)
278 cd06306 PBP1_TorT-like TorT-li 70.1 19 0.00041 35.0 8.0 80 167-247 1-82 (268)
279 cd08175 G1PDH Glycerol-1-phosp 69.8 27 0.00059 35.6 9.3 85 154-240 12-100 (348)
280 PF13380 CoA_binding_2: CoA bi 69.8 9 0.0002 31.8 4.7 86 166-258 1-88 (116)
281 PRK11063 metQ DL-methionine tr 69.6 14 0.0003 36.2 6.7 55 30-102 30-85 (271)
282 COG1464 NlpA ABC-type metal io 69.6 18 0.00039 34.6 7.1 46 31-87 29-74 (268)
283 cd06289 PBP1_MalI_like Ligand- 69.5 20 0.00044 34.5 8.1 77 168-247 2-80 (268)
284 COG0078 ArgF Ornithine carbamo 69.3 1.2E+02 0.0026 29.8 16.1 152 32-218 44-201 (310)
285 TIGR00067 glut_race glutamate 69.1 72 0.0016 30.7 11.4 135 89-239 52-190 (251)
286 cd06318 PBP1_ABC_sugar_binding 68.7 20 0.00044 34.9 7.9 78 167-247 1-81 (282)
287 cd06282 PBP1_GntR_like_2 Ligan 68.6 22 0.00048 34.1 8.2 77 168-247 2-80 (266)
288 PRK00945 acetyl-CoA decarbonyl 68.5 38 0.00082 30.3 8.5 119 91-219 28-168 (171)
289 cd06303 PBP1_LuxPQ_Quorum_Sens 67.7 21 0.00045 34.9 7.8 80 167-246 1-84 (280)
290 cd02067 B12-binding B12 bindin 67.6 70 0.0015 26.5 10.3 65 176-246 10-78 (119)
291 KOG0780 Signal recognition par 67.4 74 0.0016 32.4 10.9 103 152-258 117-222 (483)
292 cd06277 PBP1_LacI_like_1 Ligan 66.5 34 0.00075 33.0 9.0 75 168-247 2-81 (268)
293 cd06310 PBP1_ABC_sugar_binding 66.4 25 0.00054 34.0 8.0 80 167-247 1-83 (273)
294 TIGR01098 3A0109s03R phosphate 66.0 13 0.00028 35.8 5.8 88 1-103 1-91 (254)
295 PRK00002 aroB 3-dehydroquinate 65.8 57 0.0012 33.4 10.6 92 154-246 20-118 (358)
296 cd06315 PBP1_ABC_sugar_binding 65.3 39 0.00085 33.0 9.2 79 166-247 1-82 (280)
297 cd02070 corrinoid_protein_B12- 65.2 90 0.002 28.8 11.0 87 166-258 83-173 (201)
298 cd06302 PBP1_LsrB_Quorum_Sensi 65.1 30 0.00064 34.2 8.3 79 167-247 1-82 (298)
299 cd01391 Periplasmic_Binding_Pr 64.7 28 0.00061 33.0 8.0 78 167-247 1-83 (269)
300 cd06281 PBP1_LacI_like_5 Ligan 64.6 32 0.0007 33.2 8.4 77 168-247 2-80 (269)
301 PRK10355 xylF D-xylose transpo 64.5 38 0.00081 34.2 9.0 80 165-247 25-107 (330)
302 cd06322 PBP1_ABC_sugar_binding 64.4 32 0.0007 33.1 8.4 77 168-247 2-81 (267)
303 PRK11303 DNA-binding transcrip 64.3 40 0.00087 33.8 9.3 81 164-247 60-142 (328)
304 cd08415 PBP2_LysR_opines_like 64.3 36 0.00079 30.3 8.3 70 497-578 13-82 (196)
305 cd06299 PBP1_LacI_like_13 Liga 64.3 35 0.00076 32.8 8.6 76 168-247 2-79 (265)
306 PF00448 SRP54: SRP54-type pro 64.1 69 0.0015 29.5 9.8 75 154-232 19-93 (196)
307 cd08177 MAR Maleylacetate redu 64.1 35 0.00075 34.6 8.6 86 154-242 12-99 (337)
308 TIGR02122 TRAP_TAXI TRAP trans 64.0 14 0.00031 36.9 5.9 101 469-589 29-141 (320)
309 cd06316 PBP1_ABC_sugar_binding 63.9 27 0.00058 34.4 7.8 79 167-247 1-82 (294)
310 cd06304 PBP1_BmpA_like Peripla 63.8 1.1E+02 0.0024 29.4 11.9 128 32-168 120-247 (260)
311 cd08197 DOIS 2-deoxy-scyllo-in 63.5 92 0.002 31.8 11.5 99 155-257 13-118 (355)
312 PF07302 AroM: AroM protein; 63.0 71 0.0015 29.9 9.5 75 166-244 126-202 (221)
313 cd01545 PBP1_SalR Ligand-bindi 63.0 34 0.00074 33.0 8.2 78 168-247 2-81 (270)
314 cd08549 G1PDH_related Glycerol 62.9 49 0.0011 33.4 9.4 85 154-240 12-100 (332)
315 TIGR02122 TRAP_TAXI TRAP trans 62.8 1.7E+02 0.0036 29.1 13.7 39 1-41 1-40 (320)
316 cd06300 PBP1_ABC_sugar_binding 62.6 38 0.00081 32.8 8.5 80 167-247 1-86 (272)
317 cd01540 PBP1_arabinose_binding 62.4 31 0.00066 33.8 7.8 77 167-247 1-80 (289)
318 PRK10653 D-ribose transporter 62.4 40 0.00086 33.2 8.7 80 165-247 26-108 (295)
319 PRK15395 methyl-galactoside AB 61.9 1.1E+02 0.0023 30.9 11.8 124 30-162 160-293 (330)
320 cd01539 PBP1_GGBP Periplasmic 61.6 40 0.00086 33.5 8.5 78 167-247 1-83 (303)
321 PRK10014 DNA-binding transcrip 61.4 48 0.001 33.4 9.3 80 165-247 64-145 (342)
322 cd06167 LabA_like LabA_like pr 61.2 1.1E+02 0.0024 26.4 11.3 68 180-247 52-124 (149)
323 cd06270 PBP1_GalS_like Ligand 60.7 46 0.00099 32.1 8.7 76 168-247 2-79 (268)
324 cd06317 PBP1_ABC_sugar_binding 60.5 38 0.00082 32.7 8.1 77 168-247 2-82 (275)
325 cd06319 PBP1_ABC_sugar_binding 60.4 36 0.00079 32.9 7.9 78 167-247 1-81 (277)
326 cd08179 NADPH_BDH NADPH-depend 60.3 37 0.00081 35.0 8.2 79 163-241 21-102 (375)
327 cd08486 PBP2_CbnR The C-termin 60.0 35 0.00077 30.8 7.4 70 497-578 14-83 (198)
328 PRK11242 DNA-binding transcrip 59.9 46 0.001 32.7 8.6 83 470-578 91-173 (296)
329 cd06320 PBP1_allose_binding Pe 59.6 41 0.0009 32.5 8.2 80 167-247 1-83 (275)
330 cd08442 PBP2_YofA_SoxR_like Th 59.2 57 0.0012 28.9 8.6 70 497-578 13-82 (193)
331 PRK02261 methylaspartate mutas 59.1 1.2E+02 0.0025 26.1 10.7 86 166-258 4-93 (137)
332 cd01542 PBP1_TreR_like Ligand- 59.0 45 0.00097 31.9 8.2 75 168-246 2-78 (259)
333 TIGR02417 fruct_sucro_rep D-fr 58.3 67 0.0015 32.1 9.7 81 164-247 59-141 (327)
334 cd06295 PBP1_CelR Ligand bindi 58.3 55 0.0012 31.7 8.8 78 164-247 2-88 (275)
335 PRK09701 D-allose transporter 58.3 56 0.0012 32.6 8.9 84 163-247 22-108 (311)
336 cd06287 PBP1_LacI_like_8 Ligan 57.8 1.5E+02 0.0032 28.7 11.7 120 33-161 119-245 (269)
337 cd02069 methionine_synthase_B1 57.8 1.1E+02 0.0025 28.5 10.2 85 166-258 89-177 (213)
338 COG1922 WecG Teichoic acid bio 57.7 63 0.0014 30.9 8.4 98 151-259 95-195 (253)
339 PF13379 NMT1_2: NMT1-like fam 57.7 7.1 0.00015 37.7 2.3 87 469-577 5-99 (252)
340 cd08440 PBP2_LTTR_like_4 TThe 57.6 50 0.0011 29.3 7.9 70 497-578 13-82 (197)
341 cd06321 PBP1_ABC_sugar_binding 57.4 43 0.00093 32.4 7.8 77 168-247 2-83 (271)
342 cd08173 Gro1PDH Sn-glycerol-1- 57.3 1E+02 0.0023 31.2 10.7 82 155-240 14-98 (339)
343 TIGR00640 acid_CoA_mut_C methy 57.1 93 0.002 26.5 8.7 62 180-247 17-82 (132)
344 cd08184 Fe-ADH3 Iron-containin 57.0 1.1E+02 0.0023 31.3 10.6 85 154-242 12-103 (347)
345 cd08169 DHQ-like Dehydroquinat 56.6 1.1E+02 0.0024 31.1 10.7 92 154-246 12-109 (344)
346 cd06313 PBP1_ABC_sugar_binding 56.6 43 0.00094 32.5 7.7 70 175-247 11-81 (272)
347 cd06324 PBP1_ABC_sugar_binding 56.4 42 0.00092 33.3 7.7 77 168-247 2-83 (305)
348 COG1179 Dinucleotide-utilizing 56.4 71 0.0015 30.3 8.2 89 43-147 79-168 (263)
349 PF00532 Peripla_BP_1: Peripla 56.2 26 0.00057 34.4 6.0 71 166-240 2-74 (279)
350 cd06309 PBP1_YtfQ_like Peripla 55.9 33 0.00073 33.2 6.8 77 168-247 2-81 (273)
351 TIGR02634 xylF D-xylose ABC tr 55.5 47 0.001 32.9 7.8 71 174-247 9-80 (302)
352 cd06296 PBP1_CatR_like Ligand- 55.5 54 0.0012 31.6 8.2 76 168-247 2-79 (270)
353 cd06323 PBP1_ribose_binding Pe 55.1 49 0.0011 31.7 7.8 77 168-247 2-81 (268)
354 cd06278 PBP1_LacI_like_2 Ligan 55.1 55 0.0012 31.3 8.2 75 168-247 2-78 (266)
355 PRK11553 alkanesulfonate trans 54.9 20 0.00042 35.9 5.0 87 469-578 26-119 (314)
356 TIGR03431 PhnD phosphonate ABC 54.8 27 0.00058 34.4 5.9 86 1-103 1-86 (288)
357 PRK10936 TMAO reductase system 54.8 63 0.0014 32.8 8.7 81 165-247 46-129 (343)
358 PRK07377 hypothetical protein; 54.7 37 0.0008 30.3 5.8 63 470-549 75-137 (184)
359 cd05466 PBP2_LTTR_substrate Th 54.7 48 0.001 29.2 7.3 70 497-578 13-82 (197)
360 cd08180 PDD 1,3-propanediol de 54.3 29 0.00062 35.1 6.1 80 161-241 18-99 (332)
361 PRK00843 egsA NAD(P)-dependent 54.2 1.3E+02 0.0028 30.7 10.8 83 154-240 22-107 (350)
362 cd08412 PBP2_PAO1_like The C-t 54.0 68 0.0015 28.5 8.2 70 497-578 13-82 (198)
363 cd06354 PBP1_BmpA_PnrA_like Pe 54.0 2.1E+02 0.0045 27.5 13.6 121 32-158 121-241 (265)
364 PF02310 B12-binding: B12 bind 54.0 1.2E+02 0.0027 24.9 10.6 64 176-245 11-78 (121)
365 PRK09756 PTS system N-acetylga 53.5 1.1E+02 0.0023 27.1 8.7 80 152-240 17-97 (158)
366 TIGR00854 pts-sorbose PTS syst 53.3 97 0.0021 27.1 8.3 81 152-240 13-93 (151)
367 cd08468 PBP2_Pa0477 The C-term 53.2 67 0.0015 29.0 8.1 73 497-578 13-85 (202)
368 cd06274 PBP1_FruR Ligand bindi 53.2 67 0.0015 30.8 8.4 76 168-247 2-79 (264)
369 cd06292 PBP1_LacI_like_10 Liga 53.0 77 0.0017 30.5 8.8 77 168-247 2-84 (273)
370 PRK10481 hypothetical protein; 53.0 1.4E+02 0.003 28.1 9.8 68 164-235 128-195 (224)
371 cd08425 PBP2_CynR The C-termin 52.9 64 0.0014 28.8 7.9 69 498-578 15-83 (197)
372 cd01575 PBP1_GntR Ligand-bindi 52.9 61 0.0013 31.1 8.1 76 168-247 2-79 (268)
373 PRK05723 flavodoxin; Provision 52.8 1.2E+02 0.0025 26.6 8.8 67 167-244 2-76 (151)
374 KOG0025 Zn2+-binding dehydroge 52.7 1.3E+02 0.0028 29.4 9.4 96 140-246 162-257 (354)
375 cd08438 PBP2_CidR The C-termin 52.7 65 0.0014 28.6 7.8 70 497-578 13-82 (197)
376 PRK11921 metallo-beta-lactamas 52.6 1.6E+02 0.0035 30.5 11.5 100 153-259 235-343 (394)
377 cd00578 L-fuc_L-ara-isomerases 52.5 2.7E+02 0.0059 29.5 13.4 77 49-132 21-99 (452)
378 TIGR03850 bind_CPR_0540 carboh 52.4 41 0.0009 35.4 7.3 25 50-77 47-71 (437)
379 cd06285 PBP1_LacI_like_7 Ligan 52.4 75 0.0016 30.5 8.6 76 168-247 2-79 (265)
380 PRK09189 uroporphyrinogen-III 52.4 99 0.0022 29.4 9.2 87 152-244 103-191 (240)
381 TIGR02136 ptsS_2 phosphate bin 52.3 28 0.0006 34.4 5.5 84 1-103 1-90 (287)
382 PF00205 TPP_enzyme_M: Thiamin 51.7 18 0.00038 31.0 3.5 80 88-172 2-85 (137)
383 cd00001 PTS_IIB_man PTS_IIB, P 51.5 1.1E+02 0.0025 26.7 8.5 82 152-241 12-93 (151)
384 cd06307 PBP1_uncharacterized_s 51.2 56 0.0012 31.7 7.5 80 167-247 1-84 (275)
385 cd06273 PBP1_GntR_like_1 This 51.0 73 0.0016 30.6 8.3 76 168-247 2-79 (268)
386 PRK03601 transcriptional regul 50.4 39 0.00085 33.0 6.2 82 470-578 89-171 (275)
387 PRK14987 gluconate operon tran 50.4 1.1E+02 0.0024 30.7 9.7 79 165-247 63-143 (331)
388 cd06308 PBP1_sensor_kinase_lik 50.0 75 0.0016 30.6 8.2 77 168-247 2-82 (270)
389 COG0796 MurI Glutamate racemas 49.7 2.5E+02 0.0055 27.2 11.3 38 91-128 61-98 (269)
390 COG3221 PhnD ABC-type phosphat 49.5 2.8E+02 0.006 27.6 15.5 173 29-232 33-207 (299)
391 cd06283 PBP1_RegR_EndR_KdgR_li 49.2 83 0.0018 30.1 8.4 76 168-247 2-79 (267)
392 cd06271 PBP1_AglR_RafR_like Li 49.1 69 0.0015 30.7 7.8 68 175-247 15-83 (268)
393 cd06298 PBP1_CcpA_like Ligand- 48.6 70 0.0015 30.7 7.7 75 168-246 2-78 (268)
394 cd01574 PBP1_LacI Ligand-bindi 48.6 94 0.002 29.7 8.6 76 168-246 2-79 (264)
395 TIGR00249 sixA phosphohistidin 48.5 1E+02 0.0022 27.0 7.9 96 146-244 24-121 (152)
396 PRK08105 flavodoxin; Provision 48.4 87 0.0019 27.3 7.4 81 166-257 2-92 (149)
397 PF03466 LysR_substrate: LysR 48.4 60 0.0013 29.3 6.9 84 469-578 5-88 (209)
398 COG2247 LytB Putative cell wal 48.3 2.9E+02 0.0062 27.4 11.5 78 97-198 77-159 (337)
399 cd06291 PBP1_Qymf_like Ligand 47.8 2.1E+02 0.0046 27.2 11.0 120 33-161 113-240 (265)
400 PF03830 PTSIIB_sorb: PTS syst 47.8 42 0.00092 29.4 5.3 85 152-244 13-97 (151)
401 cd06314 PBP1_tmGBP Periplasmic 47.7 72 0.0016 30.8 7.7 77 168-247 2-80 (271)
402 TIGR02637 RhaS rhamnose ABC tr 47.6 80 0.0017 31.1 8.1 77 169-247 2-82 (302)
403 PRK11425 PTS system N-acetylga 47.6 1.5E+02 0.0032 26.2 8.6 80 152-240 15-94 (157)
404 TIGR02667 moaB_proteo molybden 47.4 1.3E+02 0.0027 26.8 8.3 65 165-231 4-72 (163)
405 cd08445 PBP2_BenM_CatM_CatR Th 47.3 75 0.0016 28.6 7.4 70 497-578 14-83 (203)
406 COG1419 FlhF Flagellar GTP-bin 47.2 1.1E+02 0.0025 31.4 8.8 83 141-232 205-291 (407)
407 PF02602 HEM4: Uroporphyrinoge 47.2 34 0.00075 32.3 5.1 106 146-258 97-203 (231)
408 TIGR01729 taurine_ABC_bnd taur 46.9 25 0.00054 34.9 4.2 66 505-578 20-90 (300)
409 cd08195 DHQS Dehydroquinate sy 46.2 2E+02 0.0044 29.2 10.8 90 156-247 14-112 (345)
410 PF01936 NYN: NYN domain; Int 46.2 91 0.002 26.7 7.3 92 154-247 23-120 (146)
411 cd00886 MogA_MoaB MogA_MoaB fa 46.1 1.2E+02 0.0025 26.6 7.9 63 167-231 2-70 (152)
412 PRK10703 DNA-binding transcrip 45.8 1.6E+02 0.0035 29.6 10.1 77 164-244 58-136 (341)
413 COG1879 RbsB ABC-type sugar tr 45.5 1.1E+02 0.0023 30.7 8.7 82 166-248 34-118 (322)
414 cd06286 PBP1_CcpB_like Ligand- 45.3 96 0.0021 29.6 8.1 73 168-244 2-76 (260)
415 cd06294 PBP1_ycjW_transcriptio 45.2 98 0.0021 29.7 8.2 68 175-247 16-84 (270)
416 PRK15424 propionate catabolism 44.9 4.1E+02 0.0089 29.0 13.1 129 81-249 47-176 (538)
417 TIGR01481 ccpA catabolite cont 44.9 1.6E+02 0.0034 29.4 9.9 80 164-247 58-139 (329)
418 cd08420 PBP2_CysL_like C-termi 44.8 99 0.0022 27.4 7.8 70 497-578 13-82 (201)
419 cd08411 PBP2_OxyR The C-termin 44.8 1.1E+02 0.0024 27.3 8.0 69 498-578 15-83 (200)
420 cd01541 PBP1_AraR Ligand-bindi 44.6 1.1E+02 0.0024 29.5 8.4 77 168-247 2-84 (273)
421 PF00625 Guanylate_kin: Guanyl 44.4 2.4E+02 0.0052 25.4 10.3 92 97-197 3-98 (183)
422 COG0563 Adk Adenylate kinase a 44.1 66 0.0014 29.1 6.1 100 99-199 3-110 (178)
423 CHL00180 rbcR LysR transcripti 44.1 1E+02 0.0022 30.6 8.2 86 470-578 95-180 (305)
424 PRK09791 putative DNA-binding 44.0 90 0.002 30.8 7.8 86 469-578 94-179 (302)
425 cd03364 TOPRIM_DnaG_primases T 43.9 56 0.0012 24.7 4.9 41 156-197 35-75 (79)
426 COG1880 CdhB CO dehydrogenase/ 43.7 2.2E+02 0.0049 24.9 10.3 121 90-219 28-168 (170)
427 PRK11070 ssDNA exonuclease Rec 43.7 2.6E+02 0.0056 30.8 11.5 83 164-248 68-153 (575)
428 TIGR01744 XPRTase xanthine pho 43.7 67 0.0015 29.4 6.1 70 57-127 5-79 (191)
429 cd00758 MoCF_BD MoCF_BD: molyb 43.6 1.2E+02 0.0026 25.8 7.4 47 181-230 20-66 (133)
430 PRK10481 hypothetical protein; 43.6 1.6E+02 0.0035 27.7 8.7 82 33-127 130-212 (224)
431 cd08434 PBP2_GltC_like The sub 43.3 1.1E+02 0.0024 26.9 7.8 69 497-578 13-82 (195)
432 PRK12680 transcriptional regul 43.2 1.1E+02 0.0024 30.7 8.4 85 469-578 92-176 (327)
433 cd08449 PBP2_XapR The C-termin 43.1 1.2E+02 0.0026 26.8 8.1 72 497-578 13-84 (197)
434 TIGR02329 propionate_PrpR prop 43.0 4.7E+02 0.01 28.4 13.5 129 81-249 37-166 (526)
435 COG1609 PurR Transcriptional r 43.0 1.7E+02 0.0036 29.6 9.5 64 164-230 57-122 (333)
436 cd08453 PBP2_IlvR The C-termin 42.9 1.3E+02 0.0027 26.9 8.1 72 497-578 13-85 (200)
437 COG0426 FpaA Uncharacterized f 42.6 3.9E+02 0.0084 27.5 11.7 108 148-262 229-343 (388)
438 cd08421 PBP2_LTTR_like_1 The C 42.4 1.1E+02 0.0024 27.1 7.7 69 498-578 14-82 (198)
439 TIGR03884 sel_bind_Methan sele 42.4 70 0.0015 23.8 4.7 43 67-109 9-54 (74)
440 PF04392 ABC_sub_bind: ABC tra 42.3 2.1E+02 0.0046 28.2 10.1 113 33-162 132-247 (294)
441 cd06293 PBP1_LacI_like_11 Liga 42.3 1E+02 0.0022 29.6 7.8 61 168-231 2-64 (269)
442 COG3340 PepE Peptidase E [Amin 42.1 2.7E+02 0.0058 25.9 9.4 83 156-248 24-108 (224)
443 PRK05928 hemD uroporphyrinogen 41.8 1.4E+02 0.003 28.3 8.5 78 163-246 123-200 (249)
444 cd08451 PBP2_BudR The C-termin 41.6 1E+02 0.0023 27.3 7.4 70 498-578 15-84 (199)
445 PRK09271 flavodoxin; Provision 41.5 1.3E+02 0.0027 26.6 7.5 85 167-258 2-94 (160)
446 PRK13805 bifunctional acetalde 41.3 2.8E+02 0.0061 32.4 12.1 78 164-241 479-560 (862)
447 TIGR00177 molyb_syn molybdenum 41.2 1.4E+02 0.0031 25.7 7.6 47 182-231 29-75 (144)
448 cd08485 PBP2_ClcR The C-termin 41.0 1.3E+02 0.0028 27.0 7.9 70 497-578 14-83 (198)
449 PRK11041 DNA-binding transcrip 41.0 1.4E+02 0.003 29.4 8.7 65 164-231 34-100 (309)
450 PRK15138 aldehyde reductase; P 40.9 1.2E+02 0.0025 31.5 8.1 84 154-241 20-106 (387)
451 cd06280 PBP1_LacI_like_4 Ligan 40.8 1.3E+02 0.0028 28.7 8.3 62 168-232 2-65 (263)
452 TIGR02136 ptsS_2 phosphate bin 40.7 45 0.00097 32.9 4.9 87 469-578 35-127 (287)
453 cd06578 HemD Uroporphyrinogen- 40.6 3.1E+02 0.0067 25.6 15.3 117 119-245 76-195 (239)
454 PRK05752 uroporphyrinogen-III 40.4 1.3E+02 0.0028 29.0 8.0 85 152-242 112-201 (255)
455 cd08448 PBP2_LTTR_aromatics_li 40.1 1.3E+02 0.0028 26.6 7.7 70 497-578 13-82 (197)
456 cd01994 Alpha_ANH_like_IV This 39.9 3E+02 0.0065 25.2 12.4 98 110-232 47-147 (194)
457 COG3221 PhnD ABC-type phosphat 39.4 51 0.0011 32.7 4.9 61 470-548 35-95 (299)
458 PF07302 AroM: AroM protein; 39.2 2.5E+02 0.0055 26.3 9.1 81 33-126 126-207 (221)
459 cd06311 PBP1_ABC_sugar_binding 39.1 1.4E+02 0.0031 28.7 8.3 77 168-247 2-86 (274)
460 PF13155 Toprim_2: Toprim-like 39.1 93 0.002 24.4 5.7 41 153-193 35-75 (96)
461 PF03162 Y_phosphatase2: Tyros 38.9 1.9E+02 0.0041 25.7 8.1 85 140-233 12-102 (164)
462 cd03522 MoeA_like MoeA_like. T 38.9 1.8E+02 0.0039 29.1 8.7 78 163-242 157-240 (312)
463 cd06325 PBP1_ABC_uncharacteriz 38.7 3.6E+02 0.0078 25.8 12.2 115 31-162 130-247 (281)
464 cd08465 PBP2_ToxR The C-termin 38.5 1.2E+02 0.0025 27.3 7.2 70 497-578 13-82 (200)
465 cd08450 PBP2_HcaR The C-termin 38.4 1.2E+02 0.0027 26.8 7.3 70 497-578 13-82 (196)
466 PRK12683 transcriptional regul 38.4 1.5E+02 0.0033 29.4 8.4 85 469-578 92-176 (309)
467 PRK06703 flavodoxin; Provision 38.3 2.3E+02 0.005 24.5 8.6 80 167-257 3-90 (151)
468 COG0552 FtsY Signal recognitio 38.2 4.3E+02 0.0093 26.6 10.9 104 138-244 137-245 (340)
469 PRK12684 transcriptional regul 37.9 1.2E+02 0.0027 30.1 7.7 85 469-578 92-176 (313)
470 TIGR01357 aroB 3-dehydroquinat 37.9 2.4E+02 0.0053 28.6 9.9 88 156-246 13-107 (344)
471 PLN02821 1-hydroxy-2-methyl-2- 37.8 1.5E+02 0.0033 31.0 8.1 57 70-126 334-393 (460)
472 cd08446 PBP2_Chlorocatechol Th 37.7 1.4E+02 0.003 26.5 7.6 69 498-578 15-83 (198)
473 COG4126 Hydantoin racemase [Am 37.6 1.1E+02 0.0024 28.4 6.4 30 213-242 165-195 (230)
474 PF02601 Exonuc_VII_L: Exonucl 37.6 3.5E+02 0.0077 27.0 10.9 89 31-129 13-115 (319)
475 cd08172 GlyDH-like1 Glycerol d 37.4 1.7E+02 0.0036 29.9 8.6 85 154-243 13-99 (347)
476 PF13362 Toprim_3: Toprim doma 37.3 1.3E+02 0.0027 23.8 6.2 51 164-217 40-92 (96)
477 cd08443 PBP2_CysB The C-termin 36.8 2.2E+02 0.0049 25.3 8.8 71 497-578 13-83 (198)
478 PRK09492 treR trehalose repres 36.7 2.2E+02 0.0049 28.1 9.4 64 165-231 62-127 (315)
479 cd06268 PBP1_ABC_transporter_L 36.7 1.9E+02 0.0041 27.9 8.8 80 167-247 1-91 (298)
480 PF08357 SEFIR: SEFIR domain; 36.7 90 0.0019 27.1 5.7 70 166-236 1-72 (150)
481 COG0541 Ffh Signal recognition 36.6 5.2E+02 0.011 27.1 11.6 116 139-259 99-222 (451)
482 cd01569 PBEF_like pre-B-cell c 36.6 3.3E+02 0.0072 28.3 10.3 128 117-254 212-359 (407)
483 CHL00073 chlN photochlorophyll 36.5 1.7E+02 0.0037 31.0 8.4 142 97-249 194-340 (457)
484 PRK10991 fucI L-fucose isomera 36.0 6.1E+02 0.013 27.7 13.6 88 68-171 47-137 (588)
485 cd06275 PBP1_PurR Ligand-bindi 35.9 1.8E+02 0.0038 27.8 8.3 61 168-231 2-64 (269)
486 cd08431 PBP2_HupR The C-termin 35.9 1.5E+02 0.0032 26.3 7.4 69 497-577 13-82 (195)
487 PRK11914 diacylglycerol kinase 35.9 2.2E+02 0.0047 28.3 9.0 79 162-244 5-86 (306)
488 COG1587 HemD Uroporphyrinogen- 35.8 2.4E+02 0.0052 27.0 9.0 92 150-247 106-199 (248)
489 TIGR00363 lipoprotein, YaeC fa 35.8 81 0.0018 30.5 5.7 56 30-102 17-72 (258)
490 PRK01215 competence damage-ind 35.5 2.5E+02 0.0054 27.3 8.9 74 166-242 4-83 (264)
491 cd08452 PBP2_AlsR The C-termin 35.4 2E+02 0.0044 25.5 8.3 69 498-578 14-82 (197)
492 TIGR01425 SRP54_euk signal rec 35.3 5.3E+02 0.011 27.1 11.7 104 150-258 114-221 (429)
493 cd08466 PBP2_LeuO The C-termin 35.3 1.3E+02 0.0028 26.8 6.9 70 497-578 13-82 (200)
494 cd08463 PBP2_DntR_like_4 The C 35.2 1.4E+02 0.003 27.0 7.1 71 497-578 13-83 (203)
495 cd08209 RLP_DK-MTP-1-P-enolase 35.1 5.3E+02 0.012 26.7 12.9 166 49-231 174-344 (391)
496 cd06284 PBP1_LacI_like_6 Ligan 34.7 1.7E+02 0.0038 27.8 8.0 60 168-230 2-63 (267)
497 PRK05569 flavodoxin; Provision 34.6 2.9E+02 0.0062 23.5 9.6 85 166-261 2-95 (141)
498 cd08413 PBP2_CysB_like The C-t 34.6 1.6E+02 0.0034 26.3 7.4 71 497-578 13-83 (198)
499 COG4143 TbpA ABC-type thiamine 34.5 3.1E+02 0.0068 27.4 9.2 78 30-124 25-109 (336)
500 cd06297 PBP1_LacI_like_12 Liga 34.3 1.9E+02 0.0041 27.8 8.2 75 168-247 2-79 (269)
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=5.3e-59 Score=454.82 Aligned_cols=545 Identities=18% Similarity=0.291 Sum_probs=435.3
Q ss_pred CCCeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCC--cEEEEEEe--cCCCChHHHHHHHHHHHhcCceEEEcC
Q 006733 29 IPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGG--TKLKLTVH--DTNYSRFLGMVEALTLLENETVAIIGP 104 (633)
Q Consensus 29 ~~~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g--~~l~~~~~--D~~~~~~~a~~~~~~li~~~v~aviG~ 104 (633)
-+.+|.||.+||... .+...|+++|+...|....- .. .++...+. +. .++.....+.|...+.||.||+|.
T Consensus 23 f~~tiqigglF~~n~---~qe~~Afr~~~~~~~~~~~~-~~~pf~L~~~~d~~e~-a~Sf~~tnafCsq~s~Gv~Aifg~ 97 (897)
T KOG1054|consen 23 FPNTIQIGGLFPRNT---DQEHSAFRFAVQLYNTNQNT-TEKPFKLNPHVDNLES-ANSFAVTNAFCSQFSRGVYAIFGF 97 (897)
T ss_pred CCCceeeccccCCcc---hHHHHHHHHHHHHhhcCCCC-CCCCcccccccchhhh-hhhHHHHHHHHHHHhhhHhhheec
Confidence 467899999999874 34578888888888765332 12 33333332 23 467777888999999999999999
Q ss_pred CchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHH
Q 006733 105 QFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAA 184 (633)
Q Consensus 105 ~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~ 184 (633)
++.-+...+..+|...++|+|+++... +...++.+++.|+-. .++++++.|++|.+|.++| |.+.|....+.
T Consensus 98 yd~ks~~~ltsfc~aLh~~~vtpsfp~----~~~~~Fviq~RP~l~---~al~s~i~hy~W~~fv~ly-D~~rg~s~Lqa 169 (897)
T KOG1054|consen 98 YDKKSVNTLTSFCGALHVSFVTPSFPT----DGDNQFVIQMRPALK---GALLSLIDHYKWEKFVYLY-DTDRGLSILQA 169 (897)
T ss_pred ccccchhhhhhhccceeeeeecccCCc----CCCceEEEEeCchHH---HHHHHHHHhcccceEEEEE-cccchHHHHHH
Confidence 999999999999999999999975522 233477888888754 8899999999999999999 66788888999
Q ss_pred HHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCcccccc
Q 006733 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSIL 264 (633)
Q Consensus 185 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 264 (633)
+.+.+.++++.|.....-.. .+..+++.+++.+...+.+.|++.|..+...+++.++-+.+-...+||+++.+..-...
T Consensus 170 i~~~a~~~nw~VtA~~v~~~-~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~d~ 248 (897)
T KOG1054|consen 170 IMEAAAQNNWQVTAINVGNI-NDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFTDI 248 (897)
T ss_pred HHHHHHhcCceEEEEEcCCc-ccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCchh
Confidence 99999999999886653332 35566999999999999999999999999999999999888888999999988544444
Q ss_pred CCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhcc-CCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCC
Q 006733 265 DTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRR-NTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGN 343 (633)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~ 343 (633)
++ +.+.....++.+++..+-+.+..++|.++|++.... .++.....++..+++.|||++++++|++.+.++..+
T Consensus 249 dl-----~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~~ 323 (897)
T KOG1054|consen 249 DL-----ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRID 323 (897)
T ss_pred hH-----HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhhc
Confidence 43 445567778999999999999999999999876543 344444667788999999999999999999887665
Q ss_pred cccccCcccccccCCCcccc--cccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEeeecC
Q 006733 344 ISFSEDSKLSELSRGDMRFS--SVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSN 421 (633)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~c~--~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~ 421 (633)
.+-+. ...+|. +..+|..|..+.++++++.++|++|+|.||..|.|.|.+.+|++++.++-.++|+|..
T Consensus 324 ~~rRG---------~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e 394 (897)
T KOG1054|consen 324 ISRRG---------NAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNE 394 (897)
T ss_pred hhccC---------CCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeecc
Confidence 43221 122343 4568999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccCCccccCCCCCCCCCccccceeeeCCCCCCCCCcc-cccCCCceEEEEecCCCCCcCcEEec------CCCCc
Q 006733 422 HSGLSVVPPEALYKEPSNRSASSQHLYSAVWPGQTTQKPRGW-VFPNNGRHLRIGVPSQVIYPEFVAQG------KGTDK 494 (633)
Q Consensus 422 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~w~g~~~~~p~~~-~~~~~~~~l~v~~~~~~~~~p~~~~~------~~~~~ 494 (633)
..|+...... .+.+. .-..+.+++.|.+.- . .||.+.. .++++
T Consensus 395 ~~~fv~~~t~---------------------------a~~~~d~~~~~n~tvvvttiL--~-spyvm~kkn~~~~egn~r 444 (897)
T KOG1054|consen 395 GEGFVPGSTV---------------------------AQSRNDQASKENRTVVVTTIL--E-SPYVMLKKNHEQLEGNER 444 (897)
T ss_pred cCceeecccc---------------------------ccccccccccccceEEEEEec--C-CchhHHHhhHHHhcCCcc
Confidence 8875432110 00000 001134556666653 2 3444432 36889
Q ss_pred eeeeeHHHHHHHHHHCCCccceEEEeCCCCC-----CCCC-HHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeec
Q 006733 495 FSGYCIDVFTAVLELLPYAVPYKLVPFGDGH-----NSPK-RFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIES 568 (633)
Q Consensus 495 ~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~ 568 (633)
++||||||+.+||++.+.+ |++..+++|+ .+++ |+||+++|..|++|++++++|||.+|++.+|||.||++.
T Consensus 445 yEGyCvdLa~~iAkhi~~~--Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMsl 522 (897)
T KOG1054|consen 445 YEGYCVDLAAEIAKHIGIK--YKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSL 522 (897)
T ss_pred cceeHHHHHHHHHHhcCce--EEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhc
Confidence 9999999999999999976 6666555555 5555 999999999999999999999999999999999999999
Q ss_pred ceEEEEecCC-CCcCccccccCCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCC-------------cCCCcccccC
Q 006733 569 GLVVVAPIKK-LNSNAWAFLNPFTPKMWCVTGIFFLVVGVVVWILEHRLNDDFRGP-------------PRRQIGTILW 633 (633)
Q Consensus 569 ~~~~lv~~~~-~~~~~~~~l~pf~~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~w 633 (633)
|++||+++|. ..++.|+||+|+..+.|+||+.+++.|+++++++.|++|+||+-. +-++|.+++|
T Consensus 523 GISIMIKKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLW 601 (897)
T KOG1054|consen 523 GISIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLW 601 (897)
T ss_pred CeEEEEeCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHH
Confidence 9999999988 679999999999999999999999999999999999999987321 2267777777
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=3.2e-58 Score=451.45 Aligned_cols=523 Identities=22% Similarity=0.372 Sum_probs=419.4
Q ss_pred CCCCCeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEec--CCCChHHHHHHHHH-HHhcCceEEEc
Q 006733 27 STIPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHD--TNYSRFLGMVEALT-LLENETVAIIG 103 (633)
Q Consensus 27 ~~~~~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D--~~~~~~~a~~~~~~-li~~~v~aviG 103 (633)
...+.+++||.++... ....-+.-++.++|++.+ ..++.+.... .+.++...+-.+|+ +++..|.+|+-
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 4567899999998864 457778888999997753 3566553332 23356666666765 56668887774
Q ss_pred -C-Cchh---hHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCC
Q 006733 104 -P-QFSV---IAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDH 177 (633)
Q Consensus 104 -~-~~s~---~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~ 177 (633)
+ .+|. .-.+++..+..+.||++.....+..+|+ +-++.|.|+.|+..+|+....+.|..|.|++|.++.++|..
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 2344566778999999999999999998 66899999999999999999999999999999999999988
Q ss_pred cchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 006733 178 GRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVT 257 (633)
Q Consensus 178 g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 257 (633)
|+....+++..+++..-++.....+. +....++..|-++|..++++|++..+.+++..++++|-.++|++.+|+||.+
T Consensus 182 gra~~~r~qt~~e~~~~~~e~v~~f~--p~~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnmTG~G~VWiV~ 259 (993)
T KOG4440|consen 182 GRAAQKRLQTLLEERESKAEKVLQFD--PGTKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNMTGSGYVWIVG 259 (993)
T ss_pred chhHHhHHHHHHHHHhhhhhhheecC--cccchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcccCceEEEEEe
Confidence 88887788777776555544444566 4557889999999999999999999999999999999999999999999998
Q ss_pred CccccccCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHh
Q 006733 258 DWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAF 337 (633)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~ 337 (633)
+..... -+..+|+++.+..+. .....+..|++.+++.|++++
T Consensus 260 E~a~~~-----------nn~PdG~LGlqL~~~---------------------------~~~~~hirDsv~vlasAv~e~ 301 (993)
T KOG4440|consen 260 ERAISG-----------NNLPDGILGLQLING---------------------------KNESAHIRDSVGVLASAVHEL 301 (993)
T ss_pred cccccc-----------CCCCCceeeeEeecC---------------------------ccccceehhhHHHHHHHHHHH
Confidence 753321 145789999887532 122466899999999999999
Q ss_pred hhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccc-cccccceEEccCCCCCCCcEEEEEee-cCCeeE
Q 006733 338 FDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNM-TGVTGPIKFTSDRDLINPAYEVINVI-GTGSRR 415 (633)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f-~g~~G~v~Fd~~g~r~~~~~~I~~~~-~~~~~~ 415 (633)
++... ++ ..+..||++...|..+..+.+.+....+ +|.||+|.||++|||....|+|+|+. +...+.
T Consensus 302 ~~~e~-I~----------~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg 370 (993)
T KOG4440|consen 302 LEKEN-IT----------DPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVG 370 (993)
T ss_pred Hhhcc-CC----------CCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhh
Confidence 86533 21 3456688999999999999998888665 89999999999999999999999995 444455
Q ss_pred EeeecCCCCCcccCCccccCCCCCCCCCccccceeeeCCCCCCCCCcccccCCCceEEEEecCCCCCcCcEEecC-----
Q 006733 416 IGYWSNHSGLSVVPPEALYKEPSNRSASSQHLYSAVWPGQTTQKPRGWVFPNNGRHLRIGVPSQVIYPEFVAQGK----- 490 (633)
Q Consensus 416 vg~w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~w~g~~~~~p~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~----- 490 (633)
+|.|+... ...+.+.|+||||.+++|+++.+| ++||+.+. ..+||+|..+
T Consensus 371 ~~~yd~~r-------------------~~~nd~~IiWpGg~~~KP~gi~~p---thLrivTi---~~~PFVYv~p~~sd~ 425 (993)
T KOG4440|consen 371 VGIYDGTR-------------------VIPNDRKIIWPGGETEKPRGIQMP---THLRIVTI---HQEPFVYVKPTLSDG 425 (993)
T ss_pred hcccccee-------------------eccCCceeecCCCCcCCCcccccc---ceeEEEEe---ccCCeEEEecCCCCc
Confidence 66665422 233557999999999999999986 57999998 4677877632
Q ss_pred --------------------------------CCCceeeeeHHHHHHHHHHCCCccceEEEeCCC-CC----------CC
Q 006733 491 --------------------------------GTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGD-GH----------NS 527 (633)
Q Consensus 491 --------------------------------~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~-~~----------~~ 527 (633)
..-||.||||||+.++++++||+++..+.+.+. |. ..
T Consensus 426 ~c~eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~ 505 (993)
T KOG4440|consen 426 TCKEEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNK 505 (993)
T ss_pred chhhhccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeeccccccc
Confidence 023899999999999999999997777776442 11 12
Q ss_pred CCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEecCCCCcCccccccCCchhHHHHHHHHHHHHHH
Q 006733 528 PKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFLVVGV 607 (633)
Q Consensus 528 ~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~l~pf~~~~W~~~~~~~~~~~~ 607 (633)
.+|+||+++|.++++||+++++||++||.++++||.||.+.|+.|+.++..+...+.+||+||+..+|+++++++++|++
T Consensus 506 kew~G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal 585 (993)
T KOG4440|consen 506 KEWNGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVAL 585 (993)
T ss_pred ceehhhhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 26999999999999999999999999999999999999999999999999989999999999999999999999999999
Q ss_pred HhhhhhcccCCC-CCCC-------cCCCcccccC
Q 006733 608 VVWILEHRLNDD-FRGP-------PRRQIGTILW 633 (633)
Q Consensus 608 ~~~~~~~~~~~~-~~~~-------~~~~~~~~~w 633 (633)
++|+++|++|++ |+-+ ....++++||
T Consensus 586 ~lYlLDrfSPFgRFk~~ds~~~ee~alnlssAmW 619 (993)
T KOG4440|consen 586 MLYLLDRFSPFGRFKVNDSEEEEEDALNLSSAMW 619 (993)
T ss_pred HHHHHHhcCcccceeeccCccchhhhcchhhhHH
Confidence 999999999996 2221 2244666666
No 3
>KOG1053 consensus Glutamate-gated NMDA-type ion channel receptor subunit GRIN2A and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=7.3e-49 Score=399.73 Aligned_cols=476 Identities=20% Similarity=0.350 Sum_probs=365.6
Q ss_pred CCChHHHHHHHHHHHhc-CceEEEcCCchh---hHHHHHHhhccCCccEEeeccCCCC-Ccc-CCCCceEEecCChHHHH
Q 006733 80 NYSRFLGMVEALTLLEN-ETVAIIGPQFSV---IAHLVSHIANEFQVPLLSFAATDPS-LSS-LQYPFFVRTTQSDLYQM 153 (633)
Q Consensus 80 ~~~~~~a~~~~~~li~~-~v~aviG~~~s~---~~~~va~~~~~~~iP~Is~~a~~~~-ls~-~~~~~~~r~~p~~~~~~ 153 (633)
..||.+.+..+|.++.. +|.+|+-...++ .+..+--+....+||+|+....+.. +++ +....|+++.|+.++|+
T Consensus 82 ~tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieqqa 161 (1258)
T KOG1053|consen 82 TTDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQQA 161 (1258)
T ss_pred CCCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHHHH
Confidence 37999999999999986 898877655554 2222334556789999998666554 344 33358999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhc--CcEEEEEeecCCCCChhh-HHHHHHHhhcCCCeEEEEee
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK--RCRLSHKVPLSPKGSRNQ-IIDTLLTVSSMMSRILILHT 230 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~-~~~~l~~i~~~~~~vIvl~~ 230 (633)
+++.++|+.|+|..|++|.+..+.-+.+...+++..+.. |+++.......+. ..+ .......+++-++.||+++|
T Consensus 162 ~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 162 QVMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPS--TDDLLAKLQAQLKKIQAPVILLYC 239 (1258)
T ss_pred HHHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCC--CCchHHHHHHHHHhcCCcEEEEEe
Confidence 999999999999999999998888788888888877653 6666655555533 233 23333345556799999999
Q ss_pred ChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCC
Q 006733 231 YDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTL 310 (633)
Q Consensus 231 ~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 310 (633)
+.+++..|+.+|.+.|+++++|.||+++..... + +.-.+...|.+.+... .|+
T Consensus 240 ~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~-~------~~pa~~P~GLisv~~~------------~w~-------- 292 (1258)
T KOG1053|consen 240 SREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL-E------PRPAEFPLGLISVSYD------------TWR-------- 292 (1258)
T ss_pred cHHHHHHHHHHHHhcCCcCCceEEEeehhccCC-C------CCCccCccceeeeecc------------chh--------
Confidence 999999999999999999999999997644331 0 1112455677766542 122
Q ss_pred CCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcccccccCCCccccccc--ccCchHHHHHHHHhcccccccc
Q 006733 311 NGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVS--IFNGGKMLLDNILQVNMTGVTG 388 (633)
Q Consensus 311 ~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~--~~~~~~~l~~~l~~~~f~g~~G 388 (633)
..+...+-|++.+++.|...++...+.+ .....+|.... ....++.+.++|.|++|+| +
T Consensus 293 ------~~l~~rVrdgvaiva~aa~s~~~~~~~l-----------p~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~ 353 (1258)
T KOG1053|consen 293 ------YSLEARVRDGVAIVARAASSMLRIHGFL-----------PEPKMDCREQEETRLTSGETLHRFLANVTWDG--R 353 (1258)
T ss_pred ------hhHHHHHhhhHHHHHHHHHHHHhhcccC-----------CCcccccccccCccccchhhhhhhhheeeecc--c
Confidence 2345778999999999999998765543 34455665432 2234889999999999999 7
Q ss_pred ceEEccCCCCCCCcEEEEEeec-CCeeEEeeecCCCCCcccCCccccCCCCCCCCCccccceeeeCCCCCCCCCcccccC
Q 006733 389 PIKFTSDRDLINPAYEVINVIG-TGSRRIGYWSNHSGLSVVPPEALYKEPSNRSASSQHLYSAVWPGQTTQKPRGWVFPN 467 (633)
Q Consensus 389 ~v~Fd~~g~r~~~~~~I~~~~~-~~~~~vg~w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~w~g~~~~~p~~~~~~~ 467 (633)
.++|+++|-.+++...++.+++ ..|.+||.|...+ |.| ...+||.-. ..++...
T Consensus 354 ~lsf~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L~M--------------------~y~vWPr~~-~~~q~~~--- 408 (1258)
T KOG1053|consen 354 DLSFNEDGYLVHPNLVVIDLNRDRTWERVGSWENGT-LVM--------------------KYPVWPRYH-KFLQPVP--- 408 (1258)
T ss_pred ceeecCCceeeccceEEEecCCCcchheeceecCCe-EEE--------------------ecccccccc-CccCCCC---
Confidence 8999999988888888887764 5799999998754 333 445787322 2222222
Q ss_pred CCceEEEEecCCCCCcCcEEecC--------------------------------CCCceeeeeHHHHHHHHHHCCCccc
Q 006733 468 NGRHLRIGVPSQVIYPEFVAQGK--------------------------------GTDKFSGYCIDVFTAVLELLPYAVP 515 (633)
Q Consensus 468 ~~~~l~v~~~~~~~~~p~~~~~~--------------------------------~~~~~~G~~vdl~~~ia~~l~~~~~ 515 (633)
+..||+|++-. .+||+...+ -..||+||||||+++||+..||+
T Consensus 409 d~~HL~VvTLe---E~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~Ft-- 483 (1258)
T KOG1053|consen 409 DKLHLTVVTLE---ERPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFT-- 483 (1258)
T ss_pred CcceeEEEEec---cCCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcc--
Confidence 34578888764 455555421 03589999999999999999988
Q ss_pred eEEEeCCCCC----CCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEecCCCCcCccccccCCc
Q 006733 516 YKLVPFGDGH----NSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFT 591 (633)
Q Consensus 516 ~~~~~~~~~~----~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~l~pf~ 591 (633)
|.++.++||| .|+.|+||++++..+++||+++.++||+||.+.+|||.||.++++++||++.+...+..+||.||+
T Consensus 484 YDLYlVtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs 563 (1258)
T KOG1053|consen 484 YDLYLVTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFS 563 (1258)
T ss_pred eEEEEecCCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcc
Confidence 7777777766 889999999999999999999999999999999999999999999999999887888899999999
Q ss_pred hhHHHHHHHHHHHH-HHHhhhhhcccCCCC---------CCCcCCCcccccC
Q 006733 592 PKMWCVTGIFFLVV-GVVVWILEHRLNDDF---------RGPPRRQIGTILW 633 (633)
Q Consensus 592 ~~~W~~~~~~~~~~-~~~~~~~~~~~~~~~---------~~~~~~~~~~~~w 633 (633)
+.+|+++++.+++| ++.+|++++++|..+ +|++.++|++++|
T Consensus 564 ~svWVmmFVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~Ftigkaiw 615 (1258)
T KOG1053|consen 564 PSVWVMMFVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIW 615 (1258)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHH
Confidence 99999999877755 557779999988853 4556899999998
No 4
>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=4e-47 Score=403.34 Aligned_cols=376 Identities=21% Similarity=0.348 Sum_probs=309.7
Q ss_pred CeEEEEEEeecCC-------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh--
Q 006733 31 PVLNIGAVFALNS-------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLE-- 95 (633)
Q Consensus 31 ~~i~IG~l~p~~~-------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~-- 95 (633)
+++.||++||.|. ..|.....|+++|+|+||+++++|||++|+++++|+++++..++..+.+++.
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 4699999999983 3466779999999999999999999999999999999999999999988874
Q ss_pred ---------------------cCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHH
Q 006733 96 ---------------------NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQM 153 (633)
Q Consensus 96 ---------------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~ 153 (633)
++|.+||||.+|..+.++++++..+++|+|+++++++.+++ ..||++||+.|++..++
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 57899999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhc-CCCeEEEEeeCh
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS-MMSRILILHTYD 232 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~~~ 232 (633)
.++++++++++|++|++|+.+++||....+.+++.+++.|++|+..+.++...+..++..+++++++ .++|+||+++..
T Consensus 161 ~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~~~~~d~~~~l~~l~~~~~a~viil~~~~ 240 (452)
T cd06362 161 QAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEKLAAERGICIAGSEKIPSSATEEEFDNIIRKLLSKPNARVVVLFCRE 240 (452)
T ss_pred HHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEEEEEEcCCCCCHHHHHHHHHHHhhcCCCeEEEEEcCh
Confidence 9999999999999999999999999999999999999999999988888754567899999999987 579999999999
Q ss_pred HHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHH--------------
Q 006733 233 IWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFV-------------- 298 (633)
Q Consensus 233 ~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~-------------- 298 (633)
.++..++++|+++|++ ..+.||+++.|....... ....+..+|++++.+.....+.++.|+
T Consensus 241 ~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~~~ 315 (452)
T cd06362 241 DDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSVV----EGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNPWF 315 (452)
T ss_pred HHHHHHHHHHHHcCCc-CceEEEEeccccccchhh----cccccccceEEEEEecccccccHHHHhhhCCcCcCCCChHH
Confidence 9999999999999997 568999998876432221 233467788888877665544444433
Q ss_pred -HHHHHhhccC-------------CCCC----CCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcccccccCCCc
Q 006733 299 -TRWRHLTRRN-------------TLNG----PIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDM 360 (633)
Q Consensus 299 -~~~~~~~~~~-------------~~~~----~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~ 360 (633)
+.|+..+... +... ......++.++||||+++|+||++++++++.. ...
T Consensus 316 ~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~-------------~~~ 382 (452)
T cd06362 316 REFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPG-------------TTG 382 (452)
T ss_pred HHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCC-------------CCC
Confidence 3344434311 0000 01234578999999999999999998765431 112
Q ss_pred ccccccccCchHHHHHHHHhcccccccc-ceEEccCCCCCCCcEEEEEeec----CCeeEEeeecCCCCCc
Q 006733 361 RFSSVSIFNGGKMLLDNILQVNMTGVTG-PIKFTSDRDLINPAYEVINVIG----TGSRRIGYWSNHSGLS 426 (633)
Q Consensus 361 ~c~~~~~~~~~~~l~~~l~~~~f~g~~G-~v~Fd~~g~r~~~~~~I~~~~~----~~~~~vg~w~~~~~l~ 426 (633)
.|.... |.++..|.++|++++|+|++| .|.||++|++. ..|+|++++. ..+++||+|++..||+
T Consensus 383 ~c~~~~-~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~~-~~y~I~~~~~~~~~~~~~~VG~w~~~~~~~ 451 (452)
T cd06362 383 LCDAMK-PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDGP-GRYDIFNYQRTNGKYDYVKVGSWKGELSLN 451 (452)
T ss_pred CCcCcc-CCCHHHHHHHHHhCCcCCCCCceEEECCCCCCC-CceEEEEEEEcCCceEEEEEEEEecccccC
Confidence 354332 456999999999999999998 79999999985 5999999984 3579999998877653
No 5
>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=9.9e-47 Score=400.57 Aligned_cols=379 Identities=19% Similarity=0.326 Sum_probs=309.6
Q ss_pred CCCCeEEEEEEeecCC-----------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHH
Q 006733 28 TIPPVLNIGAVFALNS-----------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEA 90 (633)
Q Consensus 28 ~~~~~i~IG~l~p~~~-----------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~ 90 (633)
..+++|.||++||.|. ..|.....|+.+|+|+||+++++|||++|++.++|+|+++..|++.+
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 3578999999999983 13567789999999999999999999999999999999999999999
Q ss_pred HHHHh--------------------------cCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceE
Q 006733 91 LTLLE--------------------------NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFV 143 (633)
Q Consensus 91 ~~li~--------------------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~ 143 (633)
.+++. .+|.+||||.+|..+.++++++..+++|+|+++++++.+++ ..||++|
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 27999999999999999999999999999999999998987 5799999
Q ss_pred EecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--
Q 006733 144 RTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM-- 221 (633)
Q Consensus 144 r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~-- 221 (633)
|+.|++..++.++++++++++|++|++|+++++||....+.+++.+++.|+||+..+.++...+..+++.++++|++.
T Consensus 165 Rt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~lk~~~~ 244 (472)
T cd06374 165 RVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSNAGEQSFDRLLRKLRSRLP 244 (472)
T ss_pred EcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCchHHHHHHHHHHHhcCC
Confidence 999999999999999999999999999999999999999999999999999999888775445678999999999975
Q ss_pred CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHH---
Q 006733 222 MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFV--- 298 (633)
Q Consensus 222 ~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~--- 298 (633)
++++|++++....+..++++++++|+. .+++||++++|....... ....+..+|.+++.+..+..+.+++|+
T Consensus 245 da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~~----~~~~~~~~G~l~~~~~~~~~~~F~~~l~~l 319 (472)
T cd06374 245 KARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDVV----EGYEEEAEGGITIKLQSPEVPSFDDYYLKL 319 (472)
T ss_pred CcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHhh----hcchhhhheeEEEEecCCCCccHHHHHHhC
Confidence 455677778888899999999999996 568999999876532211 223467789999988877766666644
Q ss_pred ------------HHHHHhhccC---------------CCCCCC----CCCchhHHHhhHHHHHHHHHHHhhhcCCCcccc
Q 006733 299 ------------TRWRHLTRRN---------------TLNGPI----GLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFS 347 (633)
Q Consensus 299 ------------~~~~~~~~~~---------------~~~~~~----~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~ 347 (633)
+.|+..++.. .+.+.. ....++.++||||+++|+||++++.+.+..
T Consensus 320 ~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~--- 396 (472)
T cd06374 320 RPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPG--- 396 (472)
T ss_pred CcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCC---
Confidence 4555555321 111000 112456699999999999999998665421
Q ss_pred cCcccccccCCCcccccccccCchHHHHHHHHhcccccccc-ceEEccCCCCCCCcEEEEEeec-----CCeeEEeeecC
Q 006733 348 EDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTG-PIKFTSDRDLINPAYEVINVIG-----TGSRRIGYWSN 421 (633)
Q Consensus 348 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G-~v~Fd~~g~r~~~~~~I~~~~~-----~~~~~vg~w~~ 421 (633)
....|..... .++..|.++|++++|+|++| +|.||++|++. ..|+|+|++. ..+++||.|++
T Consensus 397 ----------~~~~c~~~~~-~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~~ 464 (472)
T cd06374 397 ----------HVGLCDAMKP-IDGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWHE 464 (472)
T ss_pred ----------CCCCCcCCCC-CCHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEeC
Confidence 1123544322 35999999999999999999 69999999986 5899999994 25799999974
Q ss_pred CCCCcc
Q 006733 422 HSGLSV 427 (633)
Q Consensus 422 ~~~l~~ 427 (633)
.+|.+
T Consensus 465 -~~l~~ 469 (472)
T cd06374 465 -GDLGI 469 (472)
T ss_pred -Ccccc
Confidence 45544
No 6
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=2.6e-46 Score=393.70 Aligned_cols=369 Identities=22% Similarity=0.376 Sum_probs=308.2
Q ss_pred CeEEEEEEeecCC-------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh--
Q 006733 31 PVLNIGAVFALNS-------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLE-- 95 (633)
Q Consensus 31 ~~i~IG~l~p~~~-------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~-- 95 (633)
++|.||++||.|. ..|.....|+.+|+|+||+++++|||++|++.++|+|+++..+++.+.+++.
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 4799999999982 3477889999999999999999999999999999999999999999887772
Q ss_pred -----------------------cCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHH
Q 006733 96 -----------------------NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLY 151 (633)
Q Consensus 96 -----------------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~ 151 (633)
.+|.+||||.+|..+.++++++..++||+|+++++++.|++ .+||++||+.|++..
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 27999999999999999999999999999999999999987 579999999999999
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhc-CCCeEEEEee
Q 006733 152 QMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS-MMSRILILHT 230 (633)
Q Consensus 152 ~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~ 230 (633)
++.++++++++++|++|++|+.+++||....+.+++.+++.|+||+..+.++...+..++..+++++++ .++|+||+++
T Consensus 161 qa~ai~~ll~~~~W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~l~~~~~a~vVvl~~ 240 (458)
T cd06375 161 QAKAMAEILRFFNWTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRSADRKSYDSVIRKLLQKPNARVVVLFT 240 (458)
T ss_pred HHHHHHHHHHHCCCeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCCHHHHHHHHHHHhccCCCEEEEEec
Confidence 999999999999999999999999999999999999999999999988888754566899999999875 6899999999
Q ss_pred ChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHHH-----------
Q 006733 231 YDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVT----------- 299 (633)
Q Consensus 231 ~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~----------- 299 (633)
...++..++++|+++|++ +.||++++|....... ....+..+|++++.+.....+.+++|++
T Consensus 241 ~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~----~~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~n~ 313 (458)
T cd06375 241 RSEDARELLAAAKRLNAS---FTWVASDGWGAQESIV----KGSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTRNP 313 (458)
T ss_pred ChHHHHHHHHHHHHcCCc---EEEEEeccccccchhh----hccchhhceEEEEEeccccchhHHHHHHhCCcCcCCCCc
Confidence 999999999999999985 7899999886432211 1233677899999988777776666654
Q ss_pred ----HHHHhhcc-----------CCCCCC------CCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcccccccCC
Q 006733 300 ----RWRHLTRR-----------NTLNGP------IGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRG 358 (633)
Q Consensus 300 ----~~~~~~~~-----------~~~~~~------~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~ 358 (633)
.|+..|++ |...+. ........++||||+++|||||+++++++.. .
T Consensus 314 w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~-------------~ 380 (458)
T cd06375 314 WFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPN-------------T 380 (458)
T ss_pred HHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCC-------------C
Confidence 45555532 111111 1224578999999999999999999765531 1
Q ss_pred CcccccccccCchHHHH-HHHHhcccc-----cccc-ceEEccCCCCCCCcEEEEEeec--C--C--eeEEeeecC
Q 006733 359 DMRFSSVSIFNGGKMLL-DNILQVNMT-----GVTG-PIKFTSDRDLINPAYEVINVIG--T--G--SRRIGYWSN 421 (633)
Q Consensus 359 ~~~c~~~~~~~~~~~l~-~~l~~~~f~-----g~~G-~v~Fd~~g~r~~~~~~I~~~~~--~--~--~~~vg~w~~ 421 (633)
...|.....++ +.++. ++|++++|. |.+| +|.||++|+. ...|+|+|++. + . +++||.|+.
T Consensus 381 ~~~c~~~~~~~-~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 381 TKLCDAMKPLD-GKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDG-LGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCCCCCCCCC-HHHHHHHHHHhccccccccCCCCCCeeEECCCCCC-CcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 13466544554 88999 599999999 9988 6999999995 57999999993 2 2 689999964
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=6.2e-46 Score=394.79 Aligned_cols=379 Identities=20% Similarity=0.308 Sum_probs=309.7
Q ss_pred CCCCCeEEEEEEeecCC----------------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChH
Q 006733 27 STIPPVLNIGAVFALNS----------------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRF 84 (633)
Q Consensus 27 ~~~~~~i~IG~l~p~~~----------------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~ 84 (633)
...+++|.||++||.|. ..|.....|+++|+|+||+++++||+++|+++++|+|+++.
T Consensus 7 ~~~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~ 86 (510)
T cd06364 7 AQKKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVS 86 (510)
T ss_pred eeecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchH
Confidence 45678999999999983 34667899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhc-C------------------ceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEE
Q 006733 85 LGMVEALTLLEN-E------------------TVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVR 144 (633)
Q Consensus 85 ~a~~~~~~li~~-~------------------v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r 144 (633)
.+++.+.+++.+ + +.+||||.+|..+.++++++..++||+|+++++++.+++ ..||++||
T Consensus 87 ~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffR 166 (510)
T cd06364 87 KALEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLR 166 (510)
T ss_pred HHHHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeE
Confidence 999999999764 2 469999999999999999999999999999999999987 67999999
Q ss_pred ecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCe
Q 006733 145 TTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSR 224 (633)
Q Consensus 145 ~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~ 224 (633)
+.|++..++.++++++++++|++|++|+.|++||+...+.|++.+++.|+||+..+.++...+..++..++++++++++|
T Consensus 167 t~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~~~~~d~~~~l~klk~~~a~ 246 (510)
T cd06364 167 TIPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQYSDEEEIQRVVEVIQNSTAK 246 (510)
T ss_pred cCCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCCCCHHHHHHHHHHHHhcCCe
Confidence 99999999999999999999999999999999999999999999999999999887776434677999999999999999
Q ss_pred EEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHH------
Q 006733 225 ILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFV------ 298 (633)
Q Consensus 225 vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------ 298 (633)
+||+++...++..++++|+++|++ +++||++++|....... .....+...|++++.+.....+.+++|+
T Consensus 247 vVvl~~~~~~~~~ll~qa~~~g~~--~~iwI~s~~w~~~~~~~---~~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p~ 321 (510)
T cd06364 247 VIVVFSSGPDLEPLIKEIVRRNIT--GKIWLASEAWASSSLIA---MPEYFDVMGGTIGFALKAGQIPGFREFLQKVHPK 321 (510)
T ss_pred EEEEEeCcHHHHHHHHHHHHhCCC--CcEEEEEchhhcccccc---cCCccceeeEEEEEEECCCcCccHHHHHHhCCcc
Confidence 999999999999999999999986 46999998876433222 1345577889999887765555544444
Q ss_pred ---------HHHHHhhcc-----------------------------------CCCCCCCC----------CCchhHHHh
Q 006733 299 ---------TRWRHLTRR-----------------------------------NTLNGPIG----------LNSFGLYAY 324 (633)
Q Consensus 299 ---------~~~~~~~~~-----------------------------------~~~~~~~~----------~~~~~~~~y 324 (633)
+.|+..|++ |.+..... ...+..++|
T Consensus 322 ~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~ 401 (510)
T cd06364 322 KSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVY 401 (510)
T ss_pred cCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHH
Confidence 334555542 11110000 123467899
Q ss_pred hHHHHHHHHHHHhhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhcccccccc-ceEEccCCCCCCCcE
Q 006733 325 DTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTG-PIKFTSDRDLINPAY 403 (633)
Q Consensus 325 Dav~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G-~v~Fd~~g~r~~~~~ 403 (633)
|||+++|||||+++.+..... ......|...... ++++|.++|++++|.|.+| +|.||++|+. ...|
T Consensus 402 ~AVyAvAhaLh~~~~c~~~~~----------~~~~~~c~~~~~~-~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~Y 469 (510)
T cd06364 402 LAVYSIAHALQDIYTCTPGKG----------LFTNGSCADIKKV-EAWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGNY 469 (510)
T ss_pred HHHHHHHHHHHHHhcCCCCCC----------CccCCCCCCCCCC-CHHHHHHHHHhcEEecCCCCEEEEecCCCC-ccce
Confidence 999999999999987542210 0011246654444 3889999999999999988 6999999996 5799
Q ss_pred EEEEeec---C---CeeEEeeecCC
Q 006733 404 EVINVIG---T---GSRRIGYWSNH 422 (633)
Q Consensus 404 ~I~~~~~---~---~~~~vg~w~~~ 422 (633)
+|+|++. + .+++||.|++.
T Consensus 470 dI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 470 SIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred eEEEeeecCCCCcEEEEEEEEEcCC
Confidence 9999994 1 26899999764
No 8
>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=5.1e-46 Score=394.48 Aligned_cols=371 Identities=23% Similarity=0.352 Sum_probs=299.2
Q ss_pred CeEEEEEEeecC--C-----------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHH----HHH
Q 006733 31 PVLNIGAVFALN--S-----------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEA----LTL 93 (633)
Q Consensus 31 ~~i~IG~l~p~~--~-----------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~----~~l 93 (633)
++|+||++||.| . ..|.....|+++|+|+||+++++|||++|+++++|+|+++..+.+.+ .++
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 479999999998 1 25666789999999999999999999999999999998775444433 333
Q ss_pred Hh-------------------cCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHH
Q 006733 94 LE-------------------NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQM 153 (633)
Q Consensus 94 i~-------------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~ 153 (633)
+. ++|.+||||.+|..+.++++++..++||+|+++++++.+++ ..||++||+.|++..++
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 57899999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhc-CCCeEEEEeeC
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSS-MMSRILILHTY 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~~ 231 (633)
.++++++++++|++|++|+.+++||....+.+++.+++. |++|.....++...+..++..++++|++ .++|+||+.+.
T Consensus 161 ~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~~~~~d~~~~l~~ik~~~~~~vIvl~~~ 240 (463)
T cd06376 161 QAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQISREAGGVCIAQSIKIPREPRPGEFDKIIKRLLETPNARAVIIFAN 240 (463)
T ss_pred HHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHHHHHHcCCceEEEEEecCCCCCHHHHHHHHHHHhccCCCeEEEEecC
Confidence 999999999999999999999999999999999999887 4788766655544567899999999987 69999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHH-------------
Q 006733 232 DIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFV------------- 298 (633)
Q Consensus 232 ~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------------- 298 (633)
..++..++++|+++|+++ .|+||++++|........ ...+...|.+++.+.....+.+++|.
T Consensus 241 ~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~----~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~~~ 315 (463)
T cd06376 241 EDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL----QQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRNVW 315 (463)
T ss_pred hHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc----cCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCCcH
Confidence 999999999999999875 599999998864433211 12356789999987766666665554
Q ss_pred --HHHHHhhccC---------------CCCCC------CCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcccccc
Q 006733 299 --TRWRHLTRRN---------------TLNGP------IGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSEL 355 (633)
Q Consensus 299 --~~~~~~~~~~---------------~~~~~------~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~~ 355 (633)
+.|+..|++. .+.+. ......+.++||||+++|+||++++++++.-
T Consensus 316 ~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~----------- 384 (463)
T cd06376 316 FAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPG----------- 384 (463)
T ss_pred HHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCC-----------
Confidence 4566655321 11110 0123368899999999999999998765421
Q ss_pred cCCCcccccccccCchHHHHHHHHhcccccccc-ceEEccCCCCCCCcEEEEEeec-----CCeeEEeeecC
Q 006733 356 SRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTG-PIKFTSDRDLINPAYEVINVIG-----TGSRRIGYWSN 421 (633)
Q Consensus 356 ~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G-~v~Fd~~g~r~~~~~~I~~~~~-----~~~~~vg~w~~ 421 (633)
....|.... |.++..|.++|++++|+|++| +|.||++|++. ..|+|.+++. ..+++||.|++
T Consensus 385 --~~~~C~~~~-~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~~-~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 385 --YTGVCPEME-PADGKKLLKYIRAVNFNGSAGTPVMFNENGDAP-GRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred --CCCCCccCC-CCCHHHHHHHHHhCCccCCCCCeEEeCCCCCCC-CceEEEEEEecCCCceeEEEEEEECC
Confidence 112465433 446999999999999999999 69999999975 5799999983 35799999975
No 9
>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated
Probab=100.00 E-value=4.3e-46 Score=385.95 Aligned_cols=370 Identities=19% Similarity=0.272 Sum_probs=306.8
Q ss_pred eEEEEEEee-cC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCceEEEcCCc
Q 006733 32 VLNIGAVFA-LN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNY-SRFLGMVEALTLLENETVAIIGPQF 106 (633)
Q Consensus 32 ~i~IG~l~p-~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~-~~~~a~~~~~~li~~~v~aviG~~~ 106 (633)
.|+||+++| ++ +..|.....|+++|+++||+++++|++..+.+.+.+.++ ++..+...+|+++.++|.|||||.+
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 54 455677899999999999999999999999999998655 6657788889888789999999999
Q ss_pred hhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHH
Q 006733 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALG 186 (633)
Q Consensus 107 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~ 186 (633)
|..+.+++++++.++||+|+++++++.+++. .++++|+.|++..++.++++++++++|++|++||+++ .|....+.+.
T Consensus 82 S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~-~g~~~l~~~~ 159 (384)
T cd06393 82 GSCTNAVQSICNALEVPHIQLRWKHHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDS-TGLIRLQELI 159 (384)
T ss_pred hHHHHHHHHHHhccCCCeEeccCCCcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCc-hhHHHHHHHH
Confidence 9999999999999999999999988888754 3578888899988999999999999999999999765 4655566788
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCC
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT 266 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 266 (633)
+.+++.|++|... .++ .+..|++.+|++++..++++||+.++..++..++++|+++||+.+.|+|+.++......+.
T Consensus 160 ~~~~~~g~~v~~~-~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~~~ 236 (384)
T cd06393 160 MAPSRYNIRLKIR-QLP--TDSDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYALDL 236 (384)
T ss_pred HhhhccCceEEEE-ECC--CCchHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCccccccc
Confidence 8888889998864 455 3568999999999999999999999999999999999999999999999988754433332
Q ss_pred CccccccccccccceEEEeeecCCChHHHHHHHHHHHh-hccCCCCCC----CCCCchhHHHhhHHHHHHHHHHHhhhcC
Q 006733 267 DSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHL-TRRNTLNGP----IGLNSFGLYAYDTLWLLAHAIGAFFDQG 341 (633)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~~~~~----~~~~~~~~~~yDav~~~~~Al~~~~~~~ 341 (633)
+.+......+.+++...++.+.+++|.++|+++ ++..+..+. ..++.+++++||||+++++|++++.+.
T Consensus 237 -----~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~~~~~- 310 (384)
T cd06393 237 -----EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQRAPQM- 310 (384)
T ss_pred -----hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhhhhhc-
Confidence 111122233577788888889999999999854 543221111 123568999999999999999975322
Q ss_pred CCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEcc-CCCCCCCcEEEEEeecCCeeEEeeec
Q 006733 342 GNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTS-DRDLINPAYEVINVIGTGSRRIGYWS 420 (633)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~-~g~r~~~~~~I~~~~~~~~~~vg~w~ 420 (633)
......|....+|++|..|+++|++++|+|+||++.||+ +|.|.++.++|+|+.++++++||+|+
T Consensus 311 --------------~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W~ 376 (384)
T cd06393 311 --------------TVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVWN 376 (384)
T ss_pred --------------CCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEEc
Confidence 122345777789999999999999999999999999996 67899999999999999999999999
Q ss_pred CCCCCc
Q 006733 421 NHSGLS 426 (633)
Q Consensus 421 ~~~~l~ 426 (633)
+..||+
T Consensus 377 ~~~g~~ 382 (384)
T cd06393 377 PNTGLN 382 (384)
T ss_pred CCCCcC
Confidence 998865
No 10
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=1.1e-45 Score=375.21 Aligned_cols=368 Identities=20% Similarity=0.292 Sum_probs=291.2
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEE-ecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTV-HDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~-~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||++|+... .....|+++|++++|.+..++++.++.+.+ .++.+|+..+..++|+++++||.|||||.++.++..
T Consensus 1 ~iG~if~~~~---~~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~gV~AI~Gp~s~~~a~~ 77 (400)
T cd06392 1 HIGAIFEENA---AKDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQGILALVTSTGCASANA 77 (400)
T ss_pred CeeeccCCCc---hHHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhcCeEEEECCCchhHHHH
Confidence 3899999764 346899999999999998888999999998 899999999999999999999999999999999999
Q ss_pred HHHhhccCCccEEeecc-----------CCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchh
Q 006733 113 VSHIANEFQVPLLSFAA-----------TDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNG 181 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a-----------~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~ 181 (633)
++++|+..+||+|++++ +++.++..+||++.| |+ ..+..|+++++.+|+|++|++|| |++||...
T Consensus 78 v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lr--p~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~ 153 (400)
T cd06392 78 LQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAAR--PP-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRG 153 (400)
T ss_pred HHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEec--Cc-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHH
Confidence 99999999999999855 234444445555554 55 46788999999999999999999 78899999
Q ss_pred HHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCC-------CeEEEEeeChHHHHHHHHHHHHcCCCCCCeEE
Q 006733 182 IAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM-------SRILILHTYDIWGLEVLNAAKHLRMMESGYVW 254 (633)
Q Consensus 182 ~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~-------~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~ 254 (633)
.+.+.+.+.+.+.+|.... +... ...++.+.++.++... -++||+.|+++.+..++++|+++||+..+|+|
T Consensus 154 lq~L~~~~~~~~~~I~~~~-v~~~-~~~~~~~~l~~~~~~~L~~~~~~~r~iVv~~s~~~~~~il~qA~~lgM~~~~y~w 231 (400)
T cd06392 154 LQSFLDQASRLGLDVSLQK-VDRN-ISRVFTNLFTTMKTEELNRYRDTLRRAILLLSPRGAQTFINEAVETNLASKDSHW 231 (400)
T ss_pred HHHHHHHHhhcCceEEEEE-cccC-cchhhhhHHHHHHHhhhhhccccceEEEEEcCcHHHHHHHHHHHHhCcccCCeEE
Confidence 9999999999999988665 2211 1113444444444332 48889999999999999999999999999999
Q ss_pred EEeCccccccCCCcccccccccccc-ceEEEeeecCCChHHHHHH----HHHHHhhccCCCCCCCCCCchhHHHhhHHHH
Q 006733 255 IVTDWLSSILDTDSQLHSEKMDDIQ-GVLTLRMYTQSSEEKRKFV----TRWRHLTRRNTLNGPIGLNSFGLYAYDTLWL 329 (633)
Q Consensus 255 i~~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~ 329 (633)
|++++.....+. .++..... ++.+++.+.|.+....+|. .+|++............++.+++++||||++
T Consensus 232 I~t~~~~~~~dl-----~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~l~~~aalayDaV~~ 306 (400)
T cd06392 232 VFVNEEISDTEI-----LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGYLQMLQVSNLYLYDSVLM 306 (400)
T ss_pred EEecCCcccccH-----HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHHH
Confidence 999987665444 23334343 5667998888776555554 5665443221111111467899999999999
Q ss_pred HHHHHHHhhhcCCCcccccCcccccccCCCccc--ccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEE
Q 006733 330 LAHAIGAFFDQGGNISFSEDSKLSELSRGDMRF--SSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVIN 407 (633)
Q Consensus 330 ~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c--~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~ 407 (633)
+|+|++.++++.... ......| ....+|+.|..|+++|++++|+|+||+|.||++|+|.++.|+|+|
T Consensus 307 ~A~Al~~ll~~~~~~-----------~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi~ 375 (400)
T cd06392 307 LANAFHRKLEDRKWH-----------SMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEILG 375 (400)
T ss_pred HHHHHHHHhhccccC-----------CCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEEe
Confidence 999999876433222 1223456 557799999999999999999999999999999999999999999
Q ss_pred ee-----cCCeeEEeeecCCCCCc
Q 006733 408 VI-----GTGSRRIGYWSNHSGLS 426 (633)
Q Consensus 408 ~~-----~~~~~~vg~w~~~~~l~ 426 (633)
++ +.++++||+|++..|++
T Consensus 376 l~~~~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 376 TSYSETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred ccccccCCCCceEeEEecCCCCCC
Confidence 66 55699999999988763
No 11
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=1.1e-45 Score=390.75 Aligned_cols=371 Identities=18% Similarity=0.265 Sum_probs=302.8
Q ss_pred CeEEEEEEeecCC----------------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHH
Q 006733 31 PVLNIGAVFALNS----------------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMV 88 (633)
Q Consensus 31 ~~i~IG~l~p~~~----------------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~ 88 (633)
++|.||++||.|. ..|.+...|+.+|+|+||++..+|||++|++.++|+|+++..+++
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 4689999999971 124577899999999999999999999999999999999999999
Q ss_pred HHHHHHh--------------cCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHH
Q 006733 89 EALTLLE--------------NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQM 153 (633)
Q Consensus 89 ~~~~li~--------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~ 153 (633)
.+.+++. .++.+||||.+|..+.++++++..++||+|+++++++.+++ ..|||+||+.|++..++
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 9988885 36999999999999999999999999999999999999987 67899999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCC--hhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGS--RNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~--~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
.++++++++|+|++|++|+.|++||....+.+.+.+++.|+||+..+.++.... ..++..++++++++++|+||+++.
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 999999999999999999999999999999999999999999999888875432 237889999999999999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHHHH-----------
Q 006733 232 DIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTR----------- 300 (633)
Q Consensus 232 ~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~----------- 300 (633)
..++..++.++.+.+. .+++||++++|....... ....+..+|++++++..++.+.+++|+++
T Consensus 241 ~~~~~~l~~~~~~~~~--~~~~wi~s~~w~~~~~~~----~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw 314 (469)
T cd06365 241 TDSLLEVSFRLWQYLL--IGKVWITTSQWDVTTSPK----DFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIF 314 (469)
T ss_pred cHHHHHHHHHHHHhcc--CceEEEeecccccccccc----ccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccH
Confidence 9888777666666543 468999999876543221 23447789999999988888877777655
Q ss_pred ----HHHhhcc------------CCCCCCCC----------CCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCccccc
Q 006733 301 ----WRHLTRR------------NTLNGPIG----------LNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSE 354 (633)
Q Consensus 301 ----~~~~~~~------------~~~~~~~~----------~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~ 354 (633)
|+..|++ |+...... ....+.++||||+++|+||++++++++..
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 4443321 21111111 23457889999999999999999875531
Q ss_pred ccCCCcccccccccCchHHHHHHHHhccccccccc-eEEccCCCCCCCcEEEEEeec--C---CeeEEeeecCC
Q 006733 355 LSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGP-IKFTSDRDLINPAYEVINVIG--T---GSRRIGYWSNH 422 (633)
Q Consensus 355 ~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~-v~Fd~~g~r~~~~~~I~~~~~--~---~~~~vg~w~~~ 422 (633)
.+..||.. ... ++.++.++|++++|.|.+|. |.||+|||+ ...|+|+|++. + .+++||.|+..
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 47899999999999999994 999999996 57999999983 2 36999999753
No 12
>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=3.6e-45 Score=378.63 Aligned_cols=333 Identities=23% Similarity=0.304 Sum_probs=282.0
Q ss_pred chhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-------------------CceEEEcCCc
Q 006733 46 GKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-------------------ETVAIIGPQF 106 (633)
Q Consensus 46 g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-------------------~v~aviG~~~ 106 (633)
|.+...|+.+|+|+||+++ +|||++|+++++|+|+++..++..+.+++++ +|.+||||.+
T Consensus 34 g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~ 112 (403)
T cd06361 34 GFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGY 112 (403)
T ss_pred HHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCc
Confidence 5678899999999999999 5689999999999999999999999999873 7999999999
Q ss_pred hhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHH
Q 006733 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAAL 185 (633)
Q Consensus 107 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~ 185 (633)
|..+.++++++..++||+|+++++++.|++ .+|||+||+.|++..+++++++++++++|++|++|+.+++||+...+.|
T Consensus 113 S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f 192 (403)
T cd06361 113 SEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYGRSALETF 192 (403)
T ss_pred chHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchHHHHHHHH
Confidence 999999999999999999999999999997 6789999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcCcEEEEEeecCCCCCh-----hhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 006733 186 GDKLAEKRCRLSHKVPLSPKGSR-----NQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWL 260 (633)
Q Consensus 186 ~~~~~~~g~~v~~~~~~~~~~~~-----~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 260 (633)
++.+++.|+||+..+.++..... .++..+++.++..++|+||+.+...++..++++|+++|+ ++.||++++|
T Consensus 193 ~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~---~~~wigs~~w 269 (403)
T cd06361 193 IIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI---NKVWIASDNW 269 (403)
T ss_pred HHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC---CeEEEEECcc
Confidence 99999999999998888753211 455666667888999999999999999999999999998 5899999998
Q ss_pred ccccCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhc
Q 006733 261 SSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQ 340 (633)
Q Consensus 261 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~ 340 (633)
........ ........|.+++.+..+..+ .|.+.|++++ ..++||||+++|+||++++.+
T Consensus 270 ~~~~~~~~---~~~~~~~~g~ig~~~~~~~~~---~F~~~~~~~~--------------~~~v~~AVyaiA~Al~~~~~~ 329 (403)
T cd06361 270 STAKKILT---DPNVKKIGKVVGFTFKSGNIS---SFHQFLKNLL--------------IHSIQLAVFALAHAIRDLCQE 329 (403)
T ss_pred cCcccccc---CCcccccceEEEEEecCCccc---hHHHHHHHhh--------------HHHHHHHHHHHHHHHHHhccC
Confidence 75333221 222356778888888665554 4555555443 345899999999999997532
Q ss_pred CCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecC----CeeEE
Q 006733 341 GGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGT----GSRRI 416 (633)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~----~~~~v 416 (633)
+ .|...... +++.|+++|++++|+|++|++.||++|+. ...|+|.+++.+ .+++|
T Consensus 330 ~-------------------~c~~~~~~-~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~v 388 (403)
T cd06361 330 R-------------------QCQNPNAF-QPWELLGQLKNVTFEDGGNMYHFDANGDL-NLGYDVVLWKEDNGHMTVTIM 388 (403)
T ss_pred C-------------------CCCCCCCc-CHHHHHHHHheeEEecCCceEEECCCCCC-CcceEEEEeEecCCcEEEEEE
Confidence 1 24332223 48899999999999999889999999996 578999999953 36999
Q ss_pred eeecCCC
Q 006733 417 GYWSNHS 423 (633)
Q Consensus 417 g~w~~~~ 423 (633)
|.|++..
T Consensus 389 g~~~~~~ 395 (403)
T cd06361 389 AEYDPQN 395 (403)
T ss_pred EEEeCCC
Confidence 9998754
No 13
>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=7.4e-45 Score=376.55 Aligned_cols=336 Identities=22% Similarity=0.327 Sum_probs=273.6
Q ss_pred CCeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHH-HHHhcCceEEEc-CC-c
Q 006733 30 PPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEAL-TLLENETVAIIG-PQ-F 106 (633)
Q Consensus 30 ~~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~-~li~~~v~aviG-~~-~ 106 (633)
+.+|+||+++|.+ ....|+++|++++|++.+.+++.++.-...+.++++.++...+| +|++++|.+||| +. +
T Consensus 17 ~~~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~~V~aii~~~~~s 91 (377)
T cd06379 17 PKTVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLISNQVYAVIVSHPPT 91 (377)
T ss_pred CcEEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhhcceEEEEEeCCCC
Confidence 5689999999843 57899999999999965432333333221111345656555555 578889999974 33 3
Q ss_pred hh---hHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhH
Q 006733 107 SV---IAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGI 182 (633)
Q Consensus 107 s~---~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~ 182 (633)
+. .+.+++.+++.++||+|+++++++.+++ ..||++||+.|++..++.++++++++++|++|++||++++||....
T Consensus 92 s~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~ 171 (377)
T cd06379 92 SNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEGRAAQ 171 (377)
T ss_pred CcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcchhHHH
Confidence 32 4667888999999999999988888887 4589999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCc----EEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 183 AALGDKLAEKRC----RLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 183 ~~~~~~~~~~g~----~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
+.+++.+++.|+ +++....++ .+..+++.+++++++.++|+|+++++..++..++++|+++||++++|+||.++
T Consensus 172 ~~~~~~~~~~g~~~~~~v~~~~~~~--~~~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~~~wi~t~ 249 (377)
T cd06379 172 KRFETLLEEREIEFKIKVEKVVEFE--PGEKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEGYVWIVSE 249 (377)
T ss_pred HHHHHHHHhcCCccceeeeEEEecC--CchhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCEEEEEec
Confidence 999999999999 888777776 45679999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhh
Q 006733 259 WLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFF 338 (633)
Q Consensus 259 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~ 338 (633)
.+... .+...|++++++..+ ..+..++||||+++++|+++++
T Consensus 250 ~~~~~-----------~~~~~g~~g~~~~~~---------------------------~~~~~~~yDAV~~~A~Al~~~~ 291 (377)
T cd06379 250 QAGAA-----------RNAPDGVLGLQLING---------------------------KNESSHIRDAVAVLASAIQELF 291 (377)
T ss_pred ccccc-----------ccCCCceEEEEECCC---------------------------CCHHHHHHHHHHHHHHHHHHHH
Confidence 76321 134578888887542 2346789999999999999987
Q ss_pred hcCCCcccccCcccccccCCCcccccc-cccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEe
Q 006733 339 DQGGNISFSEDSKLSELSRGDMRFSSV-SIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIG 417 (633)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~c~~~-~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg 417 (633)
+... . ......|... ..|.+|..+.++|++++|+|++|+|.||++|+|....|+|+++++.++++||
T Consensus 292 ~~~~-~-----------~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG 359 (377)
T cd06379 292 EKEN-I-----------TEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVG 359 (377)
T ss_pred cCCC-C-----------CCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEee
Confidence 6322 1 1112235433 2588899999999999999999999999999998889999999999999999
Q ss_pred eecCC
Q 006733 418 YWSNH 422 (633)
Q Consensus 418 ~w~~~ 422 (633)
+|++.
T Consensus 360 ~w~~~ 364 (377)
T cd06379 360 LYNGD 364 (377)
T ss_pred EEcCc
Confidence 99863
No 14
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=5.1e-45 Score=370.90 Aligned_cols=360 Identities=16% Similarity=0.254 Sum_probs=298.8
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
+||++|+... ...+.|++.|++.+|.+..+++ .++ . -...|+.++.+++|+++++||.|||||.++.++..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~--~~~--~-~~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLP--QID--I-VNISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCccccc--ceE--E-eccccHHHHHHHHHHHhhcCceEEEccCChhHHHHH
Confidence 4899998753 3578999999999999865543 111 1 234589999999999999999999999999999999
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcC
Q 006733 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKR 193 (633)
Q Consensus 114 a~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g 193 (633)
+++|+..+||+|++.. +..+ ...+++++.|+ +++|+++++++|+|++|++||+++ ||....+.+.+.+++.|
T Consensus 73 ~sic~~~~vP~i~~~~--~~~~--~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~ 144 (364)
T cd06390 73 TSFCGALHVCFITPSF--PVDT--SNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKN 144 (364)
T ss_pred HHhhcCCCCCceecCC--CCCC--CCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccC
Confidence 9999999999999744 3222 23568999998 789999999999999999999654 99999999999999999
Q ss_pred cEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCcccccc
Q 006733 194 CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSE 273 (633)
Q Consensus 194 ~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~ 273 (633)
++|.....++ .+..+++.+|++++..++++||+.|+...+..+++++.+.+++..+|+||+++......+. ++
T Consensus 145 ~~I~~~~~~~--~~~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~~-----~~ 217 (364)
T cd06390 145 WQVTAVNILT--TTEEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDIDL-----TK 217 (364)
T ss_pred ceeeEEEeec--CChHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccccH-----HH
Confidence 9998776665 3456899999999999999999999999999999999888888999999999843322222 44
Q ss_pred ccccccceEEEeeecCCChHHHHHHHHHHHhhccC-CCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCccc
Q 006733 274 KMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRN-TLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKL 352 (633)
Q Consensus 274 ~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~ 352 (633)
+.....|+++++.+.|+.+..++|..+|+++.... +..+...++.+++++||||+++++|++++..++..++...
T Consensus 218 ~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~~---- 293 (364)
T cd06390 218 FRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRRG---- 293 (364)
T ss_pred HhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCC----
Confidence 56778899999999999999999999998765432 2333446778999999999999999999876554432111
Q ss_pred ccccCCCcccc--cccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEeeecCCCCC
Q 006733 353 SELSRGDMRFS--SVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (633)
Q Consensus 353 ~~~~~~~~~c~--~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~~l 425 (633)
....|. ....|+.|..|+++|++++|+|+||++.||++|+|.++.|+|+|+.+.++++||+|++..|+
T Consensus 294 -----~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 294 -----NAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred -----CCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEEECCCCCc
Confidence 112343 34479999999999999999999999999999999999999999999999999999998775
No 15
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=100.00 E-value=1.6e-44 Score=372.44 Aligned_cols=339 Identities=19% Similarity=0.254 Sum_probs=290.1
Q ss_pred eEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh-
Q 006733 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI- 109 (633)
Q Consensus 32 ~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~- 109 (633)
.|+||.++|.+. ...+++.|+..+|.+-.+..+.+++++..|+.+|+.+++.++|+++.+ +|.+|+||.++..
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 589999999883 357888888888877644468999999999999999999999998865 7889999999988
Q ss_pred --HHHHHHhhccCCccEEeeccCCCCC-cc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHH
Q 006733 110 --AHLVSHIANEFQVPLLSFAATDPSL-SS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAAL 185 (633)
Q Consensus 110 --~~~va~~~~~~~iP~Is~~a~~~~l-s~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~ 185 (633)
+.+++++++.++||+|+++++++.+ ++ ..||++||+.|++..+++++++++++++|++|++||++++||++..+.+
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 76 6799999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcCcE--EEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccc
Q 006733 186 GDKLAEKRCR--LSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (633)
Q Consensus 186 ~~~~~~~g~~--v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (633)
++.+++.|++ +.....++.. ...++...+.++++.++|+||+.|+..++..++++|+++||+.++|+||+++.+...
T Consensus 157 ~~~l~~~g~~~~i~~~~~~~~~-~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~~~~ 235 (362)
T cd06367 157 ETTLEESFVGWEFQLVLTLDLS-DDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELALGS 235 (362)
T ss_pred HHHHHhcccceeeeeeEEeccC-CCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcccccc
Confidence 9999999998 7666666532 222788999999999999999999999999999999999999999999999987642
Q ss_pred cCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCC
Q 006733 264 LDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGN 343 (633)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~ 343 (633)
.. ...+...|++++++..+ ..+.+++||||+++++|++++++++..
T Consensus 236 ~~-------~~~~~~~G~~g~~~~~~---------------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~ 281 (362)
T cd06367 236 GL-------APEGLPVGLLGVGLDTW---------------------------YSLEARVRDAVAIVARAAESLLRDKGA 281 (362)
T ss_pred cC-------CccCCCCeeEEEEeccc---------------------------ccHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 11 22356679999987532 245788999999999999999775332
Q ss_pred cccccCcccccccCCCccccccc--ccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEee-cCCeeEEeeec
Q 006733 344 ISFSEDSKLSELSRGDMRFSSVS--IFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVI-GTGSRRIGYWS 420 (633)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~c~~~~--~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~-~~~~~~vg~w~ 420 (633)
. ..+..+|.... .|.+|..+.++|++++|+|++|+|.||++|+|.+..|+|+|++ +.++++||.|+
T Consensus 282 ~-----------~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~ 350 (362)
T cd06367 282 L-----------PEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWE 350 (362)
T ss_pred C-----------CCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEc
Confidence 2 12234576543 2788999999999999999999999999999988999999999 78999999997
Q ss_pred C
Q 006733 421 N 421 (633)
Q Consensus 421 ~ 421 (633)
+
T Consensus 351 ~ 351 (362)
T cd06367 351 N 351 (362)
T ss_pred C
Confidence 5
No 16
>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=7e-44 Score=369.15 Aligned_cols=357 Identities=16% Similarity=0.206 Sum_probs=291.8
Q ss_pred EEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 36 GAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 36 G~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
=+++|.+ ...+.....|+++|+|+||+++++++|++|+++++|++|++..+...+..+..++|.+||||.|+..+.+
T Consensus 3 ~~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~~~v~aiiGp~~s~~~~~ 82 (387)
T cd06386 3 LVLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCARKPDLILGPVCEYAAAP 82 (387)
T ss_pred EEECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHhhCCCEEECCCCccHHHH
Confidence 4567765 3334678999999999999999998999999999999999877777777777779999999999999999
Q ss_pred HHHhhccCCccEEeeccCCCCCcc--CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchh---HHHHHH
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSS--LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNG---IAALGD 187 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~--~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~---~~~~~~ 187 (633)
+++++..++||+|+++++++.+++ ..||++||+.|++..++.++++++++++|++|++||++++|++.. .+.+.+
T Consensus 83 va~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~~~~~~~~~~l~~ 162 (387)
T cd06386 83 VARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQERNCYFTLEGVHH 162 (387)
T ss_pred HHHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCCccceehHHHHHH
Confidence 999999999999999999888876 358999999999999999999999999999999999999998876 889999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccc-cccCC
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLS-SILDT 266 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~-~~~~~ 266 (633)
.+++.|++|+....++ ....++..+++++++.+ |+||++++...++.++++|+++||+..+|+||..+... .....
T Consensus 163 ~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~~~ 239 (387)
T cd06386 163 VFQEEGYHMSIYPFDE--TKDLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSYGD 239 (387)
T ss_pred HHHhcCceEEEEecCC--CCcccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEecccccccCC
Confidence 9999999998765554 34578999999999887 99999999999999999999999999999999998653 11110
Q ss_pred Ccc-----cc---ccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCC-CCCCCchhHHHhhHHHHHHHHHHHh
Q 006733 267 DSQ-----LH---SEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNG-PIGLNSFGLYAYDTLWLLAHAIGAF 337 (633)
Q Consensus 267 ~~~-----~~---~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~~~~~yDav~~~~~Al~~~ 337 (633)
..+ .+ ....+...|+..+ .+..+.+++|.+++++++......+ ...++.+++++|||++++++|++++
T Consensus 240 ~~w~~~~~~~~~~~~a~~~~~~v~~~---~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~A~Al~~~ 316 (387)
T cd06386 240 GSWKRGDKHDFEAKQAYSSLNTVTLL---RTVKPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLYALALHEV 316 (387)
T ss_pred CCCccCCCcCHHHHHHHHhheEEecc---CCCChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHHHHHHHHH
Confidence 000 11 1122334444444 3445778889999886654321111 1245688999999999999999998
Q ss_pred hhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeec---CCee
Q 006733 338 FDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIG---TGSR 414 (633)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~---~~~~ 414 (633)
++.+.. +.+|..|.++|++++|+|++|++.||++|+|. ..|.|+.+++ ++++
T Consensus 317 ~~~g~~------------------------~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~~~ 371 (387)
T cd06386 317 LKNGYS------------------------KKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGTYE 371 (387)
T ss_pred hhCCCC------------------------CCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCccEE
Confidence 765431 33699999999999999999999999999985 5999999963 5789
Q ss_pred EEeeecCCC
Q 006733 415 RIGYWSNHS 423 (633)
Q Consensus 415 ~vg~w~~~~ 423 (633)
.||+|....
T Consensus 372 ~~~~~~~~~ 380 (387)
T cd06386 372 VVGNYFGKN 380 (387)
T ss_pred EEeEEcccc
Confidence 999997543
No 17
>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=1.4e-43 Score=359.02 Aligned_cols=366 Identities=15% Similarity=0.211 Sum_probs=301.3
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCC-cEEEEEEec-CCCChHHHHHHHHHHHhcCceEEEcCCchhhHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGG-TKLKLTVHD-TNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g-~~l~~~~~D-~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~ 111 (633)
.||++|+.+. .....|++.|++.+|.+..+++. .+|...+.. ...|+.++.+++|+++++||.||+||.++.++.
T Consensus 1 ~iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~~GV~AIfGp~~~~s~~ 77 (372)
T cd06387 1 SIGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFSRGVYAIFGFYDQMSMN 77 (372)
T ss_pred CcceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhhcccEEEEecCCHhHHH
Confidence 3899998654 35689999999999998877654 477775543 246999999999999999999999999999999
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhh
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAE 191 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~ 191 (633)
++.++|+..+||+|.+... .+...++.+++.|+ +..|+++++++|+|++|.+|| |+++|....+.+.+.++.
T Consensus 78 ~v~s~c~~~~iP~i~~~~~----~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~gl~~Lq~L~~~~~~ 149 (372)
T cd06387 78 TLTSFCGALHTSFITPSFP----TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERGFSILQAIMEAAVQ 149 (372)
T ss_pred HHHHhhccccCCeeeeCCC----CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhcc
Confidence 9999999999999987332 12334678899998 689999999999999999999 668898888999899988
Q ss_pred cCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCcccc
Q 006733 192 KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLH 271 (633)
Q Consensus 192 ~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~ 271 (633)
.+..|......+. ....+++.+++++++.+.++||+.|+++.+..++++|.++||+..+|+||+++......+.
T Consensus 150 ~~~~V~~~~v~~~-~~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl----- 223 (372)
T cd06387 150 NNWQVTARSVGNI-KDVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISL----- 223 (372)
T ss_pred CCceEEEEEeccC-CchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccH-----
Confidence 8988876653332 2456889999999999999999999999999999999999999999999999854444333
Q ss_pred ccccccccceEEEeeecCCChHHHHHHHHHHHhhcc-CCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCc
Q 006733 272 SEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRR-NTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDS 350 (633)
Q Consensus 272 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~ 350 (633)
.++.....+++++++..|..+..++|.++|+++... .++.....++.+++++||||+++++|++++..++..++..
T Consensus 224 ~~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~~--- 300 (372)
T cd06387 224 ERVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSRR--- 300 (372)
T ss_pred HHhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCcccC---
Confidence 234444455999999999999999999999876542 2333334567899999999999999999986544332211
Q ss_pred ccccccCCCccccc--ccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEeeecCCCCC
Q 006733 351 KLSELSRGDMRFSS--VSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (633)
Q Consensus 351 ~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~~l 425 (633)
+....|.. ..+|..|..|+++|++++|+|+||++.|+++|+|.++.++|+|+.+.++++||+|++..|+
T Consensus 301 ------~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 301 ------GSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred ------CCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEEEECCCCCc
Confidence 12224533 4589999999999999999999999999999999999999999999999999999998774
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=1.4e-43 Score=368.16 Aligned_cols=375 Identities=19% Similarity=0.299 Sum_probs=298.5
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN-YSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~-~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||++|+.+ +.....|+++|+++||++..+++..++.+.+.++. +|+.++.+++|++++++|.+||||.+|..+.+
T Consensus 1 ~iG~if~~~---~~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~ 77 (382)
T cd06380 1 PIGGLFDVD---EDQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSRGVFAIFGSYDKSSVNT 77 (382)
T ss_pred CceeEECCC---ChHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhcCcEEEEecCcHHHHHH
Confidence 489999998 46789999999999999876667778877777665 79999999999999999999999999999999
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhc
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK 192 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~ 192 (633)
+++++..++||+|+++++.+.++ ..++|+||+.|+. ..++++++++++|++|++||++++ |....+.+.+.+++.
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 99999999999999988888774 4679999999863 458889999999999999997664 666677788888888
Q ss_pred C--cEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccc
Q 006733 193 R--CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQL 270 (633)
Q Consensus 193 g--~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 270 (633)
| +.+.... +....+..|++.+|+++++.++|+||+.++..++..++++|+++||..++|+||+++......+.
T Consensus 153 g~~i~v~~~~-~~~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~~~~---- 227 (382)
T cd06380 153 DNKWQVTARR-VDNVTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDDIDL---- 227 (382)
T ss_pred CCceEEEEEE-ecCCCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCcccccH----
Confidence 8 6665432 32112457999999999999999999999999999999999999999999999998754433222
Q ss_pred cccccccccceEEEeeecCCChHHHHHHHHHHHhhccC-CCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccC
Q 006733 271 HSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRN-TLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSED 349 (633)
Q Consensus 271 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~ 349 (633)
........++.+++...+..+..++|.++|+++++.. +......++.+++++|||++++++|++++.+.+........
T Consensus 228 -~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~~~ 306 (382)
T cd06380 228 -SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHRID 306 (382)
T ss_pred -HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhccccccccc
Confidence 1111222346667666767888999999999987531 11122346678999999999999999998765432100000
Q ss_pred cccccccCCCcccc--cccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEeeecCCCCC
Q 006733 350 SKLSELSRGDMRFS--SVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (633)
Q Consensus 350 ~~~~~~~~~~~~c~--~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~~l 425 (633)
....+.+..|. +...|.+|..++++|++++|+|++|++.||++|+|.+..++|++++++++++||+|++..|+
T Consensus 307 ---~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 307 ---ISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNEDDGL 381 (382)
T ss_pred ---cccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCCcCc
Confidence 00112344454 34578889999999999999999999999999999989999999999899999999988764
No 19
>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=1e-43 Score=365.25 Aligned_cols=342 Identities=44% Similarity=0.733 Sum_probs=299.7
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~~~ 111 (633)
|||+++|++ +..|.....|+++|+++||+++|+++|++|+++++|+++++..+++++++|+.+ +|.+||||.+|..+.
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 788999999999999999999977789999999999999999999999999987 999999999999999
Q ss_pred HHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHh
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLA 190 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~ 190 (633)
++++++..+++|+|+++++++.+++ ..+|++||+.|++..++.++++++++++|+++++|+.+++||....+.+++.++
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 9999999999999999999888855 668999999999999999999999999999999999999999999999999999
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCC-Ccc
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT-DSQ 269 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~-~~~ 269 (633)
+.|++++....++...+..++..+++++++.++|+|++++...++..++++++++|+..+.++|+.++.+....+. ...
T Consensus 161 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 240 (350)
T cd06366 161 EAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGYVWILTDWLSSNWWSSSDC 240 (350)
T ss_pred HcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCEEEEECcchhhhhccCCCC
Confidence 9999999888887432368999999999999999999999999999999999999998888999998765432210 011
Q ss_pred ccccccccccceEEEeeecCC-ChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCccccc
Q 006733 270 LHSEKMDDIQGVLTLRMYTQS-SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSE 348 (633)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~ 348 (633)
..+...+..+|++++.++.++ .+.+++|.++|+++++..+.. ...++.++.++||++++
T Consensus 241 ~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~p~~~a~~~YDav~~------------------- 300 (350)
T cd06366 241 TDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE-LTEPSIYALYAYDAVWA------------------- 300 (350)
T ss_pred ChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcC-cCCCCcccchhhhheee-------------------
Confidence 112344678899999988887 788999999999998632111 12467889999999988
Q ss_pred CcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEeeecCCCCCc
Q 006733 349 DSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGLS 426 (633)
Q Consensus 349 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~~l~ 426 (633)
+.+|+|++|+|+||++|++.+..|+++++.++++++||+|++..|++
T Consensus 301 -------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~ 347 (350)
T cd06366 301 -------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLS 347 (350)
T ss_pred -------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCcc
Confidence 12689999999999999988899999999999999999999887754
No 20
>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=3.3e-43 Score=366.93 Aligned_cols=356 Identities=19% Similarity=0.300 Sum_probs=292.9
Q ss_pred EEEEEEeecCC----ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchh
Q 006733 33 LNIGAVFALNS----TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSV 108 (633)
Q Consensus 33 i~IG~l~p~~~----~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~ 108 (633)
|+||+++|++. ..|.....|+++|+|+||+++++++|++|++++.|++|++..++.++++++.++|.+||||.+|.
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 45888899999999999999999889999999999999999999999999999999999999984
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGD 187 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (633)
. +++.++..++||+|+++++++.+++ ..||+|||+.|++..++.++++++++++|+++++|+.+++||....+.+++
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 4567999999999999999988887 578999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCcEEEEEeecCCCC-----ChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCC-CCCeEEEEeCccc
Q 006733 188 KLAEKRCRLSHKVPLSPKG-----SRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMM-ESGYVWIVTDWLS 261 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~-----~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~-~~~~~~i~~~~~~ 261 (633)
.+++.|++|+..+.++... ...++..++++++.. .+++|+++...++..++++|+++||+ ..+|+||+.+...
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 9999999999888887431 146888888888765 67777888888999999999999998 5789999876321
Q ss_pred ccc---------------CCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCC-------CCCCCCCch
Q 006733 262 SIL---------------DTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTL-------NGPIGLNSF 319 (633)
Q Consensus 262 ~~~---------------~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~-------~~~~~~~~~ 319 (633)
... ...........++.+|++.+.+..+ .+..++|.++|++++...+. .....++.+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (404)
T cd06370 238 YDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIE 316 (404)
T ss_pred ccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccccccccccee
Confidence 100 0011111233457788888776555 66778999999887543110 012246678
Q ss_pred hHHHhhHHHHHHHHHHHhhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhcccccccc-ceEEccCCCC
Q 006733 320 GLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTG-PIKFTSDRDL 398 (633)
Q Consensus 320 ~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G-~v~Fd~~g~r 398 (633)
++++|||++++++|++++++++... .++..|.++|++++|+|++| +|.||++|+|
T Consensus 317 aa~~yDAv~~~a~Al~~~~~~~~~~------------------------~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~ 372 (404)
T cd06370 317 AAYLYDAVMLYAKALDETLLEGGDI------------------------YNGTAIVSHILNRTYRSITGFDMYIDENGDA 372 (404)
T ss_pred eehhHHHHHHHHHHHHHHHHhcCCC------------------------CCHHHHHHHHhCcccccccCceEEEcCCCCc
Confidence 9999999999999999987654321 15889999999999999999 8999999998
Q ss_pred CCCcEEEEEeecCCeeEEe
Q 006733 399 INPAYEVINVIGTGSRRIG 417 (633)
Q Consensus 399 ~~~~~~I~~~~~~~~~~vg 417 (633)
...|.|++++++.|-.-|
T Consensus 373 -~~~y~v~~~~~~~~~~~~ 390 (404)
T cd06370 373 -EGNYSVLALQPIPPGDNG 390 (404)
T ss_pred -ccceEEEEeccccccCCC
Confidence 488999999886554433
No 21
>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=7.6e-43 Score=364.90 Aligned_cols=351 Identities=23% Similarity=0.328 Sum_probs=293.1
Q ss_pred CCCeEEEEEEeecCC---------------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHH
Q 006733 29 IPPVLNIGAVFALNS---------------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGM 87 (633)
Q Consensus 29 ~~~~i~IG~l~p~~~---------------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~ 87 (633)
.++++.||++||.|. ..|.....|+++|+|+||++||+|+|++|+++++|+|+ +..++
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 468899999999973 22456789999999999999999999999999999976 66799
Q ss_pred HHHHHHHh----------------cCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChH
Q 006733 88 VEALTLLE----------------NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDL 150 (633)
Q Consensus 88 ~~~~~li~----------------~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~ 150 (633)
+.+.+|+. ++|.+||||.+|..+.++++++..+++|+|+++++++.+++ ..+|++||+.|++.
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 99989874 48999999999999999999999999999999999888886 57899999999999
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCC-CChhhHHHHHHHhhcCCCeEEEEe
Q 006733 151 YQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPK-GSRNQIIDTLLTVSSMMSRILILH 229 (633)
Q Consensus 151 ~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~~~~~~~l~~i~~~~~~vIvl~ 229 (633)
.++.++++++++++|++|++|+.+++||....+.+++.+++.|+++...+.++.. .+..|+..++++++..++|+|++.
T Consensus 162 ~~~~al~~~l~~~~~k~vaii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~~~~~dvIil~ 241 (410)
T cd06363 162 DQIEAMVQLLQEFGWNWVAFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIPLDTDPETDYQQILKQINQTKVNVIVVF 241 (410)
T ss_pred HHHHHHHHHHHHCCCcEEEEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 9999999999999999999999999999999999999999999999988877642 246799999999999999999999
Q ss_pred eChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCC
Q 006733 230 TYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNT 309 (633)
Q Consensus 230 ~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 309 (633)
+...++..++++|+++|+.. ..|++++++........ ....+...+++++....+..+.+++|.++
T Consensus 242 ~~~~~~~~il~qa~~~g~~~--~~~i~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~--------- 307 (410)
T cd06363 242 ASRQPAEAFFNSVIQQNLTG--KVWIASEAWSLNDELPS---LPGIRNIGTVLGVAQQTVTIPGFSDFIYS--------- 307 (410)
T ss_pred cChHHHHHHHHHHHhcCCCC--CEEEEeCcccccccccC---CccceeeccEEEEEeCCCCCccHHHHHHH---------
Confidence 99999999999999999854 47898876543221111 11123445677777777777777777766
Q ss_pred CCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccc
Q 006733 310 LNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGP 389 (633)
Q Consensus 310 ~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~ 389 (633)
+.+.+||||+++++|++++++++.. .|.... ..+++.|.++|++++|+|++|+
T Consensus 308 ---------~~~~~YDaV~~~a~Al~~a~~~~~~-----------------~~~~~~-~~~~~~l~~~L~~~~~~g~~g~ 360 (410)
T cd06363 308 ---------FAFSVYAAVYAVAHALHNVLQCGSG-----------------GCPKRV-PVYPWQLLEELKKVNFTLLGQT 360 (410)
T ss_pred ---------HHHHHHHHHHHHHHHHHHHhCCCCC-----------------CCCCCC-CCCHHHHHHHHhccEEecCCcE
Confidence 3466899999999999998765321 132111 2248889999999999999999
Q ss_pred eEEccCCCCCCCcEEEEEeecC----CeeEEeeecCC
Q 006733 390 IKFTSDRDLINPAYEVINVIGT----GSRRIGYWSNH 422 (633)
Q Consensus 390 v~Fd~~g~r~~~~~~I~~~~~~----~~~~vg~w~~~ 422 (633)
+.||++|++ ...+.|++++.. .+++||+|++.
T Consensus 361 i~fd~~G~~-~~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 361 VRFDENGDP-NFGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred EEeCCCCCC-ccceEEEEEEEcCCceeEEEEEEEECC
Confidence 999999995 467999999543 48999999874
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=1.1e-42 Score=355.50 Aligned_cols=365 Identities=18% Similarity=0.231 Sum_probs=289.4
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCC-CcEEEEEEec-CCCChHHHHHHHHHHHhcCceEEEcCCchhhHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILG-GTKLKLTVHD-TNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~-g~~l~~~~~D-~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~ 111 (633)
+||.||+... .....|+++|++.+|.+..++. +.++...+.. ...|+..+.+++|+++++||.||+||.++..+.
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 4899998653 3468999999999998764432 2466665543 335899999999999999999999999999999
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhh
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAE 191 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~ 191 (633)
+++++|+..+||+|++... +...+.+.+++.|+ +..++++++++++|++|++||+ .+++....+.|.+.+++
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 12334455566666 4678888999999999999994 44566778999999999
Q ss_pred cCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCcccc
Q 006733 192 KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLH 271 (633)
Q Consensus 192 ~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~ 271 (633)
.|++|+...... .+..|++.+|++++..++++||+.|+++.+..++++|+++||+.++|+||+++......+.
T Consensus 150 ~g~~v~~~~~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l----- 222 (371)
T cd06388 150 NGWQVSAICVEN--FNDASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISL----- 222 (371)
T ss_pred cCCeeeeEEecc--CCcHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccccH-----
Confidence 999988755444 2356999999999999999999999999999999999999999999999998753222221
Q ss_pred ccccccccceEEEeeecCCChHHHHHHHHHHHhhccC-CCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCc
Q 006733 272 SEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRN-TLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDS 350 (633)
Q Consensus 272 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~ 350 (633)
.++.....++.+++..++..+..++|.++|++.+... ++.. ..++..++++||||+++++|++++.......+.
T Consensus 223 ~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~-~~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~~---- 297 (371)
T cd06388 223 ERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSE-SPPKYTSALTYDGVLVMAEAFRNLRRQKIDISR---- 297 (371)
T ss_pred HHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCC-CCccchHHHHHHHHHHHHHHHHHHHhcCCCccc----
Confidence 2222334458888888888889999999998765432 1211 256788999999999999999987543222110
Q ss_pred ccccccCCCcccc--cccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEeeecCCCCCc
Q 006733 351 KLSELSRGDMRFS--SVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGLS 426 (633)
Q Consensus 351 ~~~~~~~~~~~c~--~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~~l~ 426 (633)
.+....|. ...+|..|..|+++|++++|+|+||++.||++|+|.++.++|++++.+++++||+|++..||+
T Consensus 298 -----~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~~~~g~~ 370 (371)
T cd06388 298 -----RGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWNDMDKLV 370 (371)
T ss_pred -----CCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEcCCCCcc
Confidence 01122453 355899999999999999999999999999999999999999999999999999999988764
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=1.1e-42 Score=356.68 Aligned_cols=363 Identities=17% Similarity=0.248 Sum_probs=292.7
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHD-TNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D-~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||.||+... .....|++.|++.+|.. +.+|...+.. ...|+..+.+++|+++++||.||+||.++..+.+
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 4899998754 35689999999999986 3566664433 4458999999999999999999999999999999
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhc
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK 192 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~ 192 (633)
++++|+.++||+|++.++. +..+++.+++.|+ ...++++++++++|++|++||+ ++||....+.+.+.+++.
T Consensus 73 v~~i~~~~~IP~I~~~~~~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~gl~~lq~l~~~~~~~ 144 (370)
T cd06389 73 ITSFCGTLHVSFITPSFPT----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRGLSTLQAVLDSAAEK 144 (370)
T ss_pred HHHhhccCCCCeeeecCCC----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchHHHHHHHHHHhhccC
Confidence 9999999999999975542 3357788899988 4789999999999999999996 569999999999999999
Q ss_pred CcEEEEEe--ecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccc
Q 006733 193 RCRLSHKV--PLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQL 270 (633)
Q Consensus 193 g~~v~~~~--~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 270 (633)
|++|.... .+.......+++.+|++++..++++||+.|+.+.+..++++|+++||+.+.|+||+++......+.
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 98876433 122223456999999999999999999999999999999999999999999999998753322222
Q ss_pred cccccccccceEEEeeecCCChHHHHHHHHHHHhhc-cCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccC
Q 006733 271 HSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTR-RNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSED 349 (633)
Q Consensus 271 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~-~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~ 349 (633)
..+.....++.+++..++..+..++|.++|++... .+++.....++..++++||||+++++|++++...+.....
T Consensus 221 -~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~~--- 296 (370)
T cd06389 221 -SKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEISR--- 296 (370)
T ss_pred -hhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCccc---
Confidence 11222344678888888888899999999986322 1122222456788999999999999999998654332211
Q ss_pred cccccccCCCcccc--cccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEeeecCCCCCc
Q 006733 350 SKLSELSRGDMRFS--SVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGLS 426 (633)
Q Consensus 350 ~~~~~~~~~~~~c~--~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~~l~ 426 (633)
.++...|. +..+|.+|..|+++|++++|+|+||++.||++|+|.++.++|++++.+++++||+|++..|++
T Consensus 297 ------~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~~ 369 (370)
T cd06389 297 ------RGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKMV 369 (370)
T ss_pred ------CCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCcc
Confidence 01223453 355899999999999999999999999999999999999999999999999999999988764
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=4.6e-43 Score=366.75 Aligned_cols=362 Identities=18% Similarity=0.238 Sum_probs=288.1
Q ss_pred EEEEEeecCCc---cc-hhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHH-----HHHH-HhcCceEEEc
Q 006733 34 NIGAVFALNST---IG-KVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVE-----ALTL-LENETVAIIG 103 (633)
Q Consensus 34 ~IG~l~p~~~~---~g-~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~-----~~~l-i~~~v~aviG 103 (633)
+||+++|++.. ++ .....|+++|+|+||+++++|+|++|++++.|+++++..+... +.++ ..++|.+|||
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 58999999843 44 6788999999999999999999999999999987665543322 2222 3459999999
Q ss_pred CCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEE-EEecCC-Ccch
Q 006733 104 PQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIA-LYVDDD-HGRN 180 (633)
Q Consensus 104 ~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~i-i~~d~~-~g~~ 180 (633)
|.||..+.++++++..++||+|+++++++.+++ ..||++||+.|++..++.++++++++++|+++++ ++.++. ++..
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 999999999999999999999999999988887 6799999999999999999999999999999985 555443 3333
Q ss_pred ---hHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 006733 181 ---GIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVT 257 (633)
Q Consensus 181 ---~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 257 (633)
..+.+.+.+++.|++|+..+..+ .+..+++.+|+++++.. |+||++++...+..++++|+++||+.+.|+||++
T Consensus 161 ~~~~~~~l~~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~ 237 (405)
T cd06385 161 CYFAMEGLYMELKKNNITVVDLVFEE--DDLINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREGLPSEDYVFFYI 237 (405)
T ss_pred hHHHHHHHHHHHHhCCeEEEEeeccC--CchhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEEEe
Confidence 45788899999999998775332 34678999999998754 9999999999999999999999999999999998
Q ss_pred CccccccCC---------CccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCC--CCCCCchhHHHhhH
Q 006733 258 DWLSSILDT---------DSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNG--PIGLNSFGLYAYDT 326 (633)
Q Consensus 258 ~~~~~~~~~---------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~~~~yDa 326 (633)
+.+...... .+..+....++.++++......+..+.+++|.++|+++.....+.+ ...++.+++++|||
T Consensus 238 ~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~YDa 317 (405)
T cd06385 238 DLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFYDG 317 (405)
T ss_pred ecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHHHH
Confidence 664322110 0101112345668888877777777889999999988632111111 11256789999999
Q ss_pred HHHHHHHHHHhhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEE
Q 006733 327 LWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVI 406 (633)
Q Consensus 327 v~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~ 406 (633)
|++++.|++++.+..+. +.+|..+.++|++++|+|++|+|.||++|+|. ..|.++
T Consensus 318 v~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~-~~~~~~ 372 (405)
T cd06385 318 VMLYAHALNETMAKGGT------------------------RPPGTAITQRMWNRTFYGVTGFVKIDDNGDRE-TDFALW 372 (405)
T ss_pred HHHHHHHHHHHHhcCCC------------------------CCCHHHHHHHhhCceEeeceeEEEEcCCCCEe-ceeEEE
Confidence 99999999998665332 33599999999999999999999999999985 788887
Q ss_pred Ee---ecCCeeEEeeecCCC
Q 006733 407 NV---IGTGSRRIGYWSNHS 423 (633)
Q Consensus 407 ~~---~~~~~~~vg~w~~~~ 423 (633)
++ +++.++.||.|+..+
T Consensus 373 ~~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 373 DMTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred EccCCCCCcEEEEEEEcccC
Confidence 55 567899999998654
No 25
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=100.00 E-value=2.2e-42 Score=355.27 Aligned_cols=368 Identities=22% Similarity=0.320 Sum_probs=292.2
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEE--EEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKL--TVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~--~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~ 111 (633)
+||++|+.++..+ +.|+++|++++|++..+|++.+|++ ...|++ |+..+..++|++++++|.|||||.++..+.
T Consensus 1 ~IGaif~~~s~~~---~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~~-d~f~a~~~~c~l~~~gv~ai~Gp~~~~~~~ 76 (400)
T cd06391 1 HIGAIFDESAKKD---DEVFRMAVADLNQNNEILQTEKITVSVTFVDGN-NPFQAVQEACELMNQGILALVSSIGCTSAG 76 (400)
T ss_pred CcceeeccCCchH---HHHHHHHHHHhcCCccccCCCcceEEEEEeeCC-CcHHHHHHHHHHHhCCeEEEECCCcchHHH
Confidence 4899999986443 5699999999999999999995554 788885 999999999999999999999998888888
Q ss_pred HHHHhhccCCccEEee----ccCC-----CCCcc--CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcch
Q 006733 112 LVSHIANEFQVPLLSF----AATD-----PSLSS--LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRN 180 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~----~a~~-----~~ls~--~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~ 180 (633)
.++.+|+.++||+|++ ++++ +.+++ ..||+++| |+ ..+..++++++++|+|+++++++ ++++|..
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 3322 23342 45777777 54 67889999999999999999765 6678888
Q ss_pred hHHHHHHHHhhcCcEEEEEeecCCCCCh---hhHHH-HHHHhhc--CCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEE
Q 006733 181 GIAALGDKLAEKRCRLSHKVPLSPKGSR---NQIID-TLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVW 254 (633)
Q Consensus 181 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~---~~~~~-~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~ 254 (633)
..+.+.+.+++.|+||.... +...... ..+.. .++++++ .+.++||+.++...+..++++|+++||++.+|+|
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 2211110 11222 4456665 5679999999999999999999999999999999
Q ss_pred EEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhcc--C-CCCC-CCCCCchhHHHhhHHHHH
Q 006733 255 IVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRR--N-TLNG-PIGLNSFGLYAYDTLWLL 330 (633)
Q Consensus 255 i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~--~-~~~~-~~~~~~~~~~~yDav~~~ 330 (633)
|++++.....+..+ .......|+.+++++.|......+|..+|+.++.. + +..+ ...++.+++++||||+++
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 99999887777643 12234567778888888777888888888877632 1 1111 123568899999999999
Q ss_pred HHHHHHhhhcCCCcccccCcccccccCCCcccc--cccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEe
Q 006733 331 AHAIGAFFDQGGNISFSEDSKLSELSRGDMRFS--SVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINV 408 (633)
Q Consensus 331 ~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~--~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~ 408 (633)
++|++++.+.+... ......|. +...|..|..|+++|++++|+|+||++.|+++|+|.++.|+|+|+
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 99999875433221 22233454 345899999999999999999999999999999999999999999
Q ss_pred e-----cCCeeEEeeecCCCCC
Q 006733 409 I-----GTGSRRIGYWSNHSGL 425 (633)
Q Consensus 409 ~-----~~~~~~vg~w~~~~~l 425 (633)
+ +.++++||+|++..|+
T Consensus 377 ~~~~~~~~g~rkiG~Ws~~~gl 398 (400)
T cd06391 377 NYGEDLGRGVRKLGCWNPITGL 398 (400)
T ss_pred eccccCCCcceEEEEEcCCcCC
Confidence 6 7889999999998875
No 26
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=6.5e-43 Score=364.76 Aligned_cols=363 Identities=20% Similarity=0.278 Sum_probs=295.6
Q ss_pred EEEEEeecCC----ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC----ChHHHHHHHHHHH-hcCceEEEcC
Q 006733 34 NIGAVFALNS----TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNY----SRFLGMVEALTLL-ENETVAIIGP 104 (633)
Q Consensus 34 ~IG~l~p~~~----~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~----~~~~a~~~~~~li-~~~v~aviG~ 104 (633)
+||+++|.+. ..|.....|+++|+|+||+++++++|++|++++.|+++ ++..++..+.+++ .++|.+||||
T Consensus 1 ~~g~l~p~~~~~~~~~~~~~~~a~~lAve~IN~~gg~l~G~~l~~~~~D~~~~~~~~~~~a~~~a~~~~~~~~v~aiiGp 80 (396)
T cd06373 1 TLAVLLPKNNTSYPWSLPRVGPAIDIAVERVNADPGLLPGHNITLVFEDSECKCGCSESEAPLVAVDLYFQHKPDAFLGP 80 (396)
T ss_pred CeEEEcCCCCCCcccchhhhhhHHHHHHHHHhcCCCcCCCeEEEEEEecCccccccchhhhHHHHHHHHhccCCeEEECC
Confidence 5899999983 34567789999999999999988899999999999999 8888888888876 5589999999
Q ss_pred CchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCc----c
Q 006733 105 QFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHG----R 179 (633)
Q Consensus 105 ~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g----~ 179 (633)
.+|..+.++++++..++||+|+++++++.+++ ..||++||+.|++..++.++++++++++|+++++|+.+++++ .
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 99999999999999999999999999988887 678999999999999999999999999999999999887664 4
Q ss_pred hhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 006733 180 NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (633)
Q Consensus 180 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (633)
...+.+.+.+++.|++++... +.......++..+++++++.. |+||+++...++..++++++++|++..+|+||..+.
T Consensus 161 ~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~~yv~i~~~~ 238 (396)
T cd06373 161 FTLEGVYTVLKEENITVSDFP-FDEDKELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSGEYVFFNIDL 238 (396)
T ss_pred HHHHHHHHHHhhcCceeeEEe-ecCCccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCcEEEEEEcc
Confidence 567888899999999987543 442111479999999999865 999999999999999999999999999999998764
Q ss_pred cccccCC--------CccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCC--CCCCCCCCchhHHHhhHHHH
Q 006733 260 LSSILDT--------DSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNT--LNGPIGLNSFGLYAYDTLWL 329 (633)
Q Consensus 260 ~~~~~~~--------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~--~~~~~~~~~~~~~~yDav~~ 329 (633)
....... .....+...++.+|++.+....++.+.+++|.++|+++..... ..+...++.+++++|||+++
T Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 318 (396)
T cd06373 239 FGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAVLL 318 (396)
T ss_pred chhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHH
Confidence 4221100 0001122234566888888888888889999999987632110 11112356788999999999
Q ss_pred HHHHHHHhhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEe-
Q 006733 330 LAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINV- 408 (633)
Q Consensus 330 ~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~- 408 (633)
+++||+++.++.+. +.++..|.++|++++|+|++|++.||++|+|. ..|.|+++
T Consensus 319 ~a~Al~~~~~~~~~------------------------~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~~-~~~~v~~~~ 373 (396)
T cd06373 319 YALALNETLAEGGD------------------------PRDGTNITRRMWNRTFEGITGNVSIDENGDRE-SDFSLWDMT 373 (396)
T ss_pred HHHHHHHHHhccCC------------------------CCChHHHHHHhcCCceecccCceEeecCCccc-ceeeeeecc
Confidence 99999998654321 12589999999999999999999999999974 67888765
Q ss_pred --ecCCeeEEeeecCCC
Q 006733 409 --IGTGSRRIGYWSNHS 423 (633)
Q Consensus 409 --~~~~~~~vg~w~~~~ 423 (633)
+++.++.+|+|+...
T Consensus 374 ~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 374 DTETGTFEVVANYNGSN 390 (396)
T ss_pred CCCCceEEEEeeccccc
Confidence 567899999998754
No 27
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=1.3e-42 Score=361.74 Aligned_cols=362 Identities=17% Similarity=0.272 Sum_probs=286.8
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
+||++.|.+ ...+.....|+++|+++||+++++++|++|++++.|++|++..++..+++++.+ +|.+||||.+|..
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 589999975 334566679999999999999999989999999999999999999999999875 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC---CCc--chhHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD---DHG--RNGIA 183 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~---~~g--~~~~~ 183 (633)
+.++++++..+++|+|+++++++.+++ ..||+++|+.|++..++.++++++++++|++|++||.++ .++ ....+
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 578999999999999999999999999999999998542 233 22344
Q ss_pred HHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccc
Q 006733 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (633)
Q Consensus 184 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (633)
.+.+.++ .++++.....+. .+..++...+.+.+..++|+||++++..++..++++|+++||+.++|+||.+......
T Consensus 161 ~~~~~~~-~~~~i~~~~~~~--~~~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~~~ 237 (391)
T cd06372 161 AVENQLK-FHFNITATVRYS--SSNPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLLQQFEDN 237 (391)
T ss_pred HHHHHHh-hCEEEEEEEecC--CCChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEehhhcCc
Confidence 4555553 678888877776 3445666656555568899999999999999999999999998888999996421111
Q ss_pred cCC---CccccccccccccceEEEeeecCC-ChHHHHHHHHHHHhhccCCC----CCCCCCCchhHHHhhHHHHHHHHHH
Q 006733 264 LDT---DSQLHSEKMDDIQGVLTLRMYTQS-SEEKRKFVTRWRHLTRRNTL----NGPIGLNSFGLYAYDTLWLLAHAIG 335 (633)
Q Consensus 264 ~~~---~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~----~~~~~~~~~~~~~yDav~~~~~Al~ 335 (633)
... .........+...|++++.+..+. .+..++|.++|++++...+- ......+.+++++||||+++++|++
T Consensus 238 ~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~Al~ 317 (391)
T cd06372 238 FWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYALAVK 317 (391)
T ss_pred cccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHHHHH
Confidence 000 000001122466788888776543 35567888888877753211 1112446789999999999999999
Q ss_pred HhhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHH---hccccccccceEEccCCCCCCCcEEEEEeec--
Q 006733 336 AFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNIL---QVNMTGVTGPIKFTSDRDLINPAYEVINVIG-- 410 (633)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~---~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~-- 410 (633)
++++++. .|.+|..+.++|+ +++|+|++|+|.||++|+| ...|.|+++++
T Consensus 318 ~~~~~g~------------------------~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r-~~~y~i~~~~~~~ 372 (391)
T cd06372 318 EMLKAGK------------------------DFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR-QMDYSVYALQKSG 372 (391)
T ss_pred HHHhcCC------------------------CCCCHHHHHHHHhhccCceEeccceeEEECCCCCc-ceeEEEEeccccC
Confidence 9876532 1446899999999 6899999999999999998 58999999985
Q ss_pred --CCeeEEeeecCCC
Q 006733 411 --TGSRRIGYWSNHS 423 (633)
Q Consensus 411 --~~~~~vg~w~~~~ 423 (633)
..+++||+|+..+
T Consensus 373 ~~~~~~~vg~~~~~~ 387 (391)
T cd06372 373 NSSLFLPFLHYDSHQ 387 (391)
T ss_pred CccceeeEEEecchh
Confidence 2489999998754
No 28
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=100.00 E-value=5.4e-42 Score=357.73 Aligned_cols=364 Identities=24% Similarity=0.395 Sum_probs=309.9
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||+++|++ +..|.....|+++|+|+||++|++++|++|++++.|+++++..+++.+.+++.+ +|.+||||.+|..
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 699999998 456788899999999999999976689999999999999999999999999875 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC-CcchhHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD-HGRNGIAALGD 187 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~-~g~~~~~~~~~ 187 (633)
+.++++++..+++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++++++++++. ||....+.+++
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 999999999999999999999888876 5789999999999999999999999999999999998877 89999999999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCC-
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT- 266 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~- 266 (633)
.+++.|++|.....++...+..++..+++++++.+ |+|++++...++..++++++++|+...+++||+.+.+......
T Consensus 161 ~~~~~G~~v~~~~~~~~~~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~~~ 239 (389)
T cd06352 161 ALREFNLTVSHVVFMEDNSGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLFNYSLPYQ 239 (389)
T ss_pred HHHhcCCeEEEEEEecCCccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehhccccccC
Confidence 99999999998888873212678999999999877 9999999999999999999999998778999998765543211
Q ss_pred -------CccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCC---CCCCCCchhHHHhhHHHHHHHHHHH
Q 006733 267 -------DSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLN---GPIGLNSFGLYAYDTLWLLAHAIGA 336 (633)
Q Consensus 267 -------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~---~~~~~~~~~~~~yDav~~~~~Al~~ 336 (633)
.....+...+...|++++.+..+..+.+++|.++|+++++..+.. ....++.++.++|||++++++|+++
T Consensus 240 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 319 (389)
T cd06352 240 NSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHALNE 319 (389)
T ss_pred CCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHHHH
Confidence 001112334567889888887777888999999999988632110 1234577899999999999999999
Q ss_pred hhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeec--CCee
Q 006733 337 FFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIG--TGSR 414 (633)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~--~~~~ 414 (633)
+..++.. |.++..+.++|++++|.|++|++.||++|+|. ..|.|+++++ +.+.
T Consensus 320 ~~~~~~~------------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~-~~~~v~~~~~~~~~~~ 374 (389)
T cd06352 320 TLAEGGD------------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDRE-GDYSLLDLDSTGGQLE 374 (389)
T ss_pred HHHhCCC------------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCee-eeEEEEEecCCCceEE
Confidence 8765331 23588899999999999999999999999985 7899999985 5778
Q ss_pred EEeeecCCC
Q 006733 415 RIGYWSNHS 423 (633)
Q Consensus 415 ~vg~w~~~~ 423 (633)
.++.++...
T Consensus 375 ~~~~~~~~~ 383 (389)
T cd06352 375 VVYLYDTSS 383 (389)
T ss_pred EEEeccccc
Confidence 898877654
No 29
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=100.00 E-value=1.3e-41 Score=351.35 Aligned_cols=353 Identities=19% Similarity=0.231 Sum_probs=281.2
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhH
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~ 110 (633)
|||++.|++ +..|.....|+++|+|+||+++++++|+++++++.|++|++..++.++..+ .++|.+||||.+|..+
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 689999997 455677899999999999999999889999999999999987766443322 4589999999999999
Q ss_pred HHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHH
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~ 189 (633)
.+++++++.++||+|+++++++.+++ ..||+|+|+.|++ +.++++++++++|++|++|+++++++....+.+++.+
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 6789999999887 4668889999999999999999999999999999999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcCC-CeEEEEeeCh-----HHHHHHHHHHHHcCCCCCCeEEEEeCccccc
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM-SRILILHTYD-----IWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~-~~vIvl~~~~-----~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (633)
++.|++|+....++ .+..|++.+|+++++.+ +|+||++++. .++..++++|+++||+..+|+||++++....
T Consensus 157 ~~~gi~v~~~~~~~--~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~~~ 234 (382)
T cd06371 157 RAHGLPVGLVTSMG--PDEKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPYDTLLYS 234 (382)
T ss_pred HHCCCcEEEEEEec--CCHHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEecccccc
Confidence 99999999877776 46689999999999987 6999998775 7888999999999999999999998853211
Q ss_pred c-----CCCcc-ccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHh
Q 006733 264 L-----DTDSQ-LHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAF 337 (633)
Q Consensus 264 ~-----~~~~~-~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~ 337 (633)
. ..... -+++...+.++++.++...+..+..+.|.+.|+... .....++...+.+..++|||++++++|++++
T Consensus 235 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~-~~~~~~~~~~~~~~~~~YDav~~~a~Al~~a 313 (382)
T cd06371 235 LPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGE-IPSDLEPEQVSPLFGTIYNSIYLLAHAVENA 313 (382)
T ss_pred CCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCC-CCCCCCccccchhHHHHHHHHHHHHHHHHHH
Confidence 1 00000 012233567788777665544444455555432110 0001112234456678999999999999999
Q ss_pred hhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEe
Q 006733 338 FDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIG 417 (633)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg 417 (633)
++.+.. .++..++++|++++|+|++|+|.||++|++ ...|.|+++++.+++-+-
T Consensus 314 ~~~g~~-------------------------~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~~~~~ 367 (382)
T cd06371 314 RAAGGG-------------------------VSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGDQLYP 367 (382)
T ss_pred HHhCCC-------------------------ccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCCeeee
Confidence 765432 148999999999999999999999999997 589999999987665554
Q ss_pred ee
Q 006733 418 YW 419 (633)
Q Consensus 418 ~w 419 (633)
++
T Consensus 368 ~~ 369 (382)
T cd06371 368 TY 369 (382)
T ss_pred eE
Confidence 44
No 30
>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=1.5e-41 Score=345.56 Aligned_cols=321 Identities=21% Similarity=0.312 Sum_probs=271.5
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN-YSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~-~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||++|++ ..|.....|+++|+|+||+++|+++|++|++++.|++ +++..+..++|+++.++|.+||||.+|..+.+
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 4578899999999999999999989999999999998 89999999999999889999999999999999
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhc
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK 192 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~ 192 (633)
++++++.++||+|+++++++.++ .++++||+.|++..++.++++++++++|+++++++++++++ ..+++.+++.
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 99999999999999888777766 45789999999999999999999999999999999887754 3455555555
Q ss_pred Cc---EEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCcc
Q 006733 193 RC---RLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (633)
Q Consensus 193 g~---~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (633)
+. .+.. ..++ ... |++.+++++++.++|+|++.+...++..++++|+++|++.+.|+|++++......+..
T Consensus 153 ~~~g~~v~~-~~~~--~~~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l~-- 226 (327)
T cd06382 153 GISGITITV-RQLD--DDL-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHTLDLE-- 226 (327)
T ss_pred ccCCCeEEE-EEcc--CCc-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccccchh--
Confidence 54 4444 3455 234 9999999999999999999999999999999999999999999999987655443331
Q ss_pred ccccccccccceEEEeeecCCChHHHHHHHHHHHhhcc-CCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCccccc
Q 006733 270 LHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRR-NTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSE 348 (633)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~ 348 (633)
.......++.+++...++.+..++|.++|+++++. .++.+...++.+++.+|||++++
T Consensus 227 ---~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~------------------ 285 (327)
T cd06382 227 ---DYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF------------------ 285 (327)
T ss_pred ---hhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe------------------
Confidence 12223346777888888889999999999999964 22223344677888888887655
Q ss_pred CcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEeeecCCCCC
Q 006733 349 DSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (633)
Q Consensus 349 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~~l 425 (633)
|+||+|+||++|+|.+..++|+|++++++++||+|++..|+
T Consensus 286 ------------------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 ------------------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred ------------------------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 78999999999999999999999999999999999987764
No 31
>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=5.8e-41 Score=349.68 Aligned_cols=362 Identities=17% Similarity=0.195 Sum_probs=283.6
Q ss_pred EEEEEeecCCc----cchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHH----HHHHHHH-HHhcCceEEEcC
Q 006733 34 NIGAVFALNST----IGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFL----GMVEALT-LLENETVAIIGP 104 (633)
Q Consensus 34 ~IG~l~p~~~~----~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~----a~~~~~~-li~~~v~aviG~ 104 (633)
+||+++|.... .-.....|+++|+|+||++|++++|++|+++++|+++++.. +...+.. .+.+++.+||||
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 47888887521 12356789999999999999988899999999998665333 2222221 134578999999
Q ss_pred CchhhHHHHHHhhccCCccEEeeccCCCCCcc--CCCCceEEecCChHHHHHHHHHHHHHcCCc-EEEEEEecCCCcc--
Q 006733 105 QFSVIAHLVSHIANEFQVPLLSFAATDPSLSS--LQYPFFVRTTQSDLYQMAAIADIVDYFGWR-NVIALYVDDDHGR-- 179 (633)
Q Consensus 105 ~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~--~~~~~~~r~~p~~~~~~~al~~ll~~~~w~-~v~ii~~d~~~g~-- 179 (633)
.||..+.++++++..++||+|+++++++.+++ ..||++||+.|++..++.++..++++++|+ ++++||.++..+.
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 99999999999999999999999999988876 378999999999999999988889999999 6889986532221
Q ss_pred --hhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 006733 180 --NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVT 257 (633)
Q Consensus 180 --~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 257 (633)
...+.+.+.+++.|++|+....+. .+..|++.++++++. ++|+|+++++..++..++++|+++|++.+.|+||+.
T Consensus 161 ~~~~~~~~~~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~~~y~~i~~ 237 (399)
T cd06384 161 HYFISEGVFLALQEENANVSAHPYHI--EKNSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTPGDYVFFYL 237 (399)
T ss_pred ceEehHHHHHHHHhcCceEEEEEEec--cchhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCCCcEEEEEe
Confidence 135667778888999998765544 356899999999997 899999999999999999999999999999999987
Q ss_pred CccccccC---CCc-------cccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCC--CCCCCchhHHHhh
Q 006733 258 DWLSSILD---TDS-------QLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNG--PIGLNSFGLYAYD 325 (633)
Q Consensus 258 ~~~~~~~~---~~~-------~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~~~~yD 325 (633)
+....... ... ...++..++.+++++++...|..+.+++|.++|++++....+.+ +...+.+++++||
T Consensus 238 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~YD 317 (399)
T cd06384 238 DVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCFYD 317 (399)
T ss_pred hhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhhHH
Confidence 75432111 000 00133445788899988888888889999999987643211111 1123567899999
Q ss_pred HHHHHHHHHHHhhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEE
Q 006733 326 TLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEV 405 (633)
Q Consensus 326 av~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I 405 (633)
|+++++.|+++++++++ .|.++..++++|++++|+|++|++.||++|+|. ..+.+
T Consensus 318 av~l~a~Al~~~~~~~~------------------------~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r~-~~~~~ 372 (399)
T cd06384 318 GVMLYAMALNETLAEGG------------------------SQKDGLNITRKMQDRRFWGVTGLVSIDKNNDRD-IDFDL 372 (399)
T ss_pred HHHHHHHHHHHHHhcCC------------------------CCCCcHhHHHHHhCceeecceeEEEECCCCCcc-cceEE
Confidence 99999999999865532 244699999999999999999999999999984 56677
Q ss_pred ---EEeecCCeeEEeeecCCC
Q 006733 406 ---INVIGTGSRRIGYWSNHS 423 (633)
Q Consensus 406 ---~~~~~~~~~~vg~w~~~~ 423 (633)
.++++++++.+|+|+..+
T Consensus 373 ~~~~~~~~g~~~~v~~~~~~~ 393 (399)
T cd06384 373 WAMTDHETGKYEVVAHYNGIT 393 (399)
T ss_pred EEeecCCCCeEEEEEEEcCCC
Confidence 366789999999998754
No 32
>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=6.5e-41 Score=353.84 Aligned_cols=398 Identities=22% Similarity=0.392 Sum_probs=335.4
Q ss_pred CCCCCeEEEEEEeecCC-------------ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHH
Q 006733 27 STIPPVLNIGAVFALNS-------------TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTL 93 (633)
Q Consensus 27 ~~~~~~i~IG~l~p~~~-------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~l 93 (633)
..-+++|.||.+||.|. ..|.+...|+..|+|+||+ ..+|||.|+.+.++|+|+.+..+++...++
T Consensus 26 ~~~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~F 104 (878)
T KOG1056|consen 26 ARIPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLSF 104 (878)
T ss_pred ccCCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHHH
Confidence 34578999999999971 2355678999999999999 889999999999999999999999999888
Q ss_pred Hhc-----------------CceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHH
Q 006733 94 LEN-----------------ETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAA 155 (633)
Q Consensus 94 i~~-----------------~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~a 155 (633)
+.+ .|.+|||+..|+.+.+++.++..++||+|+++++++.|++ .+|++|.|+.|+|..|++|
T Consensus 105 v~~~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~A 184 (878)
T KOG1056|consen 105 VRASLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQA 184 (878)
T ss_pred HHhcccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHH
Confidence 752 5889999999999999999999999999999999999999 7899999999999999999
Q ss_pred HHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhc-CCCeEEEEeeChHH
Q 006733 156 IADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS-MMSRILILHTYDIW 234 (633)
Q Consensus 156 l~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~~~~~ 234 (633)
|++++++|+|++|..++++++||+.+.+.|++..++.|+||...+.+.....+.+++..++++.+ .++++||+++..++
T Consensus 185 m~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~~~~~~~~~~l~kl~~~~~a~vvV~F~~~~~ 264 (878)
T KOG1056|consen 185 MVDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQLSIEQEFDCVLRKLLETPNARVVVVFCRGED 264 (878)
T ss_pred HHHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccccchhHHHHHHHHHhhcCCCeEEEEecCcch
Confidence 99999999999999999999999999999999999999999999877766778889999999887 79999999999999
Q ss_pred HHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHHHHHH------------
Q 006733 235 GLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWR------------ 302 (633)
Q Consensus 235 ~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~------------ 302 (633)
++.++++|++.++++ .++|+.+++|....+... ......+|.+++...++.-+.+++|.+.++
T Consensus 265 ~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~~----~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~e 339 (878)
T KOG1056|consen 265 ARRLLKAARRANLTG-EFLWIASDGWASQNSPTE----APEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFAE 339 (878)
T ss_pred HHHHHHHHHHhCCCc-ceEEEecchhhccCChhh----hhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccch
Confidence 999999999999875 699999999987554432 223477899999988877777777665543
Q ss_pred ---Hhhcc---------------CCCCC------CCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcccccccCC
Q 006733 303 ---HLTRR---------------NTLNG------PIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRG 358 (633)
Q Consensus 303 ---~~~~~---------------~~~~~------~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~ 358 (633)
..|.. |++.+ .........+++|||+.+|+||+.+.++.+. ..
T Consensus 340 ~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~-------------~~ 406 (878)
T KOG1056|consen 340 FWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCP-------------GT 406 (878)
T ss_pred hhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcC-------------Cc
Confidence 33321 11111 1112234678999999999999999887553 23
Q ss_pred CcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecC----CeeEEeeecCCCCCcccCCcccc
Q 006733 359 DMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGT----GSRRIGYWSNHSGLSVVPPEALY 434 (633)
Q Consensus 359 ~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~----~~~~vg~w~~~~~l~~~~~~~~~ 434 (633)
...|...... +|..|.++++++.|.+..|.+.||++||. ...|+|++++.. .+..+|+|+....|
T Consensus 407 ~~~C~~m~~~-dg~~L~~~l~~vnF~~~~~~v~Fd~~gD~-~~~y~I~~~~~~~~~~~y~~vg~w~~~~~l--------- 475 (878)
T KOG1056|consen 407 SGLCSAMKAI-DGSLLLKYLLNVNFTGPAGSVRFDENGDG-PGRYDILNYQLTNGSYTYKEVGYWSEGLSL--------- 475 (878)
T ss_pred cccCcCcccc-CHHHHHhhhheeEEecCCCceeecCCCCC-ccceeEEEeeccCCCccceeeeeecccccc---------
Confidence 4457777665 49999999999999999999999999995 689999999842 57999999886543
Q ss_pred CCCCCCCCCccccceeeeCCCCCCCCCcccc
Q 006733 435 KEPSNRSASSQHLYSAVWPGQTTQKPRGWVF 465 (633)
Q Consensus 435 ~~~~~~~~~~~~~~~i~w~g~~~~~p~~~~~ 465 (633)
+...+.|.++..+.|.|.|-
T Consensus 476 -----------~i~~~~w~~~~~~v~~S~CS 495 (878)
T KOG1056|consen 476 -----------NIEDLDWTTKPSGVPKSVCS 495 (878)
T ss_pred -----------cceeeeeccCCCCCcccccc
Confidence 33577899988888888873
No 33
>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=3.8e-41 Score=336.03 Aligned_cols=325 Identities=21% Similarity=0.317 Sum_probs=261.1
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChH-HHHHHHHHHHhcCceEEEcCCchhh-HH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRF-LGMVEALTLLENETVAIIGPQFSVI-AH 111 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~-~a~~~~~~li~~~v~aviG~~~s~~-~~ 111 (633)
+||++|+..+..|+....|+++|++++|++++++++.+|++++.|+..++. .+..++|++++++|.|||||.+|.. +.
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 589999999999999999999999999999998766799999999998775 7778899999889999999999965 57
Q ss_pred HHHHhhccCCccEEeeccCC-CCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHh
Q 006733 112 LVSHIANEFQVPLLSFAATD-PSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLA 190 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~-~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~ 190 (633)
+++++|...+||+|+++... +.+...++++ .++.|++..++.|+++++++|+|++|++||+++++ ...+++.++
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 3333233334 89999999999999999999999999999988875 455556555
Q ss_pred hcCc---EEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCC
Q 006733 191 EKRC---RLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (633)
Q Consensus 191 ~~g~---~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (633)
..++ .+.... . .+..+++.+|+++++.++++||+.|+.+.+..++++|+++||+.+.|+|++++......++
T Consensus 156 ~~~~~~~~i~~~~-~---~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L- 230 (333)
T cd06394 156 QFLISKETLSVRM-L---DDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPLLRL- 230 (333)
T ss_pred hhcccCCceeeEE-c---cCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCcccccH-
Confidence 4432 222111 1 2456899999999999999999999999999999999999999999999998876544344
Q ss_pred ccccccccccccceEEEeeecCCChHHHHHHHHHHHhhcc-CCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCccc
Q 006733 268 SQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRR-NTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (633)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~ 346 (633)
.++......+.+++..+++.+..++|.++|++++.+ +...+.......+++.||||+++
T Consensus 231 ----~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~---------------- 290 (333)
T cd06394 231 ----DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV---------------- 290 (333)
T ss_pred ----HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE----------------
Confidence 223333556888999999999999999999887632 11111111123455555554432
Q ss_pred ccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEeeecCCCCCc
Q 006733 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGLS 426 (633)
Q Consensus 347 ~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~~l~ 426 (633)
|+||+|.||++|.|.+..++|++++.++.++||+|++..||+
T Consensus 291 --------------------------------------glTg~i~f~~~g~R~~~~l~v~~l~~~g~~kig~W~~~~gl~ 332 (333)
T cd06394 291 --------------------------------------GLTGRIEFNSKGQRSNYTLKILQKTRSGFRQIGQWHSNETLS 332 (333)
T ss_pred --------------------------------------eeecceecCCCCcCcccEEEEEEecCCcceEEEEEeCCCCcC
Confidence 899999999999999999999999999999999999988864
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=3.2e-39 Score=332.35 Aligned_cols=340 Identities=30% Similarity=0.470 Sum_probs=281.1
Q ss_pred hHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHH-HHHHHHHHHhcCceEEEcCCchhhHHHHHHhhccCCccEEe
Q 006733 48 VAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFL-GMVEALTLLENETVAIIGPQFSVIAHLVSHIANEFQVPLLS 126 (633)
Q Consensus 48 ~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~-a~~~~~~li~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is 126 (633)
++..|+++|+++||++++++++++|++.+.|++++... .....|.+..++|.+||||.++..+.+++.++..++||+|+
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 36789999999999999988999999999999854444 44445566667999999999999999999999999999999
Q ss_pred eccCCCCCcc--CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcC-cEEEEEeecC
Q 006733 127 FAATDPSLSS--LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKR-CRLSHKVPLS 203 (633)
Q Consensus 127 ~~a~~~~ls~--~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g-~~v~~~~~~~ 203 (633)
++++++.+++ ..||+++|+.|++..++.++++++++++|++|++|++++++|....+.+++.+++.+ .++.......
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 9999999987 479999999999999999999999999999999999999999999999999999965 4554412222
Q ss_pred CCCChhhHHHHHHHhhc--CCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccce
Q 006733 204 PKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGV 281 (633)
Q Consensus 204 ~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~ 281 (633)
.+..+....++.+++ .++++||++++...+..++++|.++||...+|+||+++.+...... ..........|+
T Consensus 161 --~~~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~---~~~~~~~~~~~~ 235 (348)
T PF01094_consen 161 --SSDSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQ---NNEDFREAFQGV 235 (348)
T ss_dssp --TTTSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTS---THCHHHCCHTTE
T ss_pred --ccccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeeccccccccc---ccccccccccce
Confidence 233455555555555 8999999999999999999999999999999999999987654321 124566888999
Q ss_pred EEEeeecCCChHHHHHHHHHHHhhcc-CCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcccccccCCCc
Q 006733 282 LTLRMYTQSSEEKRKFVTRWRHLTRR-NTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDM 360 (633)
Q Consensus 282 ~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~ 360 (633)
++++...+..+.+++|.++|++.... ........+..++.++|||++++++|+++++++++...
T Consensus 236 ~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~--------------- 300 (348)
T PF01094_consen 236 LGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVT--------------- 300 (348)
T ss_dssp EEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTT---------------
T ss_pred eeeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCC---------------
Confidence 99999999999999999999976431 12223456788999999999999999999987654321
Q ss_pred ccccccccCchHHHHHHHHhccccccccceEEcc-CCCCCCCcEEEEEee
Q 006733 361 RFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTS-DRDLINPAYEVINVI 409 (633)
Q Consensus 361 ~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~-~g~r~~~~~~I~~~~ 409 (633)
.....|.+|..+.++|++++|+|++|++.||+ +|+|.+..|+|+|+|
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 01145778999999999999999999999999 999989999999875
No 35
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=1.5e-38 Score=326.96 Aligned_cols=336 Identities=15% Similarity=0.155 Sum_probs=286.6
Q ss_pred CCCeEEEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCC
Q 006733 29 IPPVLNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQ 105 (633)
Q Consensus 29 ~~~~i~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~ 105 (633)
.+++|+||++.|++ +..|.....++++|+++||+.||+ .|++|++++.|++++|..+++++.+|++++|.+|||+.
T Consensus 22 ~~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi-~G~~ielv~~D~~~~p~~a~~~~~~Li~~~V~~iiG~~ 100 (369)
T PRK15404 22 LADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGI-KGDKLEGVEYDDACDPKQAVAVANKVVNDGIKYVIGHL 100 (369)
T ss_pred cCCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCC-CCeEEEEEeecCCCCHHHHHHHHHHHHhCCceEEEcCC
Confidence 35689999999998 456888999999999999999998 58999999999999999999999999998999999999
Q ss_pred chhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHH-HHcCCcEEEEEEecCCCcchhHHH
Q 006733 106 FSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAA 184 (633)
Q Consensus 106 ~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~d~~~g~~~~~~ 184 (633)
+|..+.++++++...++|+|++.++++.+++..++|+||+.+.+..++.++++++ ++++|+++++|+.|+.||+...+.
T Consensus 101 ~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~~~~ 180 (369)
T PRK15404 101 CSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEGLARS 180 (369)
T ss_pred CchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHHHHHH
Confidence 9999999999999999999999888888887678999999999999999999975 567999999999999999999999
Q ss_pred HHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCcccccc
Q 006733 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSIL 264 (633)
Q Consensus 185 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 264 (633)
+++.+++.|.+++....++ .+..|+..++.++++.++|+|++.+...+...++++++++|+.. .|+++++....
T Consensus 181 ~~~~~~~~G~~v~~~~~~~--~g~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~---~~i~~~~~~~~- 254 (369)
T PRK15404 181 VKDGLKKAGANVVFFEGIT--AGDKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT---QFMGPEGVGNK- 254 (369)
T ss_pred HHHHHHHcCCEEEEEEeeC--CCCCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC---eEEecCcCCCH-
Confidence 9999999999999888887 46789999999999999999998888888999999999999864 37766543221
Q ss_pred CCCccccccccccccceEEEeeec-CCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCC
Q 006733 265 DTDSQLHSEKMDDIQGVLTLRMYT-QSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGN 343 (633)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~ 343 (633)
... ....+..+|+++..++. ...+..++|.+.|+++++ ..+..+...+||++++++.|++++...
T Consensus 255 ~~~----~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~Y~~~~~l~~Al~~aG~~--- 320 (369)
T PRK15404 255 SLS----NIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQ-------DPSGPFVWTTYAAVQSLAAGINRAGSD--- 320 (369)
T ss_pred HHH----HhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcC-------CCCccchHHHHHHHHHHHHHHHhhCCC---
Confidence 110 11225667877654432 245778999999998764 233456788999999999999986321
Q ss_pred cccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecC
Q 006733 344 ISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGT 411 (633)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~ 411 (633)
++..|.++|++.+|+|+.|++.|+++|++....|.|.+++++
T Consensus 321 --------------------------~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~ 362 (369)
T PRK15404 321 --------------------------DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHAD 362 (369)
T ss_pred --------------------------CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcC
Confidence 378999999999999999999999999887788899888765
No 36
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=1.2e-37 Score=318.53 Aligned_cols=328 Identities=21% Similarity=0.229 Sum_probs=283.7
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhH
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~ 110 (633)
+||++.|++ +..|.....|+++|++++|+++++ +|++|++++.|+++++..+.+.+.++++++|.+|+||.++..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~i~~~~~D~~~~~~~~~~~~~~li~~~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGG-KGVKLELVVEDDQADPKQAVAVAQKLVDDGVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCChHHHHHHHHHHHhCCceEEECCCccHhH
Confidence 599999998 466788999999999999999887 6999999999999999999999999999999999999999999
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHH-HHcCCcEEEEEEecCCCcchhHHHHHHHH
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~d~~~g~~~~~~~~~~~ 189 (633)
.+++++++..+||+|++.+..+.+.+..+|++||+.|++..++.++++++ ++++|++|++++.+++||....+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999999877666766678999999999999999999986 57889999999999999999999999999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCcc
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (633)
++.|++|+....++ .+..+++..++++++.++++|++.+...++..+++++++.|+.. .|++.+.+... ..
T Consensus 160 ~~~g~~v~~~~~~~--~~~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~-~~--- 230 (334)
T cd06342 160 KAAGGKVVAREGTT--DGATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLKA---PFMGGDGLCDP-EF--- 230 (334)
T ss_pred HHcCCEEEEEecCC--CCCccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCCC---cEEecCccCCH-HH---
Confidence 99999999988887 45689999999999999999999999999999999999999853 47766543211 11
Q ss_pred ccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccc
Q 006733 270 LHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFS 347 (633)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~ 347 (633)
.....+..+|++....+.+ ..+..++|.++|+++++ ..++.++..+||+++++++|++++. .
T Consensus 231 -~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~al~~~~----~---- 294 (334)
T cd06342 231 -IKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFG-------DPPGAYAPYAYDAANVLAEAIKKAG----S---- 294 (334)
T ss_pred -HHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhC-------CCCchhHHHHHHHHHHHHHHHHHhC----C----
Confidence 0112245678877766555 46788999999999886 2346788999999999999999861 1
Q ss_pred cCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEe
Q 006733 348 EDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINV 408 (633)
Q Consensus 348 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~ 408 (633)
.++..+.++|++.+|+|++|++.|+++|++.+..|+|+|+
T Consensus 295 ---------------------~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 ---------------------TDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred ---------------------CCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 1488999999999999999999999999999999999875
No 37
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=1.1e-37 Score=317.04 Aligned_cols=321 Identities=23% Similarity=0.344 Sum_probs=266.4
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecC-CCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDT-NYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~-~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||+++|.+. .....|+++|+|+||+++|++++.++++.+.|+ .+++..++.++|+|+.++|.+||||.+|..+.+
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 678999999999999999998777999999997 589999999999999989999999999999999
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhc
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK 192 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~ 192 (633)
+++++..++||+|+++++++.++ . ++.+++.|+...++.++++++++++|+++++|++++++ ....+.+.+.+++.
T Consensus 78 v~~i~~~~~ip~is~~~~~~~~~-~--~~~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~-~~~l~~~~~~~~~~ 153 (324)
T cd06368 78 VQSICDALEIPHITTSWSPNPKP-R--QFTINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEG-LLRLQELLDALSPK 153 (324)
T ss_pred HHHHHhccCCCcEEecCCcCCCC-C--cceEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHh-HHHHHHHHHhhccC
Confidence 99999999999999988888775 2 34455567777899999999999999999999977654 44556666778788
Q ss_pred CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccc
Q 006733 193 RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHS 272 (633)
Q Consensus 193 g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~ 272 (633)
|++++.....+ ...+++.++.+++..++|+||+.+...++..++++++++|+..+.|+||+++......+. .
T Consensus 154 g~~v~~~~~~~---~~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~-----~ 225 (324)
T cd06368 154 GIQVTVRRLDD---DTDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL-----E 225 (324)
T ss_pred CceEEEEEecC---CchHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch-----h
Confidence 99988765443 223899999999999999999999999999999999999999889999998754432221 1
Q ss_pred cccccccceEEEeeecCCChHHHHHHHHHHHhhccC-CCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcc
Q 006733 273 EKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRN-TLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSK 351 (633)
Q Consensus 273 ~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~ 351 (633)
.......++.++....++.+..++|.++|+++++.. +......++.+++.+||+++++
T Consensus 226 ~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~--------------------- 284 (324)
T cd06368 226 LFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF--------------------- 284 (324)
T ss_pred hhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe---------------------
Confidence 122233456677777778889999999999998631 1112235678899999988755
Q ss_pred cccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEeeecCCCCC
Q 006733 352 LSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (633)
Q Consensus 352 ~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~~l 425 (633)
+|+++||++|+|.+..++|+++..+++.++|.|++..|+
T Consensus 285 -----------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 -----------------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred -----------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 788999999999999999999999999999999987653
No 38
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=100.00 E-value=4.2e-37 Score=312.78 Aligned_cols=336 Identities=15% Similarity=0.141 Sum_probs=255.9
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
+||++|+.+.. +....-++.++++++|+++|+ +|..++++.+|+.+|+.+++.++|+|++++|.|||||.++..+.++
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 HIGAIFSESAL-EDDEVFAVAVIDLNINEQILQ-TEKITLSISFIDLNNHFDAVQEACDLMNQGILALVTSTGCASAIAL 78 (363)
T ss_pred CeeeeccCCcc-hHHHHHHHHHHHhhccccccC-CccceeeeEeecCCChHHHHHHHHHHHhcCcEEEEecCChhHHHHH
Confidence 58999998743 234455666667788888876 5777889999999999999999999999999999999999999999
Q ss_pred HHhhccCCccEEeeccCCC--------CCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHH
Q 006733 114 SHIANEFQVPLLSFAATDP--------SLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAA 184 (633)
Q Consensus 114 a~~~~~~~iP~Is~~a~~~--------~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~ 184 (633)
+++|...+||+|++.+... .+.+ ...+|.|++.|++ .+..++++++++++|++|+++|++++ |....+.
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 9999999999999654221 0111 1234666666774 68899999999999999999998765 5566677
Q ss_pred HHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhh-------cCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 006733 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVS-------SMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVT 257 (633)
Q Consensus 185 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~-------~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 257 (633)
+.+.+++.|+.+.... .... ....+...++.++ ..+.++||+.|++..+..++++|+++||+..+|+||++
T Consensus 157 ~~~~~~~~g~~v~~~~-~~~~-~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi~~ 234 (363)
T cd06381 157 FLDQLSRQGIDVLLQK-VDLN-ISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKDSHWFLI 234 (363)
T ss_pred HHHHHHhcCceEEEEe-cccc-cchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEEEe
Confidence 8888888898666432 3211 1123344444332 34556889999999999999999999999999999988
Q ss_pred Cccccc-cCCCccccccccccccceEEEeeecCCChHHH----HHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHH
Q 006733 258 DWLSSI-LDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKR----KFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAH 332 (633)
Q Consensus 258 ~~~~~~-~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~----~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~ 332 (633)
+.+... .+. +.......|+++++..+|..+..+ .|.+.|+..+...++ ....+...++++||||+++.
T Consensus 235 ~~l~~~~~~l-----~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~al~yDaV~~~~- 307 (363)
T cd06381 235 NEEISDTEID-----ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDG-YLQMLEISNLYIYDSVLLLL- 307 (363)
T ss_pred ccccccchhh-----HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCC-CCCChhHHHHHHHHHHHHHH-
Confidence 766542 222 455678899999999988766666 455555443322111 22245677999999999981
Q ss_pred HHHHhhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCC
Q 006733 333 AIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTG 412 (633)
Q Consensus 333 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~ 412 (633)
++|++++|+|+||+|.||++|.|.+..++|+++..++
T Consensus 308 -------------------------------------------~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~ 344 (363)
T cd06381 308 -------------------------------------------ETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSE 344 (363)
T ss_pred -------------------------------------------HHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCC
Confidence 3566778999999999999999999999999999555
Q ss_pred -----eeEEeeecCCCCC
Q 006733 413 -----SRRIGYWSNHSGL 425 (633)
Q Consensus 413 -----~~~vg~w~~~~~l 425 (633)
...+|+|++.+|+
T Consensus 345 ~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 345 TLGKDGRWLATWNPSKGL 362 (363)
T ss_pred ccccceEEeeeccCCCCC
Confidence 7899999988765
No 39
>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=8.8e-37 Score=312.80 Aligned_cols=320 Identities=19% Similarity=0.212 Sum_probs=272.2
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||+++|++ +..|.....|+++|++++|++||+ +|++++++++|+++++..+++.+++|+.+ +|.+||||.++..
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 699999998 567889999999999999999988 69999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc----CCCCceEEecCChHHHHHHHHHHHHH-----cCCcEEEEEEecCCCcch
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSS----LQYPFFVRTTQSDLYQMAAIADIVDY-----FGWRNVIALYVDDDHGRN 180 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~----~~~~~~~r~~p~~~~~~~al~~ll~~-----~~w~~v~ii~~d~~~g~~ 180 (633)
+.++++++..+++|+|+++++++.++. ..+|++||+.|++..+..++++++.+ ++|++|++++.++.||..
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~ 159 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKG 159 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhH
Confidence 999999999999999998888887763 46899999999999999999998876 899999999999999999
Q ss_pred hHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 006733 181 GIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWL 260 (633)
Q Consensus 181 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 260 (633)
..+.+++.+++.|++|+....++ .+..+++.++.+|++.++|+|++.+...+...++++++++|+..+ ++..+.+
T Consensus 160 ~~~~~~~~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~ 234 (344)
T cd06345 160 IDAGIKALLPEAGLEVVSVERFS--PDTTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIP---TIGISVE 234 (344)
T ss_pred HHHHHHHHHHHcCCeEEEEEecC--CCCCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCc---eEEecCC
Confidence 99999999999999999887777 456799999999999999999999999999999999999998543 3443322
Q ss_pred ccccCCCccccccccccccceEEEeeecC----CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHH
Q 006733 261 SSILDTDSQLHSEKMDDIQGVLTLRMYTQ----SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGA 336 (633)
Q Consensus 261 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~ 336 (633)
....... .......+|+++...+.| .++..++|.++|+++|+ ..++.++..+||+++++++|+++
T Consensus 235 ~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g-------~~p~~~~~~~yda~~~l~~A~~~ 303 (344)
T cd06345 235 GNSPAFW----KATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKFG-------GPPNYMGASTYDSIYILAEAIER 303 (344)
T ss_pred cCCHHHH----HhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHhC-------CCCcccchHHHHHHHHHHHHHHH
Confidence 1111110 112234556655544433 46778999999999986 34677889999999999999998
Q ss_pred hhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCC
Q 006733 337 FFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLI 399 (633)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~ 399 (633)
+.. .+++.+.++|++.+|+|++|++.||++|++.
T Consensus 304 ag~-----------------------------~~~~~i~~al~~~~~~g~~G~i~f~~~g~~~ 337 (344)
T cd06345 304 AGS-----------------------------TDGDALVEALEKTDFVGTAGRIQFYGDDSAF 337 (344)
T ss_pred hcC-----------------------------CCHHHHHHHHHhCCCcCCceeEEECCCCCcC
Confidence 632 1478899999999999999999999999975
No 40
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=7.6e-37 Score=313.80 Aligned_cols=328 Identities=15% Similarity=0.151 Sum_probs=276.3
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCC---CCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCc
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAIL---GGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQF 106 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il---~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~ 106 (633)
|||+++|++ +..|.....|+++|+++||++||+. .|++|+++++|+++++..+++++++|+++ +|.+|||+.+
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 5568888999999999999988763 47999999999999999999999999986 9999999999
Q ss_pred hhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcC--CcEEEEEEecCCCcchhHHH
Q 006733 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFG--WRNVIALYVDDDHGRNGIAA 184 (633)
Q Consensus 107 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~--w~~v~ii~~d~~~g~~~~~~ 184 (633)
+..+.++++++..++||+|+++++++.+....+|++||+.|++..++.++++++.+++ |+++++++.+++||....+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999998888777666789999999999999999999998887 99999999999999999999
Q ss_pred HHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCcccccc
Q 006733 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSIL 264 (633)
Q Consensus 185 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 264 (633)
+++.+++.|++|+....++ .+.+|++.+++++++.++|+|++.+...+...+++++++.|++.+ ..+ ++.+....
T Consensus 161 ~~~~~~~~g~~v~~~~~~~--~~~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~~-~~~~~~~~- 235 (345)
T cd06338 161 AREKAEAAGLEVVYDETYP--PGTADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-ALY-MTVGPAFP- 235 (345)
T ss_pred HHHHHHHcCCEEEEEeccC--CCccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EEE-EecCCCcH-
Confidence 9999999999999877776 456799999999999999999999999999999999999998754 222 22221110
Q ss_pred CCCccccccccccccceEEEeeecCC-------ChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHh
Q 006733 265 DTDSQLHSEKMDDIQGVLTLRMYTQS-------SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAF 337 (633)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~ 337 (633)
... .......+|+++...+.+. .+..++|.++|+++|+ ..++.++..+||+++++++|++++
T Consensus 236 ~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~p~~~~~~~y~a~~~~~~a~~~a 304 (345)
T cd06338 236 AFV----KALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYG-------KAPDYHAAGAYAAGQVLQEAVERA 304 (345)
T ss_pred HHH----HHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhC-------CCCCcccHHHHHHHHHHHHHHHHh
Confidence 000 1122345788777666554 3678999999999986 235567889999999999999986
Q ss_pred hhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEE
Q 006733 338 FDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVIN 407 (633)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~ 407 (633)
... ++..+.++|++++|+|++|++.|+++|++.. .+.+++
T Consensus 305 g~~-----------------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~ 344 (345)
T cd06338 305 GSL-----------------------------DPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQ 344 (345)
T ss_pred CCC-----------------------------CHHHHHHHHHhCCCcccccCeeECCCCCcCC-Cceeee
Confidence 321 3788999999999999999999999998754 444543
No 41
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1e-36 Score=307.57 Aligned_cols=305 Identities=21% Similarity=0.269 Sum_probs=262.3
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||+++|++ +..|.....++++|+++||++||+ +|++|+++++|+++++..+++++.+|+.+ +|.+|+|+.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi-~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~ 79 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGV-LGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGV 79 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCC-CCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchh
Confidence 699999999 456788899999999999999998 69999999999999999999999999986 9999999999999
Q ss_pred HHHH-HHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHH
Q 006733 110 AHLV-SHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGD 187 (633)
Q Consensus 110 ~~~v-a~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (633)
+.++ ++++...++|+|++.++++.++. ..++++||+.|++..++.++++++.+++|+++++|+.+++||+...+.+++
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 89999999999999999888877 457899999999999999999999999999999999999999999999999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCC
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (633)
.+++.|++|+....++ .+.+|+..+++++++.++|+|++.+...++..++++++++|+..+ |++++........
T Consensus 160 ~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~- 233 (312)
T cd06346 160 AFEALGGTVTNVVAHE--EGKSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFDK---FLLTDGMKSDSFL- 233 (312)
T ss_pred HHHHcCCEEEEEEeeC--CCCCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCCc---eEeeccccChHHH-
Confidence 9999999999888887 567899999999999999999999999999999999999998543 6776543321101
Q ss_pred ccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccc
Q 006733 268 SQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFS 347 (633)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~ 347 (633)
........+|+++..+..+. +..++|.++|+++|+ ..++.++..+||+++++++|
T Consensus 234 ---~~~~~~~~~g~~~~~~~~~~-~~~~~f~~~~~~~~g-------~~p~~~~~~~Yd~~~~l~~A-------------- 288 (312)
T cd06346 234 ---PADGGYILAGSYGTSPGAGG-PGLEAFTSAYKAAYG-------ESPSAFADQSYDAAALLALA-------------- 288 (312)
T ss_pred ---HhhhHHHhCCcEEccCCCCc-hhHHHHHHHHHHHhC-------CCCCccchhhHHHHHHHHHH--------------
Confidence 11122456788776654443 778999999999997 34667889999999998765
Q ss_pred cCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEE
Q 006733 348 EDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVI 406 (633)
Q Consensus 348 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~ 406 (633)
|.|++|++.|+++|++.. .|+-|
T Consensus 289 -----------------------------------~~g~~g~~~f~~~g~~~~-~~~~~ 311 (312)
T cd06346 289 -----------------------------------YQGASGVVDFDENGDVAG-SYDEW 311 (312)
T ss_pred -----------------------------------hCCCccceeeCCCCCccc-ceeee
Confidence 578899999999998753 55543
No 42
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.5e-36 Score=308.49 Aligned_cols=334 Identities=18% Similarity=0.258 Sum_probs=273.6
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||++.|+| +..|.....++++|+++||++||+ .|++|+++++|+++++..+++++++|+.+ +|.+|+||.++..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi-~G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~ 79 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGV-NGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQ 79 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCc-CCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHH
Confidence 699999999 566889999999999999999998 58999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHH-HHHHHHHc-CCcEEEEEEecCC-CcchhHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAA-IADIVDYF-GWRNVIALYVDDD-HGRNGIAALG 186 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~a-l~~ll~~~-~w~~v~ii~~d~~-~g~~~~~~~~ 186 (633)
+.++.+++..++||+|+++++.+.+. ..++++||+.+++..+... +..+++++ +|+++++||.+++ ||....+.++
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 99999999999999999877766554 3468999998777655544 44567777 9999999997554 9999999999
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCC
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT 266 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 266 (633)
+.+++.|++++....++ .+..++..++.+++++++|+|++.+...++..+++++++.|+..+ +++.++.... ..
T Consensus 159 ~~~~~~g~~v~~~~~~~--~~~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~-~~ 232 (344)
T cd06348 159 KALRDQGLNLVTVQTFQ--TGDTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNGL---IVGGNGFNTP-NV 232 (344)
T ss_pred HHHHHcCCEEEEEEeeC--CCCCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCc---eeccccccCH-HH
Confidence 99999999999888887 467899999999999999999999999999999999999998653 5554433211 11
Q ss_pred CccccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCc
Q 006733 267 DSQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNI 344 (633)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~ 344 (633)
.....+..+|++....+.+ +.+..++|.++|+++++ ..++.++..+||+++++++|++++..++...
T Consensus 233 ----~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g-------~~p~~~~~~~yda~~~~~~A~~~a~~~~~~~ 301 (344)
T cd06348 233 ----FPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYG-------KAPPQFSAQAFDAVQVVAEALKRLNQKQKLA 301 (344)
T ss_pred ----HHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHC-------CCccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence 1223356678887766654 34678999999999886 3456778899999999999999986532210
Q ss_pred ccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEE
Q 006733 345 SFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEV 405 (633)
Q Consensus 345 ~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I 405 (633)
+. ..+| .+..+.++|++.+|+|++|++.|+++|++.+..|.|
T Consensus 302 ~~------------~~~~-------~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 302 EL------------PLPE-------LRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred cc------------hhhh-------HHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 00 0011 267899999999999999999999999988776654
No 43
>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=4.7e-36 Score=308.44 Aligned_cols=308 Identities=30% Similarity=0.469 Sum_probs=262.1
Q ss_pred EEEEEeecCCc-------------cchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc----
Q 006733 34 NIGAVFALNST-------------IGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN---- 96 (633)
Q Consensus 34 ~IG~l~p~~~~-------------~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~---- 96 (633)
.||++||.+.. .|.....++.+|+++||+++++++|++|++++.|+++++.++++.+++++.+
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 47999999842 2456678999999999999989899999999999999999999999999975
Q ss_pred ----------CceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCC
Q 006733 97 ----------ETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGW 165 (633)
Q Consensus 97 ----------~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w 165 (633)
+|.+||||.+|..+.++++++..+++|+|+++++++.+++ ..||++||+.|++..++.++++++++++|
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 8999999999999999999999999999999999998866 67899999999999999999999999999
Q ss_pred cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
+++++++.+++||....+.+++.+++.|++++....++......++..+++++++.++|+|++++...++..++++++++
T Consensus 161 ~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~~~ 240 (348)
T cd06350 161 TWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAYKL 240 (348)
T ss_pred eEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999988887433368999999999999999999999999999999999999
Q ss_pred CCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhh
Q 006733 246 RMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYD 325 (633)
Q Consensus 246 g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yD 325 (633)
|+ .. ..|++.+.+....... ....+..+|++++..+.+.....+.|.+.+++ ++.++||
T Consensus 241 g~-~~-~~~i~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~---------------~~~~~YD 299 (348)
T cd06350 241 GM-TG-KYWIISTDWDTSTCLL----LFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK---------------YAYNVYD 299 (348)
T ss_pred CC-CC-eEEEEEccccCccccc----cCCcceeeeEEEEEEEeecCCcCCChHHHHHH---------------HHHHHHh
Confidence 99 33 4455655544321111 22336678999988888765555566666664 5678899
Q ss_pred HHHHHHHHHHHhhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEE
Q 006733 326 TLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEV 405 (633)
Q Consensus 326 av~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I 405 (633)
|+++ .+.|+++|++. ..+.|
T Consensus 300 av~~-----------------------------------------------------------~v~f~~~gd~~-~~~~i 319 (348)
T cd06350 300 AVYA-----------------------------------------------------------EVKFDENGDRL-ASYDI 319 (348)
T ss_pred heeE-----------------------------------------------------------EEEecCCCCcc-cceeE
Confidence 8876 57899999975 77899
Q ss_pred EEeec----CCeeEEeeecCC
Q 006733 406 INVIG----TGSRRIGYWSNH 422 (633)
Q Consensus 406 ~~~~~----~~~~~vg~w~~~ 422 (633)
.+++. ..+++||.|++.
T Consensus 320 ~~~~~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 320 INWQIFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EEEEEcCCcEEEEEEEEEcCC
Confidence 88876 678999999863
No 44
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=2.6e-35 Score=299.14 Aligned_cols=303 Identities=17% Similarity=0.217 Sum_probs=237.0
Q ss_pred CCCChHHHHHHHHHHHhc-CceEEE-cCCchh--hHHHHHHhhccCCccEEeeccCCC-CCcc-CCCCceEEecCChHHH
Q 006733 79 TNYSRFLGMVEALTLLEN-ETVAII-GPQFSV--IAHLVSHIANEFQVPLLSFAATDP-SLSS-LQYPFFVRTTQSDLYQ 152 (633)
Q Consensus 79 ~~~~~~~a~~~~~~li~~-~v~avi-G~~~s~--~~~~va~~~~~~~iP~Is~~a~~~-~ls~-~~~~~~~r~~p~~~~~ 152 (633)
...||.+.+.++|+++.+ +|.|+| ||.++. .+..++.+++.++||+|++.+.++ .+++ ..+|+|+|+.|++..+
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 446999999999999977 599755 999887 445677777889999999976655 4555 6789999999999999
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCC-ChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 153 MAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKG-SRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 153 ~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~-~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
+.++++++++|+|++|++||++++.+..+.+.+++.++..++++.....+.... ...+....++.++..++++||++|+
T Consensus 123 ~~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~lk~~~arViVl~~s 202 (362)
T cd06378 123 AAVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDMSDDDGDARTQRQLKKLESQVILLYCS 202 (362)
T ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeeccCCCcchHHHHHHHHhcCCCEEEEECC
Confidence 999999999999999999999888777778888887776666654433332222 2234778889999999999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCC
Q 006733 232 DIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLN 311 (633)
Q Consensus 232 ~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 311 (633)
.+.+..++++|+++||++++|+||+++......+.. ..+...|++++.. ++|+.
T Consensus 203 ~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~~------~~~~~~G~i~v~~------------~~w~~-------- 256 (362)
T cd06378 203 KEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDLG------PSEFPVGLISVSY------------DGWRY-------- 256 (362)
T ss_pred HHHHHHHHHHHHHcCCcCCCeEEEecccccCCCccc------cccCCcceEeecc------------ccccc--------
Confidence 999999999999999999999999999766543211 1134466666553 12211
Q ss_pred CCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcccccccCCCccccc-cc-ccCchHHHHHHHHhccccccccc
Q 006733 312 GPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSS-VS-IFNGGKMLLDNILQVNMTGVTGP 389 (633)
Q Consensus 312 ~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~-~~-~~~~~~~l~~~l~~~~f~g~~G~ 389 (633)
.+.+..||||+++++|++.+++++..++ ....+|.. .. .|..|..|+++|++++|+|+ +
T Consensus 257 ------~~~a~~~DaV~vva~Al~~l~~~~~~~~-----------~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~ 317 (362)
T cd06378 257 ------SLRARVRDGVAIIATGASAMLRQHGFIP-----------EAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--D 317 (362)
T ss_pred ------cHHHHHHHHHHHHHHHHHHHHhccCCCC-----------CCCCCcCCCCCCCCCchHHHHHHhhcceECCC--c
Confidence 2356789999999999999876544332 23345643 23 48889999999999999996 9
Q ss_pred eEEccCCCCCCCcEEEEEeec-CCeeEEeeecCCCCCcc
Q 006733 390 IKFTSDRDLINPAYEVINVIG-TGSRRIGYWSNHSGLSV 427 (633)
Q Consensus 390 v~Fd~~g~r~~~~~~I~~~~~-~~~~~vg~w~~~~~l~~ 427 (633)
|+|+++|+|.++.|+|+++++ .++++||+|++ .+|.|
T Consensus 318 i~F~~~G~r~~~~ldIinl~~~~g~~kVG~W~~-~~L~~ 355 (362)
T cd06378 318 LSFTEDGYLVNPKLVVISLNKERVWEEVGKWEN-GSLRL 355 (362)
T ss_pred eeECCCCeEccceEEEEEecCCCCceEEEEEcC-CeEEE
Confidence 999999999999999999997 58999999984 33443
No 45
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.3e-35 Score=301.08 Aligned_cols=324 Identities=20% Similarity=0.285 Sum_probs=272.1
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCC--CCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCch
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAI--LGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFS 107 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~i--l~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s 107 (633)
|||+++|++ +..|.....|+++|+++||+.||+ ++|++|+++++|+++++..+++++++++++ +|.+|+|+.++
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 80 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQS 80 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEecccch
Confidence 699999998 467888999999999999999973 479999999999999999999999999988 99999999999
Q ss_pred hhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc------CCcEEEEEEecCCCcchh
Q 006733 108 VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF------GWRNVIALYVDDDHGRNG 181 (633)
Q Consensus 108 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~------~w~~v~ii~~d~~~g~~~ 181 (633)
..+.+++++++.+++|+|++.++++.+++..+||+||+.|++..++.++++++.++ +|+++++++.+++||...
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 99999999999999999998888887777678999999999999999999998765 469999999999999999
Q ss_pred HHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccc
Q 006733 182 IAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLS 261 (633)
Q Consensus 182 ~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 261 (633)
.+.+++.+++.|++|+....++ .+..+++.+++++++.++|+|++.+...++..+++++++.|+..+ .++....+..
T Consensus 161 ~~~~~~~~~~~G~~vv~~~~~~--~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~ 237 (347)
T cd06340 161 AEAIKKFAKERGFEIVEDISYP--ANARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEPK-AVYSVGGGAE 237 (347)
T ss_pred HHHHHHHHHHcCCEEEEeeccC--CCCcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCCc-EEEecCCCcC
Confidence 9999999999999999888887 457799999999999999999999999999999999999998643 2222112111
Q ss_pred cccCCCccccccccccccceEEEeeecCC-ChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhc
Q 006733 262 SILDTDSQLHSEKMDDIQGVLTLRMYTQS-SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQ 340 (633)
Q Consensus 262 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~ 340 (633)
.. ... ....+..+|++...++.+. .+..++|.++|+++|+ ..++.+...+||+++++++|++++.+.
T Consensus 238 ~~-~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~-------~~~~~~~~~~Y~a~~~l~~A~~~ag~~ 305 (347)
T cd06340 238 DP-SFV----KALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFG-------VDLSGNSARAYTAVLVIADALERAGSA 305 (347)
T ss_pred cH-HHH----HHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhC-------CCCChHHHHHHHHHHHHHHHHHHhcCC
Confidence 11 100 1223556788887766554 6778999999999986 236788999999999999999986321
Q ss_pred CCCcccccCcccccccCCCcccccccccCchHHHH--HHHHhcccc---ccccceEEccCCCCCCC
Q 006733 341 GGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLL--DNILQVNMT---GVTGPIKFTSDRDLINP 401 (633)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~--~~l~~~~f~---g~~G~v~Fd~~g~r~~~ 401 (633)
++..+. .+|++..+. +..|+++||++|+..+.
T Consensus 306 -----------------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 306 -----------------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred -----------------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 367777 588888876 46789999999986543
No 46
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=100.00 E-value=1e-34 Score=297.11 Aligned_cols=337 Identities=14% Similarity=0.079 Sum_probs=273.7
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||++.|++ +..|.....|+++|+++||++||++ |++|+++++|+.++|.++++++.+|+++ +|.+|+|+.+|..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~ 79 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVL-GRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSAS 79 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhh
Confidence 699999998 5668889999999999999999995 8999999999999999999999999976 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHH-cCCcEEEEEEecCCCcchhHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-FGWRNVIALYVDDDHGRNGIAALGDK 188 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~-~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (633)
+.++.+++...++|+|++.+... ...+|++||+.+.+..++..+++++.. .+++++++++.|++||....+.+++.
T Consensus 80 ~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~ 156 (348)
T cd06355 80 RKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQ 156 (348)
T ss_pred HHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHH
Confidence 99999999999999998653221 234689999999999889889998764 57999999999999999999999999
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCc
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (633)
+++.|++++....++ .+..|++.++.++++.++|+|++...+.++..+++++++.|+......++..........
T Consensus 157 ~~~~G~~vv~~~~~~--~~~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~--- 231 (348)
T cd06355 157 LESLGGEVVGEEYLP--LGHTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELR--- 231 (348)
T ss_pred HHHcCCeEEeeEEec--CChhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHh---
Confidence 999999999888887 567899999999999999999999899999999999999998754444554332111110
Q ss_pred cccccccccccceEEEeee--cCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCccc
Q 006733 269 QLHSEKMDDIQGVLTLRMY--TQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (633)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~ 346 (633)
.-..+...|++....+ ..+.+..++|.++|+++|+. ...+..++..+||+++++++|++++...
T Consensus 232 ---~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~-----~~~~~~~a~~~Y~a~~~~~~Al~~ag~~------ 297 (348)
T cd06355 232 ---GIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQ-----DRVTNDPMEAAYIGVYLWKQAVEKAGSF------ 297 (348)
T ss_pred ---hcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCC-----CCCCCcHHHHHHHHHHHHHHHHHHhCCC------
Confidence 1111345676655433 23567789999999999862 1233556788999999999999986321
Q ss_pred ccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEee-cCCeeEE
Q 006733 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVI-GTGSRRI 416 (633)
Q Consensus 347 ~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~-~~~~~~v 416 (633)
+++.+.++|++.+|+++.|.++|+++++.....+.|.+++ ++.++.|
T Consensus 298 -----------------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 298 -----------------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred -----------------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 3889999999999999999999998554444556677775 4555443
No 47
>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=5.2e-35 Score=297.98 Aligned_cols=320 Identities=18% Similarity=0.153 Sum_probs=266.8
Q ss_pred EEEEEeecC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhhH
Q 006733 34 NIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVIA 110 (633)
Q Consensus 34 ~IG~l~p~~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~~ 110 (633)
+||++.|++ +..|.....|+++|+++||+.||+ +|++|+++++|+++++..+++++.+|+.+ +|.+|+|+.+|..+
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 589999998 557788899999999999999998 69999999999999999999999999987 99999999999999
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcC-CcEEEEEEecCC-CcchhHHHHHHH
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFG-WRNVIALYVDDD-HGRNGIAALGDK 188 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~-w~~v~ii~~d~~-~g~~~~~~~~~~ 188 (633)
.+++++++.+++|+|++.++++.++ +.+||+||+.|++..++.++++++++.+ |+++++|+.++. ||+...+.+++.
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 4579999999999999999999998776 999999998876 999999999999
Q ss_pred Hhh-cCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCC
Q 006733 189 LAE-KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (633)
Q Consensus 189 ~~~-~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (633)
+++ .|.++.....+. ....++..++.++++.++++|++.+.......+++++++.+. ...+++++..... +..
T Consensus 159 ~~~~~g~~v~~~~~~~--~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~~-~~~ 232 (332)
T cd06344 159 LLERGGGIVVTPCDLS--SPDFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG---RLTLLGGDSLYTP-DTL 232 (332)
T ss_pred HHHhcCCeeeeeccCC--CCCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---CceEEecccccCH-HHH
Confidence 999 588887655444 355678889999999999999999988888889999888764 2335555443221 110
Q ss_pred ccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccc
Q 006733 268 SQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFS 347 (633)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~ 347 (633)
.......+|+++..++.++.+..++|.+.|+++++ ..++.++..+||+++++++|++++...
T Consensus 233 ----~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~a~~~Yda~~~l~~A~~~ag~~------- 294 (332)
T cd06344 233 ----LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLWG-------GDVSWRTATAYDATKALIAALSQGPTR------- 294 (332)
T ss_pred ----HhchhhhcCeEEEEecccccccchHHHHHHHHHhc-------CCchHHHHhHHHHHHHHHHHHHhCCCh-------
Confidence 11224567888888887777778999999999986 346788999999999999999986321
Q ss_pred cCcccccccCCCcccccccccCchHHHH-HHHHhccccccccceEEccCCCCCCC
Q 006733 348 EDSKLSELSRGDMRFSSVSIFNGGKMLL-DNILQVNMTGVTGPIKFTSDRDLINP 401 (633)
Q Consensus 348 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~-~~l~~~~f~g~~G~v~Fd~~g~r~~~ 401 (633)
++..+. ..+++..|+|+.|+++||++|++...
T Consensus 295 ----------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~ 327 (332)
T cd06344 295 ----------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNGQ 327 (332)
T ss_pred ----------------------hhhhhhhhhcccccccCCCceeEeCCCCcccCc
Confidence 233444 67788889999999999999997643
No 48
>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=2.2e-34 Score=295.04 Aligned_cols=341 Identities=11% Similarity=0.059 Sum_probs=270.8
Q ss_pred EEEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchh
Q 006733 33 LNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (633)
Q Consensus 33 i~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~ 108 (633)
|+||++.|++ +..|.....|+++|+++||++||++ |++|+++++|++++|..++.++.+|+.+ +|.+|||+.+|.
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~-Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~ 79 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGIL-GRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSA 79 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCC-CceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchH
Confidence 7999999998 5678889999999999999999995 8999999999999999999999999975 899999999999
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (633)
.+.++.+++...++|+|....... ....+|+||+.|++..++.++++++....-+++++|+.|++||+...+.+++.
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~~~~---~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g~~~~~~~~~~ 156 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQYEG---GVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFGQLSADWVRVI 156 (374)
T ss_pred HHHHHHHHHHhcCceEEcCccccc---ccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHHHHHHHHHHHH
Confidence 999999999999999996432111 12358999999999999999999976543478999999999999999999999
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCc
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (633)
+++.|++++....++ .+..|+..++.++++.++|+|++.....+...++++++++|+..+ ++............
T Consensus 157 ~~~~G~~vv~~~~~~--~g~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~~~- 230 (374)
T TIGR03669 157 AKENGAEVVGEEFIP--LSVSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYEHK- 230 (374)
T ss_pred HHHcCCeEEeEEecC--CCcchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhhhh-
Confidence 999999999888887 577899999999999999999999888889999999999998654 22221111110000
Q ss_pred cccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCccc
Q 006733 269 QLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (633)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~ 346 (633)
........|+++...+.+ +.+..++|.++|+++|+. ...++.++..+||+++++++|++++.+.
T Consensus 231 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~-----~p~~~~~a~~~Yda~~~l~~Ai~~AGs~------ 296 (374)
T TIGR03669 231 ---RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPD-----APYINQEAENNYFSVYMYKQAVEEAGTT------ 296 (374)
T ss_pred ---hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCC-----CCCCChHHHHHHHHHHHHHHHHHHhCCC------
Confidence 001134567666655544 467789999999999862 1123566888999999999999987321
Q ss_pred ccCcccccccCCCcccccccccCchHHHHHHHHh-ccccccccceEEccCCCCCCCcEEEEEeec-CCeeEEeeec
Q 006733 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQ-VNMTGVTGPIKFTSDRDLINPAYEVINVIG-TGSRRIGYWS 420 (633)
Q Consensus 347 ~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~-~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~-~~~~~vg~w~ 420 (633)
+++.+.++|++ ..|+|+.|+++||++++.....+.|.+++. +.+..+..|+
T Consensus 297 -----------------------d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 297 -----------------------DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred -----------------------CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 48899999997 579999999999987764444455555553 2334444443
No 49
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=2.5e-34 Score=295.01 Aligned_cols=338 Identities=24% Similarity=0.241 Sum_probs=277.6
Q ss_pred CCeEEEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCceEEEcCC
Q 006733 30 PPVLNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLE-NETVAIIGPQ 105 (633)
Q Consensus 30 ~~~i~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~-~~v~aviG~~ 105 (633)
.++|+||++.|++ +.+|.....++++|+|+||+.||++ |++|++++.|+.+|+..+++.+.+|+. ++|.+|+|+.
T Consensus 8 a~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~-G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~ 86 (366)
T COG0683 8 ADTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGIL-GRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPT 86 (366)
T ss_pred cCceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcC-CceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEec
Confidence 4589999999998 6778999999999999999999985 788999999999999999999999988 5999999999
Q ss_pred chhhHHHHHHhhccCCccEEeeccCCCCCccCCC-CceEEecCChHHHHHHHHHHHHH-cCCcEEEEEEecCCCcchhHH
Q 006733 106 FSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQY-PFFVRTTQSDLYQMAAIADIVDY-FGWRNVIALYVDDDHGRNGIA 183 (633)
Q Consensus 106 ~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~-~~~~r~~p~~~~~~~al~~ll~~-~~w~~v~ii~~d~~~g~~~~~ 183 (633)
+|..+.++.++++..++|+|+++++++.+....+ +++||+.|.+..++.++++++.. .+.+++++|+.++.||++..+
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 9999999999999999999999999988766443 55999999999999999998764 555699999999999999999
Q ss_pred HHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccc
Q 006733 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (633)
Q Consensus 184 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (633)
.+++.+++.|.++.....+.+ ...++..++.++++.++|+|++.+...+...++++++++|+... .+..+....
T Consensus 167 ~~~~~l~~~G~~~~~~~~~~~--~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~---~~~~~~~~~- 240 (366)
T COG0683 167 AFKAALKALGGEVVVEEVYAP--GDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK---LIGGDGAGT- 240 (366)
T ss_pred HHHHHHHhCCCeEEEEEeeCC--CCCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc---cccccccCc-
Confidence 999999999998655455653 34459999999999999999999999999999999999998764 222222111
Q ss_pred cCCCccccccccccccc-eEE-EeeecC-CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhc
Q 006733 264 LDTDSQLHSEKMDDIQG-VLT-LRMYTQ-SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQ 340 (633)
Q Consensus 264 ~~~~~~~~~~~~~~~~g-~~~-~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~ 340 (633)
..... .......+ ++. .....+ ..+..+.|+++|+++++ ++..++.+...+||+++++++|++++..
T Consensus 241 ~~~~~----~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g-----~~~~~~~~~~~~y~a~~~~~~ai~~a~~- 310 (366)
T COG0683 241 AEFEE----IAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYG-----DPAAPSYFAAAAYDAVKLLAKAIEKAGK- 310 (366)
T ss_pred hhhhh----hcccCccccEEEEecccccccCcchHHHHHHHHHHhC-----CCCCcccchHHHHHHHHHHHHHHHHHhc-
Confidence 11100 01111222 333 333333 35677889999999997 3355567899999999999999999753
Q ss_pred CCCcccccCcccccccCCCcccccccccCchHHHHHHHHhcc-ccccccceEEccCCCCCCCcEEEEEeecC
Q 006733 341 GGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVN-MTGVTGPIKFTSDRDLINPAYEVINVIGT 411 (633)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~-f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~ 411 (633)
+ . +++.+.++|+... +++.+|.+.||++|++....+.|.+++..
T Consensus 311 ~--------------------------~-d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~ 355 (366)
T COG0683 311 S--------------------------S-DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKG 355 (366)
T ss_pred C--------------------------C-CHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEec
Confidence 1 1 3788999999998 68999999999999999999999888854
No 50
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=1.9e-34 Score=294.92 Aligned_cols=315 Identities=15% Similarity=0.173 Sum_probs=268.2
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhH
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~ 110 (633)
+||++.|++ +..|.....++++|+++||+.||+ .|++|+++++|+++++.++++.+++|++++|.+|||+.++..+
T Consensus 1 ~IG~l~p~sG~~a~~G~~~~~g~~~a~~~iN~~GGi-~G~~i~l~~~D~~~~p~~a~~~a~~lv~~~v~aiiG~~~s~~~ 79 (342)
T cd06329 1 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGV-DGRPIELVEEDNKGSPQEALRKAQKAIDDGVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCc-CCeEEEEEeccCCCChHHHHHHHHHHHHhCCeEEEcccchHHH
Confidence 589999998 457888999999999999999998 5899999999999999999999999999999999999999999
Q ss_pred HHH-------HHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcC-CcEEEEEEecCCCcchh
Q 006733 111 HLV-------SHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFG-WRNVIALYVDDDHGRNG 181 (633)
Q Consensus 111 ~~v-------a~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~-w~~v~ii~~d~~~g~~~ 181 (633)
.++ ++++..+++|+|++.++++.++. ..+|++||+.|++..++.++++++.+.+ |+++++++.|+.||...
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 78888999999998887777776 4579999999999999999999988775 99999999999999999
Q ss_pred HHHHHHHHhh--cCcEEEEEeecCCCCCh-hhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 182 IAALGDKLAE--KRCRLSHKVPLSPKGSR-NQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 182 ~~~~~~~~~~--~g~~v~~~~~~~~~~~~-~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
.+.+++.+++ .|++++....++ .+. +|+..++.++++.++|+|++.....++..++++++++|+..+ ++...
T Consensus 160 ~~~~~~~~~~~~~G~~vv~~~~~~--~~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~ 234 (342)
T cd06329 160 AAAFKAMLAAKRPDIQIVGEDLHP--LGKVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKLP---FYTPY 234 (342)
T ss_pred HHHHHHHHHhhcCCcEEeceeccC--CCCCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCce---EEecc
Confidence 9999999999 999998877776 455 899999999999999999999888899999999999998543 55443
Q ss_pred ccccccCCCccccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHH
Q 006733 259 WLSSILDTDSQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGA 336 (633)
Q Consensus 259 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~ 336 (633)
..... .. ....+..+|++....+.+ +.+..++|.++|+++++ ..++.+...+||++++++.|+++
T Consensus 235 ~~~~~--~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~y~~~~~~~~a~~~ 301 (342)
T cd06329 235 LDQPG--NP----AALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYG-------RVPDYYEGQAYNGIQMLADAIEK 301 (342)
T ss_pred ccchh--HH----HhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhC-------CCCCchHHHHHHHHHHHHHHHHH
Confidence 32211 11 223345677777665543 36788999999999886 34567789999999999999997
Q ss_pred hhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCC
Q 006733 337 FFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDR 396 (633)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g 396 (633)
.... ++..+.++|++++|+|..|++.|+..+
T Consensus 302 ag~~-----------------------------~~~~v~~al~~~~~~~~~g~~~~~~~~ 332 (342)
T cd06329 302 AGST-----------------------------DPEAVAKALEGMEVDTPVGPVTMRASD 332 (342)
T ss_pred hCCC-----------------------------CHHHHHHHHhCCccccCCCCeEEcccC
Confidence 5211 388999999999999999999998643
No 51
>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=2e-33 Score=280.14 Aligned_cols=335 Identities=13% Similarity=0.150 Sum_probs=247.1
Q ss_pred CCeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHH-HhcCceEEEcC-Cc
Q 006733 30 PPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN-YSRFLGMVEALTL-LENETVAIIGP-QF 106 (633)
Q Consensus 30 ~~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~-~~~~~a~~~~~~l-i~~~v~aviG~-~~ 106 (633)
++.|+||++|+.. ...+.|++.|++.+|++..++++.+|+..+.... .|+.+..+++|++ +.+||.||+|+ .+
T Consensus 16 ~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg~p~s 91 (382)
T cd06377 16 GHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLAFPQT 91 (382)
T ss_pred CCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEecCCC
Confidence 3469999999975 3479999999999999987877889998887644 5999999999999 59999999995 77
Q ss_pred hhhHHHHHHhhccCCccEEeeccCCCCC-ccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHH
Q 006733 107 SVIAHLVSHIANEFQVPLLSFAATDPSL-SSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAAL 185 (633)
Q Consensus 107 s~~~~~va~~~~~~~iP~Is~~a~~~~l-s~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~ 185 (633)
+.++.++..+|+.++||+|++...+... +...+....++.|+..+++.|+++++++|+|++|++||+.+.... .|
T Consensus 92 ~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl~----~l 167 (382)
T cd06377 92 RPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDPT----GL 167 (382)
T ss_pred HHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCHH----HH
Confidence 7888899999999999999986654333 223333345669999999999999999999999999998776332 34
Q ss_pred HHHHhhcCc-----EEEEEeecCCC-CChhhH-HHHHHHhhcCC-CeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 006733 186 GDKLAEKRC-----RLSHKVPLSPK-GSRNQI-IDTLLTVSSMM-SRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVT 257 (633)
Q Consensus 186 ~~~~~~~g~-----~v~~~~~~~~~-~~~~~~-~~~l~~i~~~~-~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 257 (633)
++.++..+. .+..+ ..+.. .+..++ +.+|+++++.. .++|++.|+.+.+..+++++.+ .|+||++
T Consensus 168 q~l~~~~~~~~~~~~i~v~-~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~------~y~wIv~ 240 (382)
T cd06377 168 LLLWTNHARFHLGSVLNLS-RNDPSTADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP------GPHWILG 240 (382)
T ss_pred HHHHHHhcccccCceEEEE-eccCccCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc------ceEEEEc
Confidence 444443321 22222 22210 133455 99999999998 9999999999999999987665 4999998
Q ss_pred CccccccCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHh
Q 006733 258 DWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAF 337 (633)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~ 337 (633)
+. .+..+. ....+..|++.... .......++.||||++++.|++.+
T Consensus 241 ~~----~~le~~---~~~g~nigLl~~~~---------------------------~~~~~l~ali~DAV~lvA~a~~~l 286 (382)
T cd06377 241 DP----LPPEAL---RTEGLPPGLLAHGE---------------------------TTQPPLEAYVQDALELVARAVGSA 286 (382)
T ss_pred CC----cChhhc---cCCCCCceEEEEee---------------------------cccccHHHHHHHHHHHHHHHHHHh
Confidence 72 122111 00122233332110 001133789999999999999986
Q ss_pred hh--cCCCcccccCcccccccCCCcccccc--c-ccCchHHHHHHHHhccccccccceEEccCCCC--CCCcEEEEEee-
Q 006733 338 FD--QGGNISFSEDSKLSELSRGDMRFSSV--S-IFNGGKMLLDNILQVNMTGVTGPIKFTSDRDL--INPAYEVINVI- 409 (633)
Q Consensus 338 ~~--~~~~~~~~~~~~~~~~~~~~~~c~~~--~-~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r--~~~~~~I~~~~- 409 (633)
.. .... ..++..+|... . .|++|..|.++|++++|+|+||+|.| +.|.| .+..++|++++
T Consensus 287 ~~~~~~~~-----------l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F-~~g~R~~~~~~l~I~~L~~ 354 (382)
T cd06377 287 TLVQPELA-----------LIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWV-TGSSQVHSSRHFKVWSLRR 354 (382)
T ss_pred hhcccccc-----------cCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEE-ccCeeecccceEEEEEecc
Confidence 31 1111 12334578644 5 89999999999999999999999999 55878 78999999998
Q ss_pred -cC---CeeEEeeecCCCCC
Q 006733 410 -GT---GSRRIGYWSNHSGL 425 (633)
Q Consensus 410 -~~---~~~~vg~w~~~~~l 425 (633)
.. .|++||+|++...+
T Consensus 355 ~~~G~~~W~kVG~W~~~~~~ 374 (382)
T cd06377 355 DPVGQPTWTTVGSWQGGRKI 374 (382)
T ss_pred ccCCCccceEEEEecCCCce
Confidence 33 35999999986433
No 52
>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=5.7e-34 Score=291.38 Aligned_cols=320 Identities=20% Similarity=0.282 Sum_probs=269.4
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
+||+++|++ +..|.....|+++|+|+||++||+ +|++|++++.|+++++..+++.+++++.+ +|.+||||.++..
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 699999998 456778899999999999999987 69999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHH-HHcCCcEEEEEEecC-CCcchhHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDD-DHGRNGIAALGD 187 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~d~-~~g~~~~~~~~~ 187 (633)
+.++++++...+||+|++.++.+.+++.. +++||+.|++..++.++++++ ++++|+++++|+.++ +|+....+.+++
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~~~~~~-~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~ 158 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPKVTQGK-DYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKE 158 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCCcccCC-CeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHH
Confidence 99999999999999999988777666532 589999999988999999986 667999999999875 899998999999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCC
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (633)
.+++.|++++....++ .+..++...++++++.++++|++.+...+...+++++++.|+.. .|++++.+......
T Consensus 159 ~~~~~g~~v~~~~~~~--~~~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~---~i~~~~~~~~~~~~- 232 (334)
T cd06347 159 AFKKLGGEIVAEETFN--AGDTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIKV---PILGGDGWDSPKLE- 232 (334)
T ss_pred HHHHcCCEEEEEEEec--CCCCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCCC---cEEecccccCHHHH-
Confidence 9999999999887776 45678999999999999999999999999999999999999743 47776655432110
Q ss_pred ccccccccccccceEEEeeecCC--ChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcc
Q 006733 268 SQLHSEKMDDIQGVLTLRMYTQS--SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (633)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~ 345 (633)
........|++....+.+. .+..++|.++|+++++ ..++.++..+||+++++++|++++...
T Consensus 233 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~Al~~ag~~----- 296 (334)
T cd06347 233 ----EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYG-------KEPDAFAALGYDAYYLLADAIERAGST----- 296 (334)
T ss_pred ----HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC-------CCcchhHHHHHHHHHHHHHHHHHhCCC-----
Confidence 1123567787777665553 5778999999998875 345678899999999999999975211
Q ss_pred cccCcccccccCCCcccccccccCchHHHHHHHHhc-cccccccceEEccCCCCCCC
Q 006733 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQV-NMTGVTGPIKFTSDRDLINP 401 (633)
Q Consensus 346 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~-~f~g~~G~v~Fd~~g~r~~~ 401 (633)
++..+.+.|++. +|+|++|++.|+++|+..+.
T Consensus 297 ------------------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~ 329 (334)
T cd06347 297 ------------------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVKS 329 (334)
T ss_pred ------------------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCCC
Confidence 378888888765 69999999999999886543
No 53
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=100.00 E-value=4.8e-34 Score=291.12 Aligned_cols=320 Identities=15% Similarity=0.113 Sum_probs=267.5
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
+||+++|++ +..|.....++++|+++||++||+ .|++|+++++|++++|..+++++++|+++ +|.+|+|+.+|..
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 699999998 456788999999999999999998 59999999999999999999999999988 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~ 189 (633)
+.++.++++..++|+|++.+.... ...|++||+.|+...++.++++++...+|+++++|+.|+.||....+.+++.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~~ 156 (333)
T cd06331 80 RKAVLPVVERGRGLLFYPTQYEGG---ECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWPRESNRIARALL 156 (333)
T ss_pred HHHHHHHHHhcCceEEeCCCCCCC---cCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhHHHHHHHHHHHH
Confidence 999999999999999987543221 23589999999999999999998766669999999999999999999999999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCcc
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (633)
++.|.+++....++ .+..|++.++.++++.++|+|++.+...+...+++++++.|+......++ +...... ...
T Consensus 157 ~~~G~~vv~~~~~~--~~~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~-~~~-- 230 (333)
T cd06331 157 EELGGEVVGEEYLP--LGTSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRIPIL-SLTLDEN-ELA-- 230 (333)
T ss_pred HHcCCEEEEEEEec--CCcccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCCeeE-Ecccchh-hhh--
Confidence 99999999888887 46789999999999999999999999999999999999999863333333 3221111 111
Q ss_pred ccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccc
Q 006733 270 LHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFS 347 (633)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~ 347 (633)
........|++...++.+ +.+..++|.++|+++++. ...++.+...+||+++++..|++++..
T Consensus 231 --~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~yda~~~~~~A~~~ag~-------- 295 (333)
T cd06331 231 --AIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGD-----DAVINSPAEAAYEAVYLWAAAVEKAGS-------- 295 (333)
T ss_pred --ccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCC-----CcCCCchhHHHHHHHHHHHHHHHHcCC--------
Confidence 111234678887766544 467789999999988852 124677899999999999999998521
Q ss_pred cCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCC
Q 006733 348 EDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLI 399 (633)
Q Consensus 348 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~ 399 (633)
.++..|.++|++++|+|++|.+.|++++++.
T Consensus 296 ---------------------~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 296 ---------------------TDPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred ---------------------CCHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 1488999999999999999999999988765
No 54
>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=8.3e-35 Score=296.54 Aligned_cols=336 Identities=13% Similarity=0.097 Sum_probs=245.0
Q ss_pred CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecC-------CCChHHHHHHHHHHHhcCc--eEEEcCCchhhHHHH
Q 006733 43 STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDT-------NYSRFLGMVEALTLLENET--VAIIGPQFSVIAHLV 113 (633)
Q Consensus 43 ~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~-------~~~~~~a~~~~~~li~~~v--~aviG~~~s~~~~~v 113 (633)
...|+..+.|+++|++++|++. |.++.+...++ +.|...+.+++|+++++|+ .|||||.++..+..+
T Consensus 8 ~~~~~~~~~A~~~Av~~~N~~~----~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~gv~~~AIiGp~ss~~a~~V 83 (368)
T cd06383 8 EDDNDVYKQIIDDALSYINRNI----GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADSAIVPHLVLDTTTCGDASEI 83 (368)
T ss_pred ccchHHHHHHHHHHHHHHhcCC----CCceEEEEecccccccccCCcHHHHHHHHHHHHHccCCcEEEECCCcchhHHHH
Confidence 3457889999999999999985 56777766665 3477788888999999988 899999999999999
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhH-HHHHHHHhhc
Q 006733 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGI-AALGDKLAEK 192 (633)
Q Consensus 114 a~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~-~~~~~~~~~~ 192 (633)
+++|+.++||+|++... ..++.++|+++|+.|++..+..|+++++++|+|++|++||++++...... +.+++.....
T Consensus 84 ~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~~~ 161 (368)
T cd06383 84 KSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTRH 161 (368)
T ss_pred HHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhcC
Confidence 99999999999997443 23335789999999999999999999999999999999997665432232 3333333344
Q ss_pred CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-hHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCcccc
Q 006733 193 RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-DIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLH 271 (633)
Q Consensus 193 g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~ 271 (633)
++++. . ....++...++++++.+.+.||+.+. +..+..++++|.++||++.+|+||++++.....+.
T Consensus 162 ~~~v~-~------~~~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl----- 229 (368)
T cd06383 162 VITII-N------SIIDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDD----- 229 (368)
T ss_pred CEEEE-e------ccchhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhh-----
Confidence 55543 1 12356889999999988866666666 59999999999999999999999999986554443
Q ss_pred ccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcc
Q 006733 272 SEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSK 351 (633)
Q Consensus 272 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~ 351 (633)
++......++.+++...+.....+.+.+++.+.. ..+.........++++||||++++.|++.+..+..... +
T Consensus 230 ~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~---~-- 302 (368)
T cd06383 230 LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPT--LRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDG---S-- 302 (368)
T ss_pred hhhccccCcEEEeeccccchhhhccceeeccCCc--cCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCC---C--
Confidence 2344455689999986655555577776652211 00011112345689999999999999998632111110 0
Q ss_pred cccccCCCcccccc---ccc-CchHHHHHHHHhccccccccceEEccCCCCCCCcEEEE
Q 006733 352 LSELSRGDMRFSSV---SIF-NGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVI 406 (633)
Q Consensus 352 ~~~~~~~~~~c~~~---~~~-~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~ 406 (633)
.......|... .+| .+|..+.++|+.++|+|+||+|.||++|.|.+..+.++
T Consensus 303 ---~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~l~~~ 358 (368)
T cd06383 303 ---TGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKTIGSW 358 (368)
T ss_pred ---cCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeeeeeeE
Confidence 00011133322 245 56679999999999999999999999999876554333
No 55
>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=1.6e-33 Score=290.89 Aligned_cols=342 Identities=16% Similarity=0.211 Sum_probs=282.2
Q ss_pred CCeEEEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCC
Q 006733 30 PPVLNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQ 105 (633)
Q Consensus 30 ~~~i~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~ 105 (633)
+++|+||+++|++ +..|.....++++|++++|+.||+ .|++|+++++|+++++..+.+.+.+++.+ +|.+|||+.
T Consensus 4 ~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi-~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~ 82 (362)
T cd06343 4 DTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGI-NGRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGL 82 (362)
T ss_pred CceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCc-CCeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecC
Confidence 5789999999998 456888999999999999999998 58999999999999999999999999975 999999999
Q ss_pred chhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHH-HHcCCcEEEEEEecCCCcchhHH
Q 006733 106 FSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIA 183 (633)
Q Consensus 106 ~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~d~~~g~~~~~ 183 (633)
++..+.++++++...+||+|++.+.++.+++ +.+|++||+.|++..++.++++++ ++++|+++++|+.++.||....+
T Consensus 83 ~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~~ 162 (362)
T cd06343 83 GTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYLK 162 (362)
T ss_pred CcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHHH
Confidence 9999999999999999999998777777766 378999999999999999999975 56799999999999999999999
Q ss_pred HHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccc
Q 006733 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (633)
Q Consensus 184 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (633)
.+++.+++.|++++....++ .+.++++.++.++++.++|+|++.+...+...++++++++|+... ++..+.....
T Consensus 163 ~~~~~~~~~G~~vv~~~~~~--~~~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~ 237 (362)
T cd06343 163 GLKDGLGDAGLEIVAETSYE--VTEPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPT---FLLSSVSASV 237 (362)
T ss_pred HHHHHHHHcCCeEEEEeeec--CCCccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCce---EEEEeccccc
Confidence 99999999999999888887 567899999999999999999999999999999999999998753 5555443221
Q ss_pred cCCCccccccccccccceEEEeeec-------CCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHH
Q 006733 264 LDTDSQLHSEKMDDIQGVLTLRMYT-------QSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGA 336 (633)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~ 336 (633)
... +.....+..+|++....+. ...+..++|.+.|+++++. ...++.+...+||++.++++|+++
T Consensus 238 ~~~---~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~y~a~~~~~~a~~~ 309 (362)
T cd06343 238 ASV---LKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPE-----GDPPDTYAVYGYAAAETLVKVLKQ 309 (362)
T ss_pred HHH---HHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCC-----CCCCchhhhHHHHHHHHHHHHHHH
Confidence 110 0011224567777665442 2357789999999998852 124678889999999999999998
Q ss_pred hhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccc---cc-cccceEEccCCCCCCCcEEEEEeecCC
Q 006733 337 FFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNM---TG-VTGPIKFTSDRDLINPAYEVINVIGTG 412 (633)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f---~g-~~G~v~Fd~~g~r~~~~~~I~~~~~~~ 412 (633)
+... . +++.+.++|+++++ .+ ..|+++|++++++....+.|.++++++
T Consensus 310 ag~~---------------------------~-~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~ 361 (362)
T cd06343 310 AGDD---------------------------L-TRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGR 361 (362)
T ss_pred hCCC---------------------------C-CHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCc
Confidence 6211 1 38899999999997 33 345899997666566677787777654
Q ss_pred e
Q 006733 413 S 413 (633)
Q Consensus 413 ~ 413 (633)
|
T Consensus 362 ~ 362 (362)
T cd06343 362 W 362 (362)
T ss_pred C
Confidence 3
No 56
>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=2e-33 Score=288.62 Aligned_cols=330 Identities=13% Similarity=0.089 Sum_probs=264.0
Q ss_pred EEEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchh
Q 006733 33 LNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (633)
Q Consensus 33 i~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~ 108 (633)
|+||++.|++ +..|.....|+++|+++||++||++ |++|+++++|+.++|..+++++.+|+++ +|.+|+|+.+|.
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 6999999998 4667788999999999999999995 8999999999999999999999999975 899999999999
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHH-cCCcEEEEEEecCCCcchhHHHHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-FGWRNVIALYVDDDHGRNGIAALGD 187 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~-~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (633)
.+.++.+++...++|++++.... .....|++||+.+++..+..++++++.. .|.+++++++.|++||....+.+++
T Consensus 80 ~~~a~~~~~~~~~~~~i~~~~~~---~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~~~ 156 (359)
T TIGR03407 80 SRKAVLPVFEENNGLLFYPVQYE---GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKIIKA 156 (359)
T ss_pred HHHHHHHHHhccCCceEeCCccc---CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHHHHHHHHHHH
Confidence 99999999999999999764322 1235689999999999999999998766 5999999999999999999999999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCC
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (633)
.+++.|++++....++ .+..|++.+++++++.++|+|++.........++++++++|+......++..........
T Consensus 157 ~~~~~G~~vv~~~~~~--~~~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~-- 232 (359)
T TIGR03407 157 YLKSLGGTVVGEDYTP--LGHTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIR-- 232 (359)
T ss_pred HHHHcCCEEEeeEEec--CChHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHh--
Confidence 9999999999888777 577899999999999999999988788788899999999998654333444332111100
Q ss_pred ccccccccccccceEEEeee--cCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcc
Q 006733 268 SQLHSEKMDDIQGVLTLRMY--TQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (633)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~ 345 (633)
.-..+..+|++....+ ..+.+..++|.++|+++|+. ...+..+...+||+++++++|++++...
T Consensus 233 ----~~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~y~a~~~~~~A~~~ag~~----- 298 (359)
T TIGR03407 233 ----GIGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGD-----DRVTNDPMEAAYLGVYLWKAAVEKAGSF----- 298 (359)
T ss_pred ----hcChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCC-----CCCCCcHHHHHHHHHHHHHHHHHHhCCC-----
Confidence 1112345776654332 33567789999999998862 1223445667899999999999986321
Q ss_pred cccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEe
Q 006733 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINV 408 (633)
Q Consensus 346 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~ 408 (633)
++..++++|++++|+++.|+++|+++++.....+.+.++
T Consensus 299 ------------------------~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~ 337 (359)
T TIGR03407 299 ------------------------DVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEI 337 (359)
T ss_pred ------------------------CHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEE
Confidence 388999999999999999999999844333333334333
No 57
>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=2.4e-33 Score=287.00 Aligned_cols=330 Identities=19% Similarity=0.228 Sum_probs=271.4
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||++.|++ +..|.....++++|++++|++||+ +|++|+++++|+++++..+.+.+.+|+.+ +|.+|+|+.+|..
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi-~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~ 79 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGV-GGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGV 79 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCc-CCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHh
Confidence 699999998 566889999999999999999998 69999999999999999999999999987 7999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHH-HHcCCcEEEEEEecCCCcchhHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAALGDK 188 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (633)
+.++++++...++|+|++.++.+.++. ..+|+||+.|++..+..++++++ ++++|+++++++.+++||....+.+++.
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 35899999999999999999985 6789999999999999999999999999
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCc
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (633)
+++.|++++....++ .+..|++.++.+++..++|+|++.+...+...+++++++.|+..+ +++....... ...
T Consensus 159 ~~~~g~~v~~~~~~~--~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~-~~~- 231 (340)
T cd06349 159 AEKLGGQVVAHEEYV--PGEKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDIP---VVASSSVYSP-KFI- 231 (340)
T ss_pred HHHcCCEEEEEEEeC--CCCCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc---EEccCCcCCH-HHH-
Confidence 999999999877776 456799999999999999999999999999999999999998653 5554332211 110
Q ss_pred cccccccccccceEEEeeecCC--ChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCccc
Q 006733 269 QLHSEKMDDIQGVLTLRMYTQS--SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (633)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~ 346 (633)
........|++....+.++ .+..++|.++|+++|+ ..++.++..+||++.++++|++++...
T Consensus 232 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~p~~~~~~~y~~~~~~~~a~~~ag~~------ 295 (340)
T cd06349 232 ---ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYG-------AQPDAFAAQAYDAVGILAAAVRRAGTD------ 295 (340)
T ss_pred ---HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC-------CCcchhhhhHHHHHHHHHHHHHHhCCC------
Confidence 1122456788877666553 5678999999998886 235678899999999999999985321
Q ss_pred ccCcccccccCCCcccccccccCchHHHHHH-HHhccccccccceEEccC-CCCCCCcEEEEEeecCC
Q 006733 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDN-ILQVNMTGVTGPIKFTSD-RDLINPAYEVINVIGTG 412 (633)
Q Consensus 347 ~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~-l~~~~f~g~~G~v~Fd~~-g~r~~~~~~I~~~~~~~ 412 (633)
+...+... +.+..+.+++|.++|+++ ++.. ..+.++.+++++
T Consensus 296 -----------------------~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~-~~~~~~~~~~g~ 339 (340)
T cd06349 296 -----------------------RRAARDGFAKAEDVYSGVTGSTKFDPNTRRVI-KRFVPLVVRNGK 339 (340)
T ss_pred -----------------------CHHHHHHHHHhccCcccceEeEEECCCCCCcc-CceEEEEEeCCc
Confidence 12223222 245567899999999997 6544 477777776654
No 58
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=100.00 E-value=1.3e-33 Score=288.10 Aligned_cols=318 Identities=17% Similarity=0.156 Sum_probs=267.5
Q ss_pred EEEEEeecCCc----cchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchh
Q 006733 34 NIGAVFALNST----IGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (633)
Q Consensus 34 ~IG~l~p~~~~----~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~ 108 (633)
+||+++|++.. .|.....|+++|++++| ||+ .|++|+++++|+++++..+++++.+|+++ +|.+|||+.+|.
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 58999999844 47788999999999999 777 59999999999999999999999999987 999999999999
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGD 187 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (633)
.+.++++++.+.++|+|+++++++.++. ..+||+||+.|++..++.++++++.+.+++++++++.++.||....+.+++
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~ 157 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARK 157 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHH
Confidence 9999999999999999999888888776 347999999999999999999988777899999999999999999999999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCC
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (633)
.+++.|++++....++ .+.+|++.++.++++.++|+|++.+...++..++++++++|+.. ...++....... ..
T Consensus 158 ~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~--~~- 231 (334)
T cd06327 158 VVKANGGKVVGSVRHP--LGTSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK-GQKLAGLLLFLT--DV- 231 (334)
T ss_pred HHHhcCCEEcCcccCC--CCCccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc-CCcEEEecccHH--HH-
Confidence 9999999999888787 46789999999999999999999999999999999999999863 222333222111 10
Q ss_pred ccccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcc
Q 006733 268 SQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (633)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~ 345 (633)
.....+..+|+++..++.+ +.+..++|.++|+++++ ..++.+...+||+++++++|++++...
T Consensus 232 ---~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g-------~~p~~~~~~~Y~~~~~~~~A~~~ag~~----- 296 (334)
T cd06327 232 ---HSLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYG-------KMPSMVQAGAYSAVLHYLKAVEAAGTD----- 296 (334)
T ss_pred ---HhhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHC-------cCCCcHHHHHHHHHHHHHHHHHHHCCC-----
Confidence 0112245678877766543 36778999999999986 236678899999999999999987432
Q ss_pred cccCcccccccCCCcccccccccCchHHHHHHHHhcc-ccccccceEEcc-CCCCC
Q 006733 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVN-MTGVTGPIKFTS-DRDLI 399 (633)
Q Consensus 346 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~-f~g~~G~v~Fd~-~g~r~ 399 (633)
++..+.++|++++ ++++.|+++|++ +|+..
T Consensus 297 ------------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~ 328 (334)
T cd06327 297 ------------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMV 328 (334)
T ss_pred ------------------------ChHHHHHhccccceeccCCCCceeeccccchh
Confidence 3667999999985 588999999987 66543
No 59
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.7e-33 Score=288.40 Aligned_cols=322 Identities=17% Similarity=0.150 Sum_probs=267.0
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCC-CC--cEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCc
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAIL-GG--TKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQF 106 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il-~g--~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~ 106 (633)
+||++.|++ +..|.....++++|++++|++||++ +| ++|+++++|+++++..+.+.+.+|+.+ +|.+|+|+.+
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 689999998 4567889999999999999999986 45 489999999999999999999999987 9999999999
Q ss_pred hhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHH
Q 006733 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALG 186 (633)
Q Consensus 107 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~ 186 (633)
+..+.. +++++..++|+|++.+.++.++...++++||+.|++..++.++++++++.+|+++++|+.|+.||+...+.++
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 998888 8999999999999988888877556799999999999999999999888899999999999999999999999
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChH-HHHHHHHHHHHcCCCCCCeEEEEeCccccccC
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI-WGLEVLNAAKHLRMMESGYVWIVTDWLSSILD 265 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~-~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 265 (633)
+.+++.|++++....++ .+..|++.++.++++.++|+|++.+... +...++++++++|+... ++..........
T Consensus 160 ~~l~~~G~~vv~~~~~~--~~~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~ 234 (347)
T cd06336 160 AAWEAAGGKVVSEEPYD--PGTTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG---FLSCTGDKYDEL 234 (347)
T ss_pred HHHHHcCCEEeeecccC--CCCcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc---EEeccCCCchHH
Confidence 99999999999888887 5678999999999999999999998888 99999999999998753 332222111100
Q ss_pred CCccccccccccccceEEEeeecC----CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcC
Q 006733 266 TDSQLHSEKMDDIQGVLTLRMYTQ----SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQG 341 (633)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~ 341 (633)
. .....+...|++...+..+ ..+..++|.++|+++|+ ..++.+...+||+++++++|++++...
T Consensus 235 ~----~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~p~~~~~~~y~~~~~~~~Al~~ag~~- 302 (347)
T cd06336 235 L----VATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYG-------EPPNSEAAVSYDAVYILKAAMEAAGSV- 302 (347)
T ss_pred H----HHhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHC-------CCCcHHHHHHHHHHHHHHHHHHhcCCC-
Confidence 1 0112245678887776544 46778999999999986 236778899999999999999986321
Q ss_pred CCcccccCcccccccCCCcccccccccCchHHHHHH-HH-------hccccccccceEEccCCCCCCC
Q 006733 342 GNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDN-IL-------QVNMTGVTGPIKFTSDRDLINP 401 (633)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~-l~-------~~~f~g~~G~v~Fd~~g~r~~~ 401 (633)
+...+.+. ++ ..+|.++.|.+.||++|+...+
T Consensus 303 ----------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 342 (347)
T cd06336 303 ----------------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGP 342 (347)
T ss_pred ----------------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccC
Confidence 13333333 33 2578899999999999997644
No 60
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=100.00 E-value=3.6e-33 Score=286.61 Aligned_cols=332 Identities=22% Similarity=0.287 Sum_probs=275.5
Q ss_pred eEEEEEEeecCC---ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCceEEEcCCch
Q 006733 32 VLNIGAVFALNS---TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLE-NETVAIIGPQFS 107 (633)
Q Consensus 32 ~i~IG~l~p~~~---~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~-~~v~aviG~~~s 107 (633)
+|+||++.|++. ..|.....++++|++++|++||+ +|++|+++++|+.+++..+++.+.+++. ++|.+|+|+.++
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi-~G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s 79 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGI-NGRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSS 79 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEE-TTEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCc-CCccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCc
Confidence 699999999983 45678899999999999999998 5999999999999999999999999998 699999999999
Q ss_pred hhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHH-HHcCCcEEEEEEecCCCcchhHHHHH
Q 006733 108 VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAALG 186 (633)
Q Consensus 108 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~d~~~g~~~~~~~~ 186 (633)
..+.++++++...++|+|++.+..+ ...++++||+.|++..++.++++++ ++++.+++++|+.++++|....+.++
T Consensus 80 ~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~ 156 (343)
T PF13458_consen 80 AQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFR 156 (343)
T ss_dssp HHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHH
Confidence 9999999999999999999654442 2456899999999999999999985 55899999999999999999999999
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCC
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT 266 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 266 (633)
+.+++.|++++....++ .+..++..+++++++.++|+|++.+...++..+++++.+.|+..+.+..+....+.....
T Consensus 157 ~~~~~~G~~vv~~~~~~--~~~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~- 233 (343)
T PF13458_consen 157 KALEAAGGKVVGEIRYP--PGDTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDASLQ- 233 (343)
T ss_dssp HHHHHTTCEEEEEEEE---TTSSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHHHH-
T ss_pred HHHhhcCceeccceecc--cccccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHHHH-
Confidence 99999999998888887 566899999999999999999999999999999999999998754444443332221111
Q ss_pred CccccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCc
Q 006733 267 DSQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNI 344 (633)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~ 344 (633)
.......+|++....+.+ +.+..++|.++|++.++. ...++.++..+||++.+++.|++++.. .
T Consensus 234 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~yda~~~~~~al~~~g~----~ 299 (343)
T PF13458_consen 234 -----QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGE-----EPPPSLYAAQGYDAARLLAQALERAGS----L 299 (343)
T ss_dssp -----HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSS-----TGGTCHHHHHHHHHHHHHHHHHHHHTS----H
T ss_pred -----HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCC-----CCCCchhHHHHHHHHHHHHHHHHHhCC----C
Confidence 112246778888887665 467889999999999962 124788999999999999999998621 1
Q ss_pred ccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEee
Q 006733 345 SFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVI 409 (633)
Q Consensus 345 ~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~ 409 (633)
+++.+.++|++++|+|+.|++.|++.++.....+.|.+++
T Consensus 300 -------------------------~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~ 339 (343)
T PF13458_consen 300 -------------------------DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVK 339 (343)
T ss_dssp -------------------------HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEE
T ss_pred -------------------------CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEe
Confidence 4899999999999999999999987666677888888887
No 61
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=100.00 E-value=6.4e-33 Score=284.70 Aligned_cols=322 Identities=19% Similarity=0.171 Sum_probs=266.2
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
+||++.|++ +..|.....++++|+++||++||+ +|+++++++.|+++++..+++++++++.+ +|.+|||+.++..
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 699999998 355778899999999999999988 68999999999999999999999999997 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecCCCcchhHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDHGRNGIAALG 186 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~~~g~~~~~~~~ 186 (633)
+.+++++++..+||+|++.+.++.+.+ ..++++||+.|++..+..++++++++. +|+++++++.++++|....+.++
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~ 159 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFK 159 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHH
Confidence 999999999999999998887777765 568999999999999999999998876 49999999999999999999999
Q ss_pred HHHhhcC--cEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCcccccc
Q 006733 187 DKLAEKR--CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSIL 264 (633)
Q Consensus 187 ~~~~~~g--~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 264 (633)
+.+++.| +.++....++ ...+++..++.++++.++|+|++.+...+...+++++++.|+.. +..|+++.+....
T Consensus 160 ~~~~~~g~~~~~v~~~~~~--~~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~- 235 (346)
T cd06330 160 AALKRLRPDVEVVSEQWPK--LGAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAPE- 235 (346)
T ss_pred HHHHHhCCCCeecccccCC--CCCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeeccchhh-
Confidence 9999885 5555444443 45679999999999999999999998899999999999999864 5567776643221
Q ss_pred CCCccccccccccccceEEEeee----cCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhc
Q 006733 265 DTDSQLHSEKMDDIQGVLTLRMY----TQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQ 340 (633)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~----~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~ 340 (633)
.. ....+..+|++..... .+..+..++|.++|+++++ ..++.+...+||++.++++|++++...
T Consensus 236 -~~----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g-------~~p~~~~~~~y~a~~~l~~a~~~a~~~ 303 (346)
T cd06330 236 -LA----PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYG-------DYPTYGAYGAYQAVMALAAAVEKAGAT 303 (346)
T ss_pred -hh----hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHC-------CCCChHHHHHHHHHHHHHHHHHHhcCC
Confidence 10 1122455676554321 1146789999999999986 344667889999999999999987543
Q ss_pred CCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCC
Q 006733 341 GGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRD 397 (633)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~ 397 (633)
... .+ .+.+.++|++.+|.|+.|++.|+++.+
T Consensus 304 ~~~------------------------~~-~~~v~~al~~~~~~~~~G~~~f~~~~~ 335 (346)
T cd06330 304 DGG------------------------AP-PEQIAAALEGLSFETPGGPITMRAADH 335 (346)
T ss_pred CCC------------------------Cc-HHHHHHHHcCCCccCCCCceeeecCCC
Confidence 111 11 257999999999999999999988543
No 62
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=100.00 E-value=7.8e-33 Score=282.11 Aligned_cols=324 Identities=15% Similarity=0.186 Sum_probs=265.1
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
+||+++|++ +..|.....|+++|++++| +++ +|++|+++++|+++++..+++++.+|+.+ +|.+|+|+.++..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~in--ggi-~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~ 77 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLG--GKL-GGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNV 77 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhC--Ccc-CCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHH
Confidence 699999998 4567788999999999998 666 69999999999999999999999999977 9999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (633)
+.++++++...++|+|++++..+.+.+ ..+||+||+.|++..+..++++++...+|+++++++.|+.||+...+.+++.
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~ 157 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRT 157 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHH
Confidence 999999999999999998766665654 3579999999999999999999998899999999999999999988888887
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCc
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (633)
++ .++.....++ .+.+|+..++.++++.++|+|++.........++++++++|+.. ...+++....... +..
T Consensus 158 ~~---~~v~~~~~~~--~~~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~-~~~- 229 (333)
T cd06359 158 FK---GEVVGEVYTK--LGQLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEE-DTL- 229 (333)
T ss_pred hC---ceeeeeecCC--CCCcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCH-HHH-
Confidence 64 3555555554 46679999999999999999999888888999999999999853 3345554433211 110
Q ss_pred cccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCccc
Q 006733 269 QLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (633)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~ 346 (633)
+...+..+|++....+.+ +.+..++|.++|+++++ ..++.+...+||+++++++|++++..+.
T Consensus 230 ---~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~A~~~ag~~~----- 294 (333)
T cd06359 230 ---PAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYG-------RLPTLYAAQAYDAAQLLDSAVRKVGGNL----- 294 (333)
T ss_pred ---HhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhC-------CCCcHHHHHHHHHHHHHHHHHHHhcCCC-----
Confidence 122345678887776665 46789999999999986 3467888999999999999999863210
Q ss_pred ccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEE
Q 006733 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVI 406 (633)
Q Consensus 347 ~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~ 406 (633)
.++..+.++|++..|+|++|++.|+++|+.. ..+.++
T Consensus 295 ----------------------~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~-~~~~~~ 331 (333)
T cd06359 295 ----------------------SDKDALRAALRAADFKSVRGAFRFGTNHFPI-QDFYLR 331 (333)
T ss_pred ----------------------CCHHHHHHHHhcCccccCccceEECCCCCcc-eeEEEE
Confidence 0378899999999999999999999988743 334443
No 63
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=100.00 E-value=2.1e-32 Score=281.18 Aligned_cols=340 Identities=14% Similarity=0.092 Sum_probs=272.3
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||+++|+| +..|.....|+++|+++||++||+ .|++|+++++|+.+++..++.++.+|+++ +|.+|+|+.++..
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 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGV-LGRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSS 79 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCC-CCeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHH
Confidence 699999998 567889999999999999999998 48999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~ 189 (633)
+.++.+++...++|++++.+... + ...+++|++.+....+..++++++.+.+-+++++|+.|++||+...+.+++.+
T Consensus 80 ~~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g~~~~~~~~~~~ 156 (360)
T cd06357 80 RKAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYPYESNRIMRDLL 156 (360)
T ss_pred HHHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcchHHHHHHHHHHH
Confidence 99999999999999998654321 1 12367888888877778889998876666899999999999999999999999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCcc
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (633)
++.|++++....++...+..|+..++.++++.++|+|++.+...++..++++++++|+.... ..+.+...... ...
T Consensus 157 ~~~G~~vv~~~~~~~~~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~-~~~~~~~~~~~-~~~-- 232 (360)
T cd06357 157 EQRGGEVLGERYLPLGASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPAR-MPIASLTTSEA-EVA-- 232 (360)
T ss_pred HHcCCEEEEEEEecCCCchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccC-ceeEEeeccHH-HHh--
Confidence 99999998765566434588999999999999999999999999999999999999987542 22333221110 110
Q ss_pred ccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccc
Q 006733 270 LHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFS 347 (633)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~ 347 (633)
....+..+|+++...+.+ +.+..++|.++|+++|+. ...++.+...+||+++++++|++++...
T Consensus 233 --~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~-----~~~~~~~~~~~yda~~~l~~Al~~ag~~------- 298 (360)
T cd06357 233 --AMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGE-----DAPVSACAEAAYFQVHLFARALQRAGSD------- 298 (360)
T ss_pred --hcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCC-----CCCCCcHHHHHHHHHHHHHHHHHHcCCC-------
Confidence 112256778888765533 467889999999999862 1234667899999999999999986321
Q ss_pred cCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEe-ecCCeeEEe
Q 006733 348 EDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINV-IGTGSRRIG 417 (633)
Q Consensus 348 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~-~~~~~~~vg 417 (633)
++..+.++|++.+|+|+.|.+.|+.+++.......+.++ +++.+..+.
T Consensus 299 ----------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 299 ----------------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred ----------------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 378899999999999999999999876544445556666 455555554
No 64
>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=3.1e-32 Score=277.21 Aligned_cols=315 Identities=14% Similarity=0.116 Sum_probs=258.8
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHh-cCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVN-SNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN-~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~ 108 (633)
|||++.|++ +..|.....|+++|++++| +.||+ +|++|++++.|++++|..++.++.+|+++ +|.+|+|+.+|.
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 4567889999999999995 45666 69999999999999999999999999998 999999999999
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGD 187 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (633)
.+.++.++++..++|+|++.++++.+.. ..++|+||+.+++..+...+++++... ++++++|+.+++||+...+.+++
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 9999999999999999998888888776 346899999988888888888887665 89999999999999999999999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChH-HHHHHHHHHHHcCCCCCCeEEEEeCccccccCC
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI-WGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT 266 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~-~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 266 (633)
.+++.|++++....++ .+..|+..++.++++.++|+|++..... +...+++++...|+... .............
T Consensus 159 ~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~~ 233 (333)
T cd06328 159 ALEKLGAAIVTEEYAP--TDTTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIE---ITLAGDILANLTM 233 (333)
T ss_pred HHHhCCCEEeeeeeCC--CCCcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCe---EEecccccCcccc
Confidence 9999999999888887 5678999999999999999998875554 66777888887776532 2222211111110
Q ss_pred CccccccccccccceEEEeeec-CCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcc
Q 006733 267 DSQLHSEKMDDIQGVLTLRMYT-QSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (633)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~ 345 (633)
........|+.....+. +.++..+.|.++|+++|+ ..++.++..+||++.++++|++++..
T Consensus 234 -----~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g-------~~p~~~~~~~y~a~~~l~~Ai~~ag~------ 295 (333)
T cd06328 234 -----YKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFG-------SPPDLFTAGGMSAAIAVVEALEETGD------ 295 (333)
T ss_pred -----ccccccccceeeeecCCCCCCHHHHHHHHHHHHHhC-------CCcchhhHHHHHHHHHHHHHHHHhCC------
Confidence 11223455666555544 667888999999999986 34677899999999999999998631
Q ss_pred cccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCC
Q 006733 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDR 396 (633)
Q Consensus 346 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g 396 (633)
.++..+.++|++..|+++.|+++|+.++
T Consensus 296 -----------------------~~~~~v~~aL~~~~~~~~~g~~~f~~~~ 323 (333)
T cd06328 296 -----------------------TDTEALIAAMEGMSFETPKGTMTFRKED 323 (333)
T ss_pred -----------------------CCHHHHHHHHhCCeeecCCCceEECccc
Confidence 0488999999999999999999999643
No 65
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=100.00 E-value=3.2e-32 Score=278.56 Aligned_cols=323 Identities=16% Similarity=0.236 Sum_probs=272.0
Q ss_pred EEEEEeecCC---ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALNS---TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~~---~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||+++|++. ..|.....++++|++++| +++ +|++|+++++|+++++..+++++.+|+.+ +|.+|||+.++..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~ 77 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAG--GKL-GGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGE 77 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhC--CCc-CCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHh
Confidence 6999999984 445789999999999986 444 79999999999999999999999999975 8999999999888
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (633)
+.++.+++...++|+|++.+.++.++. ..+|++||+.|++..++..+++++.+.+|+++++++.++.||+...+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~ 157 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEA 157 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 888899999999999999888877776 3479999999999999999999998889999999999999999999999999
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCc
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (633)
+++.|+++.....++ .+..|++.++.++++.++|+|++.....++..+++++++.|+.. +..+++++........
T Consensus 158 ~~~~G~~v~~~~~~~--~~~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~-- 232 (336)
T cd06360 158 FTEAGGKIVKELWVP--FGTSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTDGTTL-- 232 (336)
T ss_pred HHHcCCEEEEEEecC--CCCcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccCHHHH--
Confidence 999999998777776 46789999999999999999999988999999999999999853 2346665543221111
Q ss_pred cccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCccc
Q 006733 269 QLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (633)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~ 346 (633)
....+..+|++...++.+ +.+..+.|.++|+++++ ..++.++..+||+++++++|++++....
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 223356678877766554 46789999999999986 3567889999999999999999963221
Q ss_pred ccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCC
Q 006733 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINP 401 (633)
Q Consensus 347 ~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~ 401 (633)
.++..+.++|++.+|.|..|++.|+++|++...
T Consensus 298 ----------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~ 330 (336)
T cd06360 298 ----------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQD 330 (336)
T ss_pred ----------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccc
Confidence 137789999999999999999999999987654
No 66
>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=2.2e-32 Score=302.34 Aligned_cols=354 Identities=33% Similarity=0.627 Sum_probs=293.2
Q ss_pred HHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHH
Q 006733 215 LLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEK 294 (633)
Q Consensus 215 l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 294 (633)
+..++....+++++.+.+..+..++..+.++||....|+|+.++......+.... ....+...|.+....+.|.+...
T Consensus 6 ~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~s~~~ 83 (656)
T KOG1052|consen 6 LLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDEL--YSLIDVMNGVLGLRGHIPRSELL 83 (656)
T ss_pred HHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhccccc--ccchhheeeEEeeccCCCccHHH
Confidence 3444556788888888899999999999999999999999999976655554332 33456777888888888888888
Q ss_pred HHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcccccccCCCcccccccccCchHHH
Q 006733 295 RKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKML 374 (633)
Q Consensus 295 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l 374 (633)
+.|..+++.. . .....++..+||++++++.|++.+.. . .....+|.....|.++..+
T Consensus 84 ~~~~~~~~~~-~-------~~~~~~~~~~~D~~~~~a~~~~~~~~-~--------------~~~~~~~~~~~~~~~~~~~ 140 (656)
T KOG1052|consen 84 QNFVTRWQTS-N-------VELLVYALWAYDAIQALARAVESLLN-I--------------GNLSLSCGRNNSWLDALGV 140 (656)
T ss_pred HHHHHHHhhc-c-------ccccchhhHHHHHHHHHHHHHHHhhc-C--------------CCCceecCCCCcccchhHH
Confidence 9999888764 1 33467799999999999999998764 1 1234566655667778899
Q ss_pred HHHHHhcccccc---ccceEEccCCCCCCCcEEEEEeecCCeeEEeeecCCCCCcccCCccccCCCCCCCCCccccceee
Q 006733 375 LDNILQVNMTGV---TGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGLSVVPPEALYKEPSNRSASSQHLYSAV 451 (633)
Q Consensus 375 ~~~l~~~~f~g~---~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~ 451 (633)
.+.++.....++ +|.+.++.++.+....++|+++.+.....||.|++..| ..|.
T Consensus 141 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-----------------------~~i~ 197 (656)
T KOG1052|consen 141 FNFGKKLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-----------------------ENIS 197 (656)
T ss_pred HHHHHhhhhhccccceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-----------------------ceee
Confidence 999998865544 56788877888899999999999888888999998653 3678
Q ss_pred eCCCCCCCCCcccccCCCceEEEEecCCCCCcCcEEecC------CCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCC
Q 006733 452 WPGQTTQKPRGWVFPNNGRHLRIGVPSQVIYPEFVAQGK------GTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGH 525 (633)
Q Consensus 452 w~g~~~~~p~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~------~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~ 525 (633)
||++....|.++..+..+++++|++... +||....+ ++.++.|+|+||++++++.+||++++..++.+.|.
T Consensus 198 ~~~~~~~~~~~~~~~~~~~~l~v~~~~~---~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~ 274 (656)
T KOG1052|consen 198 WPGKDYFVPKGWFFPTNGKPLRVGVVTE---PPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGS 274 (656)
T ss_pred ccCCcccCcCCccccCCCceEEEEEecc---CCceeeeecccccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCC
Confidence 9999999999888777789999999964 44444322 35689999999999999999999777777765444
Q ss_pred --CCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEecCCCCcCccccccCCchhHHHHHHHHHH
Q 006733 526 --NSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNPFTPKMWCVTGIFFL 603 (633)
Q Consensus 526 --~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~l~pf~~~~W~~~~~~~~ 603 (633)
++++|+|+++++.+|++|++ ++++++.+|++++|||.||+..+++++++++......+.|++||+..+|++++++++
T Consensus 275 ~~~~g~~~g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l 353 (656)
T KOG1052|consen 275 RDPNGNWDGLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLL 353 (656)
T ss_pred CCCCCChhHHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHH
Confidence 44799999999999999999 999999999999999999999999999999885444999999999999999999999
Q ss_pred HHHHHhhhhhcccCCCC
Q 006733 604 VVGVVVWILEHRLNDDF 620 (633)
Q Consensus 604 ~~~~~~~~~~~~~~~~~ 620 (633)
++++++|+++|+.|.+|
T Consensus 354 ~~~~~~~~~~~~~~~~~ 370 (656)
T KOG1052|consen 354 LVGLLLWILERLSPYEL 370 (656)
T ss_pred HHHHHHHHHhccccccC
Confidence 99999999999999999
No 67
>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=4.5e-32 Score=276.69 Aligned_cols=317 Identities=24% Similarity=0.328 Sum_probs=250.2
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHH-hcCceEEEcCCchhhHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN-YSRFLGMVEALTLL-ENETVAIIGPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~-~~~~~a~~~~~~li-~~~v~aviG~~~s~~~~ 111 (633)
+||++++... .....|+++|++++|..++++++..+.+.+.+.+ +++..++..+|+++ .++|.+|+||.++..+.
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 4888888764 5679999999999999998877766666666544 79999999999999 77999999999999999
Q ss_pred HHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHh
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLA 190 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~ 190 (633)
++++++..++||+|++.+..+.+++ ..++++||+.|++..++.++++++.+++|++|++||+++++.... +.+.+...
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~~~l-~~~~~~~~ 156 (328)
T cd06351 78 AVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGLSRL-QELLDESG 156 (328)
T ss_pred HHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHHHHH-HHHHHhhc
Confidence 9999999999999999888877765 568999999999999999999999999999999999888744332 22223333
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcCCC-eEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCcc
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMS-RILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~-~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (633)
..+..+... .+.. +..+++..++++++.++ ++|++++....+..++++|.++||++++|+||+++......+.
T Consensus 157 ~~~~~v~~~-~~~~--~~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~--- 230 (328)
T cd06351 157 IKGIQVTVR-RLDL--DDDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDIDL--- 230 (328)
T ss_pred ccCceEEEE-EecC--CchhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCccccch---
Confidence 334454443 3442 33379999999999888 6655555559999999999999999999999999976554332
Q ss_pred ccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccC
Q 006733 270 LHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSED 349 (633)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~ 349 (633)
........|+++++...+..+..++|..+|.... .......+...++.+||+++++
T Consensus 231 --~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~d~~~~~------------------- 286 (328)
T cd06351 231 --EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEES---PGVNLRAPIYDAALLYDAVLLL------------------- 286 (328)
T ss_pred --hhhccCCcceEEEEEeCCCchHHHHHHHhhhhcc---CCCCcCccchhhHhhhcEEEEE-------------------
Confidence 3345677899999999999998999999983322 1222223334444555543211
Q ss_pred cccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEee-cCCeeEEeeecC
Q 006733 350 SKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVI-GTGSRRIGYWSN 421 (633)
Q Consensus 350 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~-~~~~~~vg~w~~ 421 (633)
+|.+.||++|+|.++.++|++++ +.++.+||.|+.
T Consensus 287 -------------------------------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 287 -------------------------------------TGTVSFDEDGVRSNFTLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred -------------------------------------EeeEEECCCCcccceEEEEEEecCCCCceEEEEecC
Confidence 89999999999999999999999 889999999984
No 68
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.5e-32 Score=277.71 Aligned_cols=335 Identities=14% Similarity=0.132 Sum_probs=266.6
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||++.|++ +..|.....|+++|+++||+.||+ +|++|+++++|++++|..++.++.+|+.+ +|.+|+ +.+|..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI-~Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~ 78 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGI-NGVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGI 78 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCc-CCeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHH
Confidence 689999998 567888999999999999999998 59999999999999999999999999988 787765 577888
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcC-----CcEEEEEEecCCCcchhHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFG-----WRNVIALYVDDDHGRNGIA 183 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~-----w~~v~ii~~d~~~g~~~~~ 183 (633)
+.++.+++..++||+|+++++++.+++ ..++|+||+.|++..++.++++++.+.+ .+++++|+.|+.||+...+
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~ 158 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIE 158 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHH
Confidence 889999999999999998776666663 5689999999999999999999986654 7999999999999999999
Q ss_pred HHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccc
Q 006733 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSI 263 (633)
Q Consensus 184 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 263 (633)
.+++.+++.|++++....++ .+.+|++.++.+++..++|+|++.+...++..++++++++|+... ++.+.+....
T Consensus 159 ~~~~~~~~~G~~vv~~~~~~--~~~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~ 233 (351)
T cd06334 159 ALKALAEKLGFEVVLEPVPP--PGPNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDDK---FIGNWWSGDE 233 (351)
T ss_pred HHHHHHHHcCCeeeeeccCC--CCcccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCce---EEEeeccCcH
Confidence 99999999999999888877 567899999999999999999999999999999999999998532 5554332211
Q ss_pred cCCCccccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcC
Q 006733 264 LDTDSQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQG 341 (633)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~ 341 (633)
... .......+|+++..++.+ +.+..++|.+.|+++++..+. ....++.++..+||+++++++||+++.+..
T Consensus 234 -~~~----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~-~~~~~~~~~~~gy~a~~~l~~Al~~ag~~~ 307 (351)
T cd06334 234 -EDV----KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGN-DKEIGSVYYNRGVVNAMIMVEAIRRAQEKG 307 (351)
T ss_pred -HHH----HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCC-cccccccHHHHHHHHHHHHHHHHHHHHHhc
Confidence 110 222355678877766544 578899999999998863111 012345788999999999999999997654
Q ss_pred CCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCC
Q 006733 342 GNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRD 397 (633)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~ 397 (633)
....+.. .....+-+.-++.+++....|+.|+++|....+
T Consensus 308 ~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~ 347 (351)
T cd06334 308 GETTIAG----------------EEQLENLKLDAARLEELGAEGLGPPVSVSCDDH 347 (351)
T ss_pred CCCCCcH----------------HHHHHhhhhhhhhhhhcCcccccCCceeccccC
Confidence 3211000 000001223456677778889999999987544
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=8.5e-32 Score=275.83 Aligned_cols=324 Identities=17% Similarity=0.192 Sum_probs=261.8
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||+++|++ +..|.....|+++|++++|++||+ .|++|+++++|+.+++..+.+.+.+|+++ +|.+|+|+.++..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi-~G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGV-LGRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPV 79 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCc-CCeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHH
Confidence 699999998 467888999999999999999998 58999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc--CCCCceEEecCChHHHHHHHHHHH-HHcCCcEEEEEEecCCCcchhHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSS--LQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAALG 186 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~--~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~d~~~g~~~~~~~~ 186 (633)
+.++.++++..+||+|++.++.+.+++ ..++++||+.|++..++.++++++ ++.+|++|+++|.+++||+...+.++
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 999999999999999998877766654 346899999999999999999986 45569999999999999999999999
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCC
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDT 266 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 266 (633)
+.+++.|++++....++ .+..|++..++++++.++++|++.+...+...+++++++.|+..+ ++...... ....
T Consensus 160 ~~~~~~G~~v~~~~~~~--~~~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~-~~~~ 233 (347)
T cd06335 160 AALAARGLKPVAVEWFN--WGDKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVP---IISHWGLS-GGNF 233 (347)
T ss_pred HHHHHcCCeeEEEeeec--CCCccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCc---EecccCCc-Cchh
Confidence 99999999999888887 457899999999999999999999999999999999999998543 33322111 1111
Q ss_pred CccccccccccccceEEEeeec---CCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCC
Q 006733 267 DSQLHSEKMDDIQGVLTLRMYT---QSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGN 343 (633)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~ 343 (633)
. ....+...|+++...+. +..+..++|.++|+++++..... ...++.++..+||+++++++|++++...
T Consensus 234 ~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~~~~aYd~~~~l~~A~~~ag~~--- 305 (347)
T cd06335 234 I----EGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA-DIPAPVGAAHAYDAVHLLAAAIKQAGST--- 305 (347)
T ss_pred h----hccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc-ccCcchhHHHHHHHHHHHHHHHHHhcCC---
Confidence 0 11224457776664432 25678899999999998631110 1134556788999999999999986321
Q ss_pred cccccCcccccccCCCcccccccccCchHHHHHHHHhc--cccccccc--eEEccCCCC
Q 006733 344 ISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQV--NMTGVTGP--IKFTSDRDL 398 (633)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~--~f~g~~G~--v~Fd~~g~r 398 (633)
....+.++|+++ .+.|+.|. +.|++..++
T Consensus 306 --------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h~ 338 (347)
T cd06335 306 --------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSKEDHE 338 (347)
T ss_pred --------------------------CHHHHHHHHHhccCCceeeecccCCCCChhhcc
Confidence 246788999876 46788774 467765543
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=1e-31 Score=273.51 Aligned_cols=317 Identities=11% Similarity=0.070 Sum_probs=259.1
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||++.|++ +..|.....++++|+++||+.||+ .|++|+++++|+.++|..++.++.+|+.+ +|.+|||+.+|..
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi-~Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~ 79 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGI-LGREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSAS 79 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCC-CCceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHH
Confidence 699999999 566889999999999999999998 59999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~ 189 (633)
+.++.++++..++|+|.+..... ....+|+||+.+++..++.++++++.+.+-+++++|+.|++||....+.+++.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~ 156 (334)
T cd06356 80 REAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIV 156 (334)
T ss_pred HHHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHH
Confidence 99999999999999998533322 123489999999999999999999876655899999999999999999999999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCC-CCCCeEEEEeCccccccCCCc
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM-MESGYVWIVTDWLSSILDTDS 268 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~-~~~~~~~i~~~~~~~~~~~~~ 268 (633)
++.|++++....++ .+..|++.++++++..++|+|++.....+...+++++++.|+ ..+ .+............
T Consensus 157 ~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~---~~~~~~~~~~~~~~- 230 (334)
T cd06356 157 EENGGEVVGEEFIP--LDVSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGLGNIP---MASSTLGAQGYEHK- 230 (334)
T ss_pred HHcCCEEEeeeecC--CCchhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCCccCc---eeeeecccchhHHh-
Confidence 99999999888887 567899999999999999999998888889999999999998 322 22221110100000
Q ss_pred cccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCccc
Q 006733 269 QLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (633)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~ 346 (633)
.-.....+|++....+.+ +.+..++|.++|+++++. ...++.+...+||+++++++|++++.+.
T Consensus 231 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~p~~~~~~~~~y~a~~~~~~A~~~ag~~------ 296 (334)
T cd06356 231 ---RLKPPALKDMYATANYIEELDTPANKAFVERFRAKFPD-----APYINEEAENNYEAIYLYKEAVEKAGTT------ 296 (334)
T ss_pred ---ccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCC-----CCCCCchhHHHHHHHHHHHHHHHHHCCC------
Confidence 001245677777665544 356789999999999862 1123567899999999999999986321
Q ss_pred ccCcccccccCCCcccccccccCchHHHHHHHHh-ccccccccceEEccCCC
Q 006733 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQ-VNMTGVTGPIKFTSDRD 397 (633)
Q Consensus 347 ~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~-~~f~g~~G~v~Fd~~g~ 397 (633)
++..|.++|++ ..|+|+.|++.|+++++
T Consensus 297 -----------------------~~~~v~~aL~~~~~~~~~~g~~~~~~~~h 325 (334)
T cd06356 297 -----------------------DRDAVIEALESGLVCDGPEGKVCIDGKTH 325 (334)
T ss_pred -----------------------CHHHHHHHHHhCCceeCCCceEEEecCCC
Confidence 37889999997 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=6.8e-32 Score=275.18 Aligned_cols=316 Identities=17% Similarity=0.160 Sum_probs=260.0
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||++.|++ +..|.....|+++|+++||+.||+ .|++|+++++|+++++..++.++.+|+.+ +|.+|||+.++..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi-~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~ 79 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGI-LGREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAV 79 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCc-CCcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHH
Confidence 699999998 457888999999999999999998 58999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHH-HHcCCcEEEEEEecCCCcchhHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV-DYFGWRNVIALYVDDDHGRNGIAALGDK 188 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (633)
+.++.++++ .++|+|++.+.+.. ...+++||+.+++..++.++++++ ++.+|++|++++.++.||+...+.+++.
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~ 155 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRY 155 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999 99999997543321 245899999999888888788765 5679999999999999999999999999
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC-ccccccCCC
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD-WLSSILDTD 267 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~-~~~~~~~~~ 267 (633)
+++.|++|+....++ .+..|++.++.++++.++|+|++.....+...+++++++.|+..+ ++... .+... ..
T Consensus 156 ~~~~G~~v~~~~~~~--~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~-~~- 228 (333)
T cd06358 156 IAELGGEVVGEEYVP--LGTTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDEN-ML- 228 (333)
T ss_pred HHHcCCEEeeeeeec--CChHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHH-HH-
Confidence 999999999887787 567899999999999999999998888888899999999998764 33222 11111 00
Q ss_pred ccccccccccccceEEEeeecC--CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcc
Q 006733 268 SQLHSEKMDDIQGVLTLRMYTQ--SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (633)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~ 345 (633)
........+|++....+.+ ..+..++|.++|+++|+. ....++.+...+||+++++++|+++...
T Consensus 229 ---~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~----~~~~~~~~~~~~yda~~~~~~A~~~ag~------ 295 (333)
T cd06358 229 ---LASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGD----DAPPLNSLSESCYEAVHALAAAAERAGS------ 295 (333)
T ss_pred ---HhcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCC----CCCCCChHHHHHHHHHHHHHHHHHHhCC------
Confidence 0111134577766654433 567899999999999862 1124567788999999999999987421
Q ss_pred cccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCC
Q 006733 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRD 397 (633)
Q Consensus 346 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~ 397 (633)
. ++..|.++|++.+|+|++|.+.|++++.
T Consensus 296 ----------------------~-~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 296 ----------------------L-DPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred ----------------------C-CHHHHHHHhccCeeeCCCcceEEccccc
Confidence 1 3789999999999999999999998854
No 72
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=100.00 E-value=7.1e-31 Score=268.38 Aligned_cols=319 Identities=18% Similarity=0.243 Sum_probs=263.0
Q ss_pred EEEEEeecCC---ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALNS---TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~~---~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
+||+++|++. ..|.....++++|++++| +++ +|++++++++|+.+++..+.+.+.+++.+ +|.+|||+.++..
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 6999999984 456788999999999997 455 69999999999999999999999999987 9999999998888
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccC-CCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSL-QYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~-~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (633)
+.++.+.+...++|+|++++..+.+++. .+|++||+.|++..++..+++++...+|+++++++.++.+|....+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~ 157 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRT 157 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHh
Confidence 8888899999999999988777777663 479999999999999999999999899999999999899999999999888
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCc
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (633)
++ ..+.....++ ....++..+++++++.++|+|++......+..++++++++|+.. ...++++..+......
T Consensus 158 ~~---~~~~~~~~~~--~~~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~-- 229 (333)
T cd06332 158 FK---GEVVEEVYTP--LGQLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQDTL-- 229 (333)
T ss_pred hc---EEEeeEEecC--CCCcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCHHHH--
Confidence 86 3555455555 34568999999999999999999888889999999999999843 3446665543322111
Q ss_pred cccccccccccceEEEeeecCC--ChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCccc
Q 006733 269 QLHSEKMDDIQGVLTLRMYTQS--SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISF 346 (633)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~ 346 (633)
+...+..+|++...++.++ .+..++|.++|+++++ ..++.++..+||++++++.|++++...
T Consensus 230 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~yda~~~~~~a~~~ag~~------ 293 (333)
T cd06332 230 ---PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYG-------RVPSVYAAQGYDAAQLLDAALRAVGGD------ 293 (333)
T ss_pred ---HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhC-------CCCcHHHHHHHHHHHHHHHHHHHhcCC------
Confidence 2233567788877776653 5778999999999986 235678899999999999999986321
Q ss_pred ccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCC
Q 006733 347 SEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLIN 400 (633)
Q Consensus 347 ~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~ 400 (633)
..++..+.++|++.+|+|++|++.|+++|+...
T Consensus 294 ---------------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~ 326 (333)
T cd06332 294 ---------------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPIQ 326 (333)
T ss_pred ---------------------CCCHHHHHHHHhcCceecCccceeECCCCCccc
Confidence 113678999999999999999999999988543
No 73
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=100.00 E-value=2.4e-31 Score=258.79 Aligned_cols=352 Identities=15% Similarity=0.134 Sum_probs=242.9
Q ss_pred EEEEEEeecCCc---cchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCceEEEcCCchh
Q 006733 33 LNIGAVFALNST---IGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLE-NETVAIIGPQFSV 108 (633)
Q Consensus 33 i~IG~l~p~~~~---~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~-~~v~aviG~~~s~ 108 (633)
||||+++++++. .+.....|.++|+++||++||++ |++|+.+++|.++|+..-.+.+.+|+. ++|.+|+|.++|.
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 799999999843 45678999999999999999997 899999999999999999999999986 5999999999999
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHH-HHHcCCcEEEEEEecCCCcchhHHHHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADI-VDYFGWRNVIALYVDDDHGRNGIAALGD 187 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~l-l~~~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (633)
+.+++.++.+.++-+++.+....-. +..|++|.+.+...++..-++++ ++++|.+|+.+|.+|+.|++..-..+++
T Consensus 80 sRKaVlPvvE~~~~LL~Yp~~YEG~---E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~r~ 156 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYPTQYEGF---ECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRIIRD 156 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE-S-----------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCceEEeccccccc---cCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHHHH
Confidence 9999999999999999975432221 33589999998888888888887 5788989999999999999999999999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCC
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTD 267 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 267 (633)
.+++.|.+++.+..++ .+.+++..++.+|++.+||+|+-..-+.....|+++.++.|+.... .=|.+...... +..
T Consensus 157 ~l~~~GgevvgE~Y~p--lg~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~~-~Pi~S~~~~E~-E~~ 232 (363)
T PF13433_consen 157 LLEARGGEVVGERYLP--LGATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPER-IPIASLSTSEA-ELA 232 (363)
T ss_dssp HHHHTT-EEEEEEEE---S-HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HH-HHT
T ss_pred HHHHcCCEEEEEEEec--CCchhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCccc-CeEEEEecCHH-HHh
Confidence 9999999999999998 6889999999999999999999988889999999999999988543 33444322211 110
Q ss_pred ccccccccccccceEEEeeec--CCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcc
Q 006733 268 SQLHSEKMDDIQGVLTLRMYT--QSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (633)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~ 345 (633)
.-..+...|.+....+- -++++.++|+++|+++|+. +..++.....+|.+|+++++|++++...
T Consensus 233 ----~~g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~-----~~v~s~~~eaaY~~v~l~a~Av~~ags~----- 298 (363)
T PF13433_consen 233 ----AMGAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGD-----DRVTSDPMEAAYFQVHLWAQAVEKAGSD----- 298 (363)
T ss_dssp ----TS-HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-T-----T----HHHHHHHHHHHHHHHHHHHHTS------
T ss_pred ----hcChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCC-----CCCCCcHHHHHHHHHHHHHHHHHHhCCC-----
Confidence 11224678888877654 4689999999999999973 3456677788999999999999997322
Q ss_pred cccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeecCCeeEEeeecCCCCC
Q 006733 346 FSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIGTGSRRIGYWSNHSGL 425 (633)
Q Consensus 346 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~~l 425 (633)
+...++++|...+|+.+.|.|.+|+.-+... ....||.++.+.
T Consensus 299 ------------------------d~~~vr~al~g~~~~aP~G~v~id~~n~H~~-----------l~~rIg~~~~dG-- 341 (363)
T PF13433_consen 299 ------------------------DPEAVREALAGQSFDAPQGRVRIDPDNHHTW-----------LPPRIGRVNADG-- 341 (363)
T ss_dssp -------------------------HHHHHHHHTT--EEETTEEEEE-TTTSBEE-----------B--EEEEE-TTS--
T ss_pred ------------------------CHHHHHHHhcCCeecCCCcceEEcCCCCeec-----------ccceEEEEcCCC--
Confidence 4889999999999999999999998332121 245577775532
Q ss_pred cccCCccccCCCCCCCCCccccceeeeCCCCCCCCCccc
Q 006733 426 SVVPPEALYKEPSNRSASSQHLYSAVWPGQTTQKPRGWV 464 (633)
Q Consensus 426 ~~~~~~~~~~~~~~~~~~~~~~~~i~w~g~~~~~p~~~~ 464 (633)
...|+|....+..|.++.
T Consensus 342 ---------------------~f~Iv~~s~~pv~PdPyl 359 (363)
T PF13433_consen 342 ---------------------QFDIVWESDEPVKPDPYL 359 (363)
T ss_dssp ----------------------EEEEEE-SS-B---TT-
T ss_pred ---------------------CEEEEEeCCCCCCCCCCC
Confidence 246778776766776654
No 74
>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=4.1e-32 Score=277.56 Aligned_cols=371 Identities=22% Similarity=0.355 Sum_probs=297.3
Q ss_pred CCCCCeEEEEEEeecC-----CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcC--ce
Q 006733 27 STIPPVLNIGAVFALN-----STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENE--TV 99 (633)
Q Consensus 27 ~~~~~~i~IG~l~p~~-----~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~--v~ 99 (633)
.+...+..+++++|+. ...|+....|+++|++++|+++.+|||+.++++.+|+.|++..+.+...+++..+ -.
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~ 115 (865)
T KOG1055|consen 36 TPSRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKL 115 (865)
T ss_pred CCCCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchh
Confidence 3445578888888885 2346788999999999999999999999999999999999999999999999874 44
Q ss_pred EEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCc
Q 006733 100 AIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHG 178 (633)
Q Consensus 100 aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g 178 (633)
.++|+ |+..+..++..+..++.-++++++++|.+++ ++||++||++|++..+....++++++++|++++.++.+.+--
T Consensus 116 mll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f 194 (865)
T KOG1055|consen 116 MLLGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVF 194 (865)
T ss_pred eeccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhh
Confidence 66676 9999999999999999999999999999998 789999999999999999999999999999999999877666
Q ss_pred chhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 179 RNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 179 ~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
....+.+...+.+.+++++.++.+. .|....++++++.+.++|+-..+...++.++.++++.+|-+..|+|++..
T Consensus 195 ~~~~~dl~~~~~~~~ieiv~~qsf~-----~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~g 269 (865)
T KOG1055|consen 195 SSTLNDLEARLKEAGIEIVFRQSFS-----SDPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLIG 269 (865)
T ss_pred cchHHHHHHhhhccccEEEEeeccc-----cCHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEEE
Confidence 6677888888889999999887765 45677789999999999999999999999999999999999999999876
Q ss_pred ccccc-----cCCCccccccccccccceEEEeee--cCC------ChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhh
Q 006733 259 WLSSI-----LDTDSQLHSEKMDDIQGVLTLRMY--TQS------SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYD 325 (633)
Q Consensus 259 ~~~~~-----~~~~~~~~~~~~~~~~g~~~~~~~--~~~------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yD 325 (633)
+.... .+.....-+++..+.+|.+++... ++. .-..++|+..+..+....+ .......++.++||
T Consensus 270 ~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~--~~~~~~~~~~~ayd 347 (865)
T KOG1055|consen 270 WYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHP--EETGGFQEAPLAYD 347 (865)
T ss_pred eeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhcccc--ccccCcccCchHHH
Confidence 44321 111122234566788888877542 221 1224666666665543211 11334567899999
Q ss_pred HHHHHHHHHHHhhhcCCCcccccCcccccccCCCcccccccccC-----chHHHHHHHHhccccccccceEEccCCCCCC
Q 006733 326 TLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFN-----GGKMLLDNILQVNMTGVTGPIKFTSDRDLIN 400 (633)
Q Consensus 326 av~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~-----~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~ 400 (633)
+++++|+|++++......- ..+ ..+++ -...++++|++++|+|++|.|.|.. |+|.
T Consensus 348 ~Iwa~ala~n~t~e~l~~~--------------~~~---l~~f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~-geR~- 408 (865)
T KOG1055|consen 348 AIWALALALNKTMEGLGRS--------------HVR---LEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GERM- 408 (865)
T ss_pred HHHHHHHHHHHHHhcCCcc--------------cee---ccccchhhhHHHHHHHHHhhcccccccccceEecc-hhhH-
Confidence 9999999999986543210 000 01111 1568999999999999999999988 9986
Q ss_pred CcEEEEEeecCCeeEEeeecCCCC
Q 006733 401 PAYEVINVIGTGSRRIGYWSNHSG 424 (633)
Q Consensus 401 ~~~~I~~~~~~~~~~vg~w~~~~~ 424 (633)
....|.|++++.++++|+|+...+
T Consensus 409 a~t~ieQ~qdg~y~k~g~Yds~~D 432 (865)
T KOG1055|consen 409 ALTLIEQFQDGKYKKIGYYDSTKD 432 (865)
T ss_pred HHHHHHHHhCCceEeecccccccc
Confidence 677999999999999999988654
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=99.98 E-value=2.6e-30 Score=265.63 Aligned_cols=331 Identities=14% Similarity=0.095 Sum_probs=256.5
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCC--cEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCch
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGG--TKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFS 107 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g--~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s 107 (633)
|||++.|+| +.+|.....+++++++++|..+++ +| ++|+++++|+.+++..++.++.+|+.+ +|.+|||+.+|
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 599999998 566888889999999999955444 45 589999999999999999999999987 99999999999
Q ss_pred hhHHHHHHhhccCCccEEeeccCCCCC-------ccCCCCceEEecCChHHHHHHHHHHHHHcC-CcEEEEEEecCCCcc
Q 006733 108 VIAHLVSHIANEFQVPLLSFAATDPSL-------SSLQYPFFVRTTQSDLYQMAAIADIVDYFG-WRNVIALYVDDDHGR 179 (633)
Q Consensus 108 ~~~~~va~~~~~~~iP~Is~~a~~~~l-------s~~~~~~~~r~~p~~~~~~~al~~ll~~~~-w~~v~ii~~d~~~g~ 179 (633)
..+.+++++++..+||+|++.+..+.+ ....++|+||+.+++..+..++++++++.+ ++++++++.++.||.
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~ 159 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGN 159 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhH
Confidence 999999999999999999875432211 113478999999999888889998888877 999999999999999
Q ss_pred hhHHHHH---HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEE
Q 006733 180 NGIAALG---DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIV 256 (633)
Q Consensus 180 ~~~~~~~---~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 256 (633)
...+.++ +.+++.|++++....++ .+.+|++.++++|+++++|+|++.+...++..++++++++|+..+ ++.
T Consensus 160 ~~~~~~~~~~~~~~~~G~~vv~~~~~~--~~~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~ 234 (357)
T cd06337 160 AFADPVIGLPAALADAGYKLVDPGRFE--PGTDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPK---IVT 234 (357)
T ss_pred HHHHhhhcccHHHHhCCcEEecccccC--CCCCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCC---eEE
Confidence 7766554 56677899999888887 567899999999999999999999999999999999999998654 343
Q ss_pred eCccccccCCCccccccccccccceEEEeeecCC--------ChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHH
Q 006733 257 TDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQS--------SEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLW 328 (633)
Q Consensus 257 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~ 328 (633)
........... ....+..+|++....+.|. ++..++|.++|+++|+. .+.....+.|++++
T Consensus 235 ~~~~~~~~~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g~-------~~~~~~~~~~~~~~ 303 (357)
T cd06337 235 IAKALLFPEDV----EALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATGR-------QWTQPLGYAHALFE 303 (357)
T ss_pred EeccccCHHHH----HHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhCC-------CccCcchHHHHHHH
Confidence 22111011110 1112334566655444332 23479999999999862 23445677999999
Q ss_pred HHHHHHHHhhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEe
Q 006733 329 LLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINV 408 (633)
Q Consensus 329 ~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~ 408 (633)
++++|++++... .++..|.++|++++|+++.|+++|+++ .. ....|..+
T Consensus 304 ~l~~Ai~~Ags~----------------------------~d~~~v~~aL~~~~~~~~~G~~~f~~~--~~-~~~~~~~~ 352 (357)
T cd06337 304 VGVKALVRADDP----------------------------DDPAAVADAIATLKLDTVVGPVDFGNS--PI-KNVAKTPL 352 (357)
T ss_pred HHHHHHHHcCCC----------------------------CCHHHHHHHHHcCCcccceeeeecCCC--CC-cccccccc
Confidence 999999986321 137789999999999999999999875 22 34455555
Q ss_pred ecCC
Q 006733 409 IGTG 412 (633)
Q Consensus 409 ~~~~ 412 (633)
+++.
T Consensus 353 ~~~~ 356 (357)
T cd06337 353 VGGQ 356 (357)
T ss_pred ccCC
Confidence 5543
No 76
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.97 E-value=1.1e-28 Score=252.44 Aligned_cols=320 Identities=14% Similarity=0.172 Sum_probs=256.5
Q ss_pred EEEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchh
Q 006733 33 LNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (633)
Q Consensus 33 i~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~ 108 (633)
|+||++.|++ +..|.....++++|+++||+.||+ .|++++++..|+++++..+.+.+.+++.+ +|.+|||+.++.
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 7999999999 455778899999999999999988 69999999999999999999999999996 999999988887
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (633)
.+..+.+++...++|+|++.+.++.++....+++||+.++....+..+++++.+.||+++++++.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~ 159 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKA 159 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHH
Confidence 77778899999999999986665545433468999999999999999999999999999999999888999999999999
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCc
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (633)
+++.|+++.....++ .+..++..++.++++.++|+|++.+....+..++++++++|+..+ ++......... .
T Consensus 160 ~~~~G~~~~~~~~~~--~~~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~---~~~~~~~~~~~-~-- 231 (336)
T cd06326 160 LAARGLKPVATASYE--RNTADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQ---FYNLSFVGADA-L-- 231 (336)
T ss_pred HHHcCCCeEEEEeec--CCcccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCc---EEEEeccCHHH-H--
Confidence 999999887766666 345789999999998899999999988889999999999998643 22222221110 0
Q ss_pred cccccccccccceEEEee----ecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCc
Q 006733 269 QLHSEKMDDIQGVLTLRM----YTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNI 344 (633)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~----~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~ 344 (633)
........+|++.... .....+..+.|.+.|+++++. ..++.+...+||+++++.+|++++...
T Consensus 232 --~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~y~~~~~~~~a~~~~g~~---- 299 (336)
T cd06326 232 --ARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPG------APPSYVSLEGYIAAKVLVEALRRAGPD---- 299 (336)
T ss_pred --HHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCC------CCCCeeeehhHHHHHHHHHHHHHcCCC----
Confidence 0112245567665332 222367789999999988752 245677888999999999999985311
Q ss_pred ccccCcccccccCCCcccccccccCchHHHHHHHHhcccc-ccccceEEccCCC
Q 006733 345 SFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMT-GVTGPIKFTSDRD 397 (633)
Q Consensus 345 ~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~-g~~G~v~Fd~~g~ 397 (633)
.+++.+.++|++++.. +..+.++|++..+
T Consensus 300 ------------------------~~~~~v~~al~~~~~~~~~g~~~~~~~~~h 329 (336)
T cd06326 300 ------------------------PTRESLLAALEAMGKFDLGGFRLDFSPGNH 329 (336)
T ss_pred ------------------------CCHHHHHHHHHhcCCCCCCCeEEecCcccc
Confidence 1488999999998864 4445899976443
No 77
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=99.97 E-value=4.2e-29 Score=254.03 Aligned_cols=303 Identities=16% Similarity=0.110 Sum_probs=242.4
Q ss_pred EEEEEeecCC---ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhH
Q 006733 34 NIGAVFALNS---TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (633)
Q Consensus 34 ~IG~l~p~~~---~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~ 110 (633)
+||+++|++. ..|.....|+++|++++| |++++++++|+.+ +..+...+.+++.++|.+||||.++..+
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 6999999984 467888999999999999 6899999999999 9999999999998899999999999999
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHh
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLA 190 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~ 190 (633)
.++++++...++|+|+++.... +.. .+++||+.+++..++.++++++.+.+++++++++.++.||....+.|++.++
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 8898999999999999765443 222 5899999999999999999998888999999999999999999999999999
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcC---------------------CCeEEEEeeChH-HHHHHHHHHHHcCCC
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM---------------------MSRILILHTYDI-WGLEVLNAAKHLRMM 248 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~---------------------~~~vIvl~~~~~-~~~~il~~a~~~g~~ 248 (633)
+.|++++....++ .+..|++.++++|+.. ++|+|++.+.+. ++..+.++++..+..
T Consensus 150 ~~G~~vv~~~~~~--~~~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~ 227 (336)
T cd06339 150 QLGGTVVAIESYD--PSPTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLFYYGV 227 (336)
T ss_pred HcCCceeeeEecC--CCHHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhhhccC
Confidence 9999999888887 5788999999999987 999999988886 777777777765531
Q ss_pred CCCeEEEEeCccccccCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCC-CchhHHHhhHH
Q 006733 249 ESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGL-NSFGLYAYDTL 327 (633)
Q Consensus 249 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~-~~~~~~~yDav 327 (633)
..+..+++++.+...... ....+..+|++...+... ...+|.++|+++|+ ..| +.++..+||++
T Consensus 228 ~~~~~~~g~~~~~~~~~~-----~~~g~~~~g~~~~~~~~~---~~~~f~~~y~~~~~-------~~p~~~~~a~~YDa~ 292 (336)
T cd06339 228 PGDVPLYGTSRWYSGTPA-----PLRDPDLNGAWFADPPWL---LDANFELRYRAAYG-------WPPLSRLAALGYDAY 292 (336)
T ss_pred cCCCCEEEeccccCCCCC-----cccCcccCCcEEeCCCcc---cCcchhhhHHHHhc-------CCCCchHHHHHHhHH
Confidence 112347777765532111 112245677766554221 22379999999886 344 78899999999
Q ss_pred HHHHHHHHHhhhcCCCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCC
Q 006733 328 WLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDL 398 (633)
Q Consensus 328 ~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r 398 (633)
.+++.++++... +. ...+...|+|++|+++|+++|+.
T Consensus 293 ~l~~~~~~~~~~------------------------------~~----al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 293 ALAAALAQLGQG------------------------------DA----ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred HHHHHHHHcccc------------------------------cc----ccCCCCccccCcceEEECCCCeE
Confidence 999887765310 01 12233469999999999999974
No 78
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=99.96 E-value=7.1e-28 Score=243.34 Aligned_cols=297 Identities=14% Similarity=0.095 Sum_probs=228.4
Q ss_pred chhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHHHHhhccCCccEE
Q 006733 46 GKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLVSHIANEFQVPLL 125 (633)
Q Consensus 46 g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~va~~~~~~~iP~I 125 (633)
+.....|+++|+|+||+.||++ |++|+++..|. +++..++..+.+|+.++|.+|+|+.+|..+.++.+++..+++|+|
T Consensus 10 ~~~~~~ga~lAveeiNaaGGv~-G~~ielv~~D~-~~p~~a~~~a~~Li~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i 87 (347)
T TIGR03863 10 EDRGLDGARLAIEDNNTTGRFL-GQTFTLDEVAV-RTPEDLVAALKALLAQGVRFFVLDLPAAALLALADAAKAKGALLF 87 (347)
T ss_pred cchHHHHHHHHHHHHHhhCCcC-CceEEEEEccC-CCHHHHHHHHHHHHHCCCCEEEecCChHHHHHHHHHHHhCCcEEE
Confidence 4567899999999999999996 89999999985 689999999999998899999999999999999999999999999
Q ss_pred eeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCC
Q 006733 126 SFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSP 204 (633)
Q Consensus 126 s~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~ 204 (633)
+++++++.++. ..++|+||+.|++..++.++++++.+.+.+++++|+.|++||....+.+++.+++.|++|+..+.++.
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 99988888886 56799999999999999999999877799999999999999999999999999999999998888774
Q ss_pred CC--ChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCccccccccccccceE
Q 006733 205 KG--SRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVL 282 (633)
Q Consensus 205 ~~--~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~ 282 (633)
.. ..++++......+.+++|+|++.....+....+.... +.. ... ....|+.
T Consensus 168 ~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~--~~~---~~~---------------------~g~~G~~ 221 (347)
T TIGR03863 168 SGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT--WLP---RPV---------------------AGSAGLV 221 (347)
T ss_pred CCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--ccc---ccc---------------------ccccCcc
Confidence 31 1234442222233478999998765544322111000 000 000 0111222
Q ss_pred EEee-ecCCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcccccCcccccccCCCcc
Q 006733 283 TLRM-YTQSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNISFSEDSKLSELSRGDMR 361 (633)
Q Consensus 283 ~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~ 361 (633)
.... +..+.+..++|.++|+++|+ ..|+.....+||++++++.|++++.+.
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 12234667899999999986 345667889999999999999997422
Q ss_pred cccccccCchHHHHHHHHhccc--ccccc-ceEEcc-CCCCCCCcEEEEE
Q 006733 362 FSSVSIFNGGKMLLDNILQVNM--TGVTG-PIKFTS-DRDLINPAYEVIN 407 (633)
Q Consensus 362 c~~~~~~~~~~~l~~~l~~~~f--~g~~G-~v~Fd~-~g~r~~~~~~I~~ 407 (633)
++..+.++|++.++ .+..| +++|++ +|+.. ....+.+
T Consensus 274 --------d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~-~~~~~~~ 314 (347)
T TIGR03863 274 --------DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLR-QPVLLVH 314 (347)
T ss_pred --------CHHHHHHHHcCCCceecccCCCcceeeCCCcccc-cceEecc
Confidence 58999999999887 46777 699996 66543 3444433
No 79
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.96 E-value=5e-27 Score=240.52 Aligned_cols=319 Identities=13% Similarity=0.079 Sum_probs=252.1
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||+++|++ +..|.....++++|++++|+.||+ +|+++++++.|+++++.++.+.+.+++.+ +|.+|||+.++..
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi-~G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~ 79 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGI-AGRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAG 79 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCc-CCceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecccccc
Confidence 699999998 467889999999999999999998 69999999999999999999999999988 9999999988877
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC-CcchhHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD-HGRNGIAALGDK 188 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~-~g~~~~~~~~~~ 188 (633)
...+ +.+...++|+|++.+.++.+.. .++.|++.+++..+...+++++.+.+.+++++++.++. ||......+++.
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 6665 8889999999998766655543 47889999998889999999998889999999987665 999999999999
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCc
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (633)
+++.|+++.....++ .+..++..+++++++.++|+|++......+..++++++++|+..+ .+........ ..
T Consensus 157 ~~~~G~~v~~~~~~~--~~~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~---~~~~~~~~~~-~~-- 228 (341)
T cd06341 157 LAAAGVSVAGIVVIT--ATAPDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPK---VVLSGTCYDP-AL-- 228 (341)
T ss_pred HHHcCCccccccccC--CCCCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCC---EEEecCCCCH-HH--
Confidence 999999988766665 346789999999999999999999988899999999999998765 2222211111 01
Q ss_pred cccccccccccceEEEeeecC---CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcCCCcc
Q 006733 269 QLHSEKMDDIQGVLTLRMYTQ---SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQGGNIS 345 (633)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~~~~~ 345 (633)
.....+..+|++....+.| +.+..+.|.+.+++.... ....++.+...+||+++++++|++++...
T Consensus 229 --~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~----~~~~~~~~~~~~yda~~~~~~a~~~ag~~----- 297 (341)
T cd06341 229 --LAAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQ----LDPPEQGFALIGYIAADLFLRGLSGAGGC----- 297 (341)
T ss_pred --HHhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCC----CCCCcchHHHHHHHHHHHHHHHHHhcCCC-----
Confidence 1223356788888776655 457778888766643321 11356788999999999999999996321
Q ss_pred cccCcccccccCCCcccccccccCchHH-HHHHHHhcccccccc---ceEEccCCCC
Q 006733 346 FSEDSKLSELSRGDMRFSSVSIFNGGKM-LLDNILQVNMTGVTG---PIKFTSDRDL 398 (633)
Q Consensus 346 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~-l~~~l~~~~f~g~~G---~v~Fd~~g~r 398 (633)
.+++. ++++|++++.....| .+++..++.+
T Consensus 298 -----------------------~~~~~~v~~al~~~~~~~~~g~~~~~~~~~~~~~ 331 (341)
T cd06341 298 -----------------------PTRASQFLRALRAVTDYDAGGLTPPCDGKAGPGR 331 (341)
T ss_pred -----------------------CChHHHHHHHhhcCCCCCCCCcccCccCccCCCC
Confidence 03666 999999998654444 3343344443
No 80
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=99.96 E-value=7.3e-27 Score=234.67 Aligned_cols=223 Identities=33% Similarity=0.486 Sum_probs=202.9
Q ss_pred EEEEEeecCC-----ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-----CceEEEc
Q 006733 34 NIGAVFALNS-----TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-----ETVAIIG 103 (633)
Q Consensus 34 ~IG~l~p~~~-----~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-----~v~aviG 103 (633)
+||++++.+. ..+.....++..+++++|+. ++|+++++.+.|+++++..+...+.+++.+ ++.+|||
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 4899999874 33456688999999999998 579999999999999999999988888864 8999999
Q ss_pred CCchhhHHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhH
Q 006733 104 PQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGI 182 (633)
Q Consensus 104 ~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~ 182 (633)
|.++..+.++++++..+++|+|++.++++.+++ ..+|+++|+.|++..++.++++++++++|++|+++|++++++....
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 999999999999999999999999998888876 5789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 006733 183 AALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSS 262 (633)
Q Consensus 183 ~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~ 262 (633)
+.+++.+++.|+++.....++ ....++...++++++.++++||+++...++..++++++++|++ .+++||+++.+..
T Consensus 158 ~~~~~~~~~~~~~v~~~~~~~--~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~~~~~~~ 234 (298)
T cd06269 158 ELLEEELEKNGICVAFVESIP--DGSEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWIITDLWLT 234 (298)
T ss_pred HHHHHHHHHCCeeEEEEEEcC--CCHHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEEEChhhc
Confidence 999999999999999888777 3447899999999999999999999999999999999999998 8899999987754
No 81
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.96 E-value=1.6e-26 Score=233.72 Aligned_cols=279 Identities=20% Similarity=0.245 Sum_probs=226.8
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
|||+++|++ +..|.....|+++|+++||+ ||+ +|+++++++.|+++++..+++.+.+++.+ +|.+|||+.++..
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 699999998 55678889999999999999 887 69999999999999999999999999986 9999999988877
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKL 189 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~ 189 (633)
+..+.+.+...++|+|++.+..+.+. ...+++||+.+++...+..+++++.+.||+++++++.+..++....+.+++.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~ 157 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALA 157 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHH
Confidence 77888899999999999876554333 34578999999999999999999999999999999988889999999999999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCcc
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (633)
++.|+++.....++ ....++...+.+++..++|+|++......+..+++++++.|+..+ +++++..... +.
T Consensus 158 ~~~G~~v~~~~~~~--~~~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~~~~-~~--- 228 (312)
T cd06333 158 PKYGIEVVADERYG--RTDTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP---IYQTHGVASP-DF--- 228 (312)
T ss_pred HHcCCEEEEEEeeC--CCCcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---EEeecCcCcH-HH---
Confidence 99999998766676 344678889999988889999999888788889999999998654 4444332211 11
Q ss_pred ccccccccccceEEEeee------cC----CChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHH
Q 006733 270 LHSEKMDDIQGVLTLRMY------TQ----SSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLA 331 (633)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~------~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~ 331 (633)
.+...+..+|++....+ .| ..+..++|.++|+++|+. ..+..++..+||++++++
T Consensus 229 -~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~------~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 229 -LRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGA------GSVSTFGGHAYDALLLLA 293 (312)
T ss_pred -HHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCC------CCCCchhHHHHHHHHHHH
Confidence 02223456777665321 22 245789999999999862 136778999999999998
No 82
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=99.95 E-value=1.6e-26 Score=232.20 Aligned_cols=280 Identities=26% Similarity=0.345 Sum_probs=233.2
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
+||+++|++ +..|.....++++|++++|+++|+ .|+++++++.|+++++..+.+.+.+++.+ +|.+|||+.++..
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~-~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~ 79 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGI-PGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGV 79 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCC-CCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHH
Confidence 599999998 456788999999999999999976 69999999999999999999999999998 9999999999988
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDK 188 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 188 (633)
+..+++++...+||+|++.+..+.+.. ..+|++|++.|++..++..+++++.+++|+++++++.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~ 159 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAA 159 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHH
Confidence 888999999999999998877766654 4679999999999999999999999999999999999888999999999999
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCc
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDS 268 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 268 (633)
+++.|+++.....++ .+..++...++++++.++++|++++....+..++++++++|+. .++.|++.+.+......
T Consensus 160 ~~~~g~~i~~~~~~~--~~~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~-- 234 (299)
T cd04509 160 FKKKGGTVVGEEYYP--LGTTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLSDVLL-- 234 (299)
T ss_pred HHHcCCEEEEEecCC--CCCccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccCHHHH--
Confidence 999999988766665 3446888999999888899999998889999999999999998 77899998865433221
Q ss_pred cccccccccccceEEEeeecCCC--hHHHHHH---HHHHHhhccCCCCCCCCCCchhHHHhhHHHH
Q 006733 269 QLHSEKMDDIQGVLTLRMYTQSS--EEKRKFV---TRWRHLTRRNTLNGPIGLNSFGLYAYDTLWL 329 (633)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~~--~~~~~f~---~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~ 329 (633)
....+...|+++..+..+.. +..+.|. ..+++.++ ..++.++..+||++++
T Consensus 235 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~yda~~~ 290 (299)
T cd04509 235 ---EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYE-------DQPDYFAALAYDAVLL 290 (299)
T ss_pred ---HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhC-------CCCChhhhhhcceeee
Confidence 12335677888887665432 3333333 33444332 4577889999999988
No 83
>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=5.5e-25 Score=213.39 Aligned_cols=324 Identities=15% Similarity=0.182 Sum_probs=243.8
Q ss_pred chhHHHHHHHHHHHHhcCCCCCCCcEEEE----------EEecCCC--ChHHHHHHHHHHHhc--CceEEEcCCchhhHH
Q 006733 46 GKVAKVAIEAAVEDVNSNPAILGGTKLKL----------TVHDTNY--SRFLGMVEALTLLEN--ETVAIIGPQFSVIAH 111 (633)
Q Consensus 46 g~~~~~a~~~Ave~iN~~~~il~g~~l~~----------~~~D~~~--~~~~a~~~~~~li~~--~v~aviG~~~s~~~~ 111 (633)
-+....|+..|++.+++.. .-+|..+++ ...+.+| +.-++++...++..+ .-.+++||.|..++.
T Consensus 17 ~~~v~~av~~a~~~~~~~~-~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~ 95 (380)
T cd06369 17 LKFVKEAVEEAIEIVAERL-AEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATF 95 (380)
T ss_pred HHHHHHHHHHHHHHHHhhh-hccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehh
Confidence 3567889999998887754 225766666 5554444 567788888888866 688999999999999
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHH------HHcCCcEEEEEEecCCCcchh---H
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV------DYFGWRNVIALYVDDDHGRNG---I 182 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll------~~~~w~~v~ii~~d~~~g~~~---~ 182 (633)
+++.....+++|+||.++.. ++-+.++++-|+.|+...++..++++. ++++|++.. ||.++...+.. .
T Consensus 96 ~~~~~~~~~~~P~ISaGsfg--lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i 172 (380)
T cd06369 96 QMVDDEFNLSLPIISAGSFG--LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWYI 172 (380)
T ss_pred hhhhhhhcCCCceEeccccc--cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeEh
Confidence 99999999999999966644 444445699999999999999999999 488998655 89776433332 4
Q ss_pred HHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 006733 183 AALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSS 262 (633)
Q Consensus 183 ~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~ 262 (633)
+++....+..+..+...... ....++.+.+++.+ ...||||+|+++.+.+.++.+ ++...+|++|..+.+..
T Consensus 173 ~al~a~~~~f~~~~~~~~~l---~~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDlF~~ 244 (380)
T cd06369 173 NALEAGVAYFSSALKFKELL---RTEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDLFND 244 (380)
T ss_pred Hhhhhhhhhhhhcccceeee---cCchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEecccc
Confidence 55555555545444433333 24468888888876 569999999999999999886 44446999999986654
Q ss_pred ccCCCccccccccccccceEEEeeecCCChHHHHHHHHHHHhhccCCCCCCCCC-CchhHHHhhHHHHHHHHHHHhhhcC
Q 006733 263 ILDTDSQLHSEKMDDIQGVLTLRMYTQSSEEKRKFVTRWRHLTRRNTLNGPIGL-NSFGLYAYDTLWLLAHAIGAFFDQG 341 (633)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~-~~~~~~~yDav~~~~~Al~~~~~~~ 341 (633)
.+.. +.....+++.++.+++..|+.+.+++. ..+ .... +.+++..||||+++++||+++++.+
T Consensus 245 sy~~----d~~a~~amqsVLvIT~~~p~~~~~~~~-----~~f-------n~~l~~~~aa~fyDaVLLYa~AL~EtL~~G 308 (380)
T cd06369 245 VYYE----NTTSPPYMRNVLVLTLPPRNSTNNSSF-----TTD-------NSLLKDDYVAAYHDGVLLFGHVLKKFLESQ 308 (380)
T ss_pred hhcc----CcchHHHHhceEEEecCCCCCcccccC-----CCC-------CcchHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3321 123456788999999888766543331 011 1112 2789999999999999999999887
Q ss_pred CCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEeec--CCeeEEeee
Q 006733 342 GNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVIG--TGSRRIGYW 419 (633)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~~--~~~~~vg~w 419 (633)
++. ++..+.+.|+|.+|+|++|.|++|++||| ...|.++.+.. ++++.||.|
T Consensus 309 ~~~-------------------------~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y 362 (380)
T cd06369 309 EGV-------------------------QTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEF 362 (380)
T ss_pred CCC-------------------------CcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEE
Confidence 642 24889999999999999999999999998 58999998763 689999999
Q ss_pred cCCC
Q 006733 420 SNHS 423 (633)
Q Consensus 420 ~~~~ 423 (633)
+...
T Consensus 363 ~t~~ 366 (380)
T cd06369 363 DTST 366 (380)
T ss_pred ECCC
Confidence 8754
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=99.94 E-value=9.2e-25 Score=219.34 Aligned_cols=280 Identities=25% Similarity=0.295 Sum_probs=233.8
Q ss_pred EEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhH
Q 006733 34 NIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (633)
Q Consensus 34 ~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~ 110 (633)
+||+++|.+ +..|.....|+++|++++|+.+|+ +|++++++++|+++++..+.+.+.+++++++.+|||+.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~-~g~~v~~~~~d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGI-LGRKIELVVEDTQGDPEAAAAAARELVDDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCCHHHHHHHHHHHHhCCceEEEcCCcchhH
Confidence 589999998 467788999999999999999987 6999999999999999999999999999999999999988888
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcC-CcEEEEEEecCCCcchhHHHHHHHH
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFG-WRNVIALYVDDDHGRNGIAALGDKL 189 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~-w~~v~ii~~d~~~g~~~~~~~~~~~ 189 (633)
..+.+.+...+||+|++.+..+.+.+..++++|++.|++..++.++++++.+.+ |+++++++.++.++....+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 888999999999999987776655444578999999999999999999998887 9999999998889999999999999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccccccCCCcc
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSILDTDSQ 269 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 269 (633)
++.|+++.....++ .+..++...+++++..++++|++.+.+..+..+++++++.|+ +..|++.+.+......
T Consensus 160 ~~~g~~i~~~~~~~--~~~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~~~~~--- 231 (298)
T cd06268 160 KKLGGEVVAEETYP--PGATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---KVPIVGGDGAAAPALL--- 231 (298)
T ss_pred HHcCCEEEEEeccC--CCCccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---CCcEEecCccCCHHHH---
Confidence 99999988776665 344678999999998889999999888899999999999987 3457777655432111
Q ss_pred ccccccccccceEEEeeecCC--ChHHHHHH-HHHHHhhccCCCCCCCCCCchhHHHhhHHHHHH
Q 006733 270 LHSEKMDDIQGVLTLRMYTQS--SEEKRKFV-TRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLA 331 (633)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~ 331 (633)
....+...|+++..++.+. .+....|. +.|++.++ ..++.+...+||++.+++
T Consensus 232 --~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 232 --ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYG-------RPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred --HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHhC-------CCcccchHHHHHHHHHHc
Confidence 1223566788887766543 33445565 77777765 567788999999999998
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=99.65 E-value=4.1e-14 Score=139.14 Aligned_cols=216 Identities=21% Similarity=0.281 Sum_probs=174.8
Q ss_pred EEEEEeecC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHH
Q 006733 34 NIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~ 111 (633)
+||+++|.+ ..++.....+++.+++++ |..+++.+.|+.+++....+.+.++..+++.++|++.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI--------GRGLEVILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh--------CCceEEEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHH
Confidence 589999987 555667778888888886 5678889999999988888888888888999999988887766
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC-CCcchhHHHHHHHHh
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD-DHGRNGIAALGDKLA 190 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~-~~g~~~~~~~~~~~~ 190 (633)
.+...+...++|+|++....+... .+++++++.+++...+..+++++.+.+|+++++++.+. .++....+.+++.++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 577888999999999877665444 46899999999999999999999999999999999877 677788899999999
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcC-CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCccc
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM-MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLS 261 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~-~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 261 (633)
+.|+++......+.. ...++....+.+++. ++++|++.++ ..+..+++++++.|+...++.|++.+.+.
T Consensus 151 ~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~ 220 (269)
T cd01391 151 KAGIEVVAIEYGDLD-TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSP 220 (269)
T ss_pred hcCcEEEeccccCCC-ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEeccccc
Confidence 998776644433321 225677777777776 6888888877 88999999999999874567777776544
No 86
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=99.43 E-value=8.2e-12 Score=132.62 Aligned_cols=310 Identities=15% Similarity=0.136 Sum_probs=167.8
Q ss_pred CCeEEEEEEeecCCcc---chhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCc
Q 006733 30 PPVLNIGAVFALNSTI---GKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQF 106 (633)
Q Consensus 30 ~~~i~IG~l~p~~~~~---g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~ 106 (633)
..+-+|++++|+|+.. |..++.||..|. .+. .+.+.++.++|+..+... ....+.+.+|+.+||||..
T Consensus 217 ~~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~----~~~~~~l~~~Dt~~~~~~--~~~~~a~~~ga~~ViGPL~ 287 (536)
T PF04348_consen 217 APPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YAD----ADSRPELRFYDTNADSAD--ALYQQAVADGADFVIGPLL 287 (536)
T ss_dssp -----EEEEE--SSTTHHHHHHHHHHHHHHH----------TT--S-EEEEETTTS-HH--HHHHHHHHTT--EEE---S
T ss_pred CCccCEEEEeCCCCchhHHHHHHHHHHHHhh---ccc----ccCCCceEEecCCCCCHH--HHHHHHHHcCCCEEEcCCC
Confidence 3457899999999544 556677777777 111 134568889998776333 3456677789999999999
Q ss_pred hhhHHHHHHhhcc--CCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHH
Q 006733 107 SVIAHLVSHIANE--FQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAA 184 (633)
Q Consensus 107 s~~~~~va~~~~~--~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~ 184 (633)
.+....++..-.. -.||++.....+.. . .-+.+|.+.-+.++.+..+++.+..-|+++..||+.++++|....+.
T Consensus 288 k~~V~~l~~~~~~~~~~vp~LaLN~~~~~-~--~~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~a 364 (536)
T PF04348_consen 288 KSNVEALAQLPQLQAQPVPVLALNQPDNS-Q--APPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEA 364 (536)
T ss_dssp HHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHH
T ss_pred HHHHHHHHhcCcccccCCceeeccCCCcc-c--CccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHH
Confidence 9988887655432 48999987555543 1 13566666667778899999999999999999999999999999999
Q ss_pred HHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCcccccc
Q 006733 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDWLSSIL 264 (633)
Q Consensus 185 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 264 (633)
|.+..++.|..+.....+. ...++...++.-.+.+.|.|++.+.+.+++.+--...-. ...+--.+.++.....
T Consensus 365 F~~~W~~~gg~~~~~~~~~---~~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~--~a~~lPvyatS~~~~g- 438 (536)
T PF04348_consen 365 FNQQWQALGGQVAEVSYYG---SPADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH--FAGDLPVYATSRSYSG- 438 (536)
T ss_dssp HHHHHHHHHSS--EEEEES---STTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT---T-TT-EEEE-GGG--H-
T ss_pred HHHHHHHcCCCceeeEecC---CHHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc--cCCCCCEEEeccccCC-
Confidence 9999999888776665665 346888888866667899999999999888776655432 1122223444322111
Q ss_pred CCCccccccccccccceEEEeeec---CCChHHHHHHHHHHHhhccCCCCCCCCCCchhHHHhhHHHHHHHHHHHhhhcC
Q 006733 265 DTDSQLHSEKMDDIQGVLTLRMYT---QSSEEKRKFVTRWRHLTRRNTLNGPIGLNSFGLYAYDTLWLLAHAIGAFFDQG 341 (633)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~~~Al~~~~~~~ 341 (633)
..+.......+|+.++.... +..+....+...|.... .......+.+|||..++.+- .
T Consensus 439 ----~~~~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~~--------~~~~RL~AlG~DA~~L~~~l-~------ 499 (536)
T PF04348_consen 439 ----SPNPSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNAS--------NSLQRLYALGIDAYRLAPRL-P------ 499 (536)
T ss_dssp ----HT-HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT---------HHHHHHHHHHHHHHHHHHTH-H------
T ss_pred ----CCCcchhhhhcCCEEeccccccCCCchHHHHHHhhccCCc--------cHHHHHHHHHHHHHHHHHHH-H------
Confidence 11133446788998887642 23333333333332110 11223457777876665322 1
Q ss_pred CCcccccCcccccccCCCcccccccccCchHHHHHHHHhccccccccceEEccCCCCCCCcEEEEEee
Q 006733 342 GNISFSEDSKLSELSRGDMRFSSVSIFNGGKMLLDNILQVNMTGVTGPIKFTSDRDLINPAYEVINVI 409 (633)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~~G~v~Fd~~g~r~~~~~~I~~~~ 409 (633)
-++.+....+.|.||.+++|++|. +.....-.+++
T Consensus 500 --------------------------------~l~~~~~~~~~G~TG~L~~~~~g~-i~R~l~wa~f~ 534 (536)
T PF04348_consen 500 --------------------------------QLRQFPGYRLDGLTGQLSLDEDGR-IERQLSWAQFR 534 (536)
T ss_dssp --------------------------------HHHHSTT--EEETTEEEEE-TT-B-EEEE-EEEEEE
T ss_pred --------------------------------HHhhCCCCcccCCceeEEECCCCe-EEEeecceeec
Confidence 122333457899999999999985 44444444443
No 87
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.36 E-value=3.6e-12 Score=124.31 Aligned_cols=102 Identities=24% Similarity=0.371 Sum_probs=90.2
Q ss_pred CCceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHC-CCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEE
Q 006733 468 NGRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELL-PYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAV 546 (633)
Q Consensus 468 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~ 546 (633)
+.++|+||+.. +++||.+.+..++++.||++||++++|+++ |.++++++++ .+|..+...|.+|++|+++
T Consensus 36 ~~g~l~vg~~~--~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~ 106 (259)
T PRK11917 36 SKGQLIVGVKN--DVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVA-------VNAKTRGPLLDNGSVDAVI 106 (259)
T ss_pred hCCEEEEEECC--CCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEE-------cChhhHHHHHHCCCccEEE
Confidence 35789999986 899999875446899999999999999995 8666677776 4588888999999999999
Q ss_pred eeeEeeccccceeeeccceeecceEEEEecCC
Q 006733 547 GDFAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 547 ~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
+++++|++|.+.++||.||+.++..++++++.
T Consensus 107 ~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~ 138 (259)
T PRK11917 107 ATFTITPERKRIYNFSEPYYQDAIGLLVLKEK 138 (259)
T ss_pred ecccCChhhhheeeeccCceeeceEEEEECCC
Confidence 99999999999999999999999999999876
No 88
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.33 E-value=6.4e-12 Score=125.23 Aligned_cols=100 Identities=20% Similarity=0.265 Sum_probs=88.1
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHH----HCCC-ccceEEEeCCCCCCCCCHHhHHHHHHcCccc
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLE----LLPY-AVPYKLVPFGDGHNSPKRFDLLRLVSEEVYD 543 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~----~l~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d 543 (633)
.+.|+||+.. +|+||.+.++ ++++.||++||+++|++ ++|. .+++++++ .+|..++..|.+|++|
T Consensus 39 ~g~L~Vg~~~--~~pP~~f~~~-~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~-------~~~~~~i~~L~~G~~D 108 (302)
T PRK10797 39 NGVIVVGHRE--SSVPFSYYDN-QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIP-------ITSQNRIPLLQNGTFD 108 (302)
T ss_pred CCeEEEEEcC--CCCCcceECC-CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEE-------cChHhHHHHHHCCCcc
Confidence 5779999986 8999999875 68899999998888766 5653 35688888 5688999999999999
Q ss_pred EEEeeeEeeccccceeeeccceeecceEEEEecCC
Q 006733 544 AAVGDFAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 544 ~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
|+++++++|++|.+.++||.||+..+.+++++++.
T Consensus 109 i~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~ 143 (302)
T PRK10797 109 FECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG 143 (302)
T ss_pred EEecCCccCcchhhcceecccEeeccEEEEEECCC
Confidence 99999999999999999999999999999999875
No 89
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.30 E-value=8e-12 Score=122.38 Aligned_cols=98 Identities=18% Similarity=0.307 Sum_probs=87.8
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++|+|++.. +|+||.+.++ ++++.|+++|+++++++++|.+ +++++ .+|++++.++.+|++|+++++
T Consensus 25 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~vdi~~~ia~~lg~~--i~~~~-------~pw~~~~~~l~~g~~D~~~~~ 92 (259)
T PRK15437 25 PQNIRIGTDP--TYAPFESKNS-QGELVGFDIDLAKELCKRINTQ--CTFVE-------NPLDALIPSLKAKKIDAIMSS 92 (259)
T ss_pred CCeEEEEeCC--CCCCcceeCC-CCCEEeeeHHHHHHHHHHcCCc--eEEEe-------CCHHHHHHHHHCCCCCEEEec
Confidence 4689999874 6999998765 7899999999999999999966 55555 459999999999999999988
Q ss_pred eEeeccccceeeeccceeecceEEEEecCC
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
++.|++|++.++||.||+..+..++++++.
T Consensus 93 ~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~ 122 (259)
T PRK15437 93 LSITEKRQQEIAFTDKLYAADSRLVVAKNS 122 (259)
T ss_pred CCCCHHHhhhccccchhhcCceEEEEECCC
Confidence 999999999999999999999999998876
No 90
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.29 E-value=1.6e-11 Score=120.36 Aligned_cols=98 Identities=18% Similarity=0.310 Sum_probs=88.4
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++|+|++.. +|+||.+.++ +|++.|+++||++++++++|.+ +++++ .+|+.++.++..|++|+++++
T Consensus 25 ~~~l~v~~~~--~~pPf~~~~~-~g~~~G~~vdl~~~ia~~lg~~--~~~~~-------~~~~~~~~~l~~g~~Di~~~~ 92 (260)
T PRK15010 25 PETVRIGTDT--TYAPFSSKDA-KGDFVGFDIDLGNEMCKRMQVK--CTWVA-------SDFDALIPSLKAKKIDAIISS 92 (260)
T ss_pred CCeEEEEecC--CcCCceeECC-CCCEEeeeHHHHHHHHHHhCCc--eEEEe-------CCHHHHHHHHHCCCCCEEEec
Confidence 4789999985 7999999875 7899999999999999999966 66666 569999999999999999988
Q ss_pred eEeeccccceeeeccceeecceEEEEecCC
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
++.|++|++.++||.||+....+++++++.
T Consensus 93 ~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~ 122 (260)
T PRK15010 93 LSITDKRQQEIAFSDKLYAADSRLIAAKGS 122 (260)
T ss_pred CcCCHHHHhhcccccceEeccEEEEEECCC
Confidence 999999999999999999999999998876
No 91
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.28 E-value=1.4e-11 Score=119.81 Aligned_cols=107 Identities=25% Similarity=0.429 Sum_probs=91.2
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++|+|++.. +|+||.+.+ ++++.|+++|+++++++++|.+ +++++ .+|.+++..+.+|++|+++++
T Consensus 24 ~~~l~v~~~~--~~~P~~~~~--~g~~~G~~vdl~~~ia~~lg~~--~~~~~-------~~~~~~~~~l~~G~vDi~~~~ 90 (247)
T PRK09495 24 DKKLVVATDT--AFVPFEFKQ--GDKYVGFDIDLWAAIAKELKLD--YTLKP-------MDFSGIIPALQTKNVDLALAG 90 (247)
T ss_pred CCeEEEEeCC--CCCCeeecC--CCceEEEeHHHHHHHHHHhCCc--eEEEe-------CCHHHHHHHHhCCCcCEEEec
Confidence 4689999876 799998864 6789999999999999999966 66666 469999999999999999888
Q ss_pred eEeeccccceeeeccceeecceEEEEecCCCCcCcccccc
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLN 588 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~l~ 588 (633)
++.+++|++.++||.||+..++.++++++......+..|.
T Consensus 91 ~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~~~~~~~~dL~ 130 (247)
T PRK09495 91 ITITDERKKAIDFSDGYYKSGLLVMVKANNNDIKSVKDLD 130 (247)
T ss_pred CccCHHHHhhccccchheecceEEEEECCCCCCCChHHhC
Confidence 9999999999999999999999999987764344444444
No 92
>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=99.22 E-value=2.5e-11 Score=116.19 Aligned_cols=94 Identities=32% Similarity=0.486 Sum_probs=84.4
Q ss_pred EEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEe
Q 006733 472 LRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAI 551 (633)
Q Consensus 472 l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~ 551 (633)
||||+.. +++||.+.++ ++++.|+++|+++++++++|++ +++++ .+|.+++.+|.+|++|+++++++.
T Consensus 1 l~V~~~~--~~~P~~~~~~-~~~~~G~~~dl~~~i~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~~ 68 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDE-DGEPSGIDVDLLRAIAKRLGIK--IEFVP-------MPWSRLLEMLENGKADIIIGGLSI 68 (225)
T ss_dssp EEEEEES--EBTTTBEEET-TSEEESHHHHHHHHHHHHHTCE--EEEEE-------EEGGGHHHHHHTTSSSEEESSEB-
T ss_pred CEEEEcC--CCCCeEEECC-CCCEEEEhHHHHHHHHhhcccc--cceee-------cccccccccccccccccccccccc
Confidence 6899965 8999999987 8899999999999999999977 45544 349999999999999999989999
Q ss_pred eccccceeeeccceeecceEEEEecC
Q 006733 552 TTERTKMVDFTQPYIESGLVVVAPIK 577 (633)
Q Consensus 552 ~~~r~~~~~fs~p~~~~~~~~lv~~~ 577 (633)
+++|.+.++||.||+....++++++.
T Consensus 69 ~~~r~~~~~~s~p~~~~~~~~~~~~~ 94 (225)
T PF00497_consen 69 TPERAKKFDFSDPYYSSPYVLVVRKG 94 (225)
T ss_dssp BHHHHTTEEEESESEEEEEEEEEETT
T ss_pred cccccccccccccccchhheeeeccc
Confidence 99999999999999999999999975
No 93
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.20 E-value=7e-11 Score=114.70 Aligned_cols=98 Identities=21% Similarity=0.334 Sum_probs=86.1
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++|+|++.. +|+||.+.+. ++++.|+++|++++|++++|++ ++++. .+|..++..+.+|++|+++++
T Consensus 20 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~ 87 (243)
T PRK15007 20 AETIRFATEA--SYPPFESIDA-NNQIVGFDVDLAQALCKEIDAT--CTFSN-------QAFDSLIPSLKFRRVEAVMAG 87 (243)
T ss_pred CCcEEEEeCC--CCCCceeeCC-CCCEEeeeHHHHHHHHHHhCCc--EEEEe-------CCHHHHhHHHhCCCcCEEEEc
Confidence 4689999985 8999998875 7899999999999999999976 55655 569999999999999999888
Q ss_pred eEeeccccceeeeccceeecceEEEEecCC
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
++.+++|.+.++||.||+..+..++.++..
T Consensus 88 ~~~~~~r~~~~~fs~p~~~~~~~~v~~~~~ 117 (243)
T PRK15007 88 MDITPEREKQVLFTTPYYDNSALFVGQQGK 117 (243)
T ss_pred CccCHHHhcccceecCccccceEEEEeCCC
Confidence 889999999999999999988887776653
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=99.18 E-value=4.8e-11 Score=117.90 Aligned_cols=99 Identities=25% Similarity=0.268 Sum_probs=86.3
Q ss_pred CCceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEe
Q 006733 468 NGRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (633)
Q Consensus 468 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~ 547 (633)
..++|+|++. +|+||.+.+. ++++.|+.+||++++++++|.+. +++.. .+|++++..+.+|++|+++.
T Consensus 31 ~~~~l~v~~~---~~pP~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~-~~~~~-------~~w~~~~~~l~~G~~Di~~~ 98 (275)
T TIGR02995 31 EQGFARIAIA---NEPPFTYVGA-DGKVSGAAPDVARAIFKRLGIAD-VNASI-------TEYGALIPGLQAGRFDAIAA 98 (275)
T ss_pred hCCcEEEEcc---CCCCceeECC-CCceecchHHHHHHHHHHhCCCc-eeecc-------CCHHHHHHHHHCCCcCEEee
Confidence 3478999986 7899999865 78999999999999999999641 33333 46999999999999999988
Q ss_pred eeEeeccccceeeeccceeecceEEEEecCC
Q 006733 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 548 ~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
++++|++|.+.++||.||+...+++++++++
T Consensus 99 ~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~ 129 (275)
T TIGR02995 99 GLFIKPERCKQVAFTQPILCDAEALLVKKGN 129 (275)
T ss_pred cccCCHHHHhccccccceeecceeEEEECCC
Confidence 8899999999999999999999999998876
No 95
>PRK11260 cystine transporter subunit; Provisional
Probab=99.16 E-value=1.7e-10 Score=113.52 Aligned_cols=99 Identities=26% Similarity=0.447 Sum_probs=88.5
Q ss_pred CCceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEe
Q 006733 468 NGRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (633)
Q Consensus 468 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~ 547 (633)
..++|+|++.. +|+||.+.++ ++++.|+.+|+++.|++++|.+ +++++ ..|.+++.++++|++|++++
T Consensus 39 ~~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~--~e~~~-------~~~~~~~~~l~~G~~D~~~~ 106 (266)
T PRK11260 39 ERGTLLVGLEG--TYPPFSFQGE-DGKLTGFEVEFAEALAKHLGVK--ASLKP-------TKWDGMLASLDSKRIDVVIN 106 (266)
T ss_pred cCCeEEEEeCC--CcCCceEECC-CCCEEEehHHHHHHHHHHHCCe--EEEEe-------CCHHHHHHHHhcCCCCEEEe
Confidence 45789999876 7999998765 7889999999999999999966 66666 46999999999999999988
Q ss_pred eeEeeccccceeeeccceeecceEEEEecCC
Q 006733 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 548 ~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
+++++++|.+.+.||.||+..+.++++++..
T Consensus 107 ~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~ 137 (266)
T PRK11260 107 QVTISDERKKKYDFSTPYTVSGIQALVKKGN 137 (266)
T ss_pred ccccCHHHHhccccCCceeecceEEEEEcCC
Confidence 8899999999999999999999999998754
No 96
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.13 E-value=2.1e-10 Score=111.84 Aligned_cols=98 Identities=26% Similarity=0.414 Sum_probs=88.3
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
+++|+|++.. +|+||.+.++ ++++.|+++|+++.+++++|.+ +++++ .+|.+++.++.+|++|+++++
T Consensus 23 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~--~~~~~-------~~~~~~~~~l~~G~~D~~~~~ 90 (250)
T TIGR01096 23 EGSVRIGTET--GYPPFESKDA-NGKLVGFDVDLAKALCKRMKAK--CKFVE-------QNFDGLIPSLKAKKVDAIMAT 90 (250)
T ss_pred CCeEEEEECC--CCCCceEECC-CCCEEeehHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhCCCcCEEEec
Confidence 3789999975 8999999875 7899999999999999999965 67776 569999999999999999888
Q ss_pred eEeeccccceeeeccceeecceEEEEecCC
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
++.+.+|.+.+.||.|++..+..++++++.
T Consensus 91 ~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~ 120 (250)
T TIGR01096 91 MSITPKRQKQIDFSDPYYATGQGFVVKKGS 120 (250)
T ss_pred CccCHHHhhccccccchhcCCeEEEEECCC
Confidence 888999999999999999999999998876
No 97
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.07 E-value=2.3e-10 Score=110.93 Aligned_cols=88 Identities=16% Similarity=0.218 Sum_probs=75.3
Q ss_pred eEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHH---HHHHcCcccEEEe
Q 006733 471 HLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLL---RLVSEEVYDAAVG 547 (633)
Q Consensus 471 ~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~---~~l~~~~~d~~~~ 547 (633)
+|+||+.. +|+||.+.+ + .||++||+++||+++|++ +++++ .+|.+++ ..|.+|++|+++
T Consensus 1 ~l~vg~~~--~~pPf~~~~---~--~Gfdvdl~~~ia~~lg~~--~~~~~-------~~~~~~~~~~~~L~~g~~Dii~- 63 (246)
T TIGR03870 1 TLRVCAAT--KEAPYSTKD---G--SGFENKIAAALAAAMGRK--VVFVW-------LAKPAIYLVRDGLDKKLCDVVL- 63 (246)
T ss_pred CeEEEeCC--CCCCCccCC---C--CcchHHHHHHHHHHhCCC--eEEEE-------eccchhhHHHHHHhcCCccEEE-
Confidence 47899987 899999964 2 699999999999999966 66666 5688877 699999999997
Q ss_pred eeEeeccccceeeeccceeecceEEEEecCC
Q 006733 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 548 ~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
+++++++| ++||.||+.++.++++++++
T Consensus 64 ~~~~t~~r---~~fS~PY~~~~~~~v~~k~~ 91 (246)
T TIGR03870 64 GLDTGDPR---VLTTKPYYRSSYVFLTRKDR 91 (246)
T ss_pred eCCCChHH---HhcccCcEEeeeEEEEeCCC
Confidence 57888777 68999999999999998876
No 98
>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=99.02 E-value=1.9e-10 Score=82.96 Aligned_cols=47 Identities=26% Similarity=0.591 Sum_probs=37.8
Q ss_pred CCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCC-----CCCCHHhHHHHHHc
Q 006733 491 GTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGH-----NSPKRFDLLRLVSE 539 (633)
Q Consensus 491 ~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~-----~~~~~~~~~~~l~~ 539 (633)
++.+++|||+||+++||+.+||+ |++..+++++ .|++|+||+++|.+
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 46789999999999999999988 6666656554 78899999999864
No 99
>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=98.99 E-value=4.6e-08 Score=95.96 Aligned_cols=200 Identities=13% Similarity=0.062 Sum_probs=140.4
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||+++|.+ ..+......+++.+.++. |+ ++.+.+...++....+.+.+++..++.++|+.........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~--------g~--~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA--------GY--QVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc--------CC--eEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh
Confidence 589999985 444556677777776661 33 5566777777777777888888889998888665544444
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC--CcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~~ 190 (633)
....+...++|+|.+....+. .++++++.+.+...+..+++++.+.+-++++++..+.. ++....+.+++.++
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 567778899999987665442 24667788888889999999998889999999986543 56667889999998
Q ss_pred hcC-cEEEEEeecCCCCChhhHHHHHHHhhcCC--CeEEEEeeChHHHHHHHHHHHHcCCCCCC
Q 006733 191 EKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLRMMESG 251 (633)
Q Consensus 191 ~~g-~~v~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 251 (633)
+.| ..+....... .+..+....+.++.+.+ +++|+... ...+..+++++.+.|+..+.
T Consensus 146 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~-~~~a~~~~~~~~~~g~~i~~ 206 (264)
T cd01537 146 EAGPIEIVLVQEGD--WDAEKGYQAAEELLTAHPDPTAIFAAN-DDMALGALRALREAGLRVPD 206 (264)
T ss_pred HcCCcChhhhccCC--CCHHHHHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHhCCCCCC
Confidence 887 4333222222 24455666777776665 45555443 35666788999998876433
No 100
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=98.97 E-value=1.4e-09 Score=115.64 Aligned_cols=98 Identities=17% Similarity=0.193 Sum_probs=82.3
Q ss_pred CCceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEe
Q 006733 468 NGRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (633)
Q Consensus 468 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~ 547 (633)
+.++|+|++.. .|+.+... ++...||++||++++++++|.+ ++++.. .+|++++..|.+|++|++++
T Consensus 41 ~~g~LrVg~~~----~P~~~~~~-~~~~~G~~~DLl~~ia~~LGv~--~e~v~~------~~~~~ll~aL~~G~iDi~~~ 107 (482)
T PRK10859 41 ERGELRVGTIN----SPLTYYIG-NDGPTGFEYELAKRFADYLGVK--LEIKVR------DNISQLFDALDKGKADLAAA 107 (482)
T ss_pred hCCEEEEEEec----CCCeeEec-CCCcccHHHHHHHHHHHHhCCc--EEEEec------CCHHHHHHHHhCCCCCEEec
Confidence 45789999973 35555443 3345999999999999999976 556532 57999999999999999988
Q ss_pred eeEeeccccceeeeccceeecceEEEEecCC
Q 006733 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 548 ~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
++++|++|.+.++||.||+....+++++++.
T Consensus 108 ~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~ 138 (482)
T PRK10859 108 GLTYTPERLKQFRFGPPYYSVSQQLVYRKGQ 138 (482)
T ss_pred cCcCChhhhccCcccCCceeeeEEEEEeCCC
Confidence 9999999999999999999999999998865
No 101
>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=98.95 E-value=1.8e-07 Score=91.96 Aligned_cols=207 Identities=14% Similarity=0.102 Sum_probs=138.6
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCch-hhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFS-VIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s-~~~~ 111 (633)
+||++.|.. ..+......+++.+.++. |+ ++.+.++..++....+.+.+++.+++.+||+...+ ....
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 589999875 445556777777777762 34 45556666678777777888888899988864333 3323
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecC--CCcchhHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDD--DHGRNGIAALGD 187 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~--~~g~~~~~~~~~ 187 (633)
.....+...++|+|......+. .+.+.++.+++...+..+++++.+. |-+++++++.+. .++....+.|++
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 3445667789999987554332 1345667778888888888887766 889999998654 467777889999
Q ss_pred HHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeE-EEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRI-LILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 188 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-Ivl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
.+++. |+++....... .+..+....+.++.+..++. ++++++...+..+++++++.|+. .+...++.+
T Consensus 146 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~-~~i~ivg~d 215 (267)
T cd01536 146 ALKEYPDIEIVAVQDGN--WDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK-GDVKIVGVD 215 (267)
T ss_pred HHHhCCCcEEEEEecCC--CcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC-CCceEEecC
Confidence 99988 46654332222 23345566777776554433 33344446777799999999875 344444443
No 102
>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=98.89 E-value=3.9e-09 Score=103.87 Aligned_cols=96 Identities=17% Similarity=0.151 Sum_probs=80.5
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHC-CCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEe
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELL-PYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~ 547 (633)
.++|++++. +|+||.+.+. ++...|+.+|+++++++.+ +++ +++.. ..|++++.++ .++.|+++.
T Consensus 17 ~~~l~~~~~---~~pPf~~~~~-~~~~~G~~~~i~~~i~~~~~~~~--~~~~~-------~pw~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFSG-PSKGRGVFDVILQEIRRALPQYE--HRFVR-------VSFARSLKEL-QGKGGVCTV 82 (268)
T ss_pred cceeEEEec---ccCCeeEeCC-CCCCCChHHHHHHHHHHHcCCCc--eeEEE-------CCHHHHHHHH-hcCCCeEEe
Confidence 468998886 7999998764 6788999999999999998 866 55554 4599999999 788888877
Q ss_pred eeEeeccccceeeeccceee-cceEEEEecCC
Q 006733 548 DFAITTERTKMVDFTQPYIE-SGLVVVAPIKK 578 (633)
Q Consensus 548 ~~~~~~~r~~~~~fs~p~~~-~~~~~lv~~~~ 578 (633)
++++|++|++.++||.||+. ....+++++++
T Consensus 83 ~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~ 114 (268)
T TIGR02285 83 NLLRTPEREKFLIFSDPTLRALPVGLVLRKEL 114 (268)
T ss_pred eccCCcchhhceeecCCccccCCceEEEccch
Confidence 89999999999999999875 57888887754
No 103
>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=98.89 E-value=1.9e-07 Score=91.53 Aligned_cols=202 Identities=12% Similarity=0.053 Sum_probs=136.3
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||++.|.. ..+......+++.+.++. |++ +.+.+...++.+.......++.+++.+++....+.....
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~--------g~~--~~~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~ 70 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA--------GYS--VLLCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL 70 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc--------CCE--EEEEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH
Confidence 478999885 444445566666666551 444 445667777888888888888889998887555544444
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC--CcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~~ 190 (633)
...+...++|+|......+. +.+..+.++....+..+++++.+.|.+++++++.+.. ++....+.+++.++
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 3455667777888888889887779999999986543 66677788999998
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcCC--CeEEEEeeChHHHHHHHHHHHHcCCCCCCeE
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~ 253 (633)
+.+..+..........+..+....+.++...+ +++|+.. ....+..+++++++.|+..++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~~~~i 207 (264)
T cd06267 144 EAGIPLDEELIVEGDFSEESGYEAARELLASGERPTAIFAA-NDLMAIGALRALRELGLRVPEDV 207 (264)
T ss_pred HcCCCCCcceEEecccchhhHHHHHHHHHhcCCCCcEEEEc-CcHHHHHHHHHHHHhCCCCCCce
Confidence 88853322212221123355566677766555 5665543 45566788899999887644333
No 104
>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=98.87 E-value=4.7e-07 Score=89.42 Aligned_cols=202 Identities=14% Similarity=0.039 Sum_probs=136.5
Q ss_pred EEEEEeecCC-ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCch-hhHH
Q 006733 34 NIGAVFALNS-TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFS-VIAH 111 (633)
Q Consensus 34 ~IG~l~p~~~-~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s-~~~~ 111 (633)
|||+++|... .+-.....+++.+.++. +. .|+++++.+.|+..++....+....++.+++++||....+ ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~----~~-~g~~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~ 75 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKEL----KK-AGLISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALN 75 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhh----hc-cCCeeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhH
Confidence 6899997642 22234455555555442 11 3678888999999888888888888888899988884443 2223
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEec--CCCcchhHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVD--DDHGRNGIAALGD 187 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d--~~~g~~~~~~~~~ 187 (633)
.....+...++|+|......+ . +.+.++.+++...+..+++++.+. +-++++++..+ ...+....+.+++
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 344556778999998754321 1 456778889999999999987665 78899999743 2345567788999
Q ss_pred HHhhcC-cEEEEEeecCCCCChhhHHHHHHHhhcCCC--eEEEEeeChHHHHHHHHHHHHcCCCCC
Q 006733 188 KLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSMMS--RILILHTYDIWGLEVLNAAKHLRMMES 250 (633)
Q Consensus 188 ~~~~~g-~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~--~vIvl~~~~~~~~~il~~a~~~g~~~~ 250 (633)
.+++.+ +.+......+ .+..+..+.+.++.++++ ++|+...+. +..+++++++.|+..+
T Consensus 150 a~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d~--A~g~~~al~~~g~~~p 211 (272)
T cd06300 150 VLKEYPGIKIVGEVYGD--WDQAVAQKAVADFLASNPDVDGIWTQGGD--AVGAVQAFEQAGRDIP 211 (272)
T ss_pred HHHHCCCcEEEeecCCC--CCHHHHHHHHHHHHHhCCCcCEEEecCCC--cHHHHHHHHHcCCCCc
Confidence 998887 7765332212 233455667777765544 544444333 8889999999998443
No 105
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=98.81 E-value=1.2e-08 Score=122.20 Aligned_cols=98 Identities=11% Similarity=0.152 Sum_probs=85.9
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++|+|++.. +|+||.+.++ +|++.||.+|+++.|++++|.+ +++++. .+|..+...|.+|++|++. +
T Consensus 301 ~~~l~v~~~~--~~pP~~~~d~-~g~~~G~~~Dll~~i~~~~g~~--~~~v~~------~~~~~~~~~l~~g~~D~i~-~ 368 (1197)
T PRK09959 301 HPDLKVLENP--YSPPYSMTDE-NGSVRGVMGDILNIITLQTGLN--FSPITV------SHNIHAGTQLNPGGWDIIP-G 368 (1197)
T ss_pred CCceEEEcCC--CCCCeeEECC-CCcEeeehHHHHHHHHHHHCCe--EEEEec------CCHHHHHHHHHCCCceEee-c
Confidence 3569999886 8999999976 7999999999999999999955 777774 4688889999999999985 4
Q ss_pred eEeeccccceeeeccceeecceEEEEecCC
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
++.|++|.+.++||.||+..+++++++++.
T Consensus 369 ~~~t~~r~~~~~fs~py~~~~~~~v~~~~~ 398 (1197)
T PRK09959 369 AIYSEDRENNVLFAEAFITTPYVFVMQKAP 398 (1197)
T ss_pred ccCCccccccceeccccccCCEEEEEecCC
Confidence 568999999999999999999999998764
No 106
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=98.80 E-value=1.2e-08 Score=122.28 Aligned_cols=101 Identities=13% Similarity=0.171 Sum_probs=86.5
Q ss_pred CCceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEe
Q 006733 468 NGRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (633)
Q Consensus 468 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~ 547 (633)
+.++|+||+.. +|+|+.+..+.+|++.||.+|+++.|++.+|.+ +++++. .+|.+++..|++|++|++++
T Consensus 54 ~~~~l~vgv~~--~~~p~~~~~~~~g~~~G~~~D~l~~ia~~lG~~--~e~v~~------~~~~~~l~~l~~g~iDl~~~ 123 (1197)
T PRK09959 54 SKKNLVIAVHK--SQTATLLHTDSQQRVRGINADYLNLLKRALNIK--LTLREY------ADHQKAMDALEEGEVDIVLS 123 (1197)
T ss_pred hCCeEEEEecC--CCCCCceeecCCCccceecHHHHHHHHHhcCCc--eEEEeC------CCHHHHHHHHHcCCCcEecC
Confidence 35789999986 665554443237899999999999999999955 888873 47999999999999999988
Q ss_pred eeEeeccccceeeeccceeecceEEEEecCC
Q 006733 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 548 ~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
.++.+++|.+.++||.||+.....++++++.
T Consensus 124 ~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~ 154 (1197)
T PRK09959 124 HLVASPPLNDDIAATKPLIITFPALVTTLHD 154 (1197)
T ss_pred ccccccccccchhcCCCccCCCceEEEeCCC
Confidence 8899999999999999999999999998754
No 107
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=98.80 E-value=1.8e-08 Score=99.72 Aligned_cols=118 Identities=24% Similarity=0.290 Sum_probs=94.8
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.+.++|++... ..+|+.+.+...+++.||++|+++.++++++......+.+ .+|.+++..+..|++|+.++.
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 46788998851 3459999886336999999999999999998643345555 579999999999999999999
Q ss_pred eEeeccccceeeeccceeecceEEEEecCCCC-cCccccccCCchhH
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKKLN-SNAWAFLNPFTPKM 594 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~~~-~~~~~~l~pf~~~~ 594 (633)
+++|++|.+.++||.||+..+..+++++++.. ......|+.....+
T Consensus 105 ~~~t~er~~~~~fs~py~~~~~~~~~~~~~~~~~~~~~DL~gk~v~v 151 (275)
T COG0834 105 MTITPERKKKVDFSDPYYYSGQVLLVKKDSDIGIKSLEDLKGKKVGV 151 (275)
T ss_pred cccCHHHhccccccccccccCeEEEEECCCCcCcCCHHHhCCCEEEE
Confidence 99999999999999999999999999887743 34455555544433
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=98.74 E-value=2.4e-08 Score=96.05 Aligned_cols=89 Identities=20% Similarity=0.239 Sum_probs=72.9
Q ss_pred EEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEe
Q 006733 472 LRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAI 551 (633)
Q Consensus 472 l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~ 551 (633)
|||++.. .|+||.+.+ ..|+++||++++++++|.++++++.+ ..|..++..+.+|++|++++
T Consensus 2 l~v~~~~--~~~P~~~~~-----~~G~~~el~~~i~~~~g~~i~~~~~~-------~~~~~~~~~l~~g~~Di~~~---- 63 (232)
T TIGR03871 2 LRVCADP--NNLPFSNEK-----GEGFENKIAQLLADDLGLPLEYTWFP-------QRRGFVRNTLNAGRCDVVIG---- 63 (232)
T ss_pred eEEEeCC--CCCCccCCC-----CCchHHHHHHHHHHHcCCceEEEecC-------cchhhHHHHHhcCCccEEEe----
Confidence 7889886 899998642 36999999999999999775555544 23455677899999999875
Q ss_pred eccccceeeeccceeecceEEEEecCC
Q 006733 552 TTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 552 ~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
+++|.+.++||.||+..+++++++++.
T Consensus 64 ~~~r~~~~~fs~py~~~~~~lv~~~~~ 90 (232)
T TIGR03871 64 VPAGYEMVLTTRPYYRSTYVFVTRKDS 90 (232)
T ss_pred ccCccccccccCCcEeeeEEEEEeCCC
Confidence 477889999999999999999998874
No 109
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.73 E-value=6.3e-06 Score=78.89 Aligned_cols=204 Identities=15% Similarity=0.163 Sum_probs=139.4
Q ss_pred CCCCeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCc-EEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCc
Q 006733 28 TIPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGT-KLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQF 106 (633)
Q Consensus 28 ~~~~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~-~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~ 106 (633)
...+.++||+....+.+.-+....+++-|+.+. |. .+++.+....+++..+...++.+..++.++|++-.+
T Consensus 26 ~~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~--------G~~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~i~t 97 (322)
T COG2984 26 AAADQITVAITQFVEHPALDAAREGVKEALKDA--------GYKNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVAIAT 97 (322)
T ss_pred ccccceeEEEEEeecchhHHHHHHHHHHHHHhc--------CccCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEecCC
Confidence 445678899988887544456677777776663 33 778888889999999999999999998888887444
Q ss_pred hhhHHHHHHhhccCCccEEeeccCCCC---Ccc-CCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEec-CCCcc
Q 006733 107 SVIAHLVSHIANEFQVPLLSFAATDPS---LSS-LQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVD-DDHGR 179 (633)
Q Consensus 107 s~~~~~va~~~~~~~iP~Is~~a~~~~---ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d-~~~g~ 179 (633)
+.. ..+..... ++|+|-.+.+++- |.. ..-|----+.-+|..-...-.+++++. +.++++++|.. .+...
T Consensus 98 p~A-q~~~s~~~--~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~ 174 (322)
T COG2984 98 PAA-QALVSATK--TIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSV 174 (322)
T ss_pred HHH-HHHHHhcC--CCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccH
Confidence 444 34333332 3999987666542 221 111222223445544444555666654 88999999964 44778
Q ss_pred hhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh---HHHHHHHHHHHHcCC
Q 006733 180 NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD---IWGLEVLNAAKHLRM 247 (633)
Q Consensus 180 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~---~~~~~il~~a~~~g~ 247 (633)
...+.++..+++.|+++... ..+ +..|....++.+. .++|+|+..++. .....++..+.+.+.
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-AVT---SVNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHHCCCEEEEE-ecC---cccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhCC
Confidence 88999999999999998744 332 4456777777776 569999998775 455556777777664
No 110
>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=98.73 E-value=1.4e-06 Score=86.51 Aligned_cols=201 Identities=14% Similarity=0.112 Sum_probs=134.4
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
|||++.|.+..+-.....++ .+++++.|..+ |.++++.+.|+..++........+++++++.++|+..++. ....
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 68999986644333444444 45566666654 7999999999998998888888888888999999865432 2222
Q ss_pred HHhhccCCccEEeeccCCCCCc----cCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecC-CCcchhHHHHH
Q 006733 114 SHIANEFQVPLLSFAATDPSLS----SLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDD-DHGRNGIAALG 186 (633)
Q Consensus 114 a~~~~~~~iP~Is~~a~~~~ls----~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~-~~g~~~~~~~~ 186 (633)
.....++|+|.++...+... ....+....+...+...+..+++++.+. |.+++++++.+. .++....+.++
T Consensus 76 --~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 --ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred --HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 25567999998764433111 1111222223344555667788887765 999999998643 36667788999
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
+.+++.|+.+.... . ....++...++++.+. +++|+...+ ..+..+++++++.++
T Consensus 154 ~~~~~~g~~~~~~~-~---~~~~~~~~~~~~~~~~-~dai~~~~d-~~a~~~~~~~~~~~~ 208 (281)
T cd06325 154 KAAAKLGIEVVEAT-V---SSSNDVQQAAQSLAGK-VDAIYVPTD-NTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHhCCCEEEEEe-c---CCHHHHHHHHHHhccc-CCEEEEcCc-hhHHhHHHHHHHHHH
Confidence 99999998876532 2 2345666777777643 677666544 456677788887764
No 111
>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=98.68 E-value=5.8e-06 Score=81.77 Aligned_cols=208 Identities=11% Similarity=0.045 Sum_probs=130.2
Q ss_pred EEEEEeec-CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEE-cCCchhhHH
Q 006733 34 NIGAVFAL-NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~avi-G~~~s~~~~ 111 (633)
|||++.|. +..+-.....+++.+.++ .|+++.+...++..++....+....++.+++.++| .|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKK--------LGVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHH--------hCCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH
Confidence 58999985 333333455566666665 26777776666666776666677788888888754 454444333
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecC--CCcchhHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDD--DHGRNGIAALGD 187 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~--~~g~~~~~~~~~ 187 (633)
.....+...++|+|....... ... ...+.+++...+..+++++.+. |.++++++.... .......+.+++
T Consensus 73 ~~~~~~~~~~iPvV~~~~~~~---~~~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 73 PAVERAKKKGIPVVNVNDKLI---PNA---TAFVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHHHCCCeEEEECCCCC---Ccc---ceEEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 445666789999998654321 111 2235677777788888887665 889999997532 233455678999
Q ss_pred HHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee-ChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT-YDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 188 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~-~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
.++++ |+.+....... .+..+....++++....+++-.+++ ....+..+++++++.|+. .+...++.+
T Consensus 147 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~-~di~vig~d 216 (275)
T cd06320 147 AIKKASGIEVVASQPAD--WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ-GKVLVVGTD 216 (275)
T ss_pred HHhhCCCcEEEEecCCC--ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC-CCeEEEecC
Confidence 99998 88765432111 2333445566666544444433444 455666788889998875 334444444
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=98.61 E-value=1.9e-07 Score=88.17 Aligned_cols=96 Identities=27% Similarity=0.446 Sum_probs=85.3
Q ss_pred EEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEe
Q 006733 472 LRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAI 551 (633)
Q Consensus 472 l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~ 551 (633)
|+|++.. .++||.+.++ ++.+.|+.+|+++.+++++|.+ +++++ ..|.+++.+|.+|++|+++.....
T Consensus 1 l~i~~~~--~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~~ 68 (218)
T cd00134 1 LTVGTAG--TYPPFSFRDA-NGELTGFDVDLAKAIAKELGVK--VKFVE-------VDWDGLITALKSGKVDLIAAGMTI 68 (218)
T ss_pred CEEecCC--CCCCeeEECC-CCCEEeeeHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhcCCcCEEeecCcC
Confidence 5778876 8999999875 8999999999999999999955 77776 459999999999999999887778
Q ss_pred eccccceeeeccceeecceEEEEecCCC
Q 006733 552 TTERTKMVDFTQPYIESGLVVVAPIKKL 579 (633)
Q Consensus 552 ~~~r~~~~~fs~p~~~~~~~~lv~~~~~ 579 (633)
+.+|.+.+.|+.|+......+++++++.
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (218)
T cd00134 69 TPERAKQVDFSDPYYKSGQVILVKKGSP 96 (218)
T ss_pred CHHHHhhccCcccceeccEEEEEECCCC
Confidence 9999999999999999999999998773
No 113
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.60 E-value=3.4e-05 Score=77.16 Aligned_cols=209 Identities=14% Similarity=0.119 Sum_probs=124.3
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceE-EEcCCchh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVA-IIGPQFSV 108 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~a-viG~~~s~ 108 (633)
..-+||++.|.. ..+-.....+++.++++. |+++ .+.++..++.........++.+++.+ |+++..+.
T Consensus 25 ~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~--------G~~~--~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~ 94 (295)
T PRK10653 25 AKDTIALVVSTLNNPFFVSLKDGAQKEADKL--------GYNL--VVLDSQNNPAKELANVQDLTVRGTKILLINPTDSD 94 (295)
T ss_pred cCCeEEEEecCCCChHHHHHHHHHHHHHHHc--------CCeE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChH
Confidence 455899999853 333345566666666652 4444 44566667777766677777778874 44555444
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc-CC-cEEEEEEecC--CCcchhHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-GW-RNVIALYVDD--DHGRNGIAA 184 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~-~w-~~v~ii~~d~--~~g~~~~~~ 184 (633)
........+...++|+|....... ..+.+..+.+.....+..+++++.+. +. .+++++..+. .......+.
T Consensus 95 ~~~~~l~~~~~~~ipvV~~~~~~~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~g 169 (295)
T PRK10653 95 AVGNAVKMANQANIPVITLDRGAT-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEG 169 (295)
T ss_pred HHHHHHHHHHHCCCCEEEEccCCC-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHH
Confidence 433444666778999998754321 11234556677776678888876554 54 3666665432 234466788
Q ss_pred HHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEE-EEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRIL-ILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 185 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vI-vl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
|++.+++.|+.+....... .+..+....+.++.+..++.- +++.....+..+++++++.|+ .+...++.+
T Consensus 170 f~~al~~~g~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~--~dv~vig~d 240 (295)
T PRK10653 170 FKQAVAAHKFNVLASQPAD--FDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK--SDVMVVGFD 240 (295)
T ss_pred HHHHHhhCCCEEEEecCCC--CCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC--CceEEEEeC
Confidence 9999999998764321111 222334445556654444433 333445566678999999987 244444444
No 114
>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=98.57 E-value=6.5e-06 Score=80.87 Aligned_cols=198 Identities=15% Similarity=0.153 Sum_probs=123.6
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||+++|.. ..+-.....+++.+.++ .|+.+.+ .++..++....+....++..+++++|....+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 70 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARA--------AGYSLLL--ATTDYDAEREADAVETLLRQRVDGLILTVADAATSP 70 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHH--------CCCEEEE--eeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCchH
Confidence 378999864 22223344555544444 1455444 455667776667777888888998886333222223
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec---CCCcchhHHHHHHHH
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD---DDHGRNGIAALGDKL 189 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d---~~~g~~~~~~~~~~~ 189 (633)
....+...++|+|....... ...++ ...++...+..+++++.+.|.++++++..+ .+++....+.|++.+
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~----~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (266)
T cd06282 71 ALDLLDAERVPYVLAYNDPQ----PGRPS---VSVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRARQRYAGYRAAM 143 (266)
T ss_pred HHHHHhhCCCCEEEEeccCC----CCCCE---EeeCcHHHHHHHHHHHHHcCcccEEEeccccccCchHHHHHHHHHHHH
Confidence 45667788999998754322 12333 345677888889998888899999999743 235666788999999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHh-hcC-CCeEEEEeeChHHHHHHHHHHHHcCCCCCC
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTV-SSM-MSRILILHTYDIWGLEVLNAAKHLRMMESG 251 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i-~~~-~~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 251 (633)
++.|+.+....... .+..+....+.++ ++. .+++|+. ++...+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~ 204 (266)
T cd06282 144 RAAGLAPLPPVEIP--FNTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPD 204 (266)
T ss_pred HHcCCCCCccccCC--CcHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCC
Confidence 99887643322222 2222333444444 332 4565555 5566677899999999986443
No 115
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.52 E-value=9.1e-06 Score=82.04 Aligned_cols=255 Identities=11% Similarity=0.058 Sum_probs=154.9
Q ss_pred CCCeEEEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCC
Q 006733 29 IPPVLNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQ 105 (633)
Q Consensus 29 ~~~~i~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~ 105 (633)
...+-+|++++|++ +..|..+..||..|.. -+.. . ++-..++.++|+...+..++ ......+|+..|+||.
T Consensus 254 ~~~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~--~-~~~~~~~~i~dT~~~~l~~i--~aqaqq~G~~~VVGPL 327 (604)
T COG3107 254 QASPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APAT--Q-TAQVAELKIYDTSAQPLDAI--LAQAQQDGADFVVGPL 327 (604)
T ss_pred cCCchheeEEeccCChhHHHHHHHHHHHHHhcc-Cccc--C-CccccceeeccCCcccHHHH--HHHHHhcCCcEEeccc
Confidence 34578999999998 3445666777765554 1111 1 33336788888887665544 2233445999999999
Q ss_pred chhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHH
Q 006733 106 FSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAAL 185 (633)
Q Consensus 106 ~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~ 185 (633)
-......+..--. ..||++....++.. +..+.+....-+.++.++..++.+-..|.++..++...+++|+...+.|
T Consensus 328 lK~nVe~L~~~~q-~~i~vLALN~~~n~---r~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~AF 403 (604)
T COG3107 328 LKPNVEALLASNQ-QPIPVLALNQPENS---RNPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLGDRVANAF 403 (604)
T ss_pred cchhHHHHHhCcC-CCCceeeecCCccc---cCcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHHHHHHHHH
Confidence 9988777643322 77888875444322 2335555555555666888999888889999999999999999999999
Q ss_pred HHHHhhcCcEEEEEeecCCCCChhhHHHHH-----------------------HHhhcCC-CeEEEEeeChHHHHHHHHH
Q 006733 186 GDKLAEKRCRLSHKVPLSPKGSRNQIIDTL-----------------------LTVSSMM-SRILILHTYDIWGLEVLNA 241 (633)
Q Consensus 186 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l-----------------------~~i~~~~-~~vIvl~~~~~~~~~il~~ 241 (633)
.+..++.|...+..+.|. +..++...+ ..+.+.. .|.|++...+.+++.|=-.
T Consensus 404 ~~~Wq~~gg~~v~~~~fg---~~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~IKP~ 480 (604)
T COG3107 404 NQEWQKLGGGTVLQQKFG---STSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELALIKPM 480 (604)
T ss_pred HHHHHHhcCCchhHhhcC---cHHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhHHhhH
Confidence 999998877444333332 111111111 1122334 8899999998888866444
Q ss_pred HHHcCCCCCCeEEEEeCccccccCCCccccccccccccceEEEee---ecCCChHHHHHHHHHH
Q 006733 242 AKHLRMMESGYVWIVTDWLSSILDTDSQLHSEKMDDIQGVLTLRM---YTQSSEEKRKFVTRWR 302 (633)
Q Consensus 242 a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~---~~~~~~~~~~f~~~~~ 302 (633)
..-.+.....- -+.++... ...+. +++...++|+-+... ..+..+..++....|.
T Consensus 481 ia~~~~~~~~p-~yaSSr~~--~gT~~---P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p 538 (604)
T COG3107 481 IAMANGSDSPP-LYASSRSS--QGTNG---PDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWP 538 (604)
T ss_pred HHhhcCCCCcc-eeeecccc--ccCCC---ccHHHhccCccccCCchhcCCCchHHHHHHHhcC
Confidence 44332221111 22332111 11111 344456677665543 2345565666555554
No 116
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=98.52 E-value=4.1e-07 Score=85.82 Aligned_cols=96 Identities=28% Similarity=0.467 Sum_probs=84.7
Q ss_pred eEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeE
Q 006733 471 HLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFA 550 (633)
Q Consensus 471 ~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~ 550 (633)
+|+||+.. .++||.+.+. ++.+.|+.+|+++.+.+++|++ +++.+ ..|..++..+.+|++|++++...
T Consensus 1 ~l~v~~~~--~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 1 TLRVGTNG--DYPPFSFADE-DGELTGFDVDLAKAIAKELGLK--VEFVE-------VSFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred CEEEEecC--CCCCcEEECC-CCCcccchHHHHHHHHHHhCCe--EEEEe-------ccHHHHHHHHHCCcccEEecccc
Confidence 47899974 8999998875 7889999999999999999955 77776 46999999999999999998777
Q ss_pred eeccccceeeeccceeecceEEEEecCC
Q 006733 551 ITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 551 ~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
.+.+|.+.+.|+.|+......++++++.
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (219)
T smart00062 69 ITPERAKQVDFSDPYYKSGQVILVRKDS 96 (219)
T ss_pred CCHHHHhheeeccceeeceeEEEEecCC
Confidence 7888988999999999999999998876
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=98.46 E-value=4.1e-05 Score=75.23 Aligned_cols=205 Identities=15% Similarity=0.110 Sum_probs=125.6
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEE-EcCCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAI-IGPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~av-iG~~~s~~~~ 111 (633)
.||+++|.. ..+......+++.+.++. |+.+ .+.++..++....+...+++.++++++ +++..+....
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 334445566666666652 4444 456666777777777777788888874 4454444333
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEec--CCCcchhHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVD--DDHGRNGIAALGD 187 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d--~~~g~~~~~~~~~ 187 (633)
.....+...++|+|......+. .+.+-.+..+....+..+++++.+. |-+++++++.+ ...+....+.+++
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 3444556789999987543321 1223446666676778888887766 78999999863 3356667788999
Q ss_pred HHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhcCC--CeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 188 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
.++++ |+.+....... .+..+....+.++.... +++ |++.+...+..+++++++.|+ .+...++.+
T Consensus 146 ~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~--~di~iig~d 214 (268)
T cd06323 146 VVDKYPGLKVVASQPAD--FDRAKGLNVMENILQAHPDIKG-VFAQNDEMALGAIEALKAAGK--DDVKVVGFD 214 (268)
T ss_pred HHHhCCCcEEEecccCC--CCHHHHHHHHHHHHHHCCCcCE-EEEcCCchHHHHHHHHHHcCC--CCcEEEEeC
Confidence 99884 77765322111 22223334454544333 444 334444555568899999887 344455544
No 118
>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=98.43 E-value=4.2e-05 Score=75.53 Aligned_cols=210 Identities=17% Similarity=0.085 Sum_probs=124.7
Q ss_pred EEEEEeecC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhH
Q 006733 34 NIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIA 110 (633)
Q Consensus 34 ~IG~l~p~~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~ 110 (633)
.||+++|.. ..+...+..+++.+.++. |+. +.+.++..++....+....++.+++.++|. +..+...
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~--------g~~--~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED--------GVE--VIVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAY 70 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc--------CCE--EEEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCcccc
Confidence 378898863 445556677777777661 444 445677778877777777788889997765 4333333
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEE-ecCChHHHHHHHHHHHHHc--CCcEEEEEEecCCC--cchhHHHH
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVR-TTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDH--GRNGIAAL 185 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r-~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~~~--g~~~~~~~ 185 (633)
......+...++|+|......+ ....++++. +.+++...+...++.+.+. |-++++++..+.++ +....+.+
T Consensus 71 ~~~l~~~~~~~iPvV~~~~~~~---~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~ 147 (275)
T cd06317 71 IPGLRKAKQAGIPVVITNSNIS---EKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGF 147 (275)
T ss_pred HHHHHHHHHCCCcEEEeCCCCC---CCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHH
Confidence 3444566789999997654322 122344322 2345556677777766544 67899999754333 34556788
Q ss_pred HHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhc---CCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 186 GDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS---MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 186 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~---~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
++.++++|..+..........+..+....+.++.+ .++++|+. +....+..+++++++.|+. .+...++.+
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~-~dv~v~g~d 221 (275)
T cd06317 148 EDELAEVCPGVEVLDTQPADWDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA-GGIVIVGAN 221 (275)
T ss_pred HHHHHhhCCCCEEEeccCCCCCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc-CCcEEEEeC
Confidence 89998886433222112111122233333444332 23566664 4445577899999999986 344444443
No 119
>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=98.43 E-value=3.1e-05 Score=76.18 Aligned_cols=200 Identities=18% Similarity=0.131 Sum_probs=124.9
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||++.|.. ..+-.....++..++++. |+.+. +.|+..++....+....+++.++.++|--..... ..
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~ 69 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH--------GYTLL--VASSGYDLDREYAQARKLLERGVDGLALIGLDHS-PA 69 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEE--EecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HH
Confidence 489999863 333344556665555552 44444 4677778887777777888888877664222112 23
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC---CCcchhHHHHHHHH
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD---DHGRNGIAALGDKL 189 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~---~~g~~~~~~~~~~~ 189 (633)
....+...++|+|......+ ....+ .+..++...+..+++.+.+.|.+++++|.... .++....+.|++.+
T Consensus 70 ~~~~l~~~~iPvv~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (268)
T cd06273 70 LLDLLARRGVPYVATWNYSP---DSPYP---CVGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRAAL 143 (268)
T ss_pred HHHHHHhCCCCEEEEcCCCC---CCCCC---EEEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHHHH
Confidence 33466778999998754322 11223 34467788888899988777999999997432 34567788999999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhc--CCCeEEEEeeChHHHHHHHHHHHHcCCCCCC
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESG 251 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 251 (633)
+++++.+.....+....+..+....+.++.+ ..+++|+. ++...+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~ 206 (268)
T cd06273 144 AEAGLELPELWQVEAPYSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPE 206 (268)
T ss_pred HHcCCCCCHHHeeeCCCcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCC
Confidence 9888654322111111122334455556544 34666664 5566677788999998886543
No 120
>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=98.41 E-value=0.00012 Score=72.23 Aligned_cols=209 Identities=11% Similarity=-0.018 Sum_probs=123.3
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCch-hhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFS-VIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s-~~~~ 111 (633)
|||++.|.- ..+-.....+++.+.++ .|+++.+...++..++.+..+....++..++.++|..... ....
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 22222334444444433 2566666544445577777777777888889887763333 2223
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecCCC--cchhHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDH--GRNGIAALGD 187 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~~~--g~~~~~~~~~ 187 (633)
.....+...++|+|......+ +. ..+..+..+....+..+++++.+. |.++++++....++ .....+.+++
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~---~~--~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLN---SD--IAVSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCC---CC--cceEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 343455678999998743221 10 112334566666778888887666 89999999754332 3345678889
Q ss_pred HHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeE-EEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRI-LILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 188 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-Ivl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
.+++. |+.+.... .. ..+..+....+.++....+++ .|++.+...+..+++++++.|+. .+...++.+
T Consensus 148 a~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 148 GLKEYPGIEIVATQ-YS-DSDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred HHHhCCCcEEEecc-cC-CcCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 99888 87654321 11 112223334555554433333 34444566788899999999985 445555544
No 121
>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=98.41 E-value=5.7e-05 Score=74.72 Aligned_cols=208 Identities=11% Similarity=0.050 Sum_probs=122.8
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEE-cCCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~avi-G~~~s~~~~ 111 (633)
+||++.|.. ..+-.....+++.+.++ . |+++ .+.++..++.+..+....++..++.++| ++..+....
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 478888864 22222334444444443 1 4444 4567777777777777778888888774 555544344
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc------CCcEEEEEEec--CCCcchhHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF------GWRNVIALYVD--DDHGRNGIA 183 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~------~w~~v~ii~~d--~~~g~~~~~ 183 (633)
.....+...++|+|....... . ..++..+.++....+..+++++.+. |-++++++... ...+....+
T Consensus 71 ~~l~~~~~~~ipvV~~~~~~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~ 145 (277)
T cd06319 71 TLLKLAAQAKIPVVIADIGAE---G--GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTK 145 (277)
T ss_pred HHHHHHHHCCCCEEEEecCCC---C--CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHH
Confidence 455677788999998643221 1 1234455666666666777765443 66899999743 234667788
Q ss_pred HHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEE-EeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILI-LHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 184 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIv-l~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
.|++.+++.|+.+.... .....+..+....++++.++.++... ++.....+..+++++++.|+. .+...++.+
T Consensus 146 gf~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~-~di~vvg~d 219 (277)
T cd06319 146 GFKEAMKEAGCDLAGIR-QQKDFSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT-GKVLLICFD 219 (277)
T ss_pred HHHHHHHhcCCceEeec-cCCCCCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC-CCEEEEEcC
Confidence 99999999988654221 11112223334455555544444323 333444556789999999976 344444444
No 122
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.39 E-value=8.6e-05 Score=73.19 Aligned_cols=209 Identities=13% Similarity=0.042 Sum_probs=130.0
Q ss_pred EEEEEeecC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCC-chhhH
Q 006733 34 NIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQ-FSVIA 110 (633)
Q Consensus 34 ~IG~l~p~~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~-~s~~~ 110 (633)
|||++.|.. ..+-.....+++.+.++. |+.+.+...+. .++....+....++.+++.++|... .....
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~--------g~~v~~~~~~~-~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~ 71 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDL--------GVDVEYRGPET-FDVADMARLIEAAIAAKPDGIVVTIPDPDAL 71 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHh--------CCEEEEECCCC-CCHHHHHHHHHHHHHhCCCEEEEeCCChHHh
Confidence 688998864 334445667777777662 56655543333 2777666777778888899877633 33322
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHH-cCCcEEEEEEec--CCCcchhHHHHHH
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-FGWRNVIALYVD--DDHGRNGIAALGD 187 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~-~~w~~v~ii~~d--~~~g~~~~~~~~~ 187 (633)
......+...++|+|......+... ..+.+..+..+....+..+++++.+ .|-++++++..+ ...+....+.+++
T Consensus 72 ~~~l~~~~~~~ipvV~~~~~~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~~r~~g~~~ 149 (271)
T cd06312 72 DPAIKRAVAAGIPVISFNAGDPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTLEDRCAGFAD 149 (271)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccHHHHHHHHHH
Confidence 3333455678999998754332211 1245667788888899999999887 899999998753 3345567788999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
.++++++.+.... . ..+..+....++++.+. ++++|+. .+...+..+++++++.|+. .+...++.+
T Consensus 150 ~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~l~~~~~~~aI~~-~~d~~a~g~~~al~~~g~~-~di~vvg~d 217 (271)
T cd06312 150 GLGGAGITEEVIE--T-GADPTEVASRIAAYLRANPDVDAVLT-LGAPSAAPAAKALKQAGLK-GKVKLGGFD 217 (271)
T ss_pred HHHhcCceeeEee--c-CCCHHHHHHHHHHHHHhCCCccEEEE-eCCccchHHHHHHHhcCCC-CCeEEEEec
Confidence 9988887543211 1 12223344455555433 3454433 4455567788888888876 444444444
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=98.38 E-value=8.4e-05 Score=73.29 Aligned_cols=209 Identities=14% Similarity=0.026 Sum_probs=126.4
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcC-CchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGP-QFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~-~~s~~~~ 111 (633)
+||++.|.. ..+-.....+++.+.++. |+.+. +.++..++....+....++..++.++|.. ..+....
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 588898853 333334556666555552 45544 45677788777777778888899988874 3333333
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHH--cCCcEEEEEEec-CCCcchhHHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY--FGWRNVIALYVD-DDHGRNGIAALGDK 188 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~--~~w~~v~ii~~d-~~~g~~~~~~~~~~ 188 (633)
.+...+...++|+|......+. +.+..+.++....++.+++++.+ .|.++++++... ........+.+++.
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 4445567889999987543221 23344667778888888887755 488999999753 22233455678888
Q ss_pred HhhcC-cEEEEEeecCCCCChhhHHHHHHHhhcCCCeE---EEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 006733 189 LAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRI---LILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (633)
Q Consensus 189 ~~~~g-~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~v---Ivl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (633)
+++.+ +.+..........+..+....++++....++. .|++.....+..+++++++.|+.. +...++.+.
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~-di~iig~d~ 218 (273)
T cd06305 145 LKAYPGIKEVAELGDVSNNTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRTD-EIKIYGVDI 218 (273)
T ss_pred HHHCCCcEEecccccccccchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCCC-CceEEEecC
Confidence 88777 55443221111122233445565554444433 333445556777888999998763 444555543
No 124
>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=98.38 E-value=0.00013 Score=71.84 Aligned_cols=210 Identities=15% Similarity=0.074 Sum_probs=126.0
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEE-cCCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~avi-G~~~s~~~~ 111 (633)
+||+++|.. ..+-.....+++.+.++ .. |+ .+.+.++..++....+....+++.+++++| .+..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~---~~----~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 71 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKV---LG----GV--ELQFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATA 71 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHH---cC----Cc--EEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhH
Confidence 589999863 22222334444444443 12 33 445566767777777777788888899776 454444344
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecC--CCcchhHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDD--DHGRNGIAALGD 187 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~--~~g~~~~~~~~~ 187 (633)
.+...+...++|+|......... .+.+..+..++...+..++++|.+. +-++++++.... .......+.|++
T Consensus 72 ~~~~~l~~~~iPvv~~~~~~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~ 147 (272)
T cd06301 72 PIVKAANAAGIPLVYVNRRPENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEE 147 (272)
T ss_pred HHHHHHHHCCCeEEEecCCCCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHH
Confidence 45566788999999865432211 1234557778888888888877554 456999997543 334556788999
Q ss_pred HHhhcC-cEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 006733 188 KLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (633)
Q Consensus 188 ~~~~~g-~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (633)
.+++.| +.+... .....+.......++++.+. .+++ |++.+...+..+++++++.|+...+...++.+.
T Consensus 148 ~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d~ 219 (272)
T cd06301 148 VLAKYPDIKVVEE--QTANWSRAEAMDLMENWLSSGGKIDA-VVANNDEMALGAIMALKAAGKSDKDVPVAGIDG 219 (272)
T ss_pred HHHHCCCcEEEec--CCCCccHHHHHHHHHHHHHhCCCCCE-EEECCCchHHHHHHHHHHcCCCCCCcEEEeeCC
Confidence 998887 443321 11111222233445554433 3554 344555666778999999998633555565543
No 125
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.32 E-value=0.00041 Score=70.93 Aligned_cols=202 Identities=8% Similarity=-0.025 Sum_probs=118.4
Q ss_pred CCCeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCc
Q 006733 29 IPPVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQF 106 (633)
Q Consensus 29 ~~~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~ 106 (633)
...+-+||++.|.. ..+-.....+++.+.++. |+.+.+...+...+...-.+....++.+++.+||- +..
T Consensus 43 Ar~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~--------G~~l~i~~~~~~~~~~~q~~~i~~l~~~~vdgIIl~~~~ 114 (343)
T PRK10936 43 AKKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL--------GVDLKVLEAGGYYNLAKQQQQLEQCVAWGADAILLGAVT 114 (343)
T ss_pred cCCCeEEEEEecCCCchHHHHHHHHHHHHHHHh--------CCEEEEEcCCCCCCHHHHHHHHHHHHHhCCCEEEEeCCC
Confidence 34578999999874 222234455666555542 55555443222334555555667777888887774 433
Q ss_pred hhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc-----CCcEEEEEEecC--CCcc
Q 006733 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-----GWRNVIALYVDD--DHGR 179 (633)
Q Consensus 107 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~-----~w~~v~ii~~d~--~~g~ 179 (633)
........ .+...++|+|....... +.. ....+..+....+...++++... |-++++++..+. ....
T Consensus 115 ~~~~~~~l-~~~~~giPvV~~~~~~~--~~~---~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~ 188 (343)
T PRK10936 115 PDGLNPDL-ELQAANIPVIALVNGID--SPQ---VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSK 188 (343)
T ss_pred hHHhHHHH-HHHHCCCCEEEecCCCC--Ccc---ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHH
Confidence 33322222 45678999997633221 111 12345677777788888876554 478999997542 2333
Q ss_pred hhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhc--CCCeEEEEeeChHHHHHHHHHHHHcCCC
Q 006733 180 NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMM 248 (633)
Q Consensus 180 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~ 248 (633)
...+.|++.+++.|+++.... .. ..+.......++++.+ .++++|+ +....+..+++++++.|+.
T Consensus 189 ~R~~Gf~~~l~~~~i~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~~ 255 (343)
T PRK10936 189 AVEQGFRAAIAGSDVRIVDIA-YG-DNDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNLT 255 (343)
T ss_pred HHHHHHHHHHhcCCCEEEEee-cC-CCcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCCC
Confidence 457788888988888765421 11 1122233344555433 2467775 3456677788999998873
No 126
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=98.31 E-value=0.00014 Score=70.93 Aligned_cols=201 Identities=11% Similarity=0.076 Sum_probs=137.4
Q ss_pred EEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEE-cCCchhhHHH
Q 006733 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVIAHL 112 (633)
Q Consensus 35 IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~avi-G~~~s~~~~~ 112 (633)
||++.|.. ..+......+++.+.++. |..+.+. .|...++.+-.+.+..++.+++.+|| .|..+.....
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 68888886 335556788888888885 4555555 78888998888899999999999777 5666666666
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc-CC-cEEEEEEecCCC--cchhHHHHHHH
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-GW-RNVIALYVDDDH--GRNGIAALGDK 188 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~-~w-~~v~ii~~d~~~--g~~~~~~~~~~ 188 (633)
...-+...+||+|..... .....+....+.++....+..+++++.+. +- .+++++.....+ .....+.+++.
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 667788899999986554 11123455677788888999999987543 32 688877644333 23466788888
Q ss_pred Hhhc-CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCC
Q 006733 189 LAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMME 249 (633)
Q Consensus 189 ~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~ 249 (633)
+++. ++++....... ..+.+.....+.++...++-..|+++....+..+++++++.|+..
T Consensus 148 l~~~~~~~~~~~~~~~-~~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~ 208 (257)
T PF13407_consen 148 LKEYPGVEIVDEYEYT-DWDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAG 208 (257)
T ss_dssp HHHCTTEEEEEEEEEC-TTSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTT
T ss_pred Hhhcceeeeeeeeecc-CCCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCcc
Confidence 8884 56665532221 234555556566655554433345567777778999999999854
No 127
>PRK09701 D-allose transporter subunit; Provisional
Probab=98.29 E-value=0.00076 Score=67.92 Aligned_cols=213 Identities=14% Similarity=0.022 Sum_probs=123.4
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~ 111 (633)
+||++.|.. ..+-.....+++-+.++ .|+.+.+...+...+.....+....++.+++.+||- +..+....
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 899999874 22223444555544443 256666654444456656666667777888887765 33333222
Q ss_pred HHHHhhccCCccEEeeccCCCC--CccCCCCceEEecCChHHHHHHHHHHHHH-cCC--cEEEEEEecC--CCcchhHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPS--LSSLQYPFFVRTTQSDLYQMAAIADIVDY-FGW--RNVIALYVDD--DHGRNGIAA 184 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~--ls~~~~~~~~r~~p~~~~~~~al~~ll~~-~~w--~~v~ii~~d~--~~g~~~~~~ 184 (633)
.....+...+||+|......+. +....-.....+..+....+...++++.+ .|- ++++++..+. .......+.
T Consensus 98 ~~l~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~G 177 (311)
T PRK09701 98 MPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNG 177 (311)
T ss_pred HHHHHHHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHH
Confidence 2223345689999987643221 11111122345677778888888887644 454 7999886543 334566788
Q ss_pred HHHHHhhcC-cEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 185 LGDKLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 185 ~~~~~~~~g-~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
|++.++++| +.+....... .+..+....++++.+. .+++ |++.....+..+++++++.|+. .+...++.+
T Consensus 178 f~~al~~~~~~~~~~~~~~~--~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~-~dv~vvg~d 250 (311)
T PRK09701 178 ATEAFKKASQIKLVASQPAD--WDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT-GKVLVVGTD 250 (311)
T ss_pred HHHHHHhCCCcEEEEecCCC--CCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC-CCEEEEEeC
Confidence 899998887 7654321111 1222334455555433 3554 4455566777889999998875 344444444
No 128
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=98.29 E-value=0.00012 Score=72.03 Aligned_cols=208 Identities=15% Similarity=0.088 Sum_probs=125.2
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH-hcCceEEEcCCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLL-ENETVAIIGPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li-~~~v~aviG~~~s~~~~ 111 (633)
.||++.|.. ..+......+++.++++ .|+.+.+...|... ......+.+++ ..++.++|.........
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 378999874 45556677788777765 25677666554332 22334455544 56899888744332223
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCC--cchhHHHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDH--GRNGIAALGDKL 189 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~--g~~~~~~~~~~~ 189 (633)
...+.+...++|+|......+. ...++ +..+....+..+++.+.+.|.++++++..+..+ .....+.|++.+
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 4445667799999987654321 12222 345667777888888877899999999865443 234467888888
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhc--CCCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
++.|+.+..........+..+....+.++.+ .++++|+ +++...+..+++++++.|...+. ...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~~i~vig~d 215 (270)
T cd01545 145 AEAGLPLDPELVAQGDFTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPDDLSVVGFD 215 (270)
T ss_pred HHcCCCCChhhEEeCCCChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 8888765210011111111222234444433 3466666 45567778899999999876443 4445544
No 129
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=98.25 E-value=0.00062 Score=69.18 Aligned_cols=208 Identities=15% Similarity=0.066 Sum_probs=111.9
Q ss_pred CCeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcC-Cch
Q 006733 30 PPVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGP-QFS 107 (633)
Q Consensus 30 ~~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~-~~s 107 (633)
..+.+||++.|.. ..+-.....+++.+.++ .+ +. .+.+.++..+.....+....++..++.++|-. ..+
T Consensus 22 ~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~---~g----~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~ 92 (330)
T PRK15395 22 AADTRIGVTIYKYDDNFMSVVRKAIEKDAKA---AP----DV--QLLMNDSQNDQSKQNDQIDVLLAKGVKALAINLVDP 92 (330)
T ss_pred cCCceEEEEEecCcchHHHHHHHHHHHHHHh---cC----Ce--EEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeccCH
Confidence 5678999999853 22223344454444443 22 23 33444555555555555666777788877753 233
Q ss_pred hhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHH-c-----------CCcEEEEEEecC
Q 006733 108 VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-F-----------GWRNVIALYVDD 175 (633)
Q Consensus 108 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~-~-----------~w~~v~ii~~d~ 175 (633)
.........+...++|+|......+.-.-...+....+..+....++.+++++.+ . |-.++++|....
T Consensus 93 ~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~~ 172 (330)
T PRK15395 93 AAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGEP 172 (330)
T ss_pred HHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecCC
Confidence 3233333556678999998765321100011122334566666666665665433 2 333445554332
Q ss_pred --CCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC----CCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 176 --DHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM----MSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 176 --~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~----~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
.......+.+++.+++.|+.+..........+..+....++++.+. ++++|+ +++...+..+++++++.|+
T Consensus 173 ~~~~~~~R~~G~~~al~~~g~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~A~gvl~al~~~Gl 249 (330)
T PRK15395 173 GHPDAEARTTYVIKELNDKGIKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAMAMGAVEALKAHNK 249 (330)
T ss_pred CCchHHHHHHHHHHHHHhcCCCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchHHHHHHHHHHhcCC
Confidence 2334567788899988887654321111111222333445554432 345444 4556667789999999887
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=98.22 E-value=0.00017 Score=70.82 Aligned_cols=207 Identities=10% Similarity=0.022 Sum_probs=123.9
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||+++|.. ..+-.....+++-+.++ .|+.+.+.. +..++..-.+....++..+++++|-...... ..
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~--------~g~~~~~~~--~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~-~~ 69 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATM--------YKYNIILSN--SDNDKEKELKVLNNLLAKQVDGIIFMGGKIS-EE 69 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHH--------cCCeEEEEe--CCCCHHHHHHHHHHHHHhcCCEEEEeCCCCc-HH
Confidence 478888863 22323444555544444 155655443 4445655566666777778888774222211 23
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC---CCcchhHHHHHHHH
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD---DHGRNGIAALGDKL 189 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~---~~g~~~~~~~~~~~ 189 (633)
+...+...++|+|......+ ... +..+.++....+..+++++...|-++++++..+. ..+....+.|++.+
T Consensus 70 ~~~~l~~~~ipvV~~~~~~~---~~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~gf~~~~ 143 (268)
T cd06298 70 HREEFKRSPTPVVLAGSVDE---DNE---LPSVNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSINGDERLAGYKEAL 143 (268)
T ss_pred HHHHHhcCCCCEEEEccccC---CCC---CCEEEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccchhHHHHHHHHHH
Confidence 44556677999998754322 111 2234667777788888888778999999998543 35667788999999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcCC-CeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM-SRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~-~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
++.|+.+..........+.......++++.... +++|+. .+...+..+++++++.|+..++ ..+++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~vvg~d 213 (268)
T cd06298 144 SEANIEFDESLIFEGDYTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDFEIIGFN 213 (268)
T ss_pred HHcCCCCCHHHeEeCCCChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEeec
Confidence 988865422111111112223334555655444 666665 4555577899999999986543 4445544
No 131
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=98.21 E-value=0.00039 Score=68.60 Aligned_cols=210 Identities=12% Similarity=0.028 Sum_probs=124.1
Q ss_pred EEEEEeec-CCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHH
Q 006733 34 NIGAVFAL-NSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~ 111 (633)
+||++.|. +..+-.....+++.+.++ .|+++. +.++..+...-.+....++.+++.++|- +.......
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~--------~g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 70 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEK--------RGFDLK--FADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWD 70 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHh--------cCCEEE--EeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccch
Confidence 48888885 332222334444444443 144544 4555556666666777788888887764 43333223
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecCC--CcchhHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDD--HGRNGIAALGD 187 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~~--~g~~~~~~~~~ 187 (633)
.....+...++|+|......+.. ...+++.++.+.+...+..+++++... +-++++++..+.. ......+.|++
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~~~--~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~ 148 (273)
T cd06309 71 PVLKEAKAAGIPVILVDRGVDVK--DDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAE 148 (273)
T ss_pred HHHHHHHHCCCCEEEEecCcCCc--cCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHH
Confidence 33455677899999876532211 112456778888888899999987666 8899999975432 23455678888
Q ss_pred HHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhcC---CCeEEEEeeChHHHHHHHHHHHHcCCCCCCe-EEEEeC
Q 006733 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILILHTYDIWGLEVLNAAKHLRMMESGY-VWIVTD 258 (633)
Q Consensus 188 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~-~~i~~~ 258 (633)
.+++. ++.+....... .+..+....+.++.+. .+++| ++.+...+..+++++++.|+..++- ..++.+
T Consensus 149 ~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~aI-~~~~d~~a~g~~~a~~~~g~~ip~di~iig~d 221 (273)
T cd06309 149 VIKKYPNMKIVASQTGD--FTRAKGKEVMEALLKAHGDDIDAV-YAHNDEMALGAIQAIKAAGKKPGKDIKIVSID 221 (273)
T ss_pred HHHHCCCCEEeeccCCc--ccHHHHHHHHHHHHHhCCCCccEE-EECCcHHHHHHHHHHHHcCCCCCCCeEEEecC
Confidence 99876 45543211111 1223334445555433 34543 3344556667889999999875443 444443
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=98.19 E-value=0.00021 Score=70.16 Aligned_cols=208 Identities=13% Similarity=0.081 Sum_probs=123.3
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||+++|.. ..+-.....+++.+.++. |+++ .+.++..++..-.+....++.+++.++|...+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA--------GYTV--FLANSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPD 70 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc--------CCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHH
Confidence 478998864 333345566776666652 4554 34455556666666667777788998887544332223
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~~ 190 (633)
....+...++|+|......+. .. +..+.++....+..+++.+.+.|-++++++..+. .......+.|++.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~~---~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVAG---AP---FDYVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCCC---CC---CCEEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 445667889999987443221 11 2234566677788888887777999999887542 344566788999998
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
+.|+.+.....+....+.......++++... ++++|+ +.+...+..+++++++.|+..++ ...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~~~~a~~~~~al~~~g~~~p~di~iig~d 214 (268)
T cd06289 145 EAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAIV-CFNDLVAFGAMSGLRRAGLTPGRDIAVVGFD 214 (268)
T ss_pred HcCCCCCchhEEecCcchhhHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 8875322111111111222333445554433 356544 34455566789999998876543 3344443
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=98.16 E-value=0.00037 Score=68.38 Aligned_cols=205 Identities=12% Similarity=0.012 Sum_probs=120.4
Q ss_pred EEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 35 IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
||++.|.. ..+-.....+++.+.++ .|+.+ .+.|+..++.........++..+++++|......... .
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~--------~g~~~--~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~ 70 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEARE--------AGYGV--LLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT-A 70 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHH--------cCCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH-H
Confidence 78888874 22323445555555555 24554 4556666776655556666777899877632222221 2
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec--CCCcchhHHHHHHHHhh
Q 006733 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD--DDHGRNGIAALGDKLAE 191 (633)
Q Consensus 114 a~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d--~~~g~~~~~~~~~~~~~ 191 (633)
.... ..++|+|......+ . +.+..+..+....+..+++++...|.++++++..+ +..+....+.|++.+++
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 45999997642211 1 22334566777788888888877899999999764 33556677899999998
Q ss_pred cCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 192 KRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 192 ~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
.|+.+..........+..+....++++.+. .+++|+.. +...+..+++++++.|+..++ ...++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~p~~v~v~g~d 212 (267)
T cd06284 144 AGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLRVPEDISVVGFD 212 (267)
T ss_pred cCCCCCcceEEeCCCChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCccceeEEEeC
Confidence 885432111111111223334445555433 35665554 455567888999998876433 3344433
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=98.14 E-value=0.00081 Score=66.60 Aligned_cols=212 Identities=12% Similarity=0.020 Sum_probs=117.9
Q ss_pred EEEEEeecC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC--CChHHHHHHHHHHHhcCceEEEcCCchh-
Q 006733 34 NIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN--YSRFLGMVEALTLLENETVAIIGPQFSV- 108 (633)
Q Consensus 34 ~IG~l~p~~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~--~~~~~a~~~~~~li~~~v~aviG~~~s~- 108 (633)
|||+++|.. ..+-.....+++.+.++ . |+.+.+...++. .+...-.+....++.+++++||-...+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~---~-----g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~ 72 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEE---L-----NIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLR 72 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHH---c-----CCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchh
Confidence 589999873 22212233333333332 2 566666544433 2445545555677778888877633322
Q ss_pred hHHHHHHhhccCCccEEeecc-CCCCCccCCCCceEEecCChHHHHHHHHHHHHH--cCCcEEEEEEecC-CCcchhHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAA-TDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY--FGWRNVIALYVDD-DHGRNGIAA 184 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a-~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~--~~w~~v~ii~~d~-~~g~~~~~~ 184 (633)
....+.. +...++|.|.... ..+.......+....+.+.....+..+++.|.+ .|.+++++|.... ..+....+.
T Consensus 73 ~~~~~~~-l~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~g 151 (280)
T cd06303 73 HRKLIER-VLASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDT 151 (280)
T ss_pred hHHHHHH-HHhCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHH
Confidence 2233333 4446667665422 222100000122345667777778888888766 7899999997532 333456778
Q ss_pred HHHHHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 185 LGDKLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 185 ~~~~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
|++.++++ |+.+... +....+..+....+.++.+. ++++| ++.....+..+++++++.|+. .+...++.+
T Consensus 152 f~~al~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~nd~~A~g~l~al~~~G~~-~dv~vvg~d 224 (280)
T cd06303 152 FIDCVHARNNWTLTSE--FYTDATRQKAYQATSDILSNNPDVDFI-YACSTDIALGASDALKELGRE-DDILINGWG 224 (280)
T ss_pred HHHHHHhCCCceEEEe--ecCCCCHHHHHHHHHHHHHhCCCCcEE-EECCcHHHHHHHHHHHHcCCC-CCcEEEecC
Confidence 88999887 7664322 11112223334455555433 34544 455566677899999999985 445555554
No 135
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=98.14 E-value=0.00082 Score=67.41 Aligned_cols=216 Identities=12% Similarity=0.055 Sum_probs=120.2
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~ 111 (633)
+||++.|.. ..+-.....+++.+.++. |..+.+.+.+...++..-.+....++.+++.++|- +..+....
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 589999864 233234455666555554 12344555666667776666677788888886664 44443333
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCc-----------EEEEEEecCC--
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWR-----------NVIALYVDDD-- 176 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~-----------~v~ii~~d~~-- 176 (633)
.+...+...++|+|......+.........+..+.++....+..++++|... +-+ .++++..+..
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 4445567789999987543221111111234456677777777777776543 221 2444554322
Q ss_pred CcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC---CCeEEEEeeChHHHHHHHHHHHHcCCCCC---
Q 006733 177 HGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILILHTYDIWGLEVLNAAKHLRMMES--- 250 (633)
Q Consensus 177 ~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~~~~~~~~~il~~a~~~g~~~~--- 250 (633)
......+.+++.+++.|+.+..........+..+....++++... .+++|+ +.....+..+++++++.|+..+
T Consensus 153 ~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~~ai~-~~~d~~a~g~~~al~~~g~~~p~~~ 231 (303)
T cd01539 153 DAIARTKYSIETLNDAGIKTEELASDTANWDRAQAKDKMDALLLKYGDKIEAVI-ANNDAMALGAIEALQKYGYNKGDKS 231 (303)
T ss_pred hhhhhhhhHHHHHHhcCCCeEEEEeecCCCCHHHHHHHHHHHHHhcCCCccEEE-ECCchHHHHHHHHHHHcCCCcCCCC
Confidence 224456788899988887653222211112222333445554332 245443 3445556678888888887654
Q ss_pred -CeEEEEeC
Q 006733 251 -GYVWIVTD 258 (633)
Q Consensus 251 -~~~~i~~~ 258 (633)
+...++.+
T Consensus 232 ~di~iig~d 240 (303)
T cd01539 232 KNIPVVGVD 240 (303)
T ss_pred CceEEEccC
Confidence 44445544
No 136
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=98.11 E-value=3.5e-06 Score=81.24 Aligned_cols=108 Identities=15% Similarity=0.128 Sum_probs=88.8
Q ss_pred CCceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEe
Q 006733 468 NGRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (633)
Q Consensus 468 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~ 547 (633)
..+.|||++.. .|.++... ++...|++.++.+++|+.||.+ .++++. ..-+.++.+|.+|++|++++
T Consensus 21 ~rGvLrV~tin----sp~sy~~~-~~~p~G~eYelak~Fa~yLgV~--Lki~~~------~n~dqLf~aL~ng~~DL~Aa 87 (473)
T COG4623 21 ARGVLRVSTIN----SPLSYFED-KGGPTGLEYELAKAFADYLGVK--LKIIPA------DNIDQLFDALDNGNADLAAA 87 (473)
T ss_pred hcCeEEEEeec----Cccceecc-CCCccchhHHHHHHHHHHhCCe--EEEEec------CCHHHHHHHHhCCCcceecc
Confidence 35789999985 35555544 6677899999999999999955 677664 45799999999999999999
Q ss_pred eeEeeccccceeeeccceeecceEEEEecCCCCcCcccccc
Q 006733 548 DFAITTERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLN 588 (633)
Q Consensus 548 ~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~l~ 588 (633)
++...++|.+.+.....|++.++.++.|+....+.-+..|.
T Consensus 88 gl~~~~~~l~~~~~gP~y~svs~qlVyRkG~~Rp~~l~~L~ 128 (473)
T COG4623 88 GLLYNSERLKNFQPGPTYYSVSQQLVYRKGQYRPRSLGQLK 128 (473)
T ss_pred cccCChhHhcccCCCCceecccHHHHhhcCCCCCCCHHHcc
Confidence 99999999999998888999999999998885555444443
No 137
>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=98.06 E-value=0.0011 Score=65.92 Aligned_cols=214 Identities=10% Similarity=0.011 Sum_probs=122.3
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcC-CchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGP-QFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~-~~s~~~~ 111 (633)
+||+++|.. ..+-.....+++.+.++ .|+++. +.++. ++.+..+....++..++.+||-. ..+....
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~--~~~~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 69 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKE--------KGFTVV--KIDVP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGP 69 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHH--------cCCEEE--EccCC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhH
Confidence 588888864 33334556666666665 255554 44555 55555556666777788877753 2333334
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHH----HcCC--cEEEEEE-ec--CCCcchhH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVD----YFGW--RNVIALY-VD--DDHGRNGI 182 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~----~~~w--~~v~ii~-~d--~~~g~~~~ 182 (633)
.+...+...++|+|..............+.+..+..+....+...++++. +.|+ +++++|. .. ........
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 44566778999999864432211100112233455666666666666543 3566 7888875 22 23456678
Q ss_pred HHHHHHHhhcCcEEEEEeecCCC-CChhhHHHHHHHhhcC--CCeE-EEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 183 AALGDKLAEKRCRLSHKVPLSPK-GSRNQIIDTLLTVSSM--MSRI-LILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 183 ~~~~~~~~~~g~~v~~~~~~~~~-~~~~~~~~~l~~i~~~--~~~v-Ivl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
+.+++.+++.|+........... .+.......++++... .++. +|++.....+..+++++++.|+...+...++.+
T Consensus 150 ~G~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig~d 229 (289)
T cd01540 150 DGALEALKAPGFPEANIFQAPQKTTDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVGIN 229 (289)
T ss_pred HHHHHHHhcCCCCcceEecccccCcchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEecC
Confidence 89999998888653211111111 1122223445555433 3453 455666677888899999999874344455544
No 138
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.06 E-value=0.0017 Score=64.02 Aligned_cols=212 Identities=10% Similarity=0.008 Sum_probs=121.6
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~ 111 (633)
.||++.|.. ..+-.....+++.+.++....+ ..+.+.+.+...++....+....++.+++.+||- |.......
T Consensus 1 ~Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~-----~g~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~ 75 (274)
T cd06311 1 TIGVSIPAADHGWTAGIVWHAQAAAKKLEAAY-----PDVEFILVTASNDTEQQNAQQDLLINRKIDALVILPFESAPLT 75 (274)
T ss_pred CeeeeccCCCCcHHHHHHHHHHHHHHHhhhhC-----CCeEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhH
Confidence 378888753 3333455667766666654332 2345566666666655554555577778887664 33333322
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecC-CCcchhHHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDD-DHGRNGIAALGDK 188 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~-~~g~~~~~~~~~~ 188 (633)
.....+...+||+|......+ ... .....+.++....+...++++.+. +.++++++.... .......+.|++.
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 333445678999998754321 110 112345677777788888887665 788999997533 2333456788899
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
+++.++++... .....+..+....+.++... ++++|+.. ....+..+++++++.|+.. +...++.+
T Consensus 152 l~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~~-~~~ivg~d 219 (274)
T cd06311 152 IAKYPIKILDR--QYANWNRDDAFSVMQDLLTKFPKIDAVWAH-DDDMAVGVLAAIKQAGRTD-IKFVVGGA 219 (274)
T ss_pred HhhCCcEEEec--cCCCCcHHHHHHHHHHHHHhCCCcCEEEEC-CCcHHHHHHHHHHHcCCCC-CceEEEeC
Confidence 98888765532 11111222333444454333 35554443 4445677888899888752 33344444
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=98.05 E-value=0.00052 Score=67.41 Aligned_cols=204 Identities=12% Similarity=0.043 Sum_probs=120.3
Q ss_pred EEEEEeecC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHH
Q 006733 34 NIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~ 111 (633)
.||+++|.. ..+......+++.+.++ .|+.+.+ .++..+...-.+....+...+++++|.........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~ 70 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAARE--------HGYLLLV--VNTGGDDELEAEAVEALLDHRVDGIIYATMYHREV 70 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCChh
Confidence 489999874 33434556666666555 2455433 44444554444555667777888777643322211
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC--CcchhHHHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKL 189 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 189 (633)
.......++|+|......+. . .+..+.+++...+..+++.+.+.|-++++++..+.. ......+.|++.+
T Consensus 71 --~~~~~~~~ipvv~~~~~~~~---~---~~~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 71 --TLPPELLSVPTVLLNCYDAD---G---ALPSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred --HHHHHhcCCCEEEEecccCC---C---CCCeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 22335578999986543321 1 223456777888888888887779999999975432 3345678889999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEE
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIV 256 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 256 (633)
++.|+.+..........+..+....++++.+. ++++|+ +.+...+..+++++++.|+..++-+.+.
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~vp~di~v~ 210 (269)
T cd06288 143 AEAGIPFDPDLVVHGDWSADDGYEAAAALLDLDDRPTAIF-CGNDRMAMGAYQALLERGLRIPQDVSVV 210 (269)
T ss_pred HHcCCCCCHHHeEeCCCChHHHHHHHHHHHhCCCCCCEEE-EeCcHHHHHHHHHHHHcCCCCcccceEE
Confidence 88886532111111011222334445555443 356654 4555667778899999998654433333
No 140
>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=98.04 E-value=0.0014 Score=64.42 Aligned_cols=206 Identities=15% Similarity=0.025 Sum_probs=121.5
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~ 111 (633)
+||+++|.. ..+-..+..+++.+.+++ |..+.+.+.++..++..-.+....++.+++.++|- +.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKL--------NPGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHh--------CCCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH
Confidence 489999874 333334566666666653 23344555566666665555566677778876654 33333222
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecC-CCcchhHHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDD-DHGRNGIAALGDK 188 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~-~~g~~~~~~~~~~ 188 (633)
.....+...++|+|......+ . ....+..+....++.+++++... |.++++++.... .......+.+++.
T Consensus 73 ~~i~~~~~~~ipvv~~~~~~~---~----~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~~~R~~g~~~~ 145 (271)
T cd06321 73 PAVKRAQAAGIVVVAVDVAAE---G----ADATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAVLDRVAGCKAA 145 (271)
T ss_pred HHHHHHHHCCCeEEEecCCCC---C----ccceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchHHHHHHHHHHH
Confidence 333445667999998755332 1 11345677778888888888776 999999997543 2334556788888
Q ss_pred Hhhc-CcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 189 LAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 189 ~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
+++. +++..... .....+...-...+.++.+. ++++|+. .....+..+++++++.|+ .+..+++.+
T Consensus 146 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~--~di~v~g~d 214 (271)
T cd06321 146 LAKYPGIKLLSDD-QNGKGSRDGGLRVMQGLLTRFPKLDGVFA-INDPTAIGADLAAKQAGR--NDIKITSVD 214 (271)
T ss_pred HHhCCCcEEEeee-cCCCCChhhHHHHHHHHHHhCCCCCEEEE-CCchhHHHHHHHHHHcCC--CCcEEEEec
Confidence 8887 56532211 11111212223445555433 3565444 455566778899999887 345555554
No 141
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=98.04 E-value=0.0018 Score=65.60 Aligned_cols=206 Identities=13% Similarity=0.088 Sum_probs=129.1
Q ss_pred CeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEE-cCCchhh
Q 006733 31 PVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII-GPQFSVI 109 (633)
Q Consensus 31 ~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~avi-G~~~s~~ 109 (633)
...+||++.+... ..+..++.-++++--+.- |....+...|...++.+-+..+..++.+++.+|+ .|.++..
T Consensus 32 ~~~~i~~~~~~~~---~~f~~~~~~g~~~~a~~~----g~~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~ 104 (322)
T COG1879 32 AGKTIGVVVPTLG---NPFFQAVRKGAEAAAKKL----GVVVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPDA 104 (322)
T ss_pred cCceEEEEeccCC---ChHHHHHHHHHHHHHHHc----CCcEEEEecccccChHHHHHHHHHHHHcCCCEEEEcCCChhh
Confidence 3488999988752 233444444444433332 3355677778888888888889999989998665 5778888
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHH-cC-CcEEEEEEec--CCCcchhHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-FG-WRNVIALYVD--DDHGRNGIAAL 185 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~-~~-w~~v~ii~~d--~~~g~~~~~~~ 185 (633)
......-+...+||+|.+....+.- ......+..+....+...++++.+ ++ .-++.++... ..........+
T Consensus 105 ~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G~ 180 (322)
T COG1879 105 LTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKGF 180 (322)
T ss_pred hHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhhH
Confidence 8888889999999999876554322 123344444556666666776543 43 2456666643 33445567889
Q ss_pred HHHHhhcCc--EEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHHHcCCCC
Q 006733 186 GDKLAEKRC--RLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAKHLRMME 249 (633)
Q Consensus 186 ~~~~~~~g~--~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~~~g~~~ 249 (633)
++.+.+.+. .+.....- ..+...-......+..+.+++-.+++.. ..+.-..+++++.|...
T Consensus 181 ~~~l~~~~~~~~v~~~~~~--~~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~ 245 (322)
T COG1879 181 RDALKEHPPDIEVVDVQTG--DWDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG 245 (322)
T ss_pred HHHHHhCCCcEEEeeccCC--cccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC
Confidence 999988874 44432221 1233344455666666677776666544 44445557777777755
No 142
>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=98.03 E-value=0.00074 Score=66.37 Aligned_cols=207 Identities=9% Similarity=-0.017 Sum_probs=119.8
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||++.|.. ..+......+++.+.++ .|+++. +.++..++..-.+....+..+++++||-.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYR--------QGYNLI--LCNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYDQPL 70 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHH--------cCCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 378998864 33444556666666555 145554 3455556665556666777778887664332222222
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~~ 190 (633)
+..+....++|+|......+ ...++ .+..+....+..+++++...|-++++++.... .......+.|++.++
T Consensus 71 ~~~l~~~~~ipvV~i~~~~~---~~~~~---~V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (269)
T cd06275 71 LAMLERYRHIPMVVMDWGPE---DDFAD---KIQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMA 144 (269)
T ss_pred HHHHHhcCCCCEEEEecccC---CCCCC---eEeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHH
Confidence 23333456999998754322 11222 24556666777778888778999999997532 234456788889998
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCe-EEEEe
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGY-VWIVT 257 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~-~~i~~ 257 (633)
+.|+.+..........+.......++++.+. .+++ |++.+...+..+++++++.|+..++- ..++.
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~vvg~ 213 (269)
T cd06275 145 EAGLPVNPGWIVEGDFECEGGYEAMQRLLAQPKRPTA-VFCGNDLMAMGALCAAQEAGLRVPQDLSIIGY 213 (269)
T ss_pred HcCCCCCHHHhccCCCChHHHHHHHHHHHcCCCCCcE-EEECChHHHHHHHHHHHHcCCCCCcceEEEEe
Confidence 8887643211111111222334455555443 3454 34445566667889999988765443 33443
No 143
>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=98.02 E-value=0.001 Score=65.29 Aligned_cols=207 Identities=14% Similarity=0.048 Sum_probs=120.1
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||++.|.. ..+-.....+++.+.++. |+.+.+ .+...+...-.+....++.+++++||-....... .
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-~ 69 (268)
T cd01575 1 LVAVLVPSLSNSVFADVLQGISDVLEAA--------GYQLLL--GNTGYSPEREEELLRTLLSRRPAGLILTGLEHTE-R 69 (268)
T ss_pred CEEEEeCCCcchhHHHHHHHHHHHHHHc--------CCEEEE--ecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCCH-H
Confidence 378999864 222234455555555542 555544 4444455444555667777788877753322222 2
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~~ 190 (633)
....+...++|+|....... . +....+..+....+..+++.+...|-++++++..+. .......+.|++.++
T Consensus 70 ~~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (268)
T cd01575 70 TRQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALR 143 (268)
T ss_pred HHHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHH
Confidence 33445667999998643221 1 122335566777788888888888999999998653 344556778999998
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeE-EEEeC
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV-WIVTD 258 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~-~i~~~ 258 (633)
+.|.............+.......+.++.+. ++++|+. ++...+..+++++++.|...++.+ .++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~di~vig~d 213 (268)
T cd01575 144 AAGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVFC-SNDDLALGALFECQRRGISVPEDIAIAGFG 213 (268)
T ss_pred HcCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCCcceEEEecC
Confidence 8876322211111111223344555555433 4666554 445566778999999887644433 34433
No 144
>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=98.01 E-value=0.0023 Score=62.78 Aligned_cols=203 Identities=12% Similarity=0.047 Sum_probs=119.0
Q ss_pred EEEEeecCC-ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHHH
Q 006733 35 IGAVFALNS-TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAHL 112 (633)
Q Consensus 35 IG~l~p~~~-~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~~ 112 (633)
||++.|... .+-.....+++.+.++ .|+.+ .+.++..++....+....++.+++.++|- +..+.....
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~--~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~ 71 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKK--------QKVNL--IVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRA 71 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHh--------cCCEE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHH
Confidence 788888742 1222334444444443 24444 44566667766666777788888887776 443332233
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecC-CCcchhHHHHHHHH
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDD-DHGRNGIAALGDKL 189 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~-~~g~~~~~~~~~~~ 189 (633)
....+...++|+|......+ ..+.+..+.+.....+...++++.+. |-+++++++... .......+.|++.+
T Consensus 72 ~~~~~~~~~ipvV~~~~~~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~ 146 (267)
T cd06322 72 AIAKAKKAGIPVITVDIAAE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEAL 146 (267)
T ss_pred HHHHHHHCCCCEEEEcccCC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHHH
Confidence 33456678999998743211 11223456777777788888887664 788999997432 23445678888999
Q ss_pred hhc-CcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 190 AEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 190 ~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
++. |+.+.... .. .+.++....+.++... ++++ |++.+...+..+++++++.|+ .+...++.+
T Consensus 147 ~~~~~~~~~~~~-~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~al~~~g~--~di~vvg~d 212 (267)
T cd06322 147 ADYPNIKIVAVQ-PG--ITRAEALTAAQNILQANPDLDG-IFAFGDDAALGAVSAIKAAGR--DNVKVIGFD 212 (267)
T ss_pred HhCCCcEEEEec-CC--CChHHHHHHHHHHHHhCCCCCE-EEEcCCcHHHHHHHHHHHCCC--CCeEEEEec
Confidence 888 88764221 11 1222333444554433 3554 334455566778899999887 334444443
No 145
>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=98.00 E-value=0.0012 Score=67.25 Aligned_cols=210 Identities=11% Similarity=0.040 Sum_probs=123.3
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~ 109 (633)
..-.||+++|.. ..+-.....+++.+.++ .|+.+.+. ++..+...-.+....+...++.++|-.... .
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~--------~g~~~~i~--~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~-~ 126 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATM--------YKYNIILS--NSDEDPEKEVQVLNTLLSKQVDGIIFMGGT-I 126 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHhCCCCEEEEeCCC-C
Confidence 456899999853 33333445555544443 25555443 444445444445556677788877742111 1
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--C-CcchhHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--D-HGRNGIAALG 186 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~-~g~~~~~~~~ 186 (633)
...+...+...++|+|......+ ...+ ..+..++...+..+++.|...|.++++++.... . .+....+.|+
T Consensus 127 ~~~~~~~l~~~~iPvV~~~~~~~---~~~~---~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~Gf~ 200 (329)
T TIGR01481 127 TEKLREEFSRSPVPVVLAGTVDK---ENEL---PSVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEGYK 200 (329)
T ss_pred ChHHHHHHHhcCCCEEEEecCCC---CCCC---CEEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHHHH
Confidence 12334456677999997654321 1112 234566676777788888778999999997432 2 2466788899
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
+.+++.|+.+..........+..+....++++.+..+++|+. .+...+..+++++++.|+..++ ...++.+
T Consensus 201 ~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP~dvsvvgfd 272 (329)
T TIGR01481 201 EALNKAGIQFGEDLVCEGKYSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVPEDLEVITSN 272 (329)
T ss_pred HHHHHcCCCCCcceEEecCCChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEEeeC
Confidence 999998876432211111112223344556665556776555 4555777899999999986543 3344443
No 146
>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=98.00 E-value=0.00076 Score=66.59 Aligned_cols=203 Identities=12% Similarity=0.055 Sum_probs=128.6
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||++.|.- ..+-.....+++.+.++ .|+.+-+ .++..++..- +....+.+.+|+++|-.........
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 799999986 33323445555544444 2666544 4455555555 5666677778887775433333345
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcE-EEEEEecCCC--cchhHHHHHHHH
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRN-VIALYVDDDH--GRNGIAALGDKL 189 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~-v~ii~~d~~~--g~~~~~~~~~~~ 189 (633)
+..+... ++|+|......... ...|++ ..++..-+..+.+.|.+.|-++ ++++..+... .....+.+++++
T Consensus 72 l~~~~~~-~iPvV~~~~~~~~~--~~~~~V---~~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al 145 (279)
T PF00532_consen 72 LRRLIKS-GIPVVLIDRYIDNP--EGVPSV---YIDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDAL 145 (279)
T ss_dssp HHHHHHT-TSEEEEESS-SCTT--CTSCEE---EEEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHc-CCCEEEEEeccCCc--ccCCEE---EEcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHH
Confidence 6666666 99999865442211 123333 3456667777888888899999 9999976543 445667899999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeE-EEEeeChHHHHHHHHHHHHcC-CCCCCeE
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRI-LILHTYDIWGLEVLNAAKHLR-MMESGYV 253 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-Ivl~~~~~~~~~il~~a~~~g-~~~~~~~ 253 (633)
+++|+.+..........+..+-...++++.+.+|++ .|+++...-+...++++++.| +..+.-+
T Consensus 146 ~~~Gl~~~~~~i~~~~~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~gr~~ip~di 211 (279)
T PF00532_consen 146 KEAGLPIDEEWIFEGDFDYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERGRLKIPEDI 211 (279)
T ss_dssp HHTTSCEEEEEEEESSSSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT-TCTTTEE
T ss_pred HHcCCCCCcccccccCCCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcCCcccChhh
Confidence 999996654443332233344456666666665552 445566778888999999999 7666544
No 147
>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=97.99 E-value=0.002 Score=63.30 Aligned_cols=204 Identities=7% Similarity=-0.078 Sum_probs=120.8
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcC-CchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGP-QFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~-~~s~~~~ 111 (633)
+||+++|.. ..+-.....+++.+.++. |+.+.+...+...+...-.+....++..++.+||-. .......
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~ 72 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL--------GVSLKLLEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDGLN 72 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc--------CCEEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHH
Confidence 589999863 333334556666666642 455544322222344445556677777788877653 2222222
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCC-----cEEEEEEecC--CCcchhHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGW-----RNVIALYVDD--DHGRNGIAA 184 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w-----~~v~ii~~d~--~~g~~~~~~ 184 (633)
.+ ..+...++|+|....... +. .....+..+....++.+++++.+.+- ++++++.... .......+.
T Consensus 73 ~~-~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g 146 (268)
T cd06306 73 EI-LQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVEKG 146 (268)
T ss_pred HH-HHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHHHH
Confidence 23 445678999998643221 11 12234667777788888888776665 8999997543 244566788
Q ss_pred HHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEE
Q 006733 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIV 256 (633)
Q Consensus 185 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 256 (633)
+++.+++.++++.... .. ..+.......++++.+. ++++|+. ....+..+++++++.|+. .+...++
T Consensus 147 ~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~p-~di~vig 215 (268)
T cd06306 147 FRDALAGSAIEISAIK-YG-DTGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGLT-DQIKIVS 215 (268)
T ss_pred HHHHHhhcCcEEeeec-cC-CccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCCC-CCeEEEe
Confidence 9999998888765421 11 11223334555554433 4676653 367777889999998872 3334443
No 148
>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=97.98 E-value=0.0016 Score=63.86 Aligned_cols=202 Identities=15% Similarity=0.081 Sum_probs=119.4
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||++.|.. ..+-.....+++.+.++. |+.+ .+.+...++..-......++..++++||-.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~--------g~~~--~~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~ 70 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAH--------GYQV--LVCNSDNDPEKEKEYLESLLAYQVDGLIVNPTGNNKEL 70 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEE--EEEcCCCCHHHHHHHHHHHHHcCcCEEEEeCCCCChHH
Confidence 378888864 333345566666666652 4454 34455556655555666777778887774322222223
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC-C--cchhHHHHHHHH
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD-H--GRNGIAALGDKL 189 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~-~--g~~~~~~~~~~~ 189 (633)
+ ..+...++|+|......+ .. .+..+..+....+..+++.+...|-++++++..... . .....+.+++.+
T Consensus 71 l-~~~~~~~ipvV~~~~~~~---~~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 71 Y-QRLAKNGKPVVLVDRKIP---EL---GVDTVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred H-HHHhcCCCCEEEEcCCCC---CC---CCCEEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3 445678999998754322 11 123344566777888888888889999999975432 1 135667889999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcCC--CeEEEEeeChHHHHHHHHHHHHcCCCCCCeE
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~ 253 (633)
++.|+............+..+....++++.++. +++|+.. +...+..+++++++.|+..++-+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di 208 (267)
T cd06283 144 AEHGIGVNEELIEIDDEDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDV 208 (267)
T ss_pred HHcCCCCCcceeEecccchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccce
Confidence 888753221111111112334455666665443 4554444 45556678999999998654333
No 149
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.96 E-value=0.0041 Score=63.09 Aligned_cols=202 Identities=8% Similarity=-0.041 Sum_probs=119.0
Q ss_pred CCeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCch-
Q 006733 30 PPVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFS- 107 (633)
Q Consensus 30 ~~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s- 107 (633)
.+..+||++.|.. ..+......+++.++++. |+.+.+ .++..++..-.+....+++++++++|-....
T Consensus 23 ~~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~--------g~~l~i--~~~~~~~~~~~~~i~~l~~~~vDGiIi~~~~~ 92 (330)
T PRK10355 23 AKEVKIGMAIDDLRLERWQKDRDIFVKKAESL--------GAKVFV--QSANGNEETQMSQIENMINRGVDVLVIIPYNG 92 (330)
T ss_pred CCCceEEEEecCCCchHHHHHHHHHHHHHHHc--------CCEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCh
Confidence 4589999999864 444445555665555542 455444 4565566666666677778888877653332
Q ss_pred hhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEe-c--CCCcchhHHH
Q 006733 108 VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYV-D--DDHGRNGIAA 184 (633)
Q Consensus 108 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~-d--~~~g~~~~~~ 184 (633)
.........+...++|+|......+ .. +....+.+++...+..++++|...|-++++++.. . ...+....+.
T Consensus 93 ~~~~~~l~~~~~~~iPvV~id~~~~---~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~~R~~g 167 (330)
T PRK10355 93 QVLSNVIKEAKQEGIKVLAYDRMIN---NA--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNAKLFRAG 167 (330)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCC---CC--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccHHHHHHH
Confidence 2222333556778999998744321 11 1123577888888899999887778888776543 2 1233455677
Q ss_pred HHHHHhhc---C-cEEEEEeecCCCCChhhHHHHHHHhhc---CCCeEEEEeeChHHHHHHHHHHHHcCCC
Q 006733 185 LGDKLAEK---R-CRLSHKVPLSPKGSRNQIIDTLLTVSS---MMSRILILHTYDIWGLEVLNAAKHLRMM 248 (633)
Q Consensus 185 ~~~~~~~~---g-~~v~~~~~~~~~~~~~~~~~~l~~i~~---~~~~vIvl~~~~~~~~~il~~a~~~g~~ 248 (633)
+++.++++ | +.+....... ..+..+....++++.+ ..+++ |++.+...+..+++++++.|+.
T Consensus 168 f~~~l~~~~~~~~i~~~~~~~~~-~~~~~~~~~~~~~lL~~~~~~~~a-I~~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 168 QMKVLKPYIDSGKIKVVGDQWVD-GWLPENALKIMENALTANNNKIDA-VVASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHhhhccCCCeEEecccCCC-CCCHHHHHHHHHHHHHhCCCCccE-EEECCCchHHHHHHHHHHCCCC
Confidence 88888763 4 4432221111 1122233345555432 23564 4445566666788999998875
No 150
>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=97.95 E-value=0.0012 Score=64.86 Aligned_cols=205 Identities=15% Similarity=0.080 Sum_probs=117.2
Q ss_pred EEEEeecC-----CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCchh
Q 006733 35 IGAVFALN-----STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSV 108 (633)
Q Consensus 35 IG~l~p~~-----~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~ 108 (633)
||+++|.. ..+...+..+++.++++ .|+.+.+...+.. ....+.+.+++.+ +++++|......
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~ 70 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE--------HGYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRP 70 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH--------CCceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCC
Confidence 78898863 23333444555444443 2566666554432 2233445566554 688777643322
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALG 186 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~ 186 (633)
.... ...+...++|+|......+ ...+++ +.++....+..+++++.+.|-++++++.... ..+....+.|+
T Consensus 71 ~~~~-~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 143 (268)
T cd06271 71 DDPR-VALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYR 143 (268)
T ss_pred CChH-HHHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHH
Confidence 2222 2455678999998744322 122333 3466777778888887777999999997543 23455678899
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeE-EEEeC
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV-WIVTD 258 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~-~i~~~ 258 (633)
+.+++.|+.+.....+....+.......++++.+. .+++|+.. +...+..+++++++.|+..++.+ .++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i~iig~d 217 (268)
T cd06271 144 RALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDVSVVGFD 217 (268)
T ss_pred HHHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCcceeEEEec
Confidence 99998887542211111112223334455555433 35655554 45566778999999998755433 34433
No 151
>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=97.94 E-value=0.0028 Score=62.06 Aligned_cols=198 Identities=15% Similarity=0.042 Sum_probs=116.4
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||+++|.. ..+-.....+++.+.++ .|+.+.+...+. .++....+....++++++.++|--........
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~--------~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAARE--------AGYAVTLSMLAE-ADEEALRAAVRRLLAQRVDGVIVNAPLDDADA 71 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHH--------CCCeEEEEeCCC-CchHHHHHHHHHHHhcCCCEEEEeCCCCChHH
Confidence 378999864 23333455666555555 256665553322 23344444555666778888874222222223
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC--CcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~~ 190 (633)
+.. ....++|+|....... +.+..+..+....+..+++.+.+.|-++++++..+.. ......+.|++.++
T Consensus 72 ~~~-~~~~~ipvv~~~~~~~-------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (264)
T cd01574 72 ALA-AAPADVPVVFVDGSPS-------PRVSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAALE 143 (264)
T ss_pred HHH-HHhcCCCEEEEeccCC-------CCCCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHHH
Confidence 333 3568999998754321 1233456677778888889888889999999975433 23355678888888
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcCC-CeEEEEeeChHHHHHHHHHHHHcCCCCCC
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM-SRILILHTYDIWGLEVLNAAKHLRMMESG 251 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~-~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 251 (633)
+.|+.+....... .+..+....+.++.... +++|+ +++...+..+++++++.|...++
T Consensus 144 ~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~ai~-~~~d~~a~g~~~~~~~~g~~ip~ 202 (264)
T cd01574 144 AAGIAPPPVLEGD--WSAESGYRAGRELLREGDPTAVF-AANDQMALGVLRALHELGLRVPD 202 (264)
T ss_pred HCCCCcceeeecC--CCHHHHHHHHHHHHhCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCcc
Confidence 8887654322111 12233344455554433 55544 44556677889999998875443
No 152
>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=97.94 E-value=0.0014 Score=64.24 Aligned_cols=205 Identities=16% Similarity=0.088 Sum_probs=121.1
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||+++|.. ..+-.....+++.+.++ .|+.+. +.++..++..-.+....+...++++||-..+......
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~--------~~~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~ 70 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAE--------RGYSTF--VANTGDNPDAQRRAIEMLLDRRVDGLILGDARSDDHF 70 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 479999864 33333445555555544 245553 3445556655555566677778887664322222233
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~~ 190 (633)
+ ..+...++|+|......+ ..+ .+..+....+..+++.|...|-++++++..+. .......+.|++.++
T Consensus 71 ~-~~~~~~~iPvv~~~~~~~-----~~~---~V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 141 (265)
T cd06285 71 L-DELTRRGVPFVLVLRHAG-----TSP---AVTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAALA 141 (265)
T ss_pred H-HHHHHcCCCEEEEccCCC-----CCC---EEEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3 445668999998754321 122 24556677788888888888999999997543 344566788899999
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCC-CeEEEEeC
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMES-GYVWIVTD 258 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 258 (633)
+.|+.+.....+....+.......++++.+. .+++ |++.+...+..+++++++.|+..+ +...++.+
T Consensus 142 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~~p~di~iig~d 211 (265)
T cd06285 142 EAGIEVPPERIVYSGFDIEGGEAAAEKLLRSDSPPTA-IFAVNDFAAIGVMGAARDRGLRVPDDVALVGYN 211 (265)
T ss_pred HcCCCCChhhEEeCCCCHHHHHHHHHHHHcCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 8887643211111112223334455555433 3454 444456667789999999998644 33444443
No 153
>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=97.93 E-value=0.0023 Score=62.84 Aligned_cols=203 Identities=12% Similarity=-0.008 Sum_probs=118.2
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||++.|.. ..+-.....+++.+.++ .|+.+.+. ++..++..-.+....+...++.++|.-.+......
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 488998863 33333455555555553 25666544 33345555455556666778888886433222223
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC--CcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~~ 190 (633)
+..+. ..++|+|......+.. . ...+.+++...+..+++.|.+.|-++++++..+.. ......+.|++.++
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~~~---~---~~~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVPGA---K---VPKVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHH-hcCCCEEEECCCCCCC---C---CCEEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 33333 3579999875433211 1 22356788888888889888889999999975432 23456788999999
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhc--CCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEE
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVW 254 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~ 254 (633)
+.|+.+..........+..+....+.++.+ ..+++|+. ++..-+..+++++++.|+..++-+-
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~vp~di~ 208 (269)
T cd06293 144 EAHIPEVPEYVCFGDYTREFGRAAAAQLLARGDPPTAIFA-ASDEIAIGLLEVLRERGLSIPGDMS 208 (269)
T ss_pred HcCCCCChheEEecCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceE
Confidence 888643211111111122233345555533 23565444 4555666788999999876554333
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=97.92 E-value=0.003 Score=63.40 Aligned_cols=211 Identities=17% Similarity=0.104 Sum_probs=123.4
Q ss_pred EEEEeecC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CceEEEcCCchhhH
Q 006733 35 IGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN--ETVAIIGPQFSVIA 110 (633)
Q Consensus 35 IG~l~p~~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~--~v~aviG~~~s~~~ 110 (633)
||+++|.. ..+-.....+++.+.++ .|+.+.+. ++..+...-......++.+ ++.+||-...+...
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~--------~g~~v~~~--~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~ 71 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADD--------LGIELEVL--YAERDRFLMLQQARTILQRPDKPDALIFTNEKSVA 71 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHh--------cCCeEEEE--eCCCCHHHHHHHHHHHHHhccCCCEEEEcCCccch
Confidence 78888764 22223445555555544 15555444 4555666666677788888 89987753222223
Q ss_pred HHHHHhhccCCccEEeeccCCCCCc-----c--CCC-CceEEecCChHHHHHHHHHHHHHcCCcE--------EEEEEec
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLS-----S--LQY-PFFVRTTQSDLYQMAAIADIVDYFGWRN--------VIALYVD 174 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls-----~--~~~-~~~~r~~p~~~~~~~al~~ll~~~~w~~--------v~ii~~d 174 (633)
......+...++|+|......+... . ..+ .++-...++....++.+++.|.+.|-++ ++++...
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 3334566779999998765432111 0 111 2345567888888888888877666653 7777643
Q ss_pred C--CCcchhHHHHHHHHhhcC-cEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCC
Q 006733 175 D--DHGRNGIAALGDKLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMME 249 (633)
Q Consensus 175 ~--~~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~ 249 (633)
. .......+.|++.++++| +.+... .....+..+....++++.+. ++++|+ +.+...+..+++++++.|+..
T Consensus 152 ~~~~~~~~R~~Gf~~~~~~~g~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~v 228 (305)
T cd06324 152 PTTPAAILREAGLRRALAEHPDVRLRQV--VYAGWSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAGRKP 228 (305)
T ss_pred CCChHHHHHHHHHHHHHHHCCCceEeee--ecCCCCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcCCCc
Confidence 2 233456778899998887 443221 11112223334455555433 456544 455667778999999999865
Q ss_pred C-CeEEEEeC
Q 006733 250 S-GYVWIVTD 258 (633)
Q Consensus 250 ~-~~~~i~~~ 258 (633)
+ +...++.+
T Consensus 229 p~di~vig~D 238 (305)
T cd06324 229 GRDVLFGGVN 238 (305)
T ss_pred CCCEEEEecC
Confidence 4 34445444
No 155
>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=97.91 E-value=0.0024 Score=62.67 Aligned_cols=200 Identities=14% Similarity=0.023 Sum_probs=119.5
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||+++|.. ..+-.....+++.+.++. |+.+.+.. +..++..-.+....++.+++.+||-..+......
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~~--~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~~ 70 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA--------GKHLIITA--GHHSAEKEREAIEFLLERRCDALILHSKALSDDE 70 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC--------CCEEEEEe--CCCchHHHHHHHHHHHHcCCCEEEEecCCCCHHH
Confidence 378999874 333345566666666552 45655443 3445554455566777788887775333222222
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC--CcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~~ 190 (633)
-..+...++|+|......+. ..+++ +..+....+..+++++...|-++++++..+.. ......+.|++.++
T Consensus 71 -~~~~~~~~ipvV~~~~~~~~---~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 71 -LIELAAQVPPLVLINRHIPG---LADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred -HHHHhhCCCCEEEEeccCCC---CCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 34456789999987543321 11222 45677778888889887789999999975432 23455678889998
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCC
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG 251 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 251 (633)
+.|+.+..........+..+....++++.+. .+++|+ ++....+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~ 205 (268)
T cd06270 144 EAGIALDESLIIEGDFTEEGGYAAMQELLARGAPFTAVF-CANDEMAAGAISALREHGISVPQ 205 (268)
T ss_pred HcCCCCCcceEEECCCCHHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCC
Confidence 8886542111111112233444555665444 356444 44455667789999998876543
No 156
>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=97.91 E-value=0.0032 Score=61.86 Aligned_cols=208 Identities=10% Similarity=0.042 Sum_probs=121.1
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~ 111 (633)
+||++.|.- ..+-.....+++.+.++ . .|+.+. +.++..++..-.+....++..++.+||- +.......
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~---~----~g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASN---Y----PDVELI--IADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHh---c----CCcEEE--EEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 588998853 22222334444333332 2 145554 4455566666666667777778886664 33322222
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecCCC--cchhHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDH--GRNGIAALGD 187 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~~~--g~~~~~~~~~ 187 (633)
.....+...++|+|......+ +. .....+..++...+..+++++.+. |-++++++...... .....+.+++
T Consensus 72 ~~~~~~~~~~ipvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 72 PVVEEAYRAGIPVILLDRKIL---SD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHHHCCCCEEEeCCCCC---Cc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 233445678999998754221 11 223446677888888888887665 88999999754322 3355788899
Q ss_pred HHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhc--CCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 006733 188 KLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (633)
Q Consensus 188 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (633)
.++++ |+.+.... .. ..+..+....++++.+ .++++ |++.....+..+++++++.|+. .+...++.+.
T Consensus 147 ~l~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~a-I~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d~ 217 (270)
T cd06308 147 ALSKYPKIKIVAQQ-DG-DWLKEKAEEKMEELLQANPDIDL-VYAHNDPMALGAYLAAKRAGRE-KEIKFIGIDG 217 (270)
T ss_pred HHHHCCCCEEEEec-CC-CccHHHHHHHHHHHHHhCCCCcE-EEeCCcHHHHHHHHHHHHcCCC-CCcEEEEecC
Confidence 99988 87764321 11 1122222334444432 24564 4445666777889999999987 5555666554
No 157
>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=97.90 E-value=0.0039 Score=62.19 Aligned_cols=212 Identities=12% Similarity=0.048 Sum_probs=117.7
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~~ 112 (633)
|||++.|... ..+...+..++++.-++ .|+++.+. .+...++..-.+....++.+++++||- +........
T Consensus 1 ~i~~i~~~~~---~~~~~~~~~gi~~~a~~----~g~~~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~ 72 (294)
T cd06316 1 KAAIVMHTSG---SDWSNAQVRGAKDEFAK----LGIEVVAT-TDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAA 72 (294)
T ss_pred CeEEEecCCC---ChHHHHHHHHHHHHHHH----cCCEEEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhH
Confidence 6888887532 12333333333333222 25565433 345567766666677778888886664 333222233
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecCC--CcchhHHHHHHH
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDD--HGRNGIAALGDK 188 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~~--~g~~~~~~~~~~ 188 (633)
....+...++|+|.+....+.... ..+++..+..+....+..+++++.+. +-++++++..+.+ ......+.+++.
T Consensus 73 ~i~~~~~~~iPvV~~~~~~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~ 151 (294)
T cd06316 73 AYKKVAEAGIKLVFMDNVPSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKET 151 (294)
T ss_pred HHHHHHHcCCcEEEecCCCccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHH
Confidence 335566789999987554322211 01233445667777778888887665 7899999975433 334556788888
Q ss_pred HhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 189 LAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 189 ~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
+++++..+........ .+.......++++... ++++|+. .+...+..+++++++.|+ .+...++.+
T Consensus 152 l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~--~di~vvg~d 219 (294)
T cd06316 152 IKKNYPDITIVAEKGI-DGPSKAEDIANAMLTQNPDLKGIYA-VWDVPAEGVIAALRAAGR--DDIKVTTVD 219 (294)
T ss_pred HHHhCCCcEEEeecCC-cchhHHHHHHHHHHHhCCCeeEEEe-CCCchhHHHHHHHHHcCC--CCceEEEeC
Confidence 8766532221111110 1112223444554333 3555443 445668889999999887 344455544
No 158
>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=97.90 E-value=0.0027 Score=62.16 Aligned_cols=204 Identities=12% Similarity=0.042 Sum_probs=116.7
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
.||+++|... ......+...+++.-+. .|+.+.+ .++..++..-.+....++..++.+||-.........+
T Consensus 1 ~igvi~~~~~---~~~~~~~~~~~~~~~~~----~g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~ 71 (264)
T cd06274 1 TIGLIIPDLE---NRSFARIAKRLEALARE----RGYQLLI--ACSDDDPETERETVETLIARQVDALIVAGSLPPDDPY 71 (264)
T ss_pred CEEEEecccc---CchHHHHHHHHHHHHHH----CCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHHH
Confidence 3799998642 12233333333333222 2455544 3444456555556667778888877753332222223
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHHHHHhh
Q 006733 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLAE 191 (633)
Q Consensus 114 a~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~~~ 191 (633)
. .+...++|+|......+ ....++ +...+...+..+++.+.+.|-++++++.... .......+.+++.+++
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 45678999998744332 112232 4456666678788887778999999997543 2345667889999998
Q ss_pred cCcEEEEEeecCCCCChhhHHHHHHHhhcC---CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEE
Q 006733 192 KRCRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILILHTYDIWGLEVLNAAKHLRMMESGYVW 254 (633)
Q Consensus 192 ~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~ 254 (633)
.|+.+..........+.......+.++... .+++|+ +++...+..+++++++.|+..++-+-
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~ip~dv~ 209 (264)
T cd06274 145 AGLPVQPDWIYAEGYSPESGYQLMAELLARLGRLPRALF-TTSYTLLEGVLRFLRERPGLAPSDLR 209 (264)
T ss_pred cCCCCCcceeecCCCChHHHHHHHHHHHccCCCCCcEEE-EcChHHHHHHHHHHHHcCCCCCcceE
Confidence 886432111111111222334445554433 356555 44566677789999999876554333
No 159
>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=97.90 E-value=0.001 Score=65.48 Aligned_cols=206 Identities=10% Similarity=-0.003 Sum_probs=120.6
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||+++|.. ..+-.....+++.+.++. |+.+ .+.++..++....+....+...++.++|--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA--------GYSL--LIANSLNDPERELEILRSFEQRRMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEE--EEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHH
Confidence 489999863 333345566666555552 4554 44456656665555566677778887775333222234
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~~ 190 (633)
+...+...++|+|......+ . ..+ .+..+....+..+++.+.+.|-++++++.... ..+....+.|++.++
T Consensus 71 ~~~~~~~~~ipvV~i~~~~~--~--~~~---~V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 71 LVDALASLDLPIVLLDRDMG--G--GAD---AVLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHHHhCCCCEEEEecccC--C--CCC---EEEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 45566778999998765432 1 122 24455555566677777677999999987532 233455688889999
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhc--CCCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
++|+.+.....+.... ..+..+.+.++.. ..+++|+ +.+...+..+++++++.|+..++ ...++.+
T Consensus 144 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~dv~iig~d 212 (269)
T cd06281 144 AAGLPPDPALVRLSTP-AASGFDATRALLALPDRPTAII-AGGTQVLVGVLRALREAGLRIPRDLSVISIG 212 (269)
T ss_pred HcCCCCCHHHeecCcH-HHHHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCcceeEEEec
Confidence 8887542111111001 2222344444433 3467765 44556666789999999986543 3344443
No 160
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.90 E-value=0.0018 Score=66.18 Aligned_cols=206 Identities=10% Similarity=0.035 Sum_probs=118.1
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~ 109 (633)
..-+||+++|.. ..+-.....+++.+.++. |+.+. +.++..++..-.+....++.+++.+||-......
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 345899999874 233334455555555442 44443 3445556666556666777778887764222222
Q ss_pred HHHHHHhhcc-CCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec--CCCcchhHHHHH
Q 006733 110 AHLVSHIANE-FQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD--DDHGRNGIAALG 186 (633)
Q Consensus 110 ~~~va~~~~~-~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d--~~~g~~~~~~~~ 186 (633)
...+ ..+.. .++|+|......+ +..+.. ...++....+...++.|...|-+++++|... ...+....+.|+
T Consensus 128 ~~~~-~~l~~~~~iPvV~~d~~~~---~~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~ 201 (341)
T PRK10703 128 EPLL-AMLEEYRHIPMVVMDWGEA---KADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFM 201 (341)
T ss_pred HHHH-HHHHhcCCCCEEEEecccC---CcCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHH
Confidence 2223 34445 6999998654321 111112 2344545567778887777799999999643 334456678899
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeE
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~ 253 (633)
+.+++.|+.+..........+..+....+.++.+. .+++|+. +....+..+++++++.|...++-+
T Consensus 202 ~~l~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~g~~ip~dv 269 (341)
T PRK10703 202 KAMEEANIKVPEEWIVQGDFEPESGYEAMQQILSQKHRPTAVFC-GGDIMAMGAICAADEMGLRVPQDI 269 (341)
T ss_pred HHHHHcCCCCChHHeEeCCCCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCce
Confidence 99999887653211111111223334455554433 4565554 455566778999999997654433
No 161
>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=97.89 E-value=0.0018 Score=63.48 Aligned_cols=200 Identities=12% Similarity=0.056 Sum_probs=116.1
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||+++|.. ..+-..+..+++.+.++. |+.+.+. ++..++..-......++..++++||-.........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~ 70 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA--------GYSTIIG--NSDENPETENRYLDNLLSQRVDGIIVVPHEQSAEQ 70 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc--------CCEEEEE--eCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCChHH
Confidence 489999863 333345566666666552 4554443 44445555455566677778887775333222223
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~~ 190 (633)
...+...++|+|......+. ...+++ ..+....+..+++.+...|-++++++.... .......+.|++.++
T Consensus 71 -~~~l~~~~ipvV~~~~~~~~---~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 71 -LEDLLKRGIPVVFVDREITG---SPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred -HHHHHhCCCCEEEEecccCC---CCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 35556689999987553321 223333 334444555666777677999999997543 234455678899998
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCC
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESG 251 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 251 (633)
+.|+.+.............+....++++.+..+++|+. ++...+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~av~~-~~d~~a~gv~~al~~~g~~vp~ 203 (265)
T cd06299 144 SLGLEVNEDLVVLGGYSQESGYAGATKLLDQGATAIIA-GDSMMTIGAIRAIHDAGLVIGE 203 (265)
T ss_pred HCCCCCChHhEEecCcchHHHHHHHHHHHcCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCc
Confidence 88854321111111112223344555655445775444 5555677889999998886543
No 162
>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=97.89 E-value=0.002 Score=62.79 Aligned_cols=199 Identities=16% Similarity=0.084 Sum_probs=122.9
Q ss_pred EEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 35 IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
||++.|.- ..+-.....+++.+.++ .|+++.+ .++..++..-.+...+++.+++.++|....... ..+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~ 70 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYE--------NGYQMLL--MNTNFSIEKEIEALELLARQKVDGIILLATTIT-DEH 70 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHH
Confidence 78888853 33334566777666655 2566544 445556766667777888889998886433222 234
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec-C--CCcchhHHHHHHHHh
Q 006733 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD-D--DHGRNGIAALGDKLA 190 (633)
Q Consensus 114 a~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d-~--~~g~~~~~~~~~~~~ 190 (633)
...+...++|+|......+ .+..+.++....+..+++++.+.+-++++++... . ..+....+.|++.++
T Consensus 71 ~~~~~~~~ipvv~~~~~~~--------~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~ 142 (259)
T cd01542 71 REAIKKLNVPVVVVGQDYP--------GISSVVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVGILRKQGYLDALK 142 (259)
T ss_pred HHHHhcCCCCEEEEeccCC--------CCCEEEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhHHHHHHHHHHHHH
Confidence 4556677999998754221 1233556777788888898877889999998643 2 233456788999998
Q ss_pred hcCc-EEEEEeecCCCCChhhHHHHHHHhhcCC-CeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEE
Q 006733 191 EKRC-RLSHKVPLSPKGSRNQIIDTLLTVSSMM-SRILILHTYDIWGLEVLNAAKHLRMMESGYVWIV 256 (633)
Q Consensus 191 ~~g~-~v~~~~~~~~~~~~~~~~~~l~~i~~~~-~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~ 256 (633)
+.|. .+... .-. .+.......+.++.+.. +++|+... ...+..+++++++.|+..++-+.+.
T Consensus 143 ~~~~~~~~~~-~~~--~~~~~~~~~~~~~l~~~~~~~i~~~~-d~~a~g~~~~l~~~g~~vp~di~v~ 206 (259)
T cd01542 143 EHGICPPNIV-ETD--FSYESAYEAAQELLEPQPPDAIVCAT-DTIALGAMKYLQELGRRIPEDISVA 206 (259)
T ss_pred HcCCChHHee-ecc--CchhhHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8887 21111 111 12223334455554443 56555444 5667788999999998755544444
No 163
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=97.88 E-value=0.002 Score=63.50 Aligned_cols=206 Identities=13% Similarity=0.030 Sum_probs=114.4
Q ss_pred eEEEEEEeecC--------CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH-hcCceEEE
Q 006733 32 VLNIGAVFALN--------STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLL-ENETVAII 102 (633)
Q Consensus 32 ~i~IG~l~p~~--------~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li-~~~v~avi 102 (633)
.-.||++.|.. ..+-.....+++.++++ .|+++.+...+. +.. +.+.+.+ .+++.+||
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~v~~~~~--~~~---~~~~~~l~~~~~dgii 69 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAE--------RGYDLLLSFVSS--PDR---DWLARYLASGRADGVI 69 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHH--------cCCEEEEEeCCc--hhH---HHHHHHHHhCCCCEEE
Confidence 35789999862 22222334444433332 256666654332 211 2333444 45788776
Q ss_pred cCCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcch
Q 006733 103 GPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRN 180 (633)
Q Consensus 103 G~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~ 180 (633)
-......... ...+...++|+|......+. +.+..+.+++...+..+++++...|.++++++..+. ..+..
T Consensus 70 i~~~~~~~~~-~~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~ 142 (275)
T cd06295 70 LIGQHDQDPL-PERLAETGLPFVVWGRPLPG------QPYCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEE 142 (275)
T ss_pred EeCCCCChHH-HHHHHhCCCCEEEECCccCC------CCCCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHH
Confidence 4222212222 34556789999987543321 223445677777888888888888999999997543 23445
Q ss_pred hHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEe
Q 006733 181 GIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVT 257 (633)
Q Consensus 181 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~ 257 (633)
..+.|++.+++.|+.+..........+.......+.++.+. ++++|+.. ....+..+++++++.|+..++ ...++.
T Consensus 143 r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~~ip~~i~ii~~ 221 (275)
T cd06295 143 RLEGYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGRRVPEDVAVVGF 221 (275)
T ss_pred HHHHHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCCCCccceEEEee
Confidence 67889999988875432111111111222333445554433 35655554 345666788999998875443 334444
Q ss_pred C
Q 006733 258 D 258 (633)
Q Consensus 258 ~ 258 (633)
+
T Consensus 222 d 222 (275)
T cd06295 222 D 222 (275)
T ss_pred C
Confidence 4
No 164
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.87 E-value=0.003 Score=64.53 Aligned_cols=203 Identities=9% Similarity=-0.000 Sum_probs=118.8
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~ 109 (633)
..-.||+++|.. ..+......+++.+.++ . |+.+.+ .++..++....+....+..+++.+||-......
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~---~-----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 132 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEA---Q-----GRMVFL--LQGGKDGEQLAQRFSTLLNQGVDGVVIAGAAGS 132 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHH---c-----CCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 456899999863 33333445555544443 2 444433 344445555455556677778887775322222
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC--CcchhHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGD 187 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~ 187 (633)
.......+...++|+|......+ ...++ .+..+....+..++++|.+.|.++++++..+.. ......+.|++
T Consensus 133 ~~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~ 206 (342)
T PRK10014 133 SDDLREMAEEKGIPVVFASRASY---LDDVD---TVRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCA 206 (342)
T ss_pred cHHHHHHHhhcCCCEEEEecCCC---CCCCC---EEEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHHH
Confidence 23344566778999998643211 11222 255677777888888888889999999975432 23346678999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCC
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMES 250 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~ 250 (633)
.+++.|+.+.....+....+.......+.++.+. .+++|+ +.+...+..+++++.+.|+..+
T Consensus 207 al~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 207 TLLKFGLPFHSEWVLECTSSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHcCCCCCcceEecCCCChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 9999887643221111111222333445554433 355544 4566677778899999887654
No 165
>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=97.86 E-value=0.0024 Score=62.50 Aligned_cols=190 Identities=14% Similarity=0.059 Sum_probs=111.5
Q ss_pred EEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 35 IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
||++.|.. ..+-.....++..+.++ .|+.+.+...+. +. ...+....++..+++++|-..+.... ..
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~--~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~ 69 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQA--------RGYQPLLINTDD--DE-DLDAALRQLLQYRVDGVIVTSGTLSS-EL 69 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHH--------CCCeEEEEcCCC--CH-HHHHHHHHHHHcCCCEEEEecCCCCH-HH
Confidence 78888864 33333344554444333 256666555443 22 22334556677788877753332222 23
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHHHHHhh
Q 006733 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLAE 191 (633)
Q Consensus 114 a~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~~~ 191 (633)
...+...++|+|......+ . +.+..+.++....+..+++.+.+.|-++++++..+. .......+.|++.+++
T Consensus 70 ~~~~~~~~ipvV~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 143 (266)
T cd06278 70 AEECRRNGIPVVLINRYVD---G---PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALAA 143 (266)
T ss_pred HHHHhhcCCCEEEECCccC---C---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHHH
Confidence 4556778999998754322 1 223456778888888888988878999999998543 3445567889999988
Q ss_pred cCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHc
Q 006733 192 KRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 192 ~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
.|..+.... .. ..+..+....+.++.+. .+++|+.. +...+..+++++++.
T Consensus 144 ~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~ 196 (266)
T cd06278 144 AGVPVVVEE-AG-DYSYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQE 196 (266)
T ss_pred cCCChhhhc-cC-CCCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHh
Confidence 887643211 11 11222333444454433 35654444 445566777888765
No 166
>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=97.83 E-value=0.0018 Score=64.48 Aligned_cols=185 Identities=11% Similarity=0.090 Sum_probs=108.9
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
|||++...+...-.....|++-++.+ .| ... ..+++.+.+...|.......+.++..+++++|+... +..+..+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~---~g-~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~g-t~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKE---LG-YDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAIG-TPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHH---TT---C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEES-HHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHH---cC-Ccc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEeC-cHHHHHH
Confidence 68888888754444556676666555 33 223 567888999999998888888878777888887633 3344455
Q ss_pred HHhhccCCccEEeeccCCCCCc---c-CCC--CceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecCCC-cchhHHH
Q 006733 114 SHIANEFQVPLLSFAATDPSLS---S-LQY--PFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDH-GRNGIAA 184 (633)
Q Consensus 114 a~~~~~~~iP~Is~~a~~~~ls---~-~~~--~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~~~-g~~~~~~ 184 (633)
....... +|+|-.+.+++.-. . ... .++.-+. +........++++++ +-++++++|+++.- +....+.
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 5544433 99998777555322 2 222 2554444 333445566666665 57999999976543 4456778
Q ss_pred HHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh
Q 006733 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (633)
Q Consensus 185 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 232 (633)
+++.+++.|+++... .++ +..++...++.+.+ +.|++++..+.
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 333 56788888888754 57888877654
No 167
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.83 E-value=0.011 Score=60.05 Aligned_cols=200 Identities=11% Similarity=-0.023 Sum_probs=109.7
Q ss_pred EEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhH
Q 006733 33 LNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIA 110 (633)
Q Consensus 33 i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~ 110 (633)
.+|+++.... ..+-..+..+++.+.++. |+++.+. ..+..+...-++....++.+++.+|+- |..+...
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~--------G~~v~~~-~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al 94 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKEL--------GVDVTYD-GPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGL 94 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHh--------CCEEEEE-CCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHH
Confidence 4899887654 333334556666665542 5666542 234445665566777888889987776 4444433
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEEecC-ChHHHHHHHHHHHHH-c--CCcEEEEEEecCC--CcchhHHH
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQ-SDLYQMAAIADIVDY-F--GWRNVIALYVDDD--HGRNGIAA 184 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p-~~~~~~~al~~ll~~-~--~w~~v~ii~~d~~--~g~~~~~~ 184 (633)
......+...+||+|.+.+..+. +. ..+.+.. ++...+..+++++.+ + +-.+++++..... ......+.
T Consensus 95 ~~~l~~a~~~gIpVV~~d~~~~~--~~---~~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 95 CPALKRAMQRGVKVLTWDSDTKP--EC---RSYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCC--cc---ceEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 45556677889999987654321 11 1222222 334567776776654 3 3568988875322 12233456
Q ss_pred HHHHHhhc--CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee-ChHHHHHHHHHHHHcCCC
Q 006733 185 LGDKLAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT-YDIWGLEVLNAAKHLRMM 248 (633)
Q Consensus 185 ~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~-~~~~~~~il~~a~~~g~~ 248 (633)
+++.+.+. +++++... +. ..+...-...++++..+.+++=.+++ +...+...++++++.|+.
T Consensus 170 ~~~~l~~~~p~~~vv~~~-~~-~~d~~~a~~~~~~lL~~~pdi~aI~~~~~~~~~Ga~~Al~~~g~~ 234 (336)
T PRK15408 170 AKAKIAKEHPGWEIVTTQ-FG-YNDATKSLQTAEGILKAYPDLDAIIAPDANALPAAAQAAENLKRD 234 (336)
T ss_pred HHHHHHhhCCCCEEEeec-CC-CCcHHHHHHHHHHHHHHCCCCcEEEECCCccHHHHHHHHHhCCCC
Confidence 66666443 56665332 21 12222333455555554444433333 333344578888887763
No 168
>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=97.82 E-value=0.0042 Score=61.12 Aligned_cols=203 Identities=16% Similarity=0.097 Sum_probs=118.5
Q ss_pred EEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCc-hhh--
Q 006733 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQF-SVI-- 109 (633)
Q Consensus 35 IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~-s~~-- 109 (633)
||++.|.. ..+-.....+++.+.++ .|+.+.+ .++..++..-.+....+..++++++|- +.. ...
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~ 71 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQ--------YGYTVLL--CNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTHA 71 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHH--------CCCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccc
Confidence 78998864 33333445555555554 2566543 444445555556667778888887764 222 111
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGD 187 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~ 187 (633)
.......+...++|+|......+. ....+ .+..++...+..+++.|.+.|-++++++.... .......+.|++
T Consensus 72 ~~~~i~~~~~~~ipvV~i~~~~~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 146 (273)
T cd06292 72 DHSHYERLAERGLPVVLVNGRAPP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRA 146 (273)
T ss_pred hhHHHHHHHhCCCCEEEEcCCCCC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHH
Confidence 112234456789999987554322 01122 34567777888888888788999999987542 234456788999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeE
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~ 253 (633)
.++++|+............+.......++++....+++|+ +.....+..+++++++.|+..++-+
T Consensus 147 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~di 211 (273)
T cd06292 147 ALEEAGLEPPEALVARGMFSVEGGQAAAVELLGSGPTAIV-AASDLMALGAIRAARRRGLRVPEDV 211 (273)
T ss_pred HHHHcCCCCChhheEeCCCCHHHHHHHHHHHhcCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcce
Confidence 9988886421111111111222333445555444477554 4456666778899999887654433
No 169
>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=97.82 E-value=0.0059 Score=60.69 Aligned_cols=199 Identities=9% Similarity=-0.006 Sum_probs=114.7
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~ 111 (633)
+||+++|.. ..+-.....+++.+.++. |+.+. +.++..++..-.+....++.+++.+||- +..+....
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 222234455555554441 44544 4556666766666677788888887774 33333333
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc------CCcEEEEEEecCC--CcchhHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF------GWRNVIALYVDDD--HGRNGIA 183 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~------~w~~v~ii~~d~~--~g~~~~~ 183 (633)
.....+...++|+|......+.. ... ..+..+....++.+++.+.+. |-++++++..+.. ......+
T Consensus 71 ~~l~~l~~~~ipvV~~~~~~~~~---~~~--~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 71 SAVEKAADAGIPVIAYDRLILNS---NVD--YYVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHHHCCCCEEEECCCCCCC---Ccc--eEEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 34445667899999875543211 112 234456666677777776555 8889999875432 3334567
Q ss_pred HHHHHHhhcC----cEEEEEeecCCCCChhhHHHHHHHhhcC---CCeEEEEeeChHHHHHHHHHHHHcCCCC
Q 006733 184 ALGDKLAEKR----CRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILILHTYDIWGLEVLNAAKHLRMME 249 (633)
Q Consensus 184 ~~~~~~~~~g----~~v~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~~~~~~~~~il~~a~~~g~~~ 249 (633)
.|++.+++.+ +.+.... .....+..+....+.++.+. ++++|+ +.....+..+++++++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~I~-~~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGEV-ATPDWDPETAQKRMENALTANYNKVDGVL-AANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEecc-ccCCCCHHHHHHHHHHHHHhCCCCccEEE-eCCcHHHHHHHHHHHHcCCCC
Confidence 8888998887 4433221 11111222233445554433 244433 345567777889999988764
No 170
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.81 E-value=0.0061 Score=61.88 Aligned_cols=202 Identities=11% Similarity=-0.006 Sum_probs=117.2
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCc-hh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQF-SV 108 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~-s~ 108 (633)
..-.||+++|.. ..+-.....+++.+.++ .|+.+.+. ++..++....+....+...++.+||-... ..
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~--------~g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 129 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQ--------RGYQLLIA--CSDDQPDNEMRCAEHLLQRQVDALIVSTSLPP 129 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCC
Confidence 456899999853 22223344555544443 25666543 33344544444555666778888775322 22
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALG 186 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~ 186 (633)
....+ ..+...++|+|......+ ...++ .+..++...+..+++.|...|-++++++.... ..+....+.|+
T Consensus 130 ~~~~~-~~l~~~~iPvV~v~~~~~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~ 202 (328)
T PRK11303 130 EHPFY-QRLQNDGLPIIALDRALD---REHFT---SVVSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGFR 202 (328)
T ss_pred ChHHH-HHHHhcCCCEEEECCCCC---CCCCC---EEEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHHH
Confidence 22223 344567999998654321 11222 34566677777788888778999999997543 23456678899
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCe
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGY 252 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~ 252 (633)
+.+++.|+.+..... . ..+..+-...++++.+. .+++|+.. +...+..+++++++.|+..++-
T Consensus 203 ~al~~~g~~~~~~~~-~-~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~vP~d 267 (328)
T PRK11303 203 QALKDDPREVHYLYA-N-SFEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGELPSD 267 (328)
T ss_pred HHHHHcCCCceEEEe-C-CCChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCc
Confidence 999998875432211 1 11222333445555433 46665554 4456677889999999865543
No 171
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.80 E-value=0.0027 Score=62.33 Aligned_cols=207 Identities=14% Similarity=0.059 Sum_probs=120.3
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~ 111 (633)
.||++.|.. ..+-.....+++.+.++ .|+++.+ .++..+...-.+....++.+++.++|- +.... ..
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 378888864 44444556666555554 2555544 444444444444556677778887764 33322 22
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKL 189 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~ 189 (633)
....+...++|+|........ ....+ ...++....+...++.+.+.|.++++++.... .......+.|++.+
T Consensus 70 -~~~~~~~~~ipvV~i~~~~~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 143 (270)
T cd06296 70 -QRAALRRTGIPFVVVDPAGDP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAAL 143 (270)
T ss_pred -HHHHHhcCCCCEEEEecccCC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHH
Confidence 245567789999987654211 11222 35667777788888887778999999987542 23456678888999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCC-CeEEEEeC
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMES-GYVWIVTD 258 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 258 (633)
++.++.+..........+.++....+.++.+. .+++|+ +.+...+..+++++++.|+..+ +...++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 144 AEAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIF-AGNDLMALGVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HHcCCCCChHHheeCCCCHHHHHHHHHHHHhCCCCCcEEE-EcCcHHHHHHHHHHHHhCCCCCCceEEEEEC
Confidence 88876543211111111222333444554333 345444 4455667788999999997644 34455544
No 172
>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=97.78 E-value=0.0039 Score=61.06 Aligned_cols=206 Identities=10% Similarity=0.016 Sum_probs=115.5
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||+++|.. ..+-.....+++.+.++ .|+.+.+ .++..++..-.+....+..+++.++|-.........
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~--------~gy~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~ 70 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLNG--------SGYSPII--ATGHWNQSRELEALELLKSRRVDALILLGGDLPEEE 70 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCChHH
Confidence 478898863 22223344444433332 2455544 444456555455556677778887774322212222
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec--CCCcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD--DDHGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d--~~~g~~~~~~~~~~~~ 190 (633)
+..+ . .++|+|......+ ....+ .+..+....+..+++.+.+.|-++++++..+ ........+.|++.+.
T Consensus 71 ~~~~-~-~~iPvV~i~~~~~---~~~~~---~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 142 (265)
T cd06290 71 ILAL-A-EEIPVLAVGRRVP---GPGAA---SIAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALE 142 (265)
T ss_pred HHHH-h-cCCCEEEECCCcC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHH
Confidence 2222 3 4899998765322 11122 3456777777888888777799999999754 2334456778888888
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
+.|+.+.....+....+.......++++.+. .+++|+ +++...+..+++.+++.|+..++ ...++.+
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~ip~di~vi~~d 212 (265)
T cd06290 143 EAGLEVQPDLIVQGDFEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRVPEDVSLIGFD 212 (265)
T ss_pred HcCCCCCHHHEEecCCCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEeeec
Confidence 8876542111111111222233455555443 356544 45666777889999998876543 3344443
No 173
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.77 E-value=0.0088 Score=59.15 Aligned_cols=208 Identities=13% Similarity=0.014 Sum_probs=117.9
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~ 111 (633)
+||++.|.. ..+-.....+++.+.++ .|+.+ .+.++..++..-.+....++..++++||- +..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~--------~g~~v--~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKA--------LGYEL--ISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHH--------cCCEE--EEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH
Confidence 589999864 22223344455544444 14554 34555556666666677778888887664 33332222
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHH-cCCc--EEEEEEec--CCCcchhHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY-FGWR--NVIALYVD--DDHGRNGIAALG 186 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~-~~w~--~v~ii~~d--~~~g~~~~~~~~ 186 (633)
.....+...++|+|......+ . ..+.+..+..+....+..++++|.+ .|-+ +++++..+ ...+....+.|+
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~---~-~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 146 (282)
T cd06318 71 PAVAAAKAAGVPVVVVDSSIN---L-EAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFL 146 (282)
T ss_pred HHHHHHHHCCCCEEEecCCCC---C-CcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHH
Confidence 333455678999998754321 1 0123445677778888888887754 6754 89888753 234556778899
Q ss_pred HHHhhcCcE------EEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEe
Q 006733 187 DKLAEKRCR------LSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVT 257 (633)
Q Consensus 187 ~~~~~~g~~------v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 257 (633)
+.++++|+. +..........+..+....+.++... ++++|+. .....+..+++++++.|+. .+...++.
T Consensus 147 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~-~dv~vvg~ 223 (282)
T cd06318 147 LGVSEAQLRKYGKTNFTIVAQGYGDWTREGGLKAMEDLLVAHPDINVVYS-ENDDMALGAMRVLAEAGKT-DDVKVAAA 223 (282)
T ss_pred HHHhhCcccccccCCeEEEecCCCCCCHHHHHHHHHHHHHhCCCcCEEEE-CCcchHHHHHHHHHHcCCC-CCeEEEec
Confidence 999888642 11110011111222333444444332 3554444 4445667788999998874 33444443
No 174
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.77 E-value=0.0057 Score=62.08 Aligned_cols=203 Identities=10% Similarity=0.017 Sum_probs=115.0
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSV 108 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~ 108 (633)
..-.||+++|.. ..+-.....+++.+.++ .|+.+.+ .++..++..-.+....+...++.++|- +....
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdGiI~~~~~~~ 124 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFE--------RGYSLVL--CNTEGDEQRMNRNLETLMQKRVDGLLLLCTETH 124 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHH--------cCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEeCCCcc
Confidence 456899999864 23333455566555554 2556544 344445555455556667777887664 22211
Q ss_pred hHHHHHHhhcc-CCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec--CCCcchhHHHH
Q 006733 109 IAHLVSHIANE-FQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD--DDHGRNGIAAL 185 (633)
Q Consensus 109 ~~~~va~~~~~-~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d--~~~g~~~~~~~ 185 (633)
. .. ...+.. .++|+|....... .... ..+..+...-+..+++.|...|-+++++|... ........+.|
T Consensus 125 ~-~~-~~~l~~~~~iPvV~i~~~~~---~~~~---~~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf 196 (327)
T PRK10423 125 Q-PS-REIMQRYPSVPTVMMDWAPF---DGDS---DLIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEGY 196 (327)
T ss_pred h-hh-HHHHHhcCCCCEEEECCccC---CCCC---CEEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHHH
Confidence 1 11 122223 4899998753211 1111 12444555567778888888899999999643 23445667889
Q ss_pred HHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCe
Q 006733 186 GDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGY 252 (633)
Q Consensus 186 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~ 252 (633)
++.+++.|+.+.....+....+..+....+.++.+. .+++|+ +++...+..+++++++.|+..++-
T Consensus 197 ~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~~l~~~g~~vP~d 264 (327)
T PRK10423 197 RAAMKRAGLNIPDGYEVTGDFEFNGGFDAMQQLLALPLRPQAVF-TGNDAMAVGVYQALYQAGLSVPQD 264 (327)
T ss_pred HHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHhcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCc
Confidence 999999987643221111111112223344454433 355544 445566778999999999865543
No 175
>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=97.74 E-value=0.0039 Score=61.03 Aligned_cols=195 Identities=12% Similarity=0.052 Sum_probs=112.5
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||++.|.. ..+-.....+++.+.++ .|+++. +.++..++.+-.+....+...++.++|--......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~--~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~-- 68 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYK--------KGYKLI--LCNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLGI-- 68 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHH--------CCCeEE--EecCCccHHHHHHHHHHHHHcCCCEEEEecCCcCH--
Confidence 378888853 33323444555444444 245544 34444555555555556666678877643222221
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC---CCcchhHHHHHHHH
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD---DHGRNGIAALGDKL 189 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~---~~g~~~~~~~~~~~ 189 (633)
..+...++|+|......+ ...+ .+.++....+..++++|...|.++++++.... .......+.|++.+
T Consensus 69 --~~~~~~gipvv~~~~~~~----~~~~---~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 139 (265)
T cd06291 69 --EEYENIDLPIVSFDRYLS----ENIP---IVSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDVL 139 (265)
T ss_pred --HHHhcCCCCEEEEeCCCC----CCCC---eEeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHHH
Confidence 244567999998765432 1222 34566677778888888778999999987433 23445678899999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcCC--CeEEEEeeChHHHHHHHHHHHHcCCCCCC
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLRMMESG 251 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 251 (633)
++.|+.+.... .....+..+....+.++.... +++|+. ++...+..+++++++.|+..++
T Consensus 140 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~al~~~g~~vp~ 201 (265)
T cd06291 140 KENGLEVRIIE-IQENFDDAEKKEEIKELLEEYPDIDGIFA-SNDLTAILVLKEAQQRGIRVPE 201 (265)
T ss_pred HHcCCCCChhe-eeccccchHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCc
Confidence 88887642211 111111122234455544333 454443 4455677889999998876443
No 176
>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=97.73 E-value=0.013 Score=57.62 Aligned_cols=210 Identities=11% Similarity=0.030 Sum_probs=114.7
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~ 111 (633)
+||++.|.. ..+-.....++..+.++.+-. ...+.....+ ..++..-.+....+.. ++.++|- +.......
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 588988864 223234455555555543211 1233332222 3344444445555556 8887764 33333222
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc-C--CcEEEEEEecCC--CcchhHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-G--WRNVIALYVDDD--HGRNGIAALG 186 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~-~--w~~v~ii~~d~~--~g~~~~~~~~ 186 (633)
.....+...++|+|......+. . ..+..+.......+...++++.+. | -++++++..... ......+.|+
T Consensus 74 ~~i~~~~~~~ipvV~~~~~~~~--~---~~~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 74 AAVARLAAAGVPVVTLVSDLPG--S---PRAGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHHHCCCcEEEEeCCCCC--C---ceeeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 3335556689999987543221 1 122345566667777777776654 5 469999875432 3345567889
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhc--CCCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
+.+++++..+..........+..+....++++.+ .++++|+...+. +..+++++++.|+. .+...++.+
T Consensus 149 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~-~di~Ivg~d 219 (275)
T cd06307 149 SVLREEFPGLRVLETLEGLDDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA-GKVVFVGHE 219 (275)
T ss_pred HHHHhhCCCcEEEeeccCCCChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC-CCcEEEEec
Confidence 9998877544322222211222333445555533 346776666554 35889999999975 345555544
No 177
>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=97.73 E-value=0.004 Score=60.75 Aligned_cols=204 Identities=13% Similarity=0.019 Sum_probs=120.3
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||+++|.. ..+-.....+++.+.++. |+.+.+ .++..++....+....+...++.+||-.........
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 344445667776666642 556544 344555655555666677778887775322222233
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec--CCCcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD--DDHGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d--~~~g~~~~~~~~~~~~ 190 (633)
+..+.. .+ |+|....... ...+ .+.++....+..+++.+.+.|-++++++..+ ........+.|++.++
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 444333 34 8887543221 1122 3556777778888888888899999999754 2344556788999999
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEe
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVT 257 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~ 257 (633)
+.|+.+.....+....+..+....++.+.+. .+++| ++++...+..+++++++.|+..++ ...++.
T Consensus 142 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~ip~di~v~g~ 210 (260)
T cd06286 142 EYGLTPDEEWIFEGCFTIEDGERIGHQLLKMKDRPDAI-FTGSDEVAAGIITEAKKQGIRVPEDLAIIGF 210 (260)
T ss_pred HcCCCCChHheEeCCCCHHHHHHHHHHHHcCCCCCCEE-EEcchHHHHHHHHHHHHcCCCCCcceEEEee
Confidence 8886543211111111222334455555443 45654 456667778899999999986443 333443
No 178
>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=97.71 E-value=0.017 Score=56.67 Aligned_cols=205 Identities=13% Similarity=0.086 Sum_probs=112.7
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhh-HH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVI-AH 111 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~-~~ 111 (633)
+||++...+..+-..+..+++.+.++ .|+.+.+.. ++..+...-.+....++..++.++|- +..... ..
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 71 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKE--------LGVDVEFVV-PQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIP 71 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHH--------cCCeEEEeC-CCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHH
Confidence 47877654433323344454444444 245555442 23345555555566677778887774 333332 23
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecC--CCcchhHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDD--DHGRNGIAALGD 187 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~--~~g~~~~~~~~~ 187 (633)
.+..+ .. ++|+|......+. . +.+..+..+....+..+++++.+. +-.+++++.... .......+.+++
T Consensus 72 ~l~~~-~~-~ipvV~~~~~~~~---~--~~~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~ 144 (271)
T cd06314 72 ALNKA-AA-GIKLITTDSDAPD---S--GRYVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKD 144 (271)
T ss_pred HHHHH-hc-CCCEEEecCCCCc---c--ceeEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHH
Confidence 33443 45 9999987543221 0 122335566777778888877554 345666666432 234566788999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
.+++.|+.+.... .. ..+..+....++++.+. .+++|+.. +...+..+++++++.|+. .+...++.+
T Consensus 145 ~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~~-~d~~a~~~~~al~~~g~~-~di~vig~d 213 (271)
T cd06314 145 AIKDSKIEIVDTR-GD-EEDFAKAKSNAEDALNAHPDLKCMFGL-YAYNGPAIAEAVKAAGKL-GKVKIVGFD 213 (271)
T ss_pred HHhcCCcEEEEEe-cC-ccCHHHHHHHHHHHHHhCCCccEEEec-CCccHHHHHHHHHHcCCC-CceEEEEeC
Confidence 9999998765321 11 11223334455555433 35655443 344455678888888876 344445544
No 179
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.69 E-value=0.0096 Score=60.35 Aligned_cols=207 Identities=14% Similarity=0.052 Sum_probs=132.3
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~ 109 (633)
..-.||++.|.- ..+-.....+++.+.++ .|+.+- +..+..++..-.+....+...+|+++|-.. ...
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~--------~gy~~~--l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~-~~~ 125 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAARE--------AGYSLL--LANTDDDPEKEREYLETLLQKRVDGLILLG-ERP 125 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEec-CCC
Confidence 567899999942 22222445555544444 245544 444444666655566667777899888644 233
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec--CCCcchhHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD--DDHGRNGIAALGD 187 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d--~~~g~~~~~~~~~ 187 (633)
.......+...++|+|......+ + +.+-.+..++..-++.+++.|.+.|-+++++|... ...+....+.+++
T Consensus 126 ~~~~~~~l~~~~~P~V~i~~~~~---~---~~~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 199 (333)
T COG1609 126 NDSLLELLAAAGIPVVVIDRSPP---G---LGVPSVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSASRERLEGYRA 199 (333)
T ss_pred CHHHHHHHHhcCCCEEEEeCCCc---c---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHHHH
Confidence 33445667777999998755444 2 23344567888888889999999999999999975 3455777899999
Q ss_pred HHhhcCcEE--EEEeecCCCCChhhHHHHHHHhhcCC---CeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEe
Q 006733 188 KLAEKRCRL--SHKVPLSPKGSRNQIIDTLLTVSSMM---SRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVT 257 (633)
Q Consensus 188 ~~~~~g~~v--~~~~~~~~~~~~~~~~~~l~~i~~~~---~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~ 257 (633)
.+++.|+.. .....-. .+..+....+.++.... +++ |++++..-+..+++++++.|+..++ ...++.
T Consensus 200 al~~~~~~~~~~~i~~~~--~~~~~g~~~~~~ll~~~~~~ptA-if~~nD~~Alg~l~~~~~~g~~vP~disviGf 272 (333)
T COG1609 200 ALREAGLPINPEWIVEGD--FSEESGYEAAERLLARGEPRPTA-IFCANDLMALGALRALRELGLRVPEDLSVIGF 272 (333)
T ss_pred HHHHCCCCCCcceEEecC--CChHHHHHHHHHHHhcCCCCCcE-EEEcCcHHHHHHHHHHHHcCCCCCCeeEEEEe
Confidence 999999875 2221111 12334444455554332 554 4556667888899999999987654 333443
No 180
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.69 E-value=0.0052 Score=60.27 Aligned_cols=207 Identities=13% Similarity=0.084 Sum_probs=115.1
Q ss_pred EEEEEeecC------CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CceEEEcCCc
Q 006733 34 NIGAVFALN------STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN-ETVAIIGPQF 106 (633)
Q Consensus 34 ~IG~l~p~~------~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~ 106 (633)
.||+++|.. ..+-..+..+++.+.++ .|+++.+. +... .....+...+++.. ++.++|-...
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~--------~g~~~~~~--~~~~-~~~~~~~~~~~~~~~~~dgiii~~~ 69 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANE--------NGYDISLA--TGKN-EEELLEEVKKMIQQKRVDGFILLYS 69 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHH--------CCCEEEEe--cCCC-cHHHHHHHHHHHHHcCcCEEEEecC
Confidence 378898852 22223445555555544 25666543 3332 33334455565544 5777665322
Q ss_pred hhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCC--cchhHHH
Q 006733 107 SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDH--GRNGIAA 184 (633)
Q Consensus 107 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~--g~~~~~~ 184 (633)
... ......+...++|+|......+. .+.+..+..+....++.+++.+.+.|-++++++.....+ .....+.
T Consensus 70 ~~~-~~~~~~~~~~~ipvV~~~~~~~~-----~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g 143 (270)
T cd06294 70 RED-DPIIDYLKEEKFPFVVIGKPEDD-----KENITYVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQG 143 (270)
T ss_pred cCC-cHHHHHHHhcCCCEEEECCCCCC-----CCCCCeEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHH
Confidence 212 22334557789999987543221 012233445667777788888777799999999754332 3345778
Q ss_pred HHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 185 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
|++.+++.|+.+..........+..+....+.++.+. ++++|+. .+...+..+++++++.|+..++ ..+++.+
T Consensus 144 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv~vig~d 219 (270)
T cd06294 144 YKQALEDHGIPDRNEVIISLDFSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDLSIIGFN 219 (270)
T ss_pred HHHHHHHcCCCCCcceEEecCCchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcceEEEeeC
Confidence 8999998875321111111111223334455555433 3555444 4566778899999999986543 3445444
No 181
>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=97.68 E-value=0.018 Score=56.61 Aligned_cols=180 Identities=10% Similarity=-0.020 Sum_probs=110.2
Q ss_pred CcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecC
Q 006733 69 GTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQ 147 (633)
Q Consensus 69 g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p 147 (633)
|+.+.+ .++..++..-.+....++.+++.+||- +..+......-..+...+||+|......+.. ..+.+..+.+
T Consensus 29 G~~~~~--~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~~---~~~~~~~v~~ 103 (272)
T cd06313 29 GVDVTW--YGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIAPL---QINVHSFLAP 103 (272)
T ss_pred CCEEEE--ecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCCCC---CCceEEEECC
Confidence 455444 455667777777777888888887775 3333333333344566799999875533211 1122345678
Q ss_pred ChHHHHHHHHHHHHHc--CCcEEEEEEecCC--CcchhHHHHHHHHhhcC-cEEEEEeecCCCCChhhHHHHHHHhhcCC
Q 006733 148 SDLYQMAAIADIVDYF--GWRNVIALYVDDD--HGRNGIAALGDKLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSMM 222 (633)
Q Consensus 148 ~~~~~~~al~~ll~~~--~w~~v~ii~~d~~--~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~~~~~~l~~i~~~~ 222 (633)
+....+..++++|.+. |.++++++..+.. ......+.|++.+++.+ +++... .....+.......++++.+.+
T Consensus 104 d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~ 181 (272)
T cd06313 104 DNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPANWDVSKAARIWETWLTKY 181 (272)
T ss_pred CcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCCCCHHHHHHHHHHHHHhC
Confidence 8888888899987666 8899999975432 23456788999998875 555431 111122233445555554433
Q ss_pred --CeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 223 --SRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 223 --~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
+++ |++.+...+..+++++++.|+ .+...++.+
T Consensus 182 ~~~~a-i~~~nd~~a~g~~~al~~~g~--~di~vvgfd 216 (272)
T cd06313 182 PQLDG-AFCHNDSMALAAYQIMKAAGR--TKIVIGGVD 216 (272)
T ss_pred CCCCE-EEECCCcHHHHHHHHHHHcCC--CceEEEeec
Confidence 454 334455666778899999887 444455544
No 182
>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=97.66 E-value=0.0094 Score=60.48 Aligned_cols=207 Identities=12% Similarity=0.017 Sum_probs=118.8
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSV 108 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~ 108 (633)
..-.||+++|.. ..+-.....+++-+.++ .|+.+.+. ++..++..-.+....+..+++.++|- +....
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 357899999853 33333444555444443 25666543 33445554444555667778887664 33221
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALG 186 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~ 186 (633)
....+ ..+...++|+|......+. ..++ .+.+++...+..+++.|...|.++++++.... .......+.|+
T Consensus 129 ~~~~~-~~l~~~~iPvV~~~~~~~~---~~~~---~V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 129 EDAYY-QKLQNEGLPVVALDRSLDD---EHFC---SVISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred ChHHH-HHHHhcCCCEEEEccccCC---CCCC---EEEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 22223 3455679999987543221 1122 24556666677777888778999999997543 23455678899
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC---CCeEEEEeeChHHHHHHHHHHHHcCCCCC-CeEEEEeC
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILILHTYDIWGLEVLNAAKHLRMMES-GYVWIVTD 258 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 258 (633)
+.+++.|+.......-. .+..+-...+.++.+. .+++|+. .+...+..+++++++.| ..+ +...++.+
T Consensus 202 ~al~~~~~~~~~~~~~~--~~~~~~~~~~~~ll~~~~~~~~Ai~~-~~D~~A~g~~~al~~~g-~vP~dvsvigfd 273 (327)
T TIGR02417 202 QALKQATLEVEWVYGGN--YSRESGYQMFAKLCARLGRLPQALFT-TSYTLLEGVLDYMLERP-LLDSQLHLATFG 273 (327)
T ss_pred HHHHHcCCChHhEEeCC--CChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcC-CCCCcceEEEEC
Confidence 99998887532111111 1222333445555432 3566554 45566778899999999 555 34445444
No 183
>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=97.65 E-value=0.0078 Score=58.85 Aligned_cols=203 Identities=12% Similarity=0.088 Sum_probs=117.2
Q ss_pred EEEEEeecCC-ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALNS-TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~~-~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
.||+++|... .+-..+..+++.++++ .|+++.+ .++..++..-......+...+++++|-........
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 4899998752 2333455666666655 2566644 34444554444444556666777666422221111
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC-CCcchhHHHHHHHHhh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD-DHGRNGIAALGDKLAE 191 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~-~~g~~~~~~~~~~~~~ 191 (633)
.. .+...++|+|......+ ...+++ +..+....+..+++.|.+.|-++++++..+. .......+.|++.+++
T Consensus 70 ~~-~~~~~~iPvV~~~~~~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~~ 142 (263)
T cd06280 70 RL-AELRLSFPVVLIDRAGP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMRR 142 (263)
T ss_pred HH-HHHhcCCCEEEECCCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence 22 23566899998754432 122333 3456677777888888888999999987542 2334557788899988
Q ss_pred cCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 192 KRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 192 ~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
.|+...... .. .+..+....+.++... .+++| ++.+...+..+++.+++.|+..++ ...++.+
T Consensus 143 ~~~~~~~~~-~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~di~iig~d 208 (263)
T cd06280 143 HGLAPDARF-VA--PTAEAAEAALAAWLAAPERPEAL-VASNGLLLLGALRAVRAAGLRIPQDLALAGFD 208 (263)
T ss_pred cCCCCChhh-cc--cCHHHHHHHHHHHhcCCCCCcEE-EECCcHHHHHHHHHHHHcCCCCCCcEEEEEeC
Confidence 887543211 11 1222333344454433 45554 445666677899999999986544 3344443
No 184
>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=97.65 E-value=0.0048 Score=60.26 Aligned_cols=202 Identities=14% Similarity=0.038 Sum_probs=113.7
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL 112 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~ 112 (633)
+||++.|.. ..+......+++.+.++ .|+.+.+...+ +... ....+...++.++|-.........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~---~~~~---~~~~l~~~~vdgii~~~~~~~~~~ 66 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISK--------NGYNMNVSITP---SLAE---AEDLFKENRFDGVIIFGESASDVE 66 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHH--------cCCEEEEEecc---cHHH---HHHHHHHcCcCEEEEeCCCCChHH
Confidence 478999864 22323344555444443 25666655433 2222 234456667887764322222222
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC--CcchhHHHHHHHHh
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGDKLA 190 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~~ 190 (633)
+ ..+...++|+|......+ ..++ .+..++...+..+++.+.+.|-++++++..... ........|++.++
T Consensus 67 ~-~~~~~~~ipvV~~~~~~~----~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 67 Y-LYKIKLAIPVVSYGVDYD----LKYP---IVNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred H-HHHHHcCCCEEEEcccCC----CCCC---EEEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 2 445678999998644322 1122 355677777888888887789999999975432 33445678889998
Q ss_pred hcCcEEEEEeecCCCCChhhHHHHHHHhhcCC--CeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 191 EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
+.|+.+..........+..+....+.++.... +++ |++++...+..+++++++.|+..++ ...++.+
T Consensus 139 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp~dv~vvg~d 208 (261)
T cd06272 139 ENGISISDSHIDVDGLSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIPEDIEIISYD 208 (261)
T ss_pred HcCCCCCHHHeeeCCCCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 88864321111111112223344555554433 454 4445556677789999999986554 3334433
No 185
>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=97.64 E-value=0.017 Score=57.62 Aligned_cols=195 Identities=9% Similarity=-0.031 Sum_probs=109.3
Q ss_pred EEEEEeecCC-ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhh-H
Q 006733 34 NIGAVFALNS-TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVI-A 110 (633)
Q Consensus 34 ~IG~l~p~~~-~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~-~ 110 (633)
|||+++|... .+-.....+++.+.++ .|+.+.+...+...+...-.+....++..++.+||- +..... .
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~--------~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 72 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKH--------LGVELKVLEAGGYPNLDKQLAQIEQCKSWGADAILLGTVSPEALN 72 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHH--------hCCEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhh
Confidence 5899998642 1112233344433332 256665543333335555556667778889987774 322222 1
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcC-----CcEEEEEEecC--CCcchhHH
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFG-----WRNVIALYVDD--DHGRNGIA 183 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~-----w~~v~ii~~d~--~~g~~~~~ 183 (633)
..+.. +. .++|+|....... .. ..+..+..+....+..++++|.+.. -.+++++.... .......+
T Consensus 73 ~~l~~-~~-~~iPvV~~~~~~~--~~---~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~ 145 (295)
T TIGR02955 73 HDLAQ-LT-KSIPVFALVNQID--SN---QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQ 145 (295)
T ss_pred HHHHH-Hh-cCCCEEEEecCCC--cc---ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHH
Confidence 23333 33 4899987533211 11 1234456677777777888765521 34699997543 34556678
Q ss_pred HHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 184 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
.+++.+++.|+.+.... .. ..+..+-...++++.+. ++++| ++....+..+++++++.|+
T Consensus 146 Gf~~al~~~g~~~~~~~-~~-~~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~ 207 (295)
T TIGR02955 146 GFRAALEGSDVEISAIL-WA-DNDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM 207 (295)
T ss_pred HHHHHHhcCCcEEEEEe-cC-CCcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc
Confidence 99999998888765321 11 12223333455555432 45754 4556667788888888776
No 186
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=97.62 E-value=0.0095 Score=58.38 Aligned_cols=195 Identities=12% Similarity=0.008 Sum_probs=105.8
Q ss_pred EEEEEeecC----CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhh
Q 006733 34 NIGAVFALN----STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~----~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~ 109 (633)
|||++.|.+ ..+-.....+++.+.++ .|+.+.+.. .. ++..-.+....+...++.+||--... .
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~--------~gy~~~i~~--~~-~~~~~~~~i~~l~~~~vdgiI~~~~~-~ 68 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE--------LGIEYKYVE--SK-SDADYEPNLEQLADAGYDLIVGVGFL-L 68 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH--------cCCeEEEEe--cC-CHHHHHHHHHHHHhCCCCEEEEcCcc-h
Confidence 589999862 22223444555555444 256655543 32 33333445556777789988863222 1
Q ss_pred HHHHHHhhccC-CccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc-CCcEEEEEEecCCCcchh-HHHHH
Q 006733 110 AHLVSHIANEF-QVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-GWRNVIALYVDDDHGRNG-IAALG 186 (633)
Q Consensus 110 ~~~va~~~~~~-~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~-~w~~v~ii~~d~~~g~~~-~~~~~ 186 (633)
..........+ ++|++......+.. +.+-+.......-+..+++++... |-++++++..+....... .+.|+
T Consensus 69 ~~~~~~~~~~~~~~PiV~i~~~~~~~-----~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf~ 143 (265)
T cd06354 69 ADALKEVAKQYPDQKFAIIDAVVDDP-----PNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGFE 143 (265)
T ss_pred HHHHHHHHHHCCCCEEEEEecccCCC-----CcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHHH
Confidence 22344555555 89999865422110 122234444444445555666543 899999997543222222 36788
Q ss_pred HHHhhcC---cEEEEEeecCCCCC-hhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcC
Q 006733 187 DKLAEKR---CRLSHKVPLSPKGS-RNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLR 246 (633)
Q Consensus 187 ~~~~~~g---~~v~~~~~~~~~~~-~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g 246 (633)
+.+++.| ..+..........+ ..+-...++++.+.++++|+. .....+..+++++++.|
T Consensus 144 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~-~nd~~A~gv~~al~~~g 206 (265)
T cd06354 144 AGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFA-AAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEE-CCCCCchHHHHHHHhcC
Confidence 8888888 64432211111111 223334556655555776444 45566667889999887
No 187
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.60 E-value=0.01 Score=60.64 Aligned_cols=203 Identities=10% Similarity=0.044 Sum_probs=113.7
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~ 109 (633)
..-.||+++|.- ..+-..+..+++.+.++ . |+.+ .+.++..++..-.+....++.+++.++|-......
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~---~-----g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~ 127 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYH---T-----GNFL--LIGNGYHNEQKERQAIEQLIRHRCAALVVHAKMIP 127 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHH---c-----CCEE--EEEeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 457899999852 33323344455444443 2 4444 34455455555455566677778887775322111
Q ss_pred HHHHHHhhccCCcc-EEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHH
Q 006733 110 AHLVSHIANEFQVP-LLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALG 186 (633)
Q Consensus 110 ~~~va~~~~~~~iP-~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~ 186 (633)
...+..+.. ++| +|......+ ....++ +.+++...+..+++.|.+.|.+++++|.... .......+.|+
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (343)
T PRK10727 128 DAELASLMK--QIPGMVLINRILP---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYY 199 (343)
T ss_pred hHHHHHHHh--cCCCEEEEecCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHH
Confidence 222333333 677 676543221 111122 4556666677777888778999999997543 23456678899
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCe
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGY 252 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~ 252 (633)
+.+++.|+.+..........+..+-...++++.+. .+++|+ +.+...+..+++++++.|+..++-
T Consensus 200 ~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~G~~vP~d 266 (343)
T PRK10727 200 DALAESGIPANDRLVTFGEPDESGGEQAMTELLGRGRNFTAVA-CYNDSMAAGAMGVLNDNGIDVPGE 266 (343)
T ss_pred HHHHHCCCCCChhhEEeCCCChhHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcc
Confidence 99999987542211111111212223345554433 355544 456667778999999999865543
No 188
>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=97.60 E-value=0.023 Score=56.82 Aligned_cols=210 Identities=10% Similarity=-0.088 Sum_probs=117.8
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcC-CchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGP-QFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~-~~s~~~~ 111 (633)
+||++.|.. ..+-.....+++.+.++ .|+++.+. .++..++....+....++.+++.+||-. .......
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~--------~g~~v~~~-~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~ 71 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKE--------LGVDAIYV-GPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALE 71 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHH--------hCCeEEEE-CCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHH
Confidence 588888753 33333445566555555 24555433 2344566666666667777788877753 3333223
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc-CC-cEEEEEEecCC--CcchhHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-GW-RNVIALYVDDD--HGRNGIAALGD 187 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~-~w-~~v~ii~~d~~--~g~~~~~~~~~ 187 (633)
.....+...++|+|......+. . ...+....++....+..+++++.+. +- ++++++..+.. ......+.|++
T Consensus 72 ~~~~~~~~~~iPvV~v~~~~~~--~--~~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 72 PVLKKAREAGIKVVTHDSDVQP--D--NRDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHHHCCCeEEEEcCCCCC--C--cceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 3344567789999987543211 0 0123444567777888888887665 44 69999875432 23445678899
Q ss_pred HHhhcCc-EEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 188 KLAEKRC-RLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 188 ~~~~~g~-~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
.++++|. .+..........+..+....++++... ++++|+ +.....+..+++++++.|+. .+...++.+
T Consensus 148 ~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~D~~A~g~~~al~~~g~~-~dv~vvG~D 219 (298)
T cd06302 148 YQKEKYYPMLELVDRQYGDDDADKSYQTAQELLKAYPDLKGII-GPTSVGIPGAARAVEEAGLK-GKVAVTGLG 219 (298)
T ss_pred HHhhcCCCCeEEeCcccCCCCHHHHHHHHHHHHHhCCCceEEE-ECCCcchhHHHHHHHhcCCC-CCEEEEEeC
Confidence 9988872 121111111111222323444444333 344433 34456777889999999875 344444443
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=97.60 E-value=0.012 Score=57.74 Aligned_cols=205 Identities=12% Similarity=0.012 Sum_probs=113.1
Q ss_pred EEEEEeecC----CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhh
Q 006733 34 NIGAVFALN----STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (633)
Q Consensus 34 ~IG~l~p~~----~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~ 109 (633)
.||+++|.. ..+-.....+++.+.++ .|+++.+...|.. ...-......+...++++||.......
T Consensus 1 ~vgv~~~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~ 70 (268)
T cd06277 1 NIGLIASKRILNSPAFYSEIYRAIEEEAKK--------YGYNLILKFVSDE--DEEEFELPSFLEDGKVDGIILLGGIST 70 (268)
T ss_pred CeEEEEeccccccCCcHHHHHHHHHHHHHH--------cCCEEEEEeCCCC--hHHHHHHHHHHHHCCCCEEEEeCCCCh
Confidence 389999872 22223444455444443 2677766665533 222222233455668888875332222
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC--CcchhHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGD 187 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~ 187 (633)
.....+...++|+|......+ ....++ +..+....+..+++++.+.|.++++++..+.. ......+.|++
T Consensus 71 --~~~~~l~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 142 (268)
T cd06277 71 --EYIKEIKELGIPFVLVDHYIP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKK 142 (268)
T ss_pred --HHHHHHhhcCCCEEEEccCCC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHH
Confidence 224456678999998654322 111222 44566666777778777779999999975543 23456678999
Q ss_pred HHhhcCcEEEEEeecCC-CCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 188 KLAEKRCRLSHKVPLSP-KGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~-~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
.+++.|+.+.....+.. ......+...++... ..+++|+ +.....+..+++++++.|+..++ ...++.+
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~ai~-~~~d~~a~g~~~a~~~~g~~~p~di~vig~d 213 (268)
T cd06277 143 ALLDHGIPFNEDYDITEKEEDEEDIGKFIDELK-PLPTAFF-CSNDGVAFLLIKVLKEMGIRVPEDVSVIGFD 213 (268)
T ss_pred HHHHcCCCCCcceEEEcchhHHHHHHHHHhcCC-CCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCcceEEeec
Confidence 99988876532211110 011223333333321 2366544 44555667788888998876433 3344433
No 190
>PRK09526 lacI lac repressor; Reviewed
Probab=97.59 E-value=0.02 Score=58.51 Aligned_cols=206 Identities=15% Similarity=0.053 Sum_probs=117.5
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc--CCch
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG--PQFS 107 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG--~~~s 107 (633)
..-.||+++|.. ..+-..+..+++.+.++ .|+.+.+...+. .+.....+....+..++++++|- +..+
T Consensus 62 ~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~i~~~~~-~~~~~~~~~l~~l~~~~vdGiii~~~~~~ 132 (342)
T PRK09526 62 QSLTIGLATTSLALHAPSQIAAAIKSRADQ--------LGYSVVISMVER-SGVEACQAAVNELLAQRVSGVIINVPLED 132 (342)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHH--------CCCEEEEEeCCC-ChHHHHHHHHHHHHhcCCCEEEEecCCCc
Confidence 346799999863 22223445555555443 256666543332 12333334556677778887764 3332
Q ss_pred hhHHHHHHhh-ccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHH
Q 006733 108 VIAHLVSHIA-NEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAA 184 (633)
Q Consensus 108 ~~~~~va~~~-~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~ 184 (633)
.. +..+. ...++|+|..... + ... +..+..++...+..++++|.+.|.++++++.... .......+.
T Consensus 133 ~~---~~~~~~~~~~iPvV~~d~~-~---~~~---~~~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~G 202 (342)
T PRK09526 133 AD---AEKIVADCADVPCLFLDVS-P---QSP---VNSVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAG 202 (342)
T ss_pred ch---HHHHHhhcCCCCEEEEecc-C---CCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHH
Confidence 22 12222 2358999986532 1 111 2335567777778888888888999999997532 233456788
Q ss_pred HHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCe-EEEEeC
Q 006733 185 LGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGY-VWIVTD 258 (633)
Q Consensus 185 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~-~~i~~~ 258 (633)
|++.+++.|+.+.....-. .+..+-...+.++... .+++|+ +++...+..+++++++.|+..++- ..++.+
T Consensus 203 f~~al~~~gi~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vP~disvig~d 276 (342)
T PRK09526 203 WLEYLTDYQLQPIAVREGD--WSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLRVPGQISVIGYD 276 (342)
T ss_pred HHHHHHHcCCCcceEEeCC--CchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEeeC
Confidence 9999999888643221111 1222222344444332 356544 455667778999999999876543 344433
No 191
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.58 E-value=0.01 Score=58.78 Aligned_cols=201 Identities=13% Similarity=0.099 Sum_probs=115.4
Q ss_pred EEEEeecC------CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchh
Q 006733 35 IGAVFALN------STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSV 108 (633)
Q Consensus 35 IG~l~p~~------~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~ 108 (633)
||++.|.. ..+-.....+++.+.++ .|+.+.+...+. .. +....+...++.++|......
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~~~~~~~---~~---~~~~~~~~~~~dgiii~~~~~ 67 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDA--------AGVNLLLLPASS---ED---SDSALVVSALVDGFIVYGVPR 67 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHH--------CCCEEEEecCcc---HH---HHHHHHHhcCCCEEEEeCCCC
Confidence 78999862 22223344555444443 256665554322 11 233455666888777633322
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC-------------
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD------------- 175 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~------------- 175 (633)
.. .....+...++|+|....... +.+-.+..+....+..++++|.+.|-++++++..+.
T Consensus 68 ~~-~~~~~~~~~~ipvV~~~~~~~-------~~~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~~ 139 (283)
T cd06279 68 DD-PLVAALLRRGLPVVVVDQPLP-------PGVPSVGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDER 139 (283)
T ss_pred Ch-HHHHHHHHcCCCEEEEecCCC-------CCCCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCccccccccccccccc
Confidence 22 233455778999998754321 122345667777888888988888999999997532
Q ss_pred ------CCcchhHHHHHHHHhhcCcEEEEEeecC-CCCChhhHHHHHHHhhcCC--CeEEEEeeChHHHHHHHHHHHHcC
Q 006733 176 ------DHGRNGIAALGDKLAEKRCRLSHKVPLS-PKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLR 246 (633)
Q Consensus 176 ------~~g~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g 246 (633)
.......+.+++.+++.|++......+. ...+..+....++++..++ +++| ++++...+..+++++++.|
T Consensus 140 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~gv~~al~~~g 218 (283)
T cd06279 140 LASATFSVARERLEGYLEALEEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTAI-LCMSDVLALGALQVARELG 218 (283)
T ss_pred ccccccccHHHHHHHHHHHHHHcCCCCChheEEecCCCchHHHHHHHHHHHcCCCCCcEE-EECCcHHHHHHHHHHHHcC
Confidence 1233556788888888886432111111 1112234455566654433 4543 3455667777899999999
Q ss_pred CCCCC-eEEEEeC
Q 006733 247 MMESG-YVWIVTD 258 (633)
Q Consensus 247 ~~~~~-~~~i~~~ 258 (633)
+..++ ...++.+
T Consensus 219 ~~ip~di~vig~d 231 (283)
T cd06279 219 LRVPEDLSVVGFD 231 (283)
T ss_pred CCCCCceEEeeeC
Confidence 86443 3444443
No 192
>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=97.58 E-value=0.014 Score=56.96 Aligned_cols=198 Identities=12% Similarity=0.019 Sum_probs=107.3
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
|||+++|... ....+...+..++++.-++ .|+.+.+ .++. ++....+....+...++.+||-.... ....+
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~----~gy~~~~--~~~~-~~~~~~~~~~~l~~~~vdgiii~~~~-~~~~~ 71 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKE----LGVEVKY--VESV-EDADYEPNLRQLAAQGYDLIFGVGFG-FMDAV 71 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHh----cCceEEE--EecC-CHHHHHHHHHHHHHcCCCEEEECCcc-hhHHH
Confidence 6899998511 1123444444445444333 2455444 3443 44444455556666688877653222 22334
Q ss_pred HHhhccC-CccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc-CCcEEEEEEecC-CCcchhHHHHHHHHh
Q 006733 114 SHIANEF-QVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF-GWRNVIALYVDD-DHGRNGIAALGDKLA 190 (633)
Q Consensus 114 a~~~~~~-~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~-~w~~v~ii~~d~-~~g~~~~~~~~~~~~ 190 (633)
....... ++|++......+. + +.+-.+..++..-+..++.++..+ |-+++++|..+. .......+.|++.++
T Consensus 72 ~~~~~~~~~ipvv~~~~~~~~--~---~~~~~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~ 146 (260)
T cd06304 72 EKVAKEYPDVKFAIIDGVVDA--P---PNVASYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAK 146 (260)
T ss_pred HHHHHHCCCCEEEEecCccCC--C---CCeeeeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHH
Confidence 3444443 7898876443221 0 112223344444455555666655 889999997532 223345678888998
Q ss_pred hcCcEEEEEeecCCCC-ChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcC
Q 006733 191 EKRCRLSHKVPLSPKG-SRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLR 246 (633)
Q Consensus 191 ~~g~~v~~~~~~~~~~-~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g 246 (633)
++|..+.......... +..+-...++++.+.++++| ++.....+..+++++++.|
T Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 147 SVNPDITVLVIYTGSFFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HhCCCcEEEEEEecCccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 8886433211111111 12233445666555567765 5566667777889999887
No 193
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=97.57 E-value=0.012 Score=57.74 Aligned_cols=203 Identities=13% Similarity=0.023 Sum_probs=115.2
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHH-HHhcCceEEEcCCchhhHH
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALT-LLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~-li~~~v~aviG~~~s~~~~ 111 (633)
.||++.|.. ..+-.....++..+.++ .|+.+.+...+. + ....+...+ +...++++||-.......
T Consensus 1 ~Igvi~p~~~~~~~~~~~~~i~~~~~~--------~gy~~~~~~~~~--~-~~~~~~~~~~l~~~~vdgvi~~~~~~~~- 68 (269)
T cd06297 1 TISVLLPVVATEFYRRLLEGIEGALLE--------QRYDLALFPLLS--L-ARLKRYLESTTLAYLTDGLLLASYDLTE- 68 (269)
T ss_pred CEEEEeCCCcChhHHHHHHHHHHHHHH--------CCCEEEEEeCCC--c-HHHHHHHHHHHHhcCCCEEEEecCccCh-
Confidence 378888864 33333445555555554 256666654442 2 122233333 455578866653322222
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--C------CcchhHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--D------HGRNGIA 183 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~------~g~~~~~ 183 (633)
.....+...++|+|......+ ..++ +.++....+...++.|.+. .++++++.... . .+....+
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 333455678999998754321 1222 3467777788888877666 79999886432 2 3456688
Q ss_pred HHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeE-EEEeC
Q 006733 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV-WIVTD 258 (633)
Q Consensus 184 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~-~i~~~ 258 (633)
.|++.+++.|+.+.....+....+..+....+.++.+. .+++|+ +.+...+..+++++++.|+..++-. .++.+
T Consensus 140 gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vP~di~vvg~d 216 (269)
T cd06297 140 GFQQALKDAGRPFSPDLLAITDHSEEGGRLAMRHLLEKASPPLAVF-ASADQQALGALQEAVELGLTVGEDVRVVGFD 216 (269)
T ss_pred HHHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 99999999887643211111111223344556665443 345444 4455577788999999998655443 44443
No 194
>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=97.54 E-value=0.015 Score=57.11 Aligned_cols=202 Identities=13% Similarity=0.117 Sum_probs=118.0
Q ss_pred EEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchh---h
Q 006733 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSV---I 109 (633)
Q Consensus 35 IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~---~ 109 (633)
||++.|.. ..+-.....+++.+.++ .|+.+ .+.++..++....+....++..++.++|- +..+. .
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~--------~g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~ 71 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSE--------KGYSL--LLASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPNP 71 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHH--------cCCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEeccccccccc
Confidence 78888753 22222334444433333 24555 34555667766677777888888988774 32221 1
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC-CCcchhHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD-DHGRNGIAALGDK 188 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~-~~g~~~~~~~~~~ 188 (633)
.......+...++|+|......+. +.+..+..++...+..+++++.+.|.++++++...+ ..+....+.+++.
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~~~~------~~~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~ 145 (273)
T cd01541 72 NIDLYLKLEKLGIPYVFINASYEE------LNFPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKA 145 (273)
T ss_pred cHHHHHHHHHCCCCEEEEecCCCC------CCCCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHH
Confidence 112223456779999987543221 112345677777888888988888999999886432 2334556788888
Q ss_pred HhhcCcEEEEE--eecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeE
Q 006733 189 LAEKRCRLSHK--VPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (633)
Q Consensus 189 ~~~~g~~v~~~--~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~ 253 (633)
+++.|+.+... ..+............++++.+. .+++| ++.+...+..+++++++.|+..++-+
T Consensus 146 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~av-~~~~d~~a~g~~~al~~~g~~~p~dv 213 (273)
T cd01541 146 YREHGIPFNPSNVITYTTEEKEEKLFEKIKEILKRPERPTAI-VCYNDEIALRVIDLLKELGLKIPEDI 213 (273)
T ss_pred HHHcCCCCChHHEEeccccchhhHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCcE
Confidence 88888643211 1111111112344555555433 35654 44566677778999999998655433
No 195
>PRK09492 treR trehalose repressor; Provisional
Probab=97.50 E-value=0.023 Score=57.27 Aligned_cols=192 Identities=14% Similarity=0.036 Sum_probs=112.9
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~ 109 (633)
..-+||++.|.- ..+-.....++. +.+++. |+.+ .+.++..++....+....+...++.++|....+..
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i~---~~~~~~-----gy~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 130 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTML---PAFYEQ-----GYDP--IIMESQFSPEKVNEHLGVLKRRNVDGVILFGFTGI 130 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHHH---HHHHHc-----CCeE--EEEecCCChHHHHHHHHHHHhcCCCEEEEeCCCcc
Confidence 346899999853 222233444444 334433 4554 44555556655555555666678888775332211
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec-C--CCcchhHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD-D--DHGRNGIAALG 186 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d-~--~~g~~~~~~~~ 186 (633)
. .......++|++...... +.+-.+.++....+..+++.|...|-++++++... . ..+....+.|+
T Consensus 131 ~---~~~l~~~~~pvv~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf~ 199 (315)
T PRK09492 131 T---EEMLAPWQDKLVLLARDA--------KGFSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAYL 199 (315)
T ss_pred c---HHHHHhcCCCEEEEeccC--------CCCcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHHH
Confidence 1 123344567887654321 11233455666677778888778899999999632 2 23456778999
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
+.+++.|+.+... ... .+..+....++++.+.++++|+.. +...+..+++++++.|+
T Consensus 200 ~al~~~g~~~~~~--~~~-~~~~~~~~~~~~~l~~~~~ai~~~-~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 200 AFCKQHKLTPVAA--LGG-LSMQSGYELVAKVLTPETTALVCA-TDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHcCCCceee--cCC-CCchHHHHHHHHHhhcCCCEEEEc-CcHHHHHHHHHHHHcCC
Confidence 9999999865421 111 121222334455544567776544 45677778999999887
No 196
>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=97.50 E-value=0.0091 Score=58.48 Aligned_cols=201 Identities=12% Similarity=0.036 Sum_probs=115.4
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
+||++.|.+..+...+..+++.+.++. + |+.+-+. +. +. .+....+...+++++|-...+.. .
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~----g~~~~~~--~~--~~---~~~~~~l~~~~vdGiI~~~~~~~---~ 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---G----PWSIYLE--PR--GL---QEPLRWLKDWQGDGIIARIDDPE---M 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---C----CeEEEEe--cc--cc---hhhhhhccccccceEEEECCCHH---H
Confidence 589999965444444555555555442 2 4555442 22 11 22334455568887775332222 2
Q ss_pred HHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC-CcchhHHHHHHHHhhc
Q 006733 114 SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD-HGRNGIAALGDKLAEK 192 (633)
Q Consensus 114 a~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~-~g~~~~~~~~~~~~~~ 192 (633)
...+...++|+|......+. +.+-++..+....+..+++.+.+.|-++++++..... ......+.|++.+++.
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 24456679999987543221 2234567778888888888888889999999874432 2234467888999988
Q ss_pred CcEEEEEeec--CCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCC-CeEEEEeC
Q 006733 193 RCRLSHKVPL--SPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMES-GYVWIVTD 258 (633)
Q Consensus 193 g~~v~~~~~~--~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 258 (633)
|+.+...... ....+..+....+.++.+. .+++ |++++...+..+++++++.|+..+ +...++.+
T Consensus 138 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 138 GYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVG-IFACTDARARQLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred CCccccccCccccccccHHHHHHHHHHHHhcCCCCcE-EEecChHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 8765211111 1001112223445554333 3554 445566677778899999887543 44455544
No 197
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=97.41 E-value=0.037 Score=56.21 Aligned_cols=203 Identities=9% Similarity=0.033 Sum_probs=115.7
Q ss_pred eEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhH
Q 006733 32 VLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (633)
Q Consensus 32 ~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~ 110 (633)
.-.||++.|.- ..+-.....+++.+.++ .|+.+.+ .+...++....+....++..++.++|-.......
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~~ 132 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDA--------HGYQTML--AHYGYKPEMEQERLESMLSWNIDGLILTERTHTP 132 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHH--------CCCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCCH
Confidence 45899999852 33323445555555443 2555544 3444455444445555667788877753222222
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC-CCcchhHHHHHHHH
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD-DHGRNGIAALGDKL 189 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~-~~g~~~~~~~~~~~ 189 (633)
.....+...++|+|....... .. .. ..+..+...-+..+++.|...|.++++++.... .......+.|++.+
T Consensus 133 -~~~~~l~~~~iPvV~~~~~~~---~~-~~--~~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~al 205 (331)
T PRK14987 133 -RTLKMIEVAGIPVVELMDSQS---PC-LD--IAVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERTIIKQKGYEQAM 205 (331)
T ss_pred -HHHHHHHhCCCCEEEEecCCC---CC-CC--ceEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccHHHHHHHHHHHH
Confidence 223445678999997532111 11 11 135667777778888888888999999996432 22334567889999
Q ss_pred hhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeE
Q 006733 190 AEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYV 253 (633)
Q Consensus 190 ~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~ 253 (633)
++.|+.... ..+....+..+-...++++.+. .+++|+ +++...+..+++++++.|+..|+-+
T Consensus 206 ~~~g~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~g~~vP~di 269 (331)
T PRK14987 206 LDAGLVPYS-VMVEQSSSYSSGIELIRQARREYPQLDGVF-CTNDDLAVGAAFECQRLGLKVPDDM 269 (331)
T ss_pred HHcCCCccc-eeecCCCChhhHHHHHHHHHhcCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCcc
Confidence 988863211 1111111112223345554433 356544 4556677778999999998765443
No 198
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=97.40 E-value=0.029 Score=57.42 Aligned_cols=203 Identities=9% Similarity=-0.022 Sum_probs=113.3
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~ 109 (633)
..-.||+++|.. ..+-..+..+++.+.++. |+.+. +.++..++..-.+....+..+++.++|-......
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 356799999863 233234455555444441 44443 3444445554444555666777887664321111
Q ss_pred HHHHHHhhccCCcc-EEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC--CCcchhHHHHH
Q 006733 110 AHLVSHIANEFQVP-LLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD--DHGRNGIAALG 186 (633)
Q Consensus 110 ~~~va~~~~~~~iP-~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~ 186 (633)
...+..+.. ++| +|......+. ..++ .+..++..-+...+++|...|-+++++|.... .......+.|+
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~~---~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (346)
T PRK10401 128 DDELAQFMD--QIPGMVLINRVVPG---YAHR---CVCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWM 199 (346)
T ss_pred hHHHHHHHh--cCCCEEEEecccCC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHH
Confidence 222333333 355 6665432221 1122 24456666677777888888999999997543 34456778899
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCe
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGY 252 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~ 252 (633)
+.+++.|+.+..........+..+-...+.++.+. .+++|+ +.+...+..+++++++.|+..|+-
T Consensus 200 ~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~al~~~G~~vP~d 266 (346)
T PRK10401 200 SALKEQGIIPPESWIGTGTPDMQGGEAAMVELLGRNLQLTAVF-AYNDNMAAGALTALKDNGIAIPLH 266 (346)
T ss_pred HHHHHcCCCCChhheecCCCChHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCc
Confidence 99999987543211111111212222344554432 466555 456667778999999999876543
No 199
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=97.37 E-value=0.034 Score=55.79 Aligned_cols=206 Identities=9% Similarity=0.019 Sum_probs=116.5
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhh
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVI 109 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~ 109 (633)
.+-+||++.|.. ..+-..+..+++.+.++. |+.+.+ .+...+...-.+....+...++++||--.....
T Consensus 34 ~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~ 103 (309)
T PRK11041 34 ESRTILVIVPDICDPFFSEIIRGIEVTAAEH--------GYLVLI--GDCAHQNQQEKTFVNLIITKQIDGMLLLGSRLP 103 (309)
T ss_pred CCcEEEEEeCCCcCccHHHHHHHHHHHHHHC--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCCCC
Confidence 457899999863 444445566666666652 455544 344444544444555667778887774222111
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC--CcchhHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD--HGRNGIAALGD 187 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~ 187 (633)
..... .......|++......+. ..++ .+..+....+...++.|.+.|-+++++|..... ......+.|++
T Consensus 104 ~~~~~-~~~~~~~pvv~~~~~~~~---~~~~---~V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~~ 176 (309)
T PRK11041 104 FDASK-EEQRNLPPMVMANEFAPE---LELP---TVHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYVQ 176 (309)
T ss_pred hHHHH-HHHhcCCCEEEEccccCC---CCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHHH
Confidence 11111 122223467764433221 1122 345677777788888887789999999975432 23456788999
Q ss_pred HHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCCeEE
Q 006733 188 KLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESGYVW 254 (633)
Q Consensus 188 ~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~~~~ 254 (633)
.+++.|+.+..........+.......+.++.+. .+++|+. +....+..+++++++.|+..++-..
T Consensus 177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~ 244 (309)
T PRK11041 177 ALRRCGITVDPQYIARGDFTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLS 244 (309)
T ss_pred HHHHcCCCCCHHHeEeCCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceE
Confidence 9998887643211111111223334555565443 3676664 4555666788999998876443333
No 200
>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=97.16 E-value=0.099 Score=52.56 Aligned_cols=191 Identities=13% Similarity=0.021 Sum_probs=109.5
Q ss_pred CeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCch-h
Q 006733 31 PVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFS-V 108 (633)
Q Consensus 31 ~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s-~ 108 (633)
..-.||+++|.- ..+-.....++.-+.+ +. |+.+-+ .++..++....+....+...++.++|-.... .
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~---~~-----gy~~~i--~~~~~~~~~~~~~~~~l~~~~vdGvIi~~~~~~ 127 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGMLPVFY---TA-----GYDPII--MESQFSPQLTNEHLSVLQKRNVDGVILFGFTGC 127 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHHHHHHH---HC-----CCeEEE--ecCCCChHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 345799999852 2222223334333333 22 555433 3444455444444445556678877742211 1
Q ss_pred hHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec-C--CCcchhHHHH
Q 006733 109 IAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD-D--DHGRNGIAAL 185 (633)
Q Consensus 109 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d-~--~~g~~~~~~~ 185 (633)
... .....++|+|......+ . +-.+.+++..-+..+++.|...|-+++++|... . ..+....+.|
T Consensus 128 ~~~----~l~~~~~p~V~i~~~~~-----~---~~~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf 195 (311)
T TIGR02405 128 DEE----ILESWNHKAVVIARDTG-----G---FSSVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAY 195 (311)
T ss_pred CHH----HHHhcCCCEEEEecCCC-----C---ccEEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHH
Confidence 111 23446788887653211 1 223556777777778888888899999999732 2 2345677889
Q ss_pred HHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 186 GDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 186 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
++.+++.|+..... ... .+..+....++++.+.++++|+ +++..-+..+++++++.|+
T Consensus 196 ~~a~~~~gi~~~~~-~~~--~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 196 LAYCESANLEPIYQ-TGQ--LSHESGYVLTDKVLKPETTALV-CATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHcCCCceee-eCC--CCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHHHHHHHHHcCC
Confidence 99999999863211 111 1222333445554444577654 6666777788999999886
No 201
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=97.15 E-value=0.11 Score=52.03 Aligned_cols=197 Identities=10% Similarity=-0.033 Sum_probs=110.7
Q ss_pred EEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHHH
Q 006733 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAHL 112 (633)
Q Consensus 35 IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~~ 112 (633)
||++.|.- ..+-.....+++.+.++ .|+.+ .+.++..++..-.+....++.+++.+||- +........
T Consensus 1 ig~~~~~~~~~~~~~~~~~i~~~a~~--------~g~~v--~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~ 70 (302)
T TIGR02634 1 IGVSIDDLRLERWQKDRDIFVAAAES--------LGAKV--FVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSN 70 (302)
T ss_pred CeeecCccchhhHHHHHHHHHHHHHh--------cCCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHH
Confidence 46666542 22223344444444444 25555 44566667776667777788888887665 333332334
Q ss_pred HHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCc-EEEEEEecC--CCcchhHHHHHHHH
Q 006733 113 VSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWR-NVIALYVDD--DHGRNGIAALGDKL 189 (633)
Q Consensus 113 va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~-~v~ii~~d~--~~g~~~~~~~~~~~ 189 (633)
....+...++|+|......+. .+....+..+....+..+++++.+.+-+ +++++..+. .......+.+++.+
T Consensus 71 ~l~~~~~~~iPvV~~d~~~~~-----~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~ 145 (302)
T TIGR02634 71 AVQEAKDEGIKVVAYDRLIND-----ADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVL 145 (302)
T ss_pred HHHHHHHCCCeEEEecCcCCC-----CCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHH
Confidence 445567789999987543211 1223456677788888888887666655 788776432 22333456777777
Q ss_pred hhc----CcEEEEEeecCCCCChhhHHHHHHHhhc---CCCeEEEEeeChHHHHHHHHHHHHcCCC
Q 006733 190 AEK----RCRLSHKVPLSPKGSRNQIIDTLLTVSS---MMSRILILHTYDIWGLEVLNAAKHLRMM 248 (633)
Q Consensus 190 ~~~----g~~v~~~~~~~~~~~~~~~~~~l~~i~~---~~~~vIvl~~~~~~~~~il~~a~~~g~~ 248 (633)
++. ++.+.... +.......+....++++.. ..+++|+. .....+..+++++++.|+.
T Consensus 146 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ll~~~~~~~~aI~~-~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 146 QPAIDSGDIKIVGDQ-WVDGWLPENALRIMENALTANDNKVDAVVA-SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred hhhccCCCeEEecCc-CCCCCCHHHHHHHHHHHHHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 753 35543221 1111122333455555443 23565444 4445566788999998874
No 202
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=96.96 E-value=0.42 Score=47.68 Aligned_cols=197 Identities=11% Similarity=0.020 Sum_probs=101.2
Q ss_pred EEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEE-ecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhHH
Q 006733 35 IGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTV-HDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIAH 111 (633)
Q Consensus 35 IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~-~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~~ 111 (633)
||++.|.. ..+-.....+++.+.++. |.. .+++ .+...++..-.+....++.+++.+||- +..+....
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~-~~i~~~~~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~ 71 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKEL--------GSV-YIIYTGPTGTTAEGQIEVVNSLIAQKVDAIAISANDPDALV 71 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHh--------CCe-eEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 56777653 222233455555555542 321 2222 234456666666777788888887665 33333333
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecC-ChHHHHHHHHHHH-HHc-CCcEEEEEEecCCC--cchhHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQ-SDLYQMAAIADIV-DYF-GWRNVIALYVDDDH--GRNGIAALG 186 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p-~~~~~~~al~~ll-~~~-~w~~v~ii~~d~~~--g~~~~~~~~ 186 (633)
.....+...+||+|......+. . .....+.. +....++..++.+ +++ +-.++++|..+... .....+.++
T Consensus 72 ~~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~ 146 (302)
T TIGR02637 72 PALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMK 146 (302)
T ss_pred HHHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHH
Confidence 3345566789999986543221 1 12233333 3333444445543 333 23699998754322 123446677
Q ss_pred HHHhhcC---cEEEEEeecCCCCChhhHHHHHHHhhcCC--CeEEEEeeChHHHHHHHHHHHHcCCC
Q 006733 187 DKLAEKR---CRLSHKVPLSPKGSRNQIIDTLLTVSSMM--SRILILHTYDIWGLEVLNAAKHLRMM 248 (633)
Q Consensus 187 ~~~~~~g---~~v~~~~~~~~~~~~~~~~~~l~~i~~~~--~~vIvl~~~~~~~~~il~~a~~~g~~ 248 (633)
+.++++| +++..... . ..+..+-...++++.+.+ +++|+. .....+...++++++.|+.
T Consensus 147 ~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~L~~~~~~~ai~~-~~d~~a~ga~~al~~~g~~ 210 (302)
T TIGR02637 147 KELKDPKYPKVKLVATVY-G-DDDAQKSYQEAQGLLKSYPNLKGIIA-PTTVGIKAAAQAVSDAKLI 210 (302)
T ss_pred HHHhhccCCCCEEEeeec-C-CchHHHHHHHHHHHHHhCCCccEEEe-CCCchHHHHHHHHHhcCCC
Confidence 7776543 34322111 1 122233344555554444 444443 3456667788888888864
No 203
>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=96.95 E-value=0.087 Score=51.68 Aligned_cols=200 Identities=11% Similarity=0.022 Sum_probs=109.0
Q ss_pred EEEEEeecCC--ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEc-CCchhhH
Q 006733 34 NIGAVFALNS--TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIG-PQFSVIA 110 (633)
Q Consensus 34 ~IG~l~p~~~--~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG-~~~s~~~ 110 (633)
|||++.+.+. ..+......+..++++..++ .|+.+.+...+ .+. ....+++.++|- +..+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~----~g~~~~~~~~~--~~~--------~~~~~~vdgii~~~~~~~-- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQE----LGIELTKFFRD--DDL--------LEILEDVDGIIAIGKFSQ-- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHH----cCCEEEEEecc--chh--------HHhccCcCEEEEecCCCH--
Confidence 5899988552 22223333333344443333 25666554332 111 123456776653 22222
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCC-------CcchhHH
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDD-------HGRNGIA 183 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~-------~g~~~~~ 183 (633)
.....+...++|+|...... .+..++ .+..++...+..+++.+.+.|-++++++..... ......+
T Consensus 65 -~~~~~~~~~~~pvV~~~~~~---~~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~R~~ 137 (270)
T cd01544 65 -EQLAKLAKLNPNLVFVDSNP---APDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIEDPRET 137 (270)
T ss_pred -HHHHHHHhhCCCEEEECCCC---CCCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhhHHHH
Confidence 33344566789999864432 122223 355677777888888888889999999985432 3345677
Q ss_pred HHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC----CCeEEEEeeChHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 184 ALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM----MSRILILHTYDIWGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 184 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~----~~~vIvl~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
.|++.+++.|.. .....+....+..+....++++.+. .+++ |++++...+..+++++++.|+..++ ...++.+
T Consensus 138 gf~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~v~g~d 215 (270)
T cd01544 138 AFREYMKEKGLY-DPELIYIGDFTVESGYQLMKEALKSLGDNLPTA-FFIASDPMAIGALRALQEAGIKVPEDVSVISFN 215 (270)
T ss_pred HHHHHHHHcCCC-ChheEeeCCCCHHHHHHHHHHHHhccCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 888999888841 1000111011222223344444332 2454 4445677788899999999986554 3344443
No 204
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.77 E-value=0.33 Score=47.87 Aligned_cols=204 Identities=11% Similarity=-0.004 Sum_probs=105.3
Q ss_pred EEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCch-hh-H
Q 006733 34 NIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFS-VI-A 110 (633)
Q Consensus 34 ~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s-~~-~ 110 (633)
+||++.|.. ..+-.....+++.+.++ . |+.+ .+.++..++..-.+....++.+++.+||-.... .. .
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~---~-----gy~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKA---I-----GWNL--RILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHH---c-----CcEE--EEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 588888863 22222344444444443 2 4544 444555566655566667777788877753222 21 2
Q ss_pred HHHHHhhccCCccEEeeccCCCCCccCCCC-ceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecCC-CcchhHHHHH
Q 006733 111 HLVSHIANEFQVPLLSFAATDPSLSSLQYP-FFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDD-HGRNGIAALG 186 (633)
Q Consensus 111 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~~-~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~~-~g~~~~~~~~ 186 (633)
..+ ..+...++|+|........ .....+ .+-.+...+...+..++++|... |-++++++..... ......+.++
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 3455689999987543211 000001 13445677777778888887666 8899998864321 1111123444
Q ss_pred HHHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhcC---CCeEEEEeeChHHHHHHHHHHHHcCCCCC
Q 006733 187 DKLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILILHTYDIWGLEVLNAAKHLRMMES 250 (633)
Q Consensus 187 ~~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~~~~~~~~~il~~a~~~g~~~~ 250 (633)
..++.. +..+..................++++.+. .+++ |++++...+..+++++++.|+..+
T Consensus 150 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~a-i~~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 150 EIIEACKGCTVLSIEDVPISRTATRMPALTARLLQRYGDKWTH-SLAINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHHhCCCCEEEEecccCcchhhhhhHHHHHHHHHhcCcccce-ecccchhhhHHhHHHHHHhcccCC
Confidence 444332 33331111111111111111344444332 2554 555566677788899999998654
No 205
>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=96.59 E-value=0.19 Score=48.93 Aligned_cols=193 Identities=12% Similarity=-0.007 Sum_probs=100.4
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
|||+++|-. .....+......+++++.++. |.++.+ .+...++....+...++++++..+||+.. .....++
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~~----gv~~~~--~e~~~~~~~~~~~i~~~~~~g~dlIi~~g-~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKAL----GVEVTY--VENVPEGADAERVLRELAAQGYDLIFGTS-FGFMDAA 72 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHhc----CCeEEE--EecCCchHhHHHHHHHHHHcCCCEEEECc-hhhhHHH
Confidence 578888743 111233444445555555442 455444 34443566667777888888999999833 3333344
Q ss_pred HHhhccC-CccEEeeccCCCCCccCCCCceEEecCChH---HHHHHHHHHHHHcCCcEEEEEEecC-CCcchhHHHHHHH
Q 006733 114 SHIANEF-QVPLLSFAATDPSLSSLQYPFFVRTTQSDL---YQMAAIADIVDYFGWRNVIALYVDD-DHGRNGIAALGDK 188 (633)
Q Consensus 114 a~~~~~~-~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~---~~~~al~~ll~~~~w~~v~ii~~d~-~~g~~~~~~~~~~ 188 (633)
..++.++ ++.++...... . .|++........ .++-.++.++. +-.+|++|.... .........|...
T Consensus 73 ~~vA~~~p~~~F~~~d~~~---~---~~Nv~~~~~~~~e~~ylaG~~Aa~~t--~t~kVG~I~g~~~~~~~~~~~gF~~G 144 (258)
T cd06353 73 LKVAKEYPDVKFEHCSGYK---T---APNVGSYFARIYEGRYLAGVVAGKMT--KTNKVGYVAAFPIPEVVRGINAFALG 144 (258)
T ss_pred HHHHHHCCCCEEEECCCCC---C---CCCeeeEechhhHHHHHHHHHHHHhh--cCCcEEEEcCcccHHHHHHHHHHHHH
Confidence 5555555 34444322211 1 134333322222 23333444443 346899997543 2222344566665
Q ss_pred Hhhc--CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcC
Q 006733 189 LAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLR 246 (633)
Q Consensus 189 ~~~~--g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g 246 (633)
++.. ++++.....=+. .+...-......+.+.++|+|+-.+. ....++++++.|
T Consensus 145 ~~~~~p~~~v~~~~~g~~-~D~~~a~~~a~~l~~~G~DvI~~~~~---~~g~~~aa~~~g 200 (258)
T cd06353 145 ARSVNPDATVKVIWTGSW-FDPAKEKEAALALIDQGADVIYQHTD---SPGVIQAAEEKG 200 (258)
T ss_pred HHHHCCCcEEEEEEecCC-CCcHHHHHHHHHHHHCCCcEEEecCC---ChHHHHHHHHhC
Confidence 5533 344332221111 12233355556666789998888772 245788888866
No 206
>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=96.49 E-value=0.0058 Score=59.47 Aligned_cols=92 Identities=10% Similarity=-0.035 Sum_probs=67.2
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++|+||+.. .++|+. +.+...++.+.+++++|.+ ++++.. .+|..++..+.+|++|+++.+
T Consensus 31 ~~~l~vg~~~--~~~~~~--------~~~~~~~l~~~l~~~~g~~--v~~~~~------~~~~~~~~~l~~g~~Di~~~~ 92 (254)
T TIGR01098 31 PKELNFGILP--GENASN--------LTRRWEPLADYLEKKLGIK--VQLFVA------TDYSAVIEAMRFGRVDIAWFG 92 (254)
T ss_pred CCceEEEECC--CCCHHH--------HHHHHHHHHHHHHHHhCCc--EEEEeC------CCHHHHHHHHHcCCccEEEEC
Confidence 4579999985 554433 3345679999999999966 666552 579999999999999999866
Q ss_pred eEeec---cccceeeeccceeec------ceEEEEecCC
Q 006733 549 FAITT---ERTKMVDFTQPYIES------GLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~---~r~~~~~fs~p~~~~------~~~~lv~~~~ 578 (633)
..... +|.+..+|+.|+... ...++++++.
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~ 131 (254)
T TIGR01098 93 PSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADS 131 (254)
T ss_pred cHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCC
Confidence 54332 566678888886643 2577888766
No 207
>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=96.26 E-value=0.094 Score=49.88 Aligned_cols=92 Identities=13% Similarity=0.086 Sum_probs=73.8
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCC-------CChhhHHHHHHHhhcCCCe
Q 006733 152 QMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPK-------GSRNQIIDTLLTVSSMMSR 224 (633)
Q Consensus 152 ~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-------~~~~~~~~~l~~i~~~~~~ 224 (633)
-+.++.+.++++|.+|++++. .|-....+.+++.+++.|++|.....+... .+...+.+.++++...++|
T Consensus 107 ~~~A~~~AL~alg~~RIalvT---PY~~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aD 183 (239)
T TIGR02990 107 PSSAAVDGLAALGVRRISLLT---PYTPETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDAD 183 (239)
T ss_pred HHHHHHHHHHHcCCCEEEEEC---CCcHHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCC
Confidence 367889999999999999997 566778899999999999999876544431 2345566667777678999
Q ss_pred EEEEeeChHHHHHHHHHHHH-cC
Q 006733 225 ILILHTYDIWGLEVLNAAKH-LR 246 (633)
Q Consensus 225 vIvl~~~~~~~~~il~~a~~-~g 246 (633)
+|++.|..-....++.++++ +|
T Consensus 184 AifisCTnLrt~~vi~~lE~~lG 206 (239)
T TIGR02990 184 ALFLSCTALRAATCAQRIEQAIG 206 (239)
T ss_pred EEEEeCCCchhHHHHHHHHHHHC
Confidence 99999999999999998876 44
No 208
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=95.90 E-value=1.2 Score=43.51 Aligned_cols=152 Identities=11% Similarity=0.011 Sum_probs=88.9
Q ss_pred HhcCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEe
Q 006733 94 LENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYV 173 (633)
Q Consensus 94 i~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~ 173 (633)
...+++++|-.........+ ..+...++|+|........ ...+++ +..++...+..+++.|.+.|-+++++|..
T Consensus 53 ~~~~vdgiIi~~~~~~~~~~-~~l~~~~iPvV~i~~~~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~~ 126 (269)
T cd06287 53 DALDIDGAILVEPMADDPQV-ARLRQRGIPVVSIGRPPGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIVG 126 (269)
T ss_pred hccCcCeEEEecCCCCCHHH-HHHHHcCCCEEEeCCCCCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEeC
Confidence 34578776642211112223 3345679999987543210 111233 34566666777888888889999999964
Q ss_pred cC--CCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCC
Q 006733 174 DD--DHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMME 249 (633)
Q Consensus 174 d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~ 249 (633)
.. .......+.|++.+++.|+..... ......+..+....++++.+. .+++|+ +.+...+..+++++++.|+..
T Consensus 127 ~~~~~~~~~R~~gf~~a~~~~g~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~gvl~al~~~gl~v 204 (269)
T cd06287 127 SARRNSYLEAEAAYRAFAAEHGMPPVVL-RVDEAGGEEAGYAACAQLLAQHPDLDALC-VPVDAFAVGAVRAATELGRAV 204 (269)
T ss_pred CcccccHHHHHHHHHHHHHHcCCCccee-EecCCCChHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCC
Confidence 32 334456778899999888753211 111112223333455555433 356544 556777888999999999876
Q ss_pred CCeE
Q 006733 250 SGYV 253 (633)
Q Consensus 250 ~~~~ 253 (633)
++-+
T Consensus 205 P~dv 208 (269)
T cd06287 205 PDQL 208 (269)
T ss_pred CCce
Confidence 6433
No 209
>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=95.29 E-value=2.2 Score=41.10 Aligned_cols=143 Identities=6% Similarity=-0.058 Sum_probs=86.2
Q ss_pred HHHHHhcCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHH--cCCcE
Q 006733 90 ALTLLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY--FGWRN 167 (633)
Q Consensus 90 ~~~li~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~--~~w~~ 167 (633)
..+++..++.++|--............+...++|++......+. ...++ .+..++...+..+++.+.+ .|-++
T Consensus 45 ~~~~~~~~vdGvIi~~~~~~~~~~~~~~~~~~~PvV~i~~~~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~~ 119 (247)
T cd06276 45 IISNTKGKYSGYVVMPHFKNEIQYFLLKKIPKEKLLILDHSIPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKYKK 119 (247)
T ss_pred HHHHHhcCCCEEEEecCCCCcHHHHHHhccCCCCEEEEcCcCCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCCCE
Confidence 34444567776664222111122334555578999986543211 11222 3455777777778888777 89999
Q ss_pred EEEEEecC-CCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcC
Q 006733 168 VIALYVDD-DHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLR 246 (633)
Q Consensus 168 v~ii~~d~-~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g 246 (633)
+++|.... ..+....+.+++.+++.|+.... . .. .. . . .+ .+++ .|++.+...+..+++++++.|
T Consensus 120 Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~-~-~~--~~--~--~---~~--~~~~-ai~~~~d~~A~g~~~~l~~~g 185 (247)
T cd06276 120 LILVFPNKTAIPKEIKRGFERFCKDYNIETEI-I-ND--YE--N--R---EI--EKGD-LYIILSDTDLVFLIKKARESG 185 (247)
T ss_pred EEEEecCccHhHHHHHHHHHHHHHHcCCCccc-c-cc--cc--h--h---hc--cCCc-EEEEeCHHHHHHHHHHHHHcC
Confidence 99997543 34456678899999999986431 1 10 01 0 0 01 1234 566667888888999999999
Q ss_pred CCCCC
Q 006733 247 MMESG 251 (633)
Q Consensus 247 ~~~~~ 251 (633)
+..++
T Consensus 186 ~~iP~ 190 (247)
T cd06276 186 LLLGK 190 (247)
T ss_pred CcCCc
Confidence 86553
No 210
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=95.23 E-value=4 Score=41.38 Aligned_cols=205 Identities=11% Similarity=-0.024 Sum_probs=99.5
Q ss_pred CCCeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCC-ChHHHHHHHHHHHhcCceEEEcCCc
Q 006733 29 IPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHD-TNY-SRFLGMVEALTLLENETVAIIGPQF 106 (633)
Q Consensus 29 ~~~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D-~~~-~~~~a~~~~~~li~~~v~aviG~~~ 106 (633)
.....+++++.+-. .....+-+....+++.+-++. |.+++..... ... +.....+...++.+++...|++...
T Consensus 32 ~~~~~~~~~~~~g~-~~D~s~n~~~~~g~~~~~~~~----g~~~~~~~~~~~~~~~~~~~~~~~~~~a~~g~~lI~~~gf 106 (345)
T COG1744 32 AGKKKKVAVIDVGG-IDDKSFNQSAYEGLLKAKKEL----GLKVETYYWEYVQSDSEADYERALRALAEDGYDLIFGTGF 106 (345)
T ss_pred cccceEEEEEecCC-CCccchhHHHHHHHHHHHHHh----CCceEeeeeeecCCcchhHHHHHHHHHHhcCCCEEEEecc
Confidence 34456666665443 112223333334444443332 4455553332 222 2344455556677777788887544
Q ss_pred hhhHHHHHHhhccC-CccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEe-cCCCcchhHHH
Q 006733 107 SVIAHLVSHIANEF-QVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYV-DDDHGRNGIAA 184 (633)
Q Consensus 107 s~~~~~va~~~~~~-~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~-d~~~g~~~~~~ 184 (633)
.-.. ++..++..+ ++.++-..+....-. +...+.||..-.....+.+-+...+ -.+++.|.. +-+--..+...
T Consensus 107 ~~~d-~~~~va~~~Pd~~F~iid~~~~~~~-Nv~s~~f~~~egayL~G~~AA~~sk---~~~vG~vgg~~~p~v~~f~~g 181 (345)
T COG1744 107 AFSD-ALEKVAAEYPDVKFVIIDGVVKKED-NVASYVFREYEGAYLAGVAAAKMSK---SGKVGFVGGMDIPEVNRFING 181 (345)
T ss_pred chhh-HHHHHHHHCCCCEEEEecCccCCCC-ceEEEEeccccHHHHHHHHHHHhhc---CCceeEEecccchhhHHHHHH
Confidence 4332 333444444 444443322211110 2234566666444333333333333 345665553 33334455666
Q ss_pred HHHHHhhcCc----EEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 185 LGDKLAEKRC----RLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 185 ~~~~~~~~g~----~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
|...++..+- .+.+...+. +...-......+.++++|||+-.+.+..... +.+|++.+.
T Consensus 182 F~~Gak~~np~i~v~v~~~gsf~---D~~k~k~~a~~li~~GaDVI~~~ag~~~~gv-~~~A~~~~~ 244 (345)
T COG1744 182 FLAGAKSVNPDIKVKVVYVGSFS---DPAKGKEAANALIDQGADVIYPAAGGTGVGV-FQAAKELGA 244 (345)
T ss_pred HHHHHHhhCCCccEEEEEecCcc---ChHHHHHHHHHHHhcCCCEEEecCCCCcchH-HHHHHHhCC
Confidence 6666665443 233333332 2233344777888899999998876654443 336677664
No 211
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=95.17 E-value=2 Score=43.38 Aligned_cols=153 Identities=10% Similarity=-0.012 Sum_probs=86.3
Q ss_pred cCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecC
Q 006733 96 NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDD 175 (633)
Q Consensus 96 ~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~ 175 (633)
.+++++|--.... . .....+...++|+|......+ ...++ .+..+....+..+++.|...|.++++++....
T Consensus 113 ~~vDgiI~~~~~~-~-~~~~~l~~~~~pvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~~ 184 (327)
T PRK10339 113 KNVTGILIVGKPT-P-ALRAAASALTDNICFIDFHEP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGED 184 (327)
T ss_pred ccCCEEEEeCCCC-H-HHHHHHHhcCCCEEEEeCCCC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCcc
Confidence 4677666422211 1 233455667899997643221 11123 25566676777788888888999999996432
Q ss_pred --CCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHHHHcCCCCCC
Q 006733 176 --DHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAAKHLRMMESG 251 (633)
Q Consensus 176 --~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a~~~g~~~~~ 251 (633)
.......+.|++.+++.|+. .....+....+..+....++++.+. .+++ |+++....+..+++++++.|+..++
T Consensus 185 ~~~~~~~R~~gf~~~~~~~g~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~D~~A~g~~~al~~~g~~vP~ 262 (327)
T PRK10339 185 EPGKADIREVAFAEYGRLKQVV-REEDIWRGGFSSSSGYELAKQMLAREDYPKA-LFVASDSIAIGVLRAIHERGLNIPQ 262 (327)
T ss_pred ccchhhHHHHHHHHHHHHcCCC-ChhheeecCcChhHHHHHHHHHHhCCCCCCE-EEECCcHHHHHHHHHHHHcCCCCCC
Confidence 23345567788888877761 1111111011222233445554432 3554 4445566777899999999986553
Q ss_pred -eEEEEeC
Q 006733 252 -YVWIVTD 258 (633)
Q Consensus 252 -~~~i~~~ 258 (633)
...++.+
T Consensus 263 di~vigfD 270 (327)
T PRK10339 263 DISLISVN 270 (327)
T ss_pred ceEEEeeC
Confidence 3344443
No 212
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=94.83 E-value=3 Score=40.41 Aligned_cols=205 Identities=8% Similarity=0.005 Sum_probs=110.3
Q ss_pred CCCCCeEEEEEEeecC--CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCce-EEEc
Q 006733 27 STIPPVLNIGAVFALN--STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETV-AIIG 103 (633)
Q Consensus 27 ~~~~~~i~IG~l~p~~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~-aviG 103 (633)
+...++..||+..|.- .+| ..-..++.-+.+.+ |.+..+ .+..++...-+.....++++|+. .||+
T Consensus 20 aa~~~d~~IGis~~d~~~eRW-~~D~~~~~~~~e~~--------g~k~~~--q~A~~~~~~Q~~qien~i~qg~~vlvi~ 88 (341)
T COG4213 20 AAAAKDGVIGISMPDLRSERW-IKDRDAFVKKAEAL--------GAKVDV--QSADGDEEKQLAQIENMINQGVKVLVIG 88 (341)
T ss_pred hhhccCCeEEEEcCChhHhhh-hhhhHHHHHHHHhc--------cchhhh--hhhccChhHHHHHHHHHHhcCCCEEEEE
Confidence 4456678999998874 222 12234444444443 344433 44445566666778899999876 5567
Q ss_pred CCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCC----hHHHHHHHHHHHHHcC---CcEEEEEE-ec-
Q 006733 104 PQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQS----DLYQMAAIADIVDYFG---WRNVIALY-VD- 174 (633)
Q Consensus 104 ~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~----~~~~~~al~~ll~~~~---w~~v~ii~-~d- 174 (633)
+.++.....+-+.+...+||+|++.-. +.+.... |.+... -..|+.++++-++... -..+.++. +-
T Consensus 89 a~d~~~l~~~i~~A~~~gikViaYDRl---I~n~dvd--~YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~ 163 (341)
T COG4213 89 AIDGGVLSNAVEKAKSEGIKVIAYDRL---INNADVD--FYVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPD 163 (341)
T ss_pred eccchhHHHHHHHHHHcCCeEEEeecc---cccCCcc--EEEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCC
Confidence 888888888888999999999987332 2222222 222333 3456666666554432 22333444 22
Q ss_pred CCCcc----hhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhh---cCCCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 175 DDHGR----NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVS---SMMSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 175 ~~~g~----~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~---~~~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
|.-.. ...+.++..+..-.+.++.....+ .=..+.-...+..+. ..+.|.|+..-+ ..+...+.+++..|+
T Consensus 164 DnNA~lf~~G~m~VLkp~idsGkik~~Ge~~~d-~W~ps~Aq~~men~lta~~~~vdaVvA~nD-gtagGaI~aL~a~Gl 241 (341)
T COG4213 164 DNNAKLFFAGAMKVLKPLIDSGKIKVVGEQWTD-GWLPSNAQQIMENLLTANYNDIDAVVAPND-GTAGGAIAALKAQGL 241 (341)
T ss_pred CcchHHHHhcHHHHHHHHhhCCceEEeeecccc-ccCHHHHHHHHHHHHhcccCceeEEEcCCC-chhHHHHHHHHhccc
Confidence 21111 122333333433345564444333 101111122222222 234666665555 667778888888898
Q ss_pred CC
Q 006733 248 ME 249 (633)
Q Consensus 248 ~~ 249 (633)
.+
T Consensus 242 ~g 243 (341)
T COG4213 242 AG 243 (341)
T ss_pred CC
Confidence 64
No 213
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=93.68 E-value=2.3 Score=38.48 Aligned_cols=89 Identities=8% Similarity=0.023 Sum_probs=66.5
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCC-------CChhhHHHHHHHhhcCCCeE
Q 006733 153 MAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPK-------GSRNQIIDTLLTVSSMMSRI 225 (633)
Q Consensus 153 ~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-------~~~~~~~~~l~~i~~~~~~v 225 (633)
+.|+++-|+.++.+++.++. .|-...-+...+.++.+|++|+....+... ......-+..+++...++|.
T Consensus 106 s~Avv~aL~al~a~ri~vlT---PY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Da 182 (238)
T COG3473 106 STAVVEALNALGAQRISVLT---PYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADA 182 (238)
T ss_pred hHHHHHHHHhhCcceEEEec---cchhhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCe
Confidence 35688889999999999997 455567788889999999999876554321 11223345556677789999
Q ss_pred EEEeeChHHHHHHHHHHHH
Q 006733 226 LILHTYDIWGLEVLNAAKH 244 (633)
Q Consensus 226 Ivl~~~~~~~~~il~~a~~ 244 (633)
|++.|..-....++..+.+
T Consensus 183 iFiSCTnlRt~eii~~lE~ 201 (238)
T COG3473 183 IFISCTNLRTFEIIEKLER 201 (238)
T ss_pred EEEEeeccccHHHHHHHHH
Confidence 9999988777777777766
No 214
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=93.56 E-value=0.07 Score=52.76 Aligned_cols=61 Identities=16% Similarity=0.075 Sum_probs=49.6
Q ss_pred CCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccc--eeecceEEEEecCCCCcCccccccC
Q 006733 528 PKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQP--YIESGLVVVAPIKKLNSNAWAFLNP 589 (633)
Q Consensus 528 ~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p--~~~~~~~~lv~~~~~~~~~~~~l~p 589 (633)
.+|.+++..|.+|++|+++++.+++.+|.+.++|+.| |....+++++++++. ..-...|+.
T Consensus 51 ~~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~~-i~sl~DL~G 113 (287)
T PRK00489 51 LRPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDSD-WQGVEDLAG 113 (287)
T ss_pred ECcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCCC-CCChHHhCC
Confidence 5699999999999999999999999999999999988 677788888888763 222344443
No 215
>PF02608 Bmp: Basic membrane protein; InterPro: IPR003760 This is a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. All of these proteins are outer membrane proteins and are thus antigenic in nature when possessed by the pathogenic members of the family []. The Bacillus subtilis degR, a positive regulator of the production of degradative enzymes, is also a member of this group [].; GO: 0005886 plasma membrane; PDB: 2HQB_A 3S99_A 2FQW_A 2FQY_A 2FQX_A.
Probab=93.03 E-value=9.7 Score=38.02 Aligned_cols=197 Identities=11% Similarity=0.026 Sum_probs=99.0
Q ss_pred EEEEEEeecC---CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCceEEEcCCchh
Q 006733 33 LNIGAVFALN---STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNY-SRFLGMVEALTLLENETVAIIGPQFSV 108 (633)
Q Consensus 33 i~IG~l~p~~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~-~~~~a~~~~~~li~~~v~aviG~~~s~ 108 (633)
.++++++|-. ..+......|++.+.++. +|.++. ..+... +.........++.+++...||+.....
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~-------~~i~~~--~~e~~~~~~~~~~~~~~~~~~~g~dlIi~~g~~~ 72 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKEL-------DGIEII--YVENVPETDADYEEAIRQLADQGYDLIIGHGFEY 72 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHC-------TTEEEE--EEES-S-TCHHHHHHHHHHHHTT-SEEEEESGGG
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHc-------CCceEE--EEecCCccHHHHHHHHHHHHHcCCCEEEEccHHH
Confidence 4677777764 223333444444444442 244444 333333 345555566777788888888844433
Q ss_pred hHHHHHHhhccC-CccEEeeccCCCCCccCCCCceEEecCChH---HHHHHHHHHHHHcCCcEEEEEE---e-cCCCcch
Q 006733 109 IAHLVSHIANEF-QVPLLSFAATDPSLSSLQYPFFVRTTQSDL---YQMAAIADIVDYFGWRNVIALY---V-DDDHGRN 180 (633)
Q Consensus 109 ~~~~va~~~~~~-~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~---~~~~al~~ll~~~~w~~v~ii~---~-d~~~g~~ 180 (633)
. .++..++..+ ++-++........- .+++........ .++-.++.++.+ -.+++++. . +...-..
T Consensus 73 ~-~~~~~vA~~yPd~~F~~~d~~~~~~----~~Nv~~~~f~~~e~~fLaG~~Aa~~tk--t~~vg~ig~i~G~~~p~~~~ 145 (306)
T PF02608_consen 73 S-DALQEVAKEYPDTKFIIIDGYIDAP----EPNVISITFREEEASFLAGYLAALMTK--TGKVGFIGDIGGMDIPPVNR 145 (306)
T ss_dssp H-HHHHHHHTC-TTSEEEEESS---ST-----TTEEEEEE-HHHHHHHHHHHHHHHHS--STEEEEEEEEES--SCTTHH
T ss_pred H-HHHHHHHHHCCCCEEEEEecCcCCC----CCcEEEEEccccchhHHHHHHHHHHhc--cCcccccccccCCCcHhHHH
Confidence 3 3555666666 55555543322211 145555444433 233344444443 36888887 4 3344445
Q ss_pred hHHHHHHHHhhcC--cEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 181 GIAALGDKLAEKR--CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 181 ~~~~~~~~~~~~g--~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
+...|...++... +++.....-+. .+...-....+.+...++|+|+-.+... ...++++|++.|.
T Consensus 146 ~~~gF~~Ga~~~np~i~v~~~~~gs~-~D~~~~~~~a~~li~~GaDvI~~~ag~~-~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 146 FINGFIAGAKYVNPDIKVNVSYTGSF-NDPAKAKEAAEALIDQGADVIFPVAGGS-GQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHHHHHHHTTTT-EEEEEE-SSS-S-HHHHHHHHHHHHHTT-SEEEEE-CCC-HHHHHHHHHHHTH
T ss_pred HHHHHHHHHHHhCcCceEEEEEcCCc-CchHHHHHHHHHHhhcCCeEEEECCCCC-chHHHHHHHHcCC
Confidence 5667777776554 44433221111 2333345555566678999999865543 4447778888664
No 216
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=92.65 E-value=1.7 Score=40.05 Aligned_cols=86 Identities=21% Similarity=0.163 Sum_probs=54.7
Q ss_pred ChHHHHHHHHHHH-hcCceEEEcCCchhhHHHHHH-hhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHH
Q 006733 82 SRFLGMVEALTLL-ENETVAIIGPQFSVIAHLVSH-IANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADI 159 (633)
Q Consensus 82 ~~~~a~~~~~~li-~~~v~aviG~~~s~~~~~va~-~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~l 159 (633)
++.+.+..+.+.+ ..|...++-|.++ +..+++ +-..-+||+|+ ..++-++-
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 4555444444444 4488888865444 444444 44577999996 24566667
Q ss_pred HHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEE
Q 006733 160 VDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLS 197 (633)
Q Consensus 160 l~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~ 197 (633)
+++.|.+|++++.+..--- ..-+++.++++|++++
T Consensus 112 ik~~g~kkvgLLgT~~Tm~---~~fY~~~l~~~gievv 146 (230)
T COG1794 112 IKAAGAKKVGLLGTRFTME---QGFYRKRLEEKGIEVV 146 (230)
T ss_pred HHhcCCceeEEeeccchHH---hHHHHHHHHHCCceEe
Confidence 7777999999998653211 2235678888888765
No 217
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=92.64 E-value=0.59 Score=41.40 Aligned_cols=100 Identities=15% Similarity=0.162 Sum_probs=63.2
Q ss_pred HHHHHHcCCcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHH-HhhcCCCeEEEEeeChH
Q 006733 157 ADIVDYFGWRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLL-TVSSMMSRILILHTYDI 233 (633)
Q Consensus 157 ~~ll~~~~w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~-~i~~~~~~vIvl~~~~~ 233 (633)
++.|.+.|.+++++|... ..+.....+.|++.+++.|+.......... ....+...... .+++..+++| ++.+..
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~pdai-i~~~~~ 78 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSD-DDSEDAREAQLLWLRRLRPDAI-ICSNDR 78 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEES-SSHHHHHHHHHHHHHTCSSSEE-EESSHH
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecC-CcchhHHHHHHHHHhcCCCcEE-EEcCHH
Confidence 466777899999999933 344556678899999999998654433332 22222322222 2333366754 447888
Q ss_pred HHHHHHHHHHHcCCCCCC-eEEEEeC
Q 006733 234 WGLEVLNAAKHLRMMESG-YVWIVTD 258 (633)
Q Consensus 234 ~~~~il~~a~~~g~~~~~-~~~i~~~ 258 (633)
.+..+++++++.|+..++ ...++.+
T Consensus 79 ~a~~~~~~l~~~g~~vP~di~vv~~~ 104 (160)
T PF13377_consen 79 LALGVLRALRELGIRVPQDISVVSFD 104 (160)
T ss_dssp HHHHHHHHHHHTTSCTTTTSEEEEES
T ss_pred HHHHHHHHHHHcCCcccccccEEEec
Confidence 899999999999986553 3344433
No 218
>TIGR00035 asp_race aspartate racemase.
Probab=92.40 E-value=1.3 Score=42.03 Aligned_cols=86 Identities=14% Similarity=0.113 Sum_probs=48.9
Q ss_pred hHHHHHHHH-HHHhcCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHH
Q 006733 83 RFLGMVEAL-TLLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVD 161 (633)
Q Consensus 83 ~~~a~~~~~-~li~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~ 161 (633)
+...+..+. +|...|+.+++-+-++.... +..+-+..++|+|+. ..+.++.++
T Consensus 60 ~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------~~~~~~~~~ 113 (229)
T TIGR00035 60 PRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISM-------------------------IEETAEAVK 113 (229)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEech-------------------------HHHHHHHHH
Confidence 444343333 34445899888766665543 445555678898862 223333445
Q ss_pred HcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEE
Q 006733 162 YFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLS 197 (633)
Q Consensus 162 ~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~ 197 (633)
..+.++|+++.+..-- ....+++.+++.|+++.
T Consensus 114 ~~~~~~VgvLaT~~T~---~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 114 EDGVKKAGLLGTKGTM---KDGVYEREMKKHGIEIV 146 (229)
T ss_pred HcCCCEEEEEecHHHH---HhHHHHHHHHHCCCEEE
Confidence 5577788888654211 12346677777776654
No 219
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=91.90 E-value=1.9 Score=43.88 Aligned_cols=92 Identities=8% Similarity=-0.000 Sum_probs=73.5
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee--
Q 006733 153 MAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT-- 230 (633)
Q Consensus 153 ~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~-- 230 (633)
...+.+.++.+|++|+.||++.........+.+.+.+++.|+.+.....+.++...+.....+..+++.++|.||-++
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~P~~~~v~~~~~~~~~~~~D~iIalGGG 96 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPEPTIETVEAGAEVAREFGPDTIIALGGG 96 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 355777888899999999987766666788999999999998877776777777788888889999999999999874
Q ss_pred ChHHHHHHHHHHHH
Q 006733 231 YDIWGLEVLNAAKH 244 (633)
Q Consensus 231 ~~~~~~~il~~a~~ 244 (633)
+.-++.+.+.-...
T Consensus 97 S~~D~AK~i~~~~~ 110 (377)
T COG1454 97 SVIDAAKAIALLAE 110 (377)
T ss_pred cHHHHHHHHHHHhh
Confidence 44566666555444
No 220
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=91.14 E-value=2 Score=44.52 Aligned_cols=88 Identities=7% Similarity=-0.027 Sum_probs=65.6
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee--C
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT--Y 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~--~ 231 (633)
..+.+.++.+|.+++.++++.........+.+.+.+++.|+.+.....+.++.+.++.......+++.++|+||-.+ +
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGGS 99 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGGS 99 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCch
Confidence 45677888999999998885433334567889999999998875554555566778888989999999999999764 4
Q ss_pred hHHHHHHHHH
Q 006733 232 DIWGLEVLNA 241 (633)
Q Consensus 232 ~~~~~~il~~ 241 (633)
.-++.+.+..
T Consensus 100 ~iD~AK~ia~ 109 (383)
T PRK09860 100 PHDCAKGIAL 109 (383)
T ss_pred HHHHHHHHHH
Confidence 4566666554
No 221
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=91.00 E-value=3.5 Score=40.05 Aligned_cols=87 Identities=17% Similarity=0.098 Sum_probs=67.2
Q ss_pred EEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHH
Q 006733 34 NIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLV 113 (633)
Q Consensus 34 ~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~v 113 (633)
+||++.+.....-.....|+...++..| |+.++...+..+-.|+..+.+.+..++++++++|++... ...+
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~------p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~~---~~g~ 192 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVN------PDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHTD---SPGV 192 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHC------CCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecCC---ChHH
Confidence 7999988865444556788988888887 456777777777789999999999999999998887652 2345
Q ss_pred HHhhccCCccEEeecc
Q 006733 114 SHIANEFQVPLLSFAA 129 (633)
Q Consensus 114 a~~~~~~~iP~Is~~a 129 (633)
...+.+.++..|.+..
T Consensus 193 ~~aa~~~g~~~IG~d~ 208 (258)
T cd06353 193 IQAAEEKGVYAIGYVS 208 (258)
T ss_pred HHHHHHhCCEEEeecc
Confidence 5677788999998653
No 222
>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=90.95 E-value=4.6 Score=36.40 Aligned_cols=99 Identities=8% Similarity=-0.041 Sum_probs=65.7
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhc--CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEE
Q 006733 151 YQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILIL 228 (633)
Q Consensus 151 ~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl 228 (633)
+....+.+.+...++ ++.++..+.+ ..+.+.+.+++. |+.++....-. .+..+...+++.|.++++|+|++
T Consensus 35 dl~~~l~~~~~~~~~-~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~~g~--f~~~~~~~i~~~I~~~~pdiv~v 107 (172)
T PF03808_consen 35 DLFPDLLRRAEQRGK-RIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYHHGY--FDEEEEEAIINRINASGPDIVFV 107 (172)
T ss_pred HHHHHHHHHHHHcCC-eEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEecCCC--CChhhHHHHHHHHHHcCCCEEEE
Confidence 345566666655555 7888886654 355555566555 67777654332 35678889999999999999999
Q ss_pred eeChHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 006733 229 HTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (633)
Q Consensus 229 ~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (633)
......-..++.+.++.. ... +|+..++
T Consensus 108 glG~PkQE~~~~~~~~~l--~~~-v~i~vG~ 135 (172)
T PF03808_consen 108 GLGAPKQERWIARHRQRL--PAG-VIIGVGG 135 (172)
T ss_pred ECCCCHHHHHHHHHHHHC--CCC-EEEEECc
Confidence 877766666666655532 122 6777764
No 223
>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=89.87 E-value=3.1 Score=42.91 Aligned_cols=90 Identities=7% Similarity=-0.065 Sum_probs=65.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee--C
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT--Y 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~--~ 231 (633)
..+.++++.++.+++.++++.........+.+.+.+++.|+++.....+..+.+.+.+...+...++.++|.||-.+ +
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGS 92 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFGGGS 92 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 44677888889999998886544433467889999999998876444455556677788888888889999999764 4
Q ss_pred hHHHHHHHHHHH
Q 006733 232 DIWGLEVLNAAK 243 (633)
Q Consensus 232 ~~~~~~il~~a~ 243 (633)
.-++.+++....
T Consensus 93 viD~aK~ia~~~ 104 (370)
T cd08192 93 ALDLAKAVALMA 104 (370)
T ss_pred HHHHHHHHHHHH
Confidence 467776665543
No 224
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=89.50 E-value=1.8 Score=44.85 Aligned_cols=88 Identities=9% Similarity=-0.031 Sum_probs=64.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~- 232 (633)
..+.+.++++|.+++.++.+.........+.+.+.+++.|+.+.....+.++.+.....+.++..++.++|+||-.+.+
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGGGS 117 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGGGS 117 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCChH
Confidence 5567788889998888776544333456788999999999987654445555666778888889999999999987554
Q ss_pred -HHHHHHHHH
Q 006733 233 -IWGLEVLNA 241 (633)
Q Consensus 233 -~~~~~il~~ 241 (633)
-++.+.+..
T Consensus 118 ~iD~AKaia~ 127 (395)
T PRK15454 118 VLDAAKAVAL 127 (395)
T ss_pred HHHHHHHHHH
Confidence 455555443
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=89.39 E-value=3 Score=43.67 Aligned_cols=87 Identities=10% Similarity=-0.017 Sum_probs=64.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~- 232 (633)
..+.+++++++.+++.++++...+.....+.+.+.+++.|+.+.....+..+.+.+.+...++..++.++|+||-.+.+
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 91 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVGGGS 91 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCcc
Confidence 4566778889999999888665444445788899999899887654445555667778888888888999999987543
Q ss_pred -HHHHHHHH
Q 006733 233 -IWGLEVLN 240 (633)
Q Consensus 233 -~~~~~il~ 240 (633)
-++.+.+.
T Consensus 92 viD~AKaia 100 (414)
T cd08190 92 VIDTAKAAN 100 (414)
T ss_pred HHHHHHHHH
Confidence 45555544
No 226
>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=89.33 E-value=5.6 Score=41.04 Aligned_cols=90 Identities=9% Similarity=0.003 Sum_probs=65.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee--C
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT--Y 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~--~ 231 (633)
..+.+.++.++-+++.++++.........+.+.+.+++.|+.+.....+..+.+.+.+...+..+++.++|+||-.+ +
T Consensus 15 ~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGS 94 (374)
T cd08189 15 AQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGGGS 94 (374)
T ss_pred HHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCcc
Confidence 45677788888899998886544433457888899999998776554555556677788888899989999999764 4
Q ss_pred hHHHHHHHHHHH
Q 006733 232 DIWGLEVLNAAK 243 (633)
Q Consensus 232 ~~~~~~il~~a~ 243 (633)
.-++.+++....
T Consensus 95 ~~D~aK~ia~~~ 106 (374)
T cd08189 95 VIDCAKAIAARA 106 (374)
T ss_pred HHHHHHHHHHHH
Confidence 456666655443
No 227
>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=88.96 E-value=0.8 Score=45.39 Aligned_cols=88 Identities=11% Similarity=0.015 Sum_probs=55.5
Q ss_pred ceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeee
Q 006733 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (633)
Q Consensus 470 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~ 549 (633)
.+|+|++.. .. +. .+-...+. .+.+.+++++|.+ +++... .+|..++..+.+|++|+++.+.
T Consensus 27 ~~l~vg~~~--~~------~~-~~~~~~~~-~l~~~l~~~~g~~--v~~~~~------~~~~~~~~al~~g~~D~~~~~~ 88 (288)
T TIGR03431 27 KELNFGIIP--TE------NA-SDLKQRWE-PLADYLSKKLGVK--VKLFFA------TDYAGVIEGMRFGKVDIAWYGP 88 (288)
T ss_pred CeEEEEEcC--CC------CH-HHHHHHHH-HHHHHHHHHhCCc--EEEEeC------CCHHHHHHHHHcCCccEEEECh
Confidence 569999863 11 11 11122332 3778999999965 665542 5799999999999999998652
Q ss_pred E---eeccccceee--------eccceeecceEEEEecCC
Q 006733 550 A---ITTERTKMVD--------FTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 550 ~---~~~~r~~~~~--------fs~p~~~~~~~~lv~~~~ 578 (633)
. ...+|.+... ++.||. ..+++++++
T Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~y~---~~lvv~~ds 125 (288)
T TIGR03431 89 SSYAEAYQKANAEAFAIEVNADGSTGYY---SVLIVKKDS 125 (288)
T ss_pred HHHHHHHHhcCCeEEEEeccCCCCCceE---EEEEEeCCC
Confidence 1 1225555433 455554 466777765
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=88.87 E-value=3.4 Score=42.67 Aligned_cols=89 Identities=8% Similarity=-0.015 Sum_probs=65.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.++++.++.+++.++++.........+.+.+.+++.|+.+.....+..+.+.+.+...++.+++.++|.||-.+.
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGs 94 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEADPPEAVVEAAVEAARAAGADGVIGFGGGS 94 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 456677888899999988865433344678888999999987764444555567778888899999899999998754
Q ss_pred hHHHHHHHHHH
Q 006733 232 DIWGLEVLNAA 242 (633)
Q Consensus 232 ~~~~~~il~~a 242 (633)
.-++.+++...
T Consensus 95 ~iD~aK~ia~~ 105 (376)
T cd08193 95 SMDVAKLVAVL 105 (376)
T ss_pred HHHHHHHHHHH
Confidence 45666665544
No 229
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=88.59 E-value=2.3 Score=44.01 Aligned_cols=87 Identities=11% Similarity=0.032 Sum_probs=63.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.+.++++|.+++.|+++....-....+.+.+.+++.|+.+.....+..+.+.+.....++.+++.++|+||-.+.
T Consensus 19 ~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 98 (382)
T PRK10624 19 GALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGGS 98 (382)
T ss_pred HHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChH
Confidence 457778888899999988865444334678889999999987754444554556677888888888899999997644
Q ss_pred hHHHHHHHH
Q 006733 232 DIWGLEVLN 240 (633)
Q Consensus 232 ~~~~~~il~ 240 (633)
.-++.+.+.
T Consensus 99 ~iD~aK~ia 107 (382)
T PRK10624 99 PQDTCKAIG 107 (382)
T ss_pred HHHHHHHHH
Confidence 456665544
No 230
>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=88.30 E-value=4.3 Score=41.88 Aligned_cols=90 Identities=8% Similarity=-0.021 Sum_probs=65.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.++++.++.+++.++++...+.....+.+.+.+++.|+++.....+..+.+.+.+...+..+++.++|.||-.+.
T Consensus 12 ~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs 91 (370)
T cd08551 12 EKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGGGS 91 (370)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 556777888899999988865443335677888999988887764444555567778888888998889999997644
Q ss_pred hHHHHHHHHHHH
Q 006733 232 DIWGLEVLNAAK 243 (633)
Q Consensus 232 ~~~~~~il~~a~ 243 (633)
.-++.+++....
T Consensus 92 ~~D~AK~va~~~ 103 (370)
T cd08551 92 VLDTAKAIALLA 103 (370)
T ss_pred HHHHHHHHHHHH
Confidence 456666665443
No 231
>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=88.25 E-value=4.7 Score=41.66 Aligned_cols=88 Identities=7% Similarity=-0.022 Sum_probs=65.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.++++.++.+|+.+|++...+.....+.+.+.+++.|+.+.....+..+.+...+.+.+..+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 91 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGGGS 91 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 445667777888999999865555334678899999999998765555665667778888889998899999997654
Q ss_pred hHHHHHHHHH
Q 006733 232 DIWGLEVLNA 241 (633)
Q Consensus 232 ~~~~~~il~~ 241 (633)
.-++.+.+..
T Consensus 92 ~~D~AKaia~ 101 (375)
T cd08194 92 PIDTAKAIAV 101 (375)
T ss_pred HHHHHHHHHH
Confidence 4566655543
No 232
>PRK10200 putative racemase; Provisional
Probab=87.75 E-value=5.6 Score=37.78 Aligned_cols=86 Identities=15% Similarity=0.042 Sum_probs=52.1
Q ss_pred ChHHHHHHHHHHHh-cCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHH
Q 006733 82 SRFLGMVEALTLLE-NETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV 160 (633)
Q Consensus 82 ~~~~a~~~~~~li~-~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll 160 (633)
++...+....+.+. .|+.+++-+-++.... ...+-+..++|+|+. .++..+.+
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 46665555555444 4899888877666665 455666678998862 12333344
Q ss_pred HHcCCcEEEEEEecCCCcchhHHHHHHHHhhc-CcEE
Q 006733 161 DYFGWRNVIALYVDDDHGRNGIAALGDKLAEK-RCRL 196 (633)
Q Consensus 161 ~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~-g~~v 196 (633)
+..+-++|+++.+..- -....+++.+++. |+++
T Consensus 113 ~~~~~~~VglLaT~~T---i~s~~Y~~~l~~~~g~~~ 146 (230)
T PRK10200 113 TGAGMTRVALLGTRYT---MEQDFYRGRLTEQFSINC 146 (230)
T ss_pred HHcCCCeEEEeccHHH---HHHhHHHHHHHHhcCCeE
Confidence 4457788888886532 1234455665544 7765
No 233
>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=87.57 E-value=7 Score=35.16 Aligned_cols=100 Identities=11% Similarity=-0.045 Sum_probs=62.3
Q ss_pred HHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhc--CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEE
Q 006733 150 LYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILI 227 (633)
Q Consensus 150 ~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIv 227 (633)
.+....+.+.+...+ .++.++....+ ..+.+.+.+++. |+.++....-. .+..+-...++.|.+.++|+|+
T Consensus 32 ~dl~~~ll~~~~~~~-~~v~llG~~~~----~~~~~~~~l~~~yp~l~i~g~~~g~--~~~~~~~~i~~~I~~~~pdiv~ 104 (171)
T cd06533 32 SDLMPALLELAAQKG-LRVFLLGAKPE----VLEKAAERLRARYPGLKIVGYHHGY--FGPEEEEEIIERINASGADILF 104 (171)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCcEEEEecCCC--CChhhHHHHHHHHHHcCCCEEE
Confidence 344556666665544 57888876654 344444445443 77777643222 2334445589999999999999
Q ss_pred EeeChHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 006733 228 LHTYDIWGLEVLNAAKHLRMMESGYVWIVTDW 259 (633)
Q Consensus 228 l~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (633)
+....+.-..++.+.++.. +.-++++.++
T Consensus 105 vglG~PkQE~~~~~~~~~l---~~~v~~~vG~ 133 (171)
T cd06533 105 VGLGAPKQELWIARHKDRL---PVPVAIGVGG 133 (171)
T ss_pred EECCCCHHHHHHHHHHHHC---CCCEEEEece
Confidence 9987777777776666543 2335666553
No 234
>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=86.93 E-value=3.2 Score=42.96 Aligned_cols=88 Identities=14% Similarity=0.044 Sum_probs=63.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.+.++.+|.+++.|+++....-....+.+.+.+++.|+.+.....+.++.+.+......+.+++.++|.||-.+.
T Consensus 18 ~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGGGS 97 (379)
T TIGR02638 18 EDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGGGS 97 (379)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChH
Confidence 456677888899999988855433334678888999999987764444544556677888888888899999997754
Q ss_pred hHHHHHHHHH
Q 006733 232 DIWGLEVLNA 241 (633)
Q Consensus 232 ~~~~~~il~~ 241 (633)
.-++.+.+..
T Consensus 98 viD~aKaia~ 107 (379)
T TIGR02638 98 PIDTAKAIGI 107 (379)
T ss_pred HHHHHHHHHH
Confidence 3455655443
No 235
>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=86.34 E-value=3.8 Score=42.18 Aligned_cols=89 Identities=8% Similarity=0.028 Sum_probs=67.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~- 232 (633)
..+.+.++.+| |+.+|++.........+.+.+.+++.|+.+.....+..+.+..++...+..+++.++|.||-.+.+
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 89 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAIGGGS 89 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEEESHH
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEcCCCC
Confidence 44667777777 999998663333336789999999999998776667766778889999999999999999988665
Q ss_pred -HHHHHHHHHHHH
Q 006733 233 -IWGLEVLNAAKH 244 (633)
Q Consensus 233 -~~~~~il~~a~~ 244 (633)
-++.+.+..+..
T Consensus 90 ~~D~aK~va~~~~ 102 (366)
T PF00465_consen 90 VMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHT
T ss_pred cCcHHHHHHhhcc
Confidence 466666666555
No 236
>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=86.13 E-value=6.5 Score=40.70 Aligned_cols=88 Identities=3% Similarity=-0.005 Sum_probs=63.6
Q ss_pred HHHHHHHHHcCCcEEEEEEecCC-CcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDD-HGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT-- 230 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~-- 230 (633)
..+.++++.++ +|+.||++... ......+.+.+.+++.|+++.....+.++.+.+...+....+++.++|.||-.+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavGGG 93 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLGGG 93 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 44666777777 89988886543 244567889999999998876544555556777788888888889999999764
Q ss_pred ChHHHHHHHHHH
Q 006733 231 YDIWGLEVLNAA 242 (633)
Q Consensus 231 ~~~~~~~il~~a 242 (633)
+.-++.+.+...
T Consensus 94 S~iD~aK~ia~~ 105 (380)
T cd08185 94 SSMDTAKAIAFM 105 (380)
T ss_pred cHHHHHHHHHHH
Confidence 445666665543
No 237
>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=85.61 E-value=35 Score=32.73 Aligned_cols=206 Identities=12% Similarity=0.074 Sum_probs=111.7
Q ss_pred eEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEe-cC-CCChHHHHHHHHHHHhc-CceEEEc-CCch
Q 006733 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVH-DT-NYSRFLGMVEALTLLEN-ETVAIIG-PQFS 107 (633)
Q Consensus 32 ~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~-D~-~~~~~~a~~~~~~li~~-~v~aviG-~~~s 107 (633)
..+||++.+..+. +....+|++..+++.-. ..|.-+++ |. ..+-...+.....|..+ .+-+||- ...+
T Consensus 2 ~~kIGivTgtvSq-~ed~~r~Ae~l~~~Yg~-------~~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vp 73 (275)
T PF12683_consen 2 DYKIGIVTGTVSQ-SEDEYRGAEELIKKYGD-------VMIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVP 73 (275)
T ss_dssp -EEEEEEE--TTT--HHHHHHHHHHHHHHHH-------HEEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS-
T ss_pred ceEEEEEeCCccc-ChHHHHHHHHHHHHhCc-------ceEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCc
Confidence 5799999876433 24456666666665432 24444444 33 23555666666677666 5666654 2344
Q ss_pred hhHHHHHHhhc-cCCccEEeeccCC-CCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchh----
Q 006733 108 VIAHLVSHIAN-EFQVPLLSFAATD-PSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNG---- 181 (633)
Q Consensus 108 ~~~~~va~~~~-~~~iP~Is~~a~~-~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~---- 181 (633)
..+.++..+=+ .-.|..|+-.+.. +..-...-. +-+.+.....+..++...+++|-++|.-+.....-+...
T Consensus 74 Gt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aD--i~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~R 151 (275)
T PF12683_consen 74 GTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAAD--IVVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLARR 151 (275)
T ss_dssp --HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSS--EEEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHHH
T ss_pred chHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccC--eEeccchhhccHHHHHHHHHcCCceEEEEechhhcchHHHHHH
Confidence 44545544433 4477777633322 111111112 334477788899999999999999999887654433333
Q ss_pred HHHHHHHHhhcCcEEEEEeecCCCCCh-----hh--HHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 182 IAALGDKLAEKRCRLSHKVPLSPKGSR-----NQ--IIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 182 ~~~~~~~~~~~g~~v~~~~~~~~~~~~-----~~--~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
.+.+++.+++.|++.+....-++..+. .. ...+-+.+++.+.++-+.++.......+++++.+.|.
T Consensus 152 r~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 152 RDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcCC
Confidence 346667777889998876554433111 11 1333455667899999999999999999999999763
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=84.80 E-value=5 Score=41.46 Aligned_cols=88 Identities=9% Similarity=-0.021 Sum_probs=62.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.++++.++.+++.++++.........+.+.+.+++.|+.+.....+..+.+..+....+..+++.++|.||-.+.
T Consensus 17 ~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 96 (377)
T cd08188 17 KLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVGGGS 96 (377)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 456777888898999988854433333567888899888887654434444456667888888888889999998754
Q ss_pred hHHHHHHHHH
Q 006733 232 DIWGLEVLNA 241 (633)
Q Consensus 232 ~~~~~~il~~ 241 (633)
.-++.+.+..
T Consensus 97 viD~AK~ia~ 106 (377)
T cd08188 97 PIDCAKGIGI 106 (377)
T ss_pred HHHHHHHHHH
Confidence 4566655433
No 239
>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=84.14 E-value=4.6 Score=41.73 Aligned_cols=88 Identities=11% Similarity=0.054 Sum_probs=62.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~- 232 (633)
..+.+.++.++-+++.++++.........+.+.+.+++.|+.+.....+..+.+.+.+.+.++.+++.++|.||-.+.+
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS 96 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGGS 96 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcH
Confidence 4566778888888998887544332356778899999889877544445445667778888888888999999976543
Q ss_pred -HHHHHHHHH
Q 006733 233 -IWGLEVLNA 241 (633)
Q Consensus 233 -~~~~~il~~ 241 (633)
-++.+.+..
T Consensus 97 ~iD~aK~ia~ 106 (377)
T cd08176 97 PHDCAKAIGI 106 (377)
T ss_pred HHHHHHHHHH
Confidence 466655543
No 240
>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=83.69 E-value=27 Score=32.60 Aligned_cols=124 Identities=11% Similarity=0.072 Sum_probs=71.5
Q ss_pred HHHHhcCceEEEcCCchhhHHHHHHhh-ccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEE
Q 006733 91 LTLLENETVAIIGPQFSVIAHLVSHIA-NEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVI 169 (633)
Q Consensus 91 ~~li~~~v~aviG~~~s~~~~~va~~~-~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ 169 (633)
.++...++.+|+-+-++.. ..+...- ...++|+++. ..+.++-+.+ +-++|+
T Consensus 59 ~~l~~~g~d~i~i~C~s~~-~~~~~~~~~~~~iPv~~~-------------------------~~a~~~~~~~-~~~ri~ 111 (216)
T PF01177_consen 59 EKLEKAGVDAIVIACNSAH-PFVDELRKERVGIPVVGI-------------------------VEAALEAAKA-GGKRIG 111 (216)
T ss_dssp HHHHHTTESEEEESSHHHH-HHHHHHHHHHHSSEEEES-------------------------HHHHHHHHHH-TSSEEE
T ss_pred HHHHhCCCCEEEEcCCchh-hhHHHHhhhcCceEEEec-------------------------cHHHHHHHHh-cCCEEE
Confidence 3334458998887444432 3333444 6669998863 1223444444 999999
Q ss_pred EEEecCCCcchhHHHHHHHHhhc-Cc--EEEEEe--ecC----CC-CChh---hHHHHHHHh-hcCCCeEEEEeeChHH-
Q 006733 170 ALYVDDDHGRNGIAALGDKLAEK-RC--RLSHKV--PLS----PK-GSRN---QIIDTLLTV-SSMMSRILILHTYDIW- 234 (633)
Q Consensus 170 ii~~d~~~g~~~~~~~~~~~~~~-g~--~v~~~~--~~~----~~-~~~~---~~~~~l~~i-~~~~~~vIvl~~~~~~- 234 (633)
++.+ ++......+++.+++. |+ .+.... .+. .. .+.. .+...++++ ++.++|+|++.|..-.
T Consensus 112 vl~t---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~ 188 (216)
T PF01177_consen 112 VLTT---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDGADAIILGCTHLPL 188 (216)
T ss_dssp EEES---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGG
T ss_pred EEec---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCCCCEEEECCCchHH
Confidence 9985 3334556777778887 87 454321 010 11 1222 344444444 3789999999877643
Q ss_pred HHHHHHHHHH
Q 006733 235 GLEVLNAAKH 244 (633)
Q Consensus 235 ~~~il~~a~~ 244 (633)
.....+.+.+
T Consensus 189 ~~~~~~~l~~ 198 (216)
T PF01177_consen 189 LLGAIEALEE 198 (216)
T ss_dssp GHHHHHHHHH
T ss_pred HHHHHHhhcc
Confidence 3366666555
No 241
>PRK07475 hypothetical protein; Provisional
Probab=83.61 E-value=4.7 Score=38.73 Aligned_cols=82 Identities=17% Similarity=0.107 Sum_probs=48.0
Q ss_pred ChHHHHHH-HHHHHhcCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHH
Q 006733 82 SRFLGMVE-ALTLLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV 160 (633)
Q Consensus 82 ~~~~a~~~-~~~li~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll 160 (633)
++.....+ +.+|...|+.+|+.+- .........+.+..++|+++. +.+.++.+
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 44444444 4445555999999844 333334455666789999951 12233334
Q ss_pred HHc--CCcEEEEEEecCCCcchhHHHHHHHHhhcCcE
Q 006733 161 DYF--GWRNVIALYVDDDHGRNGIAALGDKLAEKRCR 195 (633)
Q Consensus 161 ~~~--~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~ 195 (633)
+.. +-+||+++..+... -.++.+++.|+.
T Consensus 116 ~~~~~~~~kIGILtt~~t~------l~~~~l~~~Gi~ 146 (245)
T PRK07475 116 QALLPAGQKVGILTADASS------LTPAHLLAVGVP 146 (245)
T ss_pred HHhccCCCeEEEEeCCchh------hhHHHHHhCCCC
Confidence 433 36899999866541 234667777875
No 242
>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=83.53 E-value=11 Score=38.53 Aligned_cols=86 Identities=7% Similarity=0.051 Sum_probs=61.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCc-chhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHG-RNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 232 (633)
..+.++++.+| +++.+|++...+- ....+.+.+.+++.|+++.....+.++.+.++.....+.+++.++|.||-.+.+
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 93 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLETIMEAVEIAKKFNADFVIGIGGG 93 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34566777788 8998887554322 234577889999999887654445555677778888888999999999987544
Q ss_pred --HHHHHHHH
Q 006733 233 --IWGLEVLN 240 (633)
Q Consensus 233 --~~~~~il~ 240 (633)
-++.+.+.
T Consensus 94 SviD~aK~ia 103 (357)
T cd08181 94 SPLDAAKAIA 103 (357)
T ss_pred hHHHHHHHHH
Confidence 46665544
No 243
>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=83.32 E-value=12 Score=38.86 Aligned_cols=89 Identities=12% Similarity=0.053 Sum_probs=60.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.++++.++ +++.+|++.........+.+.+.+++.|+++.....+.++....+....+...++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~~~~~~v~~~~~~~~~~~~D~IIaiGGGS 90 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPDLPRSELCDAASAAARAGPDVIIGLGGGS 90 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 44667788888 899888854433345678888899999987654333332334555667777777889999998754
Q ss_pred hHHHHHHHHHHH
Q 006733 232 DIWGLEVLNAAK 243 (633)
Q Consensus 232 ~~~~~~il~~a~ 243 (633)
.-++.+++....
T Consensus 91 ~iD~aK~ia~~~ 102 (386)
T cd08191 91 CIDLAKIAGLLL 102 (386)
T ss_pred HHHHHHHHHHHH
Confidence 456666665433
No 244
>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=83.01 E-value=9.7 Score=39.20 Aligned_cols=86 Identities=10% Similarity=0.035 Sum_probs=61.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.++++.++.+|+.+|++...+ ....+++.+++.|+.+.....+..+.+.+.....+..+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGs 88 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVGGGS 88 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCcH
Confidence 446677888888999988855443 456678888888877654444554556677888888888889999997654
Q ss_pred hHHHHHHHHHH
Q 006733 232 DIWGLEVLNAA 242 (633)
Q Consensus 232 ~~~~~~il~~a 242 (633)
.-++.+++...
T Consensus 89 ~~D~aK~ia~~ 99 (367)
T cd08182 89 VLDTAKALAAL 99 (367)
T ss_pred HHHHHHHHHHH
Confidence 45666666554
No 245
>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=81.92 E-value=13 Score=37.58 Aligned_cols=91 Identities=8% Similarity=0.008 Sum_probs=62.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.++++.++.+++.+|++...+. ...+.+.+.+++. +.+........+.+.++....+..+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 89 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGS 89 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCch
Confidence 3456677788889999998554433 6677888888876 65544333333456677888888888889999997644
Q ss_pred hHHHHHHHHHHHHcC
Q 006733 232 DIWGLEVLNAAKHLR 246 (633)
Q Consensus 232 ~~~~~~il~~a~~~g 246 (633)
.-++.+++......+
T Consensus 90 ~~D~aK~ia~~~~~~ 104 (332)
T cd07766 90 TLDTAKAVAALLNRG 104 (332)
T ss_pred HHHHHHHHHHHhcCC
Confidence 457776665554333
No 246
>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=81.62 E-value=5.9 Score=40.50 Aligned_cols=85 Identities=8% Similarity=0.004 Sum_probs=60.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~- 232 (633)
..+.+++++++ +|+.+|++...+. ...+.+.+.+++.|+.+.+. .+..+.+.++....++.+++.++|.||-.+.+
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS 88 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGECTRAEIERLAEIARDNGADVVIGIGGGK 88 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCcCCHHHHHHHHHHHhhcCCCEEEEecCch
Confidence 34566777776 8998888544443 67788888999999887643 35555666778888888888899999987544
Q ss_pred -HHHHHHHHH
Q 006733 233 -IWGLEVLNA 241 (633)
Q Consensus 233 -~~~~~il~~ 241 (633)
-++.+++..
T Consensus 89 ~iD~aK~ia~ 98 (351)
T cd08170 89 TLDTAKAVAD 98 (351)
T ss_pred hhHHHHHHHH
Confidence 566655544
No 247
>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=81.61 E-value=31 Score=31.09 Aligned_cols=128 Identities=15% Similarity=0.097 Sum_probs=76.3
Q ss_pred CChHHHHHHHHHH-HhcCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHH
Q 006733 81 YSRFLGMVEALTL-LENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADI 159 (633)
Q Consensus 81 ~~~~~a~~~~~~l-i~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~l 159 (633)
.+-.++++.+.++ ..+++.+||+ ...++..+. ...++|+|.. .++..+...++.+.
T Consensus 17 ~~~e~~v~~a~~~~~~~g~dViIs--RG~ta~~lr---~~~~iPVV~I------------------~~s~~Dil~al~~a 73 (176)
T PF06506_consen 17 ASLEEAVEEARQLLESEGADVIIS--RGGTAELLR---KHVSIPVVEI------------------PISGFDILRALAKA 73 (176)
T ss_dssp --HHHHHHHHHHHHTTTT-SEEEE--EHHHHHHHH---CC-SS-EEEE---------------------HHHHHHHHHHC
T ss_pred ecHHHHHHHHHHhhHhcCCeEEEE--CCHHHHHHH---HhCCCCEEEE------------------CCCHhHHHHHHHHH
Confidence 3567888889999 7789999996 333333333 4458999973 12334445555553
Q ss_pred HHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHH
Q 006733 160 VDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVL 239 (633)
Q Consensus 160 l~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il 239 (633)
. + .-++++++...+.. .....+.+.+ |+.+.... + .+..++...+++++..+.++||-... ..
T Consensus 74 ~-~-~~~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~-~---~~~~e~~~~i~~~~~~G~~viVGg~~------~~ 136 (176)
T PF06506_consen 74 K-K-YGPKIAVVGYPNII--PGLESIEELL---GVDIKIYP-Y---DSEEEIEAAIKQAKAEGVDVIVGGGV------VC 136 (176)
T ss_dssp C-C-CTSEEEEEEESS-S--CCHHHHHHHH---T-EEEEEE-E---SSHHHHHHHHHHHHHTT--EEEESHH------HH
T ss_pred H-h-cCCcEEEEeccccc--HHHHHHHHHh---CCceEEEE-E---CCHHHHHHHHHHHHHcCCcEEECCHH------HH
Confidence 3 2 34899998876543 2255565555 66665432 3 25679999999999999998876643 25
Q ss_pred HHHHHcCCC
Q 006733 240 NAAKHLRMM 248 (633)
Q Consensus 240 ~~a~~~g~~ 248 (633)
+.|++.|+.
T Consensus 137 ~~A~~~gl~ 145 (176)
T PF06506_consen 137 RLARKLGLP 145 (176)
T ss_dssp HHHHHTTSE
T ss_pred HHHHHcCCc
Confidence 667777764
No 248
>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=81.35 E-value=9.8 Score=37.99 Aligned_cols=90 Identities=13% Similarity=0.039 Sum_probs=63.9
Q ss_pred EEEEEe---ecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhH
Q 006733 34 NIGAVF---ALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (633)
Q Consensus 34 ~IG~l~---p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~ 110 (633)
++|.+. ....+.-.....|+...+...| |..++......+-.|+..+.+.+..|+++|+++|.. ......
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~n------p~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~-~ag~~~ 200 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVN------PDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFP-VAGGSG 200 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTT------TT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEE-E-CCCH
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhC------cCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEE-CCCCCc
Confidence 667776 5554444677899999999998 567888888788889999999999999999999987 333444
Q ss_pred HHHHHhhccCCcc--EEeeccC
Q 006733 111 HLVSHIANEFQVP--LLSFAAT 130 (633)
Q Consensus 111 ~~va~~~~~~~iP--~Is~~a~ 130 (633)
..+...+.+.+.. +|.....
T Consensus 201 ~gv~~aa~e~g~~~~~IG~d~d 222 (306)
T PF02608_consen 201 QGVIQAAKEAGVYGYVIGVDSD 222 (306)
T ss_dssp HHHHHHHHHHTHETEEEEEES-
T ss_pred hHHHHHHHHcCCceEEEEeccc
Confidence 4566777888888 7875443
No 249
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=80.98 E-value=13 Score=36.74 Aligned_cols=94 Identities=9% Similarity=-0.010 Sum_probs=71.1
Q ss_pred CCceEEecCChHHHHHHH----HHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHH
Q 006733 139 YPFFVRTTQSDLYQMAAI----ADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDT 214 (633)
Q Consensus 139 ~~~~~r~~p~~~~~~~al----~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~ 214 (633)
.++-|-+.|+....+... ..-++.+|.+++.++++.+..-.......++.|+++||.+..-....++.+..++...
T Consensus 40 ~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~ePtv~s~~~a 119 (465)
T KOG3857|consen 40 MSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPEPTVGSVTAA 119 (465)
T ss_pred ceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCCCchhhHHHH
Confidence 456666677765555443 3457889999999998766655566788889999999998766666666777888899
Q ss_pred HHHhhcCCCeEEEEeeCh
Q 006733 215 LLTVSSMMSRILILHTYD 232 (633)
Q Consensus 215 l~~i~~~~~~vIvl~~~~ 232 (633)
+.-.++.+.|.+|..+.+
T Consensus 120 lefak~~~fDs~vaiGGG 137 (465)
T KOG3857|consen 120 LEFAKKKNFDSFVAIGGG 137 (465)
T ss_pred HHHHHhcccceEEEEcCc
Confidence 999999999988876544
No 250
>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=80.70 E-value=4.1 Score=39.29 Aligned_cols=78 Identities=12% Similarity=0.006 Sum_probs=58.5
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEe-eChHHHHHHHHHHHH
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILH-TYDIWGLEVLNAAKH 244 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~-~~~~~~~~il~~a~~ 244 (633)
|++|.. ++.|.....+.+++.+++.|+.+... .+...+.......++++...++|.||+. .++.....+++++.+
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~~~ 78 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKAKA 78 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHHhh
Confidence 456664 35577778889999999999988764 1222355666777888888899999987 556678899999999
Q ss_pred cCC
Q 006733 245 LRM 247 (633)
Q Consensus 245 ~g~ 247 (633)
.|+
T Consensus 79 ~gI 81 (257)
T PF13407_consen 79 AGI 81 (257)
T ss_dssp TTS
T ss_pred cCc
Confidence 876
No 251
>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=80.21 E-value=14 Score=38.22 Aligned_cols=88 Identities=11% Similarity=0.066 Sum_probs=61.6
Q ss_pred HHHHHHHHHc---CCcEEEEEEecCCCc-chhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEe
Q 006733 154 AAIADIVDYF---GWRNVIALYVDDDHG-RNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILH 229 (633)
Q Consensus 154 ~al~~ll~~~---~w~~v~ii~~d~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~ 229 (633)
..+.++++.+ |.+|+.+|++..... ....+.+.+.+++.|+.+.....+.++.+.+.+...++.+++.++|+||..
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 91 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAI 91 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEe
Confidence 4456667776 778999888544332 234678888999889876654445555667778888888888899999976
Q ss_pred e--ChHHHHHHHHH
Q 006733 230 T--YDIWGLEVLNA 241 (633)
Q Consensus 230 ~--~~~~~~~il~~ 241 (633)
+ +.-++.+++..
T Consensus 92 GGGS~iD~aK~ia~ 105 (383)
T cd08186 92 GGGSPIDSAKSAAI 105 (383)
T ss_pred CCccHHHHHHHHHH
Confidence 4 44566666544
No 252
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=79.63 E-value=83 Score=33.70 Aligned_cols=141 Identities=13% Similarity=0.102 Sum_probs=77.3
Q ss_pred EEcCCchhhHHHHHHhhc-cCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec-CCCc
Q 006733 101 IIGPQFSVIAHLVSHIAN-EFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD-DDHG 178 (633)
Q Consensus 101 viG~~~s~~~~~va~~~~-~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d-~~~g 178 (633)
|++|.......++..+.+ ...+=+|.++- --++|- ..........++.....-+++.|+|.. ....
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~H----------G~i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~S~~GnT 265 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSH----------GVVWRD--NPTQIVELYLKWAADYQEDRITIFYDTMSNNT 265 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC----------CceEeC--CHHHHHHHHHHHhhccCcCcEEEEEECCccHH
Confidence 667776665555555554 23444554322 123452 222233334444444345789999954 3344
Q ss_pred chhHHHHHHHHhhc--CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh------HHHHHHHHHHHHcCCCCC
Q 006733 179 RNGIAALGDKLAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD------IWGLEVLNAAKHLRMMES 250 (633)
Q Consensus 179 ~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~------~~~~~il~~a~~~g~~~~ 250 (633)
+..++.+.+.+++. |+.+... .+ ...+...++..+. +++.|++.+.. .....++..+....+.+.
T Consensus 266 e~mA~~ia~gl~~~g~gv~v~~~-~v----~~~~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~gK 338 (479)
T PRK05452 266 RMMADAIAQGIAEVDPRVAVKIF-NV----ARSDKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFRNK 338 (479)
T ss_pred HHHHHHHHHHHHhhCCCceEEEE-EC----CCCCHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCcCCC
Confidence 56788888888876 4555432 22 2234555555553 56777776543 456677777776665544
Q ss_pred CeEEEEeCcc
Q 006733 251 GYVWIVTDWL 260 (633)
Q Consensus 251 ~~~~i~~~~~ 260 (633)
...-+++.+|
T Consensus 339 ~~~vFGSygw 348 (479)
T PRK05452 339 RASAFGSHGW 348 (479)
T ss_pred EEEEEECCCc
Confidence 3444554444
No 253
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=79.28 E-value=17 Score=34.97 Aligned_cols=89 Identities=9% Similarity=0.080 Sum_probs=52.7
Q ss_pred HHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChH-
Q 006733 155 AIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI- 233 (633)
Q Consensus 155 al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~- 233 (633)
.+.+++++++.+++.+|.+.+-| ....+.+++.+++.|+++..........+..+.......++..+.|+||-.+.+.
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vGgG~i 87 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGDADEDEVEKLVEALRPKDADLIIGVGGGTI 87 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE---BHHHHHHHHTTS--TT--EEEEEESHHH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCCCCHHHHHHHHHHhcccCCCEEEEeCCcHH
Confidence 35678888888999999876543 2345788899999999887433222223445566666666667889888887764
Q ss_pred -HHHHHHHHHHHcC
Q 006733 234 -WGLEVLNAAKHLR 246 (633)
Q Consensus 234 -~~~~il~~a~~~g 246 (633)
+..++ .|.+++
T Consensus 88 ~D~~K~--~A~~~~ 99 (250)
T PF13685_consen 88 IDIAKY--AAFELG 99 (250)
T ss_dssp HHHHHH--HHHHHT
T ss_pred HHHHHH--HHHhcC
Confidence 33333 344444
No 254
>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=79.21 E-value=9.3 Score=38.91 Aligned_cols=87 Identities=8% Similarity=0.097 Sum_probs=60.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.+.++.++ +|+.+|++...+ ....+.+.+.+++.|+.+.....+..+.+.+......+..++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGGs 89 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGGK 89 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCcH
Confidence 44566677777 898888754433 34467788888888987764445555556667777777778889999997654
Q ss_pred hHHHHHHHHHH
Q 006733 232 DIWGLEVLNAA 242 (633)
Q Consensus 232 ~~~~~~il~~a 242 (633)
.-++.+++...
T Consensus 90 ~~D~aK~ia~~ 100 (345)
T cd08171 90 AIDTVKVLADK 100 (345)
T ss_pred HHHHHHHHHHH
Confidence 45666666544
No 255
>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=78.84 E-value=9.9 Score=39.37 Aligned_cols=98 Identities=9% Similarity=0.069 Sum_probs=64.9
Q ss_pred CceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCC-cchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHh
Q 006733 140 PFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDH-GRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTV 218 (633)
Q Consensus 140 ~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~-g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i 218 (633)
|.-+...+... ..+.+++++++ +|+.||.+...+ .....+.+.+.+++.|+++.....+..+.+.......+..+
T Consensus 7 p~~i~~G~g~~---~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~ 82 (382)
T cd08187 7 PTKIIFGKGTE---SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPNPRLETVREGIELC 82 (382)
T ss_pred CCEEEECCCHH---HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCCCCHHHHHHHHHHH
Confidence 33344444432 44566777775 899888754333 22456788899999998876544455455667788888888
Q ss_pred hcCCCeEEEEeeC--hHHHHHHHHH
Q 006733 219 SSMMSRILILHTY--DIWGLEVLNA 241 (633)
Q Consensus 219 ~~~~~~vIvl~~~--~~~~~~il~~ 241 (633)
++.++|.||-.+. .-++.+++..
T Consensus 83 ~~~~~D~IIaiGGGS~iD~aK~ia~ 107 (382)
T cd08187 83 KEEKVDFILAVGGGSVIDSAKAIAA 107 (382)
T ss_pred HHcCCCEEEEeCChHHHHHHHHHHh
Confidence 8899999997654 3466655543
No 256
>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=78.31 E-value=26 Score=29.34 Aligned_cols=68 Identities=10% Similarity=0.012 Sum_probs=46.3
Q ss_pred cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh----HHHHHHHHHHHHcCC
Q 006733 174 DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD----IWGLEVLNAAKHLRM 247 (633)
Q Consensus 174 d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~----~~~~~il~~a~~~g~ 247 (633)
..+.-.-...-+...++..|+++.+.... ......+..+.+.++++|++++.. ..+..+++++++.+.
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 33333345566777888999998754322 234566777778899999998653 566777777887765
No 257
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=77.79 E-value=31 Score=33.03 Aligned_cols=87 Identities=9% Similarity=-0.074 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhh-cCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEe
Q 006733 151 YQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAE-KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILH 229 (633)
Q Consensus 151 ~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~ 229 (633)
++...+.+.....+ .++.++..+.+ ..+.+.+.+++ .|+.+.....=. .+.++....+++|.++++|++++.
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~----v~~~a~~~l~~~y~l~i~g~~~Gy--f~~~e~~~i~~~I~~s~~dil~Vg 164 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPE----VLAQTEAKLRTQWNVNIVGSQDGY--FTPEQRQALFERIHASGAKIVTVA 164 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHH----HHHHHHHHHHHHhCCEEEEEeCCC--CCHHHHHHHHHHHHhcCCCEEEEE
Confidence 45566666666666 57888876554 33444444432 377776543211 234456778999999999999998
Q ss_pred eChHHHHHHHHHHHH
Q 006733 230 TYDIWGLEVLNAAKH 244 (633)
Q Consensus 230 ~~~~~~~~il~~a~~ 244 (633)
...+.-..++...++
T Consensus 165 lG~PkQE~~~~~~~~ 179 (243)
T PRK03692 165 MGSPKQEIFMRDCRL 179 (243)
T ss_pred CCCcHHHHHHHHHHH
Confidence 777666666655544
No 258
>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=77.69 E-value=20 Score=36.96 Aligned_cols=84 Identities=14% Similarity=0.100 Sum_probs=59.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~- 232 (633)
..+.+++++++ +|+.||++.... ..+.+.+.+++.|+.+.... +..+.+.+.+.+.++.+++.++|.||-.+.+
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 86 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGEPSVELVDAAVAEARNAGCDVVIAIGGGS 86 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCCcCHHHHHHHHHHHHhcCCCEEEEecCch
Confidence 34666777775 899888854433 66778888999998765433 3445566778888888888999999987544
Q ss_pred -HHHHHHHHHH
Q 006733 233 -IWGLEVLNAA 242 (633)
Q Consensus 233 -~~~~~il~~a 242 (633)
-++.+++...
T Consensus 87 ~~D~aK~ia~~ 97 (374)
T cd08183 87 VIDAGKAIAAL 97 (374)
T ss_pred HHHHHHHHHHH
Confidence 5666665443
No 259
>PRK00865 glutamate racemase; Provisional
Probab=77.51 E-value=29 Score=33.65 Aligned_cols=36 Identities=14% Similarity=0.224 Sum_probs=25.9
Q ss_pred HHHHhcCceEEEcCCchhhHHHHHHhhccCCccEEe
Q 006733 91 LTLLENETVAIIGPQFSVIAHLVSHIANEFQVPLLS 126 (633)
Q Consensus 91 ~~li~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is 126 (633)
..+.+.++.+|+-+-++.++..+..+-+..++|+|+
T Consensus 61 ~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 61 EFLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 334445899888877776666666666777999997
No 260
>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=77.40 E-value=49 Score=29.89 Aligned_cols=87 Identities=10% Similarity=-0.001 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhc--CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEE
Q 006733 150 LYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEK--RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILI 227 (633)
Q Consensus 150 ~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIv 227 (633)
.++...+.+.....+ .++.++....+ ..+.+.+.+++. |++++... .. .+..+-...+++|.++++|+++
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~~~----v~~~~~~~l~~~yP~l~i~g~~--g~-f~~~~~~~i~~~I~~s~~dil~ 105 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGKPD----VLQQLKVKLIKEYPKLKIVGAF--GP-LEPEERKAALAKIARSGAGIVF 105 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCCEEEEEC--CC-CChHHHHHHHHHHHHcCCCEEE
Confidence 345566666665556 47877876544 445555555544 67777641 11 2344556789999999999999
Q ss_pred EeeChHHHHHHHHHHHH
Q 006733 228 LHTYDIWGLEVLNAAKH 244 (633)
Q Consensus 228 l~~~~~~~~~il~~a~~ 244 (633)
+......-..++.+.+.
T Consensus 106 VglG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 106 VGLGCPKQEIWMRNHRH 122 (177)
T ss_pred EEcCCcHhHHHHHHhHH
Confidence 98777666666655433
No 261
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=77.12 E-value=42 Score=34.07 Aligned_cols=96 Identities=15% Similarity=0.059 Sum_probs=68.3
Q ss_pred eEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHH
Q 006733 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 32 ~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~ 111 (633)
.-+||.+..+..+.-.....|+.+.++..|.+ .++...+..+=.|+..+.+.+..|+++|+++|.....+....
T Consensus 161 ~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~------i~v~v~~~gsf~D~~k~k~~a~~li~~GaDVI~~~ag~~~~g 234 (345)
T COG1744 161 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNPD------IKVKVVYVGSFSDPAKGKEAANALIDQGADVIYPAAGGTGVG 234 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCCC------ccEEEEEecCccChHHHHHHHHHHHhcCCCEEEecCCCCcch
Confidence 56788888777555567788999999999964 677777777888999999999999999999999866655544
Q ss_pred HHHHhhccCCccEEeeccCCCCC
Q 006733 112 LVSHIANEFQVPLLSFAATDPSL 134 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~l 134 (633)
.+. .+.+.+.=.|.+.+....+
T Consensus 235 v~~-~A~~~~~~~iGvdsDQ~~~ 256 (345)
T COG1744 235 VFQ-AAKELGAYAIGVDSDQSYL 256 (345)
T ss_pred HHH-HHHHhCCCeEEEecccccc
Confidence 421 2223333337654443333
No 262
>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=76.97 E-value=12 Score=36.19 Aligned_cols=78 Identities=9% Similarity=-0.006 Sum_probs=53.6
Q ss_pred EEEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee-ChHHHHHHHHHHH
Q 006733 167 NVIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT-YDIWGLEVLNAAK 243 (633)
Q Consensus 167 ~v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~-~~~~~~~il~~a~ 243 (633)
+|+++.. ++.|.....+.+.+.+++.|+++..... ..+.......++.+...+.|.||+.. ........++.++
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~~ 77 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYDA---GGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRAL 77 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHHH
Confidence 3667665 4667777888999999999998775321 12334445667777777899999974 3344566778888
Q ss_pred HcCC
Q 006733 244 HLRM 247 (633)
Q Consensus 244 ~~g~ 247 (633)
+.|+
T Consensus 78 ~~~i 81 (273)
T cd06305 78 DAGI 81 (273)
T ss_pred HcCC
Confidence 8765
No 263
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=76.79 E-value=63 Score=31.42 Aligned_cols=115 Identities=10% Similarity=0.146 Sum_probs=67.8
Q ss_pred cchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCch-hhHHHHHHhhccCCcc
Q 006733 45 IGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFS-VIAHLVSHIANEFQVP 123 (633)
Q Consensus 45 ~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s-~~~~~va~~~~~~~iP 123 (633)
.|..-..++...+.+|| |..+++.+ +..-++. ...+++..+.+.||-...+ ..-..+..+|..+++|
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 34444556666667776 44555443 3222222 2334555567788776555 4555688899999999
Q ss_pred EEeeccCCCCCccCCCCceEEecC----ChHHHHHHHHHHHHH-cCCc-------EEEEEEecC
Q 006733 124 LLSFAATDPSLSSLQYPFFVRTTQ----SDLYQMAAIADIVDY-FGWR-------NVIALYVDD 175 (633)
Q Consensus 124 ~Is~~a~~~~ls~~~~~~~~r~~p----~~~~~~~al~~ll~~-~~w~-------~v~ii~~d~ 175 (633)
+|+.+.....+. |..+++.- ...-+++.+-+.|++ +|.+ .+-++|++.
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 998765554443 55555432 123356777777776 6764 366777654
No 264
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=76.42 E-value=12 Score=38.58 Aligned_cols=84 Identities=10% Similarity=0.007 Sum_probs=59.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~- 232 (633)
..+.+.+++++ +++.+|++...+ ....+.+.+.+++.|+.+.+. .+..+.+.+.....+..+++.++|+||-.+.+
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~-~~~~ep~~~~v~~~~~~~~~~~~d~IIavGGGs 95 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFE-VFNGECSDNEIDRLVAIAEENGCDVVIGIGGGK 95 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEE-EeCCCCCHHHHHHHHHHHHhcCCCEEEEecChH
Confidence 44667778888 899888854443 236678888888888876443 34545566678888888888899999987544
Q ss_pred -HHHHHHHH
Q 006733 233 -IWGLEVLN 240 (633)
Q Consensus 233 -~~~~~il~ 240 (633)
-++.+++.
T Consensus 96 v~D~aK~iA 104 (366)
T PRK09423 96 TLDTAKAVA 104 (366)
T ss_pred HHHHHHHHH
Confidence 56666654
No 265
>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=76.26 E-value=55 Score=31.04 Aligned_cols=117 Identities=15% Similarity=0.153 Sum_probs=70.0
Q ss_pred CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchh-hHHHHHHhhccCC
Q 006733 43 STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSV-IAHLVSHIANEFQ 121 (633)
Q Consensus 43 ~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~-~~~~va~~~~~~~ 121 (633)
...|+.-..++...+.++| |..+++.... .-++. ...+++..+.+.||....+. ....+..+|..++
T Consensus 60 ~diG~~Kae~~~~~l~~in------P~~~V~~~~~--~i~~~----~~~~l~~~~~D~VvdaiD~~~~k~~L~~~c~~~~ 127 (231)
T cd00755 60 STVGKPKVEVMAERIRDIN------PECEVDAVEE--FLTPD----NSEDLLGGDPDFVVDAIDSIRAKVALIAYCRKRK 127 (231)
T ss_pred hhCCCcHHHHHHHHHHHHC------CCcEEEEeee--ecCHh----HHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHhC
Confidence 3445555667777777776 4455554432 22221 23455555677777765444 4455788999999
Q ss_pred ccEEeeccCCCCCccCCCCceEEecCCh----HHHHHHHHHHHHHcCCc-EEEEEEecC
Q 006733 122 VPLLSFAATDPSLSSLQYPFFVRTTQSD----LYQMAAIADIVDYFGWR-NVIALYVDD 175 (633)
Q Consensus 122 iP~Is~~a~~~~ls~~~~~~~~r~~p~~----~~~~~al~~ll~~~~w~-~v~ii~~d~ 175 (633)
+|+|+.......+. |.-+|..--. .-+++.+-+-|++.+.. .+-+||++.
T Consensus 128 ip~I~s~g~g~~~d----p~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E 182 (231)
T cd00755 128 IPVISSMGAGGKLD----PTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTE 182 (231)
T ss_pred CCEEEEeCCcCCCC----CCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCC
Confidence 99998655443332 5555544321 23566666667766664 688888764
No 266
>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=75.50 E-value=11 Score=36.46 Aligned_cols=78 Identities=9% Similarity=0.005 Sum_probs=54.3
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhh-cCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAE-KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAA 242 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a 242 (633)
+|++|..+ +.|.....+.+.+.+++ .|+.+...... .+.......++.+.+.+.|.||+.... .....+++.+
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l 77 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDAK---NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAA 77 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCCC---CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHH
Confidence 46777754 56777778889999999 89888764321 234455677777777889999987544 3345677777
Q ss_pred HHcCC
Q 006733 243 KHLRM 247 (633)
Q Consensus 243 ~~~g~ 247 (633)
.+.++
T Consensus 78 ~~~~i 82 (272)
T cd06301 78 NAAGI 82 (272)
T ss_pred HHCCC
Confidence 77664
No 267
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=74.47 E-value=17 Score=36.86 Aligned_cols=82 Identities=7% Similarity=-0.096 Sum_probs=58.5
Q ss_pred CCcEEEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee-ChHHHHHHHH
Q 006733 164 GWRNVIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT-YDIWGLEVLN 240 (633)
Q Consensus 164 ~w~~v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~-~~~~~~~il~ 240 (633)
.-.+++++.. ++.|.....+.+++.+++.|+++.... +...+...-...++.+...++|.|++.. +.......++
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~l~ 99 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPALK 99 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHHHH
Confidence 4568988885 357777788889999999998887532 2112333344667778888999999864 4455577889
Q ss_pred HHHHcCC
Q 006733 241 AAKHLRM 247 (633)
Q Consensus 241 ~a~~~g~ 247 (633)
++.+.|+
T Consensus 100 ~a~~~gI 106 (336)
T PRK15408 100 RAMQRGV 106 (336)
T ss_pred HHHHCCC
Confidence 9998775
No 268
>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=74.43 E-value=38 Score=27.84 Aligned_cols=85 Identities=13% Similarity=0.057 Sum_probs=45.1
Q ss_pred HHHHcCCcEEEEEEecCC-CcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHH
Q 006733 159 IVDYFGWRNVIALYVDDD-HGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLE 237 (633)
Q Consensus 159 ll~~~~w~~v~ii~~d~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~ 237 (633)
-++..|.++|.-+..|.+ .+......+++.+++.|+...+.-......+..++....+.+......+.+.|.++..+..
T Consensus 22 ~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra~~ 101 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGAITEEDVEAFADALESLPKPVLAHCRSGTRASA 101 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT--HHHHHHHHHHHHTTTTSEEEE-SCSHHHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEECCCChhHHH
Confidence 355589999988877644 3445566788899999998764322222345556666555565554455555666666666
Q ss_pred HHHHHH
Q 006733 238 VLNAAK 243 (633)
Q Consensus 238 il~~a~ 243 (633)
+...++
T Consensus 102 l~~l~~ 107 (110)
T PF04273_consen 102 LWALAQ 107 (110)
T ss_dssp HHHHHH
T ss_pred HHHHHh
Confidence 554443
No 269
>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=74.33 E-value=16 Score=35.96 Aligned_cols=77 Identities=8% Similarity=0.007 Sum_probs=54.8
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-hHHHHHHHHHHHH
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-DIWGLEVLNAAKH 244 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-~~~~~~il~~a~~ 244 (633)
|++|..+ +.|.....+.+.+.+++.|+.+...... .+.......++.+...++|.|++... .......++++.+
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~ 78 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNAN---GDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKAAD 78 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECCC---CCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHH
Confidence 6777754 5677777889999999999987754321 23445567788888889999998753 4445677888887
Q ss_pred cCC
Q 006733 245 LRM 247 (633)
Q Consensus 245 ~g~ 247 (633)
.|.
T Consensus 79 ~~i 81 (288)
T cd01538 79 AGI 81 (288)
T ss_pred CCC
Confidence 664
No 270
>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=73.66 E-value=40 Score=31.12 Aligned_cols=88 Identities=10% Similarity=-0.076 Sum_probs=57.4
Q ss_pred cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC----hHHHHHHHHH
Q 006733 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY----DIWGLEVLNA 241 (633)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~----~~~~~~il~~ 241 (633)
.++.+.....+.-.-+..-+...++.+|+++.+-. ........++.+++.++|+|.+.+. ...+..++++
T Consensus 85 ~~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG------~~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~~ 158 (197)
T TIGR02370 85 GKVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLG------RDVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDINDK 158 (197)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECC------CCCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHHHH
Confidence 46655554555545556777778888898887432 2234456677777788998888654 3677888888
Q ss_pred HHHcCCCCCCeEEEEeCc
Q 006733 242 AKHLRMMESGYVWIVTDW 259 (633)
Q Consensus 242 a~~~g~~~~~~~~i~~~~ 259 (633)
+++.+....-.+|++...
T Consensus 159 l~~~~~~~~v~i~vGG~~ 176 (197)
T TIGR02370 159 LKEEGYRDSVKFMVGGAP 176 (197)
T ss_pred HHHcCCCCCCEEEEEChh
Confidence 888876544455666543
No 271
>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=73.45 E-value=12 Score=35.79 Aligned_cols=78 Identities=8% Similarity=0.059 Sum_probs=52.0
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKH 244 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~ 244 (633)
+++++... ..+.......+++.+++.|+.+.....- .+.......++++...+++.||+..........++.+.+
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~~~---~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~ 77 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLANSQ---NDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLARK 77 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhhh
Confidence 46777754 5677788889999999999887644321 233455677777777789988887544333335666666
Q ss_pred cCC
Q 006733 245 LRM 247 (633)
Q Consensus 245 ~g~ 247 (633)
.+.
T Consensus 78 ~~i 80 (264)
T cd01537 78 AGI 80 (264)
T ss_pred cCC
Confidence 553
No 272
>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=73.33 E-value=13 Score=35.53 Aligned_cols=76 Identities=11% Similarity=-0.016 Sum_probs=53.3
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
++++..+ +.|.....+.+++.+++.|+.+..... ..+.......++.+...++|.|++......... ++.+.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~ 77 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLCNS---DEDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELAAL 77 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEEcC---CCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHHHc
Confidence 5666654 677778888999999888988764421 123445567777777789999998766555444 7777776
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
|.
T Consensus 78 ~i 79 (264)
T cd06267 78 GI 79 (264)
T ss_pred CC
Confidence 65
No 273
>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=72.61 E-value=29 Score=36.15 Aligned_cols=79 Identities=10% Similarity=-0.011 Sum_probs=56.9
Q ss_pred cCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee--ChHHHHHHHH
Q 006733 163 FGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT--YDIWGLEVLN 240 (633)
Q Consensus 163 ~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~--~~~~~~~il~ 240 (633)
.+.+++.+|++.........+.+.+.+++.|+++.....+.++.+.+.+...+..+++.++|+||-.+ +.-++.+++.
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~iA 98 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPDPSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKIMW 98 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHHHH
Confidence 35689988875433333467788899999998876554555556667788888888889999999764 4456666665
Q ss_pred H
Q 006733 241 A 241 (633)
Q Consensus 241 ~ 241 (633)
.
T Consensus 99 ~ 99 (398)
T cd08178 99 L 99 (398)
T ss_pred H
Confidence 3
No 274
>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=72.44 E-value=17 Score=37.05 Aligned_cols=84 Identities=14% Similarity=0.110 Sum_probs=56.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD- 232 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~- 232 (633)
..+.++++.+| +++.+|++...+- ...+.+.+.+++.|+.+.... +..+.+.+.....++.+++.++|.||-.+.+
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~~-~~~~~v~~~l~~~~i~~~~~~-~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs 88 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVLK-KSRPRFEAALAKSIIVVDVIV-FGGECSTEEVVKALCGAEEQEADVIIGVGGGK 88 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHHH-HHHHHHHHHHHhcCCeeEEEE-cCCCCCHHHHHHHHHHHHhcCCCEEEEecCcH
Confidence 44667788888 8888887544332 456788888888887654332 4433455667777788888899999976543
Q ss_pred -HHHHHHHH
Q 006733 233 -IWGLEVLN 240 (633)
Q Consensus 233 -~~~~~il~ 240 (633)
-++.+++.
T Consensus 89 ~~D~aK~ia 97 (349)
T cd08550 89 TLDTAKAVA 97 (349)
T ss_pred HHHHHHHHH
Confidence 56665554
No 275
>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=71.79 E-value=43 Score=29.70 Aligned_cols=86 Identities=16% Similarity=0.213 Sum_probs=50.1
Q ss_pred CceEEEcCCch--hhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCc--------
Q 006733 97 ETVAIIGPQFS--VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWR-------- 166 (633)
Q Consensus 97 ~v~aviG~~~s--~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~-------- 166 (633)
++..++|.... .....+..+++..++|+++.......+.+.. +. ..|.. ...+..++.+-.|+
T Consensus 29 RPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~kg---v~-~~~~~---lg~~g~~~~~p~~e~~~g~g~~ 101 (162)
T TIGR00315 29 RPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIEAG---IE-SEEMN---LHEITQFLADPSWEGFDGEGNY 101 (162)
T ss_pred CcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCccccccccCC---ee-cCCCC---HHHHHHhccCchhhhccCCCCc
Confidence 89999997654 6777788999999999997544333344322 11 22211 12444555443343
Q ss_pred -EEEEEEecCCCcchhHHHHHHHH
Q 006733 167 -NVIALYVDDDHGRNGIAALGDKL 189 (633)
Q Consensus 167 -~v~ii~~d~~~g~~~~~~~~~~~ 189 (633)
-+.++..+..++....+.+++..
T Consensus 102 DlvlfvG~~~y~~~~~ls~lk~f~ 125 (162)
T TIGR00315 102 DLVLFLGIIYYYLSQMLSSLKHFS 125 (162)
T ss_pred CEEEEeCCcchHHHHHHHHHHhhc
Confidence 34445556555555666665444
No 276
>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=70.81 E-value=18 Score=35.02 Aligned_cols=79 Identities=6% Similarity=-0.084 Sum_probs=53.1
Q ss_pred EEEEEEec---CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHH
Q 006733 167 NVIALYVD---DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAA 242 (633)
Q Consensus 167 ~v~ii~~d---~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a 242 (633)
||+++..+ +.|.....+.+.+.+++.|..+.....-. .+.......++.+...++|.||+.... ......++.+
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~~~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~ 78 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGPET--FDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRA 78 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECCCC--CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHH
Confidence 46777743 46777788899999999998876542211 133445667777777899999887543 3345567777
Q ss_pred HHcCC
Q 006733 243 KHLRM 247 (633)
Q Consensus 243 ~~~g~ 247 (633)
.+.|.
T Consensus 79 ~~~~i 83 (271)
T cd06312 79 VAAGI 83 (271)
T ss_pred HHCCC
Confidence 77664
No 277
>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=70.44 E-value=19 Score=34.49 Aligned_cols=78 Identities=9% Similarity=-0.060 Sum_probs=52.3
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAK 243 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~ 243 (633)
+|++|..+ +.|.....+.+++.+++.|+.+.....- .+.......++++...+.|.||+.... ......++.++
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~l~ 77 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDAQ---NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKKAN 77 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECCC---CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHHHH
Confidence 46777754 5677778888999999999887654322 233444567777777789999887543 33344667776
Q ss_pred HcCC
Q 006733 244 HLRM 247 (633)
Q Consensus 244 ~~g~ 247 (633)
+.+.
T Consensus 78 ~~~i 81 (267)
T cd01536 78 AAGI 81 (267)
T ss_pred HCCC
Confidence 6553
No 278
>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=70.14 E-value=19 Score=34.96 Aligned_cols=80 Identities=11% Similarity=0.000 Sum_probs=52.6
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKH 244 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~ 244 (633)
+|+++..+ +.|.......+++.+++.|..+.....-. ..+.......++.+...++|.||+.....+....++.+.+
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~~~ 79 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-YPNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQVA 79 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHHHH
Confidence 46777754 56777777888899999999877542211 0123344567777778899999987644333225677777
Q ss_pred cCC
Q 006733 245 LRM 247 (633)
Q Consensus 245 ~g~ 247 (633)
.|+
T Consensus 80 ~gi 82 (268)
T cd06306 80 ASI 82 (268)
T ss_pred CCC
Confidence 665
No 279
>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=69.82 E-value=27 Score=35.57 Aligned_cols=85 Identities=8% Similarity=0.047 Sum_probs=56.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCC--CChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPK--GSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
..+.++++.++.+++.+|++...+. ...+.+.+.+++.|+.+........+ .+.+.....++.+++ ++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~~-~~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTYA-AAGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHHH-HHHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 3466778888889998887443332 23577888898889866433333322 455667777777776 8999997644
Q ss_pred --hHHHHHHHH
Q 006733 232 --DIWGLEVLN 240 (633)
Q Consensus 232 --~~~~~~il~ 240 (633)
.-++.+++.
T Consensus 90 Gs~~D~aK~vA 100 (348)
T cd08175 90 GTINDITKYVS 100 (348)
T ss_pred cHHHHHHHHHH
Confidence 456666665
No 280
>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=69.79 E-value=9 Score=31.85 Aligned_cols=86 Identities=14% Similarity=0.128 Sum_probs=46.5
Q ss_pred cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhh--cCCCeEEEEeeChHHHHHHHHHHH
Q 006733 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVS--SMMSRILILHTYDIWGLEVLNAAK 243 (633)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~--~~~~~vIvl~~~~~~~~~il~~a~ 243 (633)
|+++++......+. ....+.+.+.++|.++... .+..+.-+=......+. ...+|.++++..+.....+++++.
T Consensus 1 ksiAVvGaS~~~~~-~g~~v~~~l~~~G~~v~~V---np~~~~i~G~~~y~sl~e~p~~iDlavv~~~~~~~~~~v~~~~ 76 (116)
T PF13380_consen 1 KSIAVVGASDNPGK-FGYRVLRNLKAAGYEVYPV---NPKGGEILGIKCYPSLAEIPEPIDLAVVCVPPDKVPEIVDEAA 76 (116)
T ss_dssp -EEEEET--SSTTS-HHHHHHHHHHHTT-EEEEE---STTCSEETTEE-BSSGGGCSST-SEEEE-S-HHHHHHHHHHHH
T ss_pred CEEEEEcccCCCCC-hHHHHHHHHHhCCCEEEEE---CCCceEECcEEeeccccCCCCCCCEEEEEcCHHHHHHHHHHHH
Confidence 57888875443333 3344445555578776532 22111100011222333 368999999999999999999999
Q ss_pred HcCCCCCCeEEEEeC
Q 006733 244 HLRMMESGYVWIVTD 258 (633)
Q Consensus 244 ~~g~~~~~~~~i~~~ 258 (633)
++| .+.+|+.++
T Consensus 77 ~~g---~~~v~~~~g 88 (116)
T PF13380_consen 77 ALG---VKAVWLQPG 88 (116)
T ss_dssp HHT----SEEEE-TT
T ss_pred HcC---CCEEEEEcc
Confidence 988 567898876
No 281
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=69.63 E-value=14 Score=36.17 Aligned_cols=55 Identities=16% Similarity=0.158 Sum_probs=31.0
Q ss_pred CCeEEEEEEe-ecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEE
Q 006733 30 PPVLNIGAVF-ALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII 102 (633)
Q Consensus 30 ~~~i~IG~l~-p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~avi 102 (633)
.++|+||..- |.+ ....++.+.+-++ .|++++++.+++...+. ..+.+..+++..
T Consensus 30 ~~~I~IG~~~~~~~--------~~~~~~~~~l~~~----~G~~Vel~~f~~~~~~~------~ALa~GdID~~~ 85 (271)
T PRK11063 30 PNHIKVGVIVGAEQ--------QVAEVAQKVAKEK----YGLDVELVTFNDYVLPN------EALSKGDIDANA 85 (271)
T ss_pred CCcEEEEeCCCChH--------HHHHHHHHHHHHh----cCCeEEEEEecCcHHHH------HHHHcCCcceec
Confidence 3469999983 221 1233344444433 27899999987643332 234455677644
No 282
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=69.57 E-value=18 Score=34.61 Aligned_cols=46 Identities=15% Similarity=0.265 Sum_probs=30.7
Q ss_pred CeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHH
Q 006733 31 PVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGM 87 (633)
Q Consensus 31 ~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~ 87 (633)
.+|+||+.--.+ +..+...++-+.++ -|++|+++.+++-.-|..++
T Consensus 29 ~~I~vg~~~~p~---a~ile~~~k~~~~k--------~Gi~l~i~~FtDY~~PN~AL 74 (268)
T COG1464 29 KTIKVGATPGPH---AEILEVVVKPALKK--------KGLDLKIVEFTDYVQPNEAL 74 (268)
T ss_pred CcEEEeecCCch---HHHHHHHHHHHHHh--------cCceEEEEEecCCcchhHHH
Confidence 589999874333 22333355555555 38999999998877776654
No 283
>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=69.46 E-value=20 Score=34.49 Aligned_cols=77 Identities=12% Similarity=-0.056 Sum_probs=50.8
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
+++|.. .+.|.......+++.+++.|+++..... ..+.......++.+...++|.|++..........++.+.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLANS---GEDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAES 78 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEecC---CCChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhc
Confidence 566664 3567677778888889999988754321 12334456677777778899998875443333467777776
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
|.
T Consensus 79 ~i 80 (268)
T cd06289 79 GI 80 (268)
T ss_pred CC
Confidence 64
No 284
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=69.33 E-value=1.2e+02 Score=29.82 Aligned_cols=152 Identities=20% Similarity=0.218 Sum_probs=98.2
Q ss_pred eEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHH
Q 006733 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 32 ~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~ 111 (633)
.-.|+.+|.-.+. +.+-+++.|+.++ +|..+-+-.-|++-...+.++-+.+.++.-+++|.--..+..
T Consensus 44 gk~laliFeK~ST---RTR~SFeva~~ql-------Gg~~~~l~~~~~Qlgr~Esi~DTArVLsr~~D~I~~R~~~~~-- 111 (310)
T COG0078 44 GKNLALIFEKTST---RTRVSFEVAATQL-------GGHAIYLGPGDSQLGRGESIKDTARVLSRMVDAIMIRGFSHE-- 111 (310)
T ss_pred CceEEEEecCCCc---hhhhhHHHHHHHc-------CCCeEEeCCCccccCCCCcHHHHHHHHHhhhheEEEecccHH--
Confidence 4678999988643 4678888888885 567766666666655555666666777776777775444444
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHH---HHcC---CcEEEEEEecCCCcchhHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIV---DYFG---WRNVIALYVDDDHGRNGIAAL 185 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll---~~~~---w~~v~ii~~d~~~g~~~~~~~ 185 (633)
.+..+++...+|+|. .|++..+| .+.+++++ +++| -.+++.+.+. ......+
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 567889999999995 34443333 25567764 4554 4677777633 4677888
Q ss_pred HHHHhhcCcEEEEEeecCCCCChhhHHHHHHHh
Q 006733 186 GDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTV 218 (633)
Q Consensus 186 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i 218 (633)
.......|+++...-.-.... ..++-...+++
T Consensus 170 ~~~~a~~G~dv~ia~Pk~~~p-~~~~~~~a~~~ 201 (310)
T COG0078 170 LLAAAKLGMDVRIATPKGYEP-DPEVVEKAKEN 201 (310)
T ss_pred HHHHHHhCCeEEEECCCcCCc-CHHHHHHHHHH
Confidence 888888898876442211112 34555555554
No 285
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=69.15 E-value=72 Score=30.73 Aligned_cols=135 Identities=7% Similarity=-0.032 Sum_probs=68.5
Q ss_pred HHHHHH-hcCceEEEcCCchhhHHHHHHhhccCCccEEeec-cCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCC
Q 006733 89 EALTLL-ENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFA-ATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGW 165 (633)
Q Consensus 89 ~~~~li-~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~-a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w 165 (633)
.+..|. +.|+.+++-+-++.++.....+-+..++|+|+.. .+...... .....+-=+..+.+......-+.+++++.
T Consensus 52 ~~~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~iie~~v~~a~~~~~~~~IgvLAT~~Ti~s~~y~~~i~~~~~ 131 (251)
T TIGR00067 52 LLTFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVGVIEPAIKAAIRLTANGRVLVIATNATIKSNAYHEALKEIAN 131 (251)
T ss_pred HHHHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEeecHHHHHHHHHhCCCCeEEEEeCHHHHhhhHHHHHHHHhCC
Confidence 334455 5589988887777776777777788899999842 11111111 00012222333444455556666666665
Q ss_pred cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHH
Q 006733 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVL 239 (633)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il 239 (633)
+-. +.... ...+-... +.|.. ........+...+..+.+.+.|.||+.|.. +-....+
T Consensus 132 ~~~--v~~~~------~~~lv~~I-e~g~~-------~~~~~~~~l~~~l~~l~~~~~d~lILGCTh~P~l~~~i 190 (251)
T TIGR00067 132 DLL--VEMLA------CPELVPLA-EAGLL-------GEDYALECLKRYLRPLLDTLPDTVVLGCTHFPLLKEEI 190 (251)
T ss_pred CCE--EEecC------CHHHHHHH-HcCCc-------CCHHHHHHHHHHHHHHhcCCCCEEEECcCChHHHHHHH
Confidence 422 22111 01111111 22211 000122346667777777788888887654 4433333
No 286
>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=68.73 E-value=20 Score=34.92 Aligned_cols=78 Identities=13% Similarity=-0.008 Sum_probs=51.7
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAK 243 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~ 243 (633)
+|+++..+ +.|.......+.+.+++.|..+..... ..+.......+..+...++|.||+.... ......++.+.
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~ 77 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKALGYELISTDA---QGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAK 77 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEcC---CCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHHH
Confidence 35666643 566677788899999999998765322 1233344567788888899999986433 33345677777
Q ss_pred HcCC
Q 006733 244 HLRM 247 (633)
Q Consensus 244 ~~g~ 247 (633)
+.|.
T Consensus 78 ~~~i 81 (282)
T cd06318 78 AAGV 81 (282)
T ss_pred HCCC
Confidence 7654
No 287
>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=68.64 E-value=22 Score=34.15 Aligned_cols=77 Identities=13% Similarity=-0.006 Sum_probs=51.0
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|+++.. ++.|.....+.+.+.+++.|+.+.....- .+.......++.+...++|.||+..........++.+.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATTD---YDAEREADAVETLLRQRVDGLILTVADAATSPALDLLDAE 78 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeCC---CCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhC
Confidence 566664 34566777888999999999987754321 2334455677777777899999864322233467777776
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
|.
T Consensus 79 ~i 80 (266)
T cd06282 79 RV 80 (266)
T ss_pred CC
Confidence 64
No 288
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=68.47 E-value=38 Score=30.31 Aligned_cols=119 Identities=13% Similarity=0.153 Sum_probs=65.6
Q ss_pred HHHHhc--CceEEEcCCchh---hHHHHHHhhccCCccEEeeccCCCCCccCC-CCceEEecCChHHHHHHHHHHHHHcC
Q 006733 91 LTLLEN--ETVAIIGPQFSV---IAHLVSHIANEFQVPLLSFAATDPSLSSLQ-YPFFVRTTQSDLYQMAAIADIVDYFG 164 (633)
Q Consensus 91 ~~li~~--~v~aviG~~~s~---~~~~va~~~~~~~iP~Is~~a~~~~ls~~~-~~~~~r~~p~~~~~~~al~~ll~~~~ 164 (633)
.+++.+ ++..++|..... ....+.++++..++|+++.......+.... .|. |- -...+..++..-+
T Consensus 28 a~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~kgv~~~-----~~---~lg~lg~~~~~p~ 99 (171)
T PRK00945 28 AMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLIDKGVDAK-----YI---NLHELTNYLKDPN 99 (171)
T ss_pred HHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccccccccccCCccCC-----cc---cHHHHHhhccCch
Confidence 344443 899999976543 566688999999999998655555555421 122 11 1233444444333
Q ss_pred C---------cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCC-------CChhhHHHHHHHhh
Q 006733 165 W---------RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPK-------GSRNQIIDTLLTVS 219 (633)
Q Consensus 165 w---------~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-------~~~~~~~~~l~~i~ 219 (633)
| .-+.++..+..+.....+.+++...- ..|+....+-++ .+.+++.+.|+++.
T Consensus 100 ~e~~~g~~~~DlvlfvG~~~~~~~~~l~~lk~f~~~--~~~~~~~~y~~~a~~s~~~~~~~~~~~~l~~li 168 (171)
T PRK00945 100 WKGLDGNGNYDLVIFIGVTYYYASQGLSALKHFSPL--KTITIDRYYHPNADMSFPNLSKEEYLEYLDELI 168 (171)
T ss_pred hhhhcCCCCcCEEEEecCCchhHHHHHHHHhhcCCc--eEEEecCCcCCCCceecCCCCHHHHHHHHHHHH
Confidence 3 34455666777666666666554431 122222222222 34556666666654
No 289
>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=67.70 E-value=21 Score=34.91 Aligned_cols=80 Identities=13% Similarity=0.037 Sum_probs=50.1
Q ss_pred EEEEEEec---CCCcchhHHHHHHHHhhcCcEEEEEeecCCC-CChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHH
Q 006733 167 NVIALYVD---DDHGRNGIAALGDKLAEKRCRLSHKVPLSPK-GSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAA 242 (633)
Q Consensus 167 ~v~ii~~d---~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a 242 (633)
+|++|..+ +.|.....+.+.+.+++.|..+......... .+.......++.+...++|.||+..........++.+
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l 80 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERV 80 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHH
Confidence 36777764 3566677788888899999877654221111 1233445667777788999998875433334556666
Q ss_pred HHcC
Q 006733 243 KHLR 246 (633)
Q Consensus 243 ~~~g 246 (633)
.+.+
T Consensus 81 ~~~~ 84 (280)
T cd06303 81 LASG 84 (280)
T ss_pred HhCC
Confidence 6544
No 290
>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=67.64 E-value=70 Score=26.46 Aligned_cols=65 Identities=11% Similarity=-0.036 Sum_probs=43.1
Q ss_pred CCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC----hHHHHHHHHHHHHcC
Q 006733 176 DHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY----DIWGLEVLNAAKHLR 246 (633)
Q Consensus 176 ~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~----~~~~~~il~~a~~~g 246 (633)
+.-.-....+...++..|+++.+.. . .......++.+.+.++++|.+.+. ...+..+++++++.+
T Consensus 10 e~H~lG~~~~~~~l~~~G~~V~~lg---~---~~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~ 78 (119)
T cd02067 10 DGHDIGKNIVARALRDAGFEVIDLG---V---DVPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAG 78 (119)
T ss_pred chhhHHHHHHHHHHHHCCCEEEECC---C---CCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence 3333455677788888999885432 1 123456666777788999998765 256677777777765
No 291
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=67.45 E-value=74 Score=32.37 Aligned_cols=103 Identities=11% Similarity=0.122 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 152 QMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 152 ~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
....++.++++.||+ ++++..|. |=......++..+.+.++.+....+-. ....-...-+.+.++.+.|+||+..+
T Consensus 117 tc~KlA~y~kkkG~K-~~LvcaDT-FRagAfDQLkqnA~k~~iP~ygsyte~--dpv~ia~egv~~fKke~fdvIIvDTS 192 (483)
T KOG0780|consen 117 TCTKLAYYYKKKGYK-VALVCADT-FRAGAFDQLKQNATKARVPFYGSYTEA--DPVKIASEGVDRFKKENFDVIIVDTS 192 (483)
T ss_pred eHHHHHHHHHhcCCc-eeEEeecc-cccchHHHHHHHhHhhCCeeEeccccc--chHHHHHHHHHHHHhcCCcEEEEeCC
Confidence 345677778888884 55565453 555567778777777887766542211 11223355567788889999999877
Q ss_pred h--HHHHHHHHHHHHc-CCCCCCeEEEEeC
Q 006733 232 D--IWGLEVLNAAKHL-RMMESGYVWIVTD 258 (633)
Q Consensus 232 ~--~~~~~il~~a~~~-g~~~~~~~~i~~~ 258 (633)
+ ..-..++.++.+. .-..|+-+.+..|
T Consensus 193 GRh~qe~sLfeEM~~v~~ai~Pd~vi~VmD 222 (483)
T KOG0780|consen 193 GRHKQEASLFEEMKQVSKAIKPDEIIFVMD 222 (483)
T ss_pred CchhhhHHHHHHHHHHHhhcCCCeEEEEEe
Confidence 6 4455566665552 2233555555544
No 292
>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=66.54 E-value=34 Score=32.96 Aligned_cols=75 Identities=12% Similarity=-0.031 Sum_probs=48.4
Q ss_pred EEEEEec-----CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHH
Q 006733 168 VIALYVD-----DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAA 242 (633)
Q Consensus 168 v~ii~~d-----~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a 242 (633)
|+++..+ +.|.....+.+++.+++.|..+..... . .+.......+..+...++|.||+...... ..++.+
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~--~~~~~l 76 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKFV-S--DEDEEEFELPSFLEDGKVDGIILLGGIST--EYIKEI 76 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEeC-C--CChHHHHHHHHHHHHCCCCEEEEeCCCCh--HHHHHH
Confidence 5666554 667777888899999999988765432 2 12233345556666778999998764333 236666
Q ss_pred HHcCC
Q 006733 243 KHLRM 247 (633)
Q Consensus 243 ~~~g~ 247 (633)
.+.+.
T Consensus 77 ~~~~i 81 (268)
T cd06277 77 KELGI 81 (268)
T ss_pred hhcCC
Confidence 66554
No 293
>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=66.39 E-value=25 Score=34.03 Aligned_cols=80 Identities=14% Similarity=0.069 Sum_probs=51.8
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHH-HHHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIW-GLEVLNAAK 243 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~-~~~il~~a~ 243 (633)
||++|..+ +.|.......+++.+++.|..+.....-. ..+.......++++...+.|.||+...... ....++.+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~~ 79 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPAS-ETDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKEAK 79 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCcc-CCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHHH
Confidence 57777754 55666777888889999999876543211 123334456677777778999998644333 345677776
Q ss_pred HcCC
Q 006733 244 HLRM 247 (633)
Q Consensus 244 ~~g~ 247 (633)
+.++
T Consensus 80 ~~~i 83 (273)
T cd06310 80 DAGI 83 (273)
T ss_pred HCCC
Confidence 6553
No 294
>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=65.96 E-value=13 Score=35.81 Aligned_cols=88 Identities=15% Similarity=0.113 Sum_probs=42.9
Q ss_pred CchhhhHHHHHhhhhhhccccccCCCC---CCCCeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEe
Q 006733 1 MTKIYLLALVVVYNFCFSAGISMNGVS---TIPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVH 77 (633)
Q Consensus 1 Mk~~~~l~~~~~~~~~~~~~~~~~~~~---~~~~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~ 77 (633)
||+...++++++++ +++++ |++..+ ..+.+|+||+....+.. ........-.+.+-++- |++++++..
T Consensus 1 ~~~~~~~~~~~~~~-~~~~~-~~~~~~~~~~~~~~l~vg~~~~~~~~---~~~~~~~~l~~~l~~~~----g~~v~~~~~ 71 (254)
T TIGR01098 1 MKRLLALLAALLGA-SLAAA-CSKKAAEAAAVPKELNFGILPGENAS---NLTRRWEPLADYLEKKL----GIKVQLFVA 71 (254)
T ss_pred ChhHHHHHHHHHHH-HHHhh-cCCchhhhccCCCceEEEECCCCCHH---HHHHHHHHHHHHHHHHh----CCcEEEEeC
Confidence 88876555444432 23444 432222 35678999998554321 11221222223333331 567777653
Q ss_pred cCCCChHHHHHHHHHHHhcCceEEEc
Q 006733 78 DTNYSRFLGMVEALTLLENETVAIIG 103 (633)
Q Consensus 78 D~~~~~~~a~~~~~~li~~~v~aviG 103 (633)
.+ ... ....+...++++++.
T Consensus 72 ~~---~~~---~~~~l~~g~~Di~~~ 91 (254)
T TIGR01098 72 TD---YSA---VIEAMRFGRVDIAWF 91 (254)
T ss_pred CC---HHH---HHHHHHcCCccEEEE
Confidence 32 111 223344557887774
No 295
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=65.75 E-value=57 Score=33.42 Aligned_cols=92 Identities=8% Similarity=-0.129 Sum_probs=59.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEE--eecCCCCChhhHHHHHHHhhcCCC---eEEEE
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHK--VPLSPKGSRNQIIDTLLTVSSMMS---RILIL 228 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~--~~~~~~~~~~~~~~~l~~i~~~~~---~vIvl 228 (633)
..+.++++.++.+++.+|++...+ ....+.+.+.+++.|+.+... .....+.+.+.+...++.+++.+. |.||.
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~~-~~~~~~v~~~L~~~gi~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIa 98 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETVA-PLYLEKLRASLEAAGFEVDVVVLPDGEQYKSLETLEKIYDALLEAGLDRSDTLIA 98 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCchH-HHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 346667777788999988855443 356778888888888866522 122223455667777777776544 88887
Q ss_pred eeCh--HHHHHHHHHHHHcC
Q 006733 229 HTYD--IWGLEVLNAAKHLR 246 (633)
Q Consensus 229 ~~~~--~~~~~il~~a~~~g 246 (633)
.+.+ .++..++......|
T Consensus 99 vGGGsv~D~aK~iA~~~~~g 118 (358)
T PRK00002 99 LGGGVIGDLAGFAAATYMRG 118 (358)
T ss_pred EcCcHHHHHHHHHHHHhcCC
Confidence 6543 56666665544444
No 296
>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=65.28 E-value=39 Score=32.98 Aligned_cols=79 Identities=14% Similarity=0.034 Sum_probs=53.0
Q ss_pred cEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHH-HHHHHHHH
Q 006733 166 RNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIW-GLEVLNAA 242 (633)
Q Consensus 166 ~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~-~~~il~~a 242 (633)
++|+++..+ +.|.....+.+.+.+++.|..+..... ..+.......++.+...+.|.||+.....+ ....++.+
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~ 77 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILDG---RGSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELELA 77 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHH
Confidence 467877764 556667788888999999988765321 123444567788888889999999754332 23455666
Q ss_pred HHcCC
Q 006733 243 KHLRM 247 (633)
Q Consensus 243 ~~~g~ 247 (633)
.+.++
T Consensus 78 ~~~~i 82 (280)
T cd06315 78 QKAGI 82 (280)
T ss_pred HHCCC
Confidence 66554
No 297
>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=65.22 E-value=90 Score=28.83 Aligned_cols=87 Identities=16% Similarity=0.011 Sum_probs=55.6
Q ss_pred cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC----hHHHHHHHHH
Q 006733 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY----DIWGLEVLNA 241 (633)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~----~~~~~~il~~ 241 (633)
.++.+.....+.-.-+..-+...++..|+++.+-. ........+..+.+.++++|.+.+. ...+..++++
T Consensus 83 ~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG------~~~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i~~ 156 (201)
T cd02070 83 GKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLG------RDVPPEEFVEAVKEHKPDILGLSALMTTTMGGMKEVIEA 156 (201)
T ss_pred CeEEEEecCCccchHHHHHHHHHHHHCCCEEEECC------CCCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHH
Confidence 46555444444444556777888999999986332 1123456677777788999988763 3677788888
Q ss_pred HHHcCCCCCCeEEEEeC
Q 006733 242 AKHLRMMESGYVWIVTD 258 (633)
Q Consensus 242 a~~~g~~~~~~~~i~~~ 258 (633)
+++.+....-.++++..
T Consensus 157 lr~~~~~~~~~i~vGG~ 173 (201)
T cd02070 157 LKEAGLRDKVKVMVGGA 173 (201)
T ss_pred HHHCCCCcCCeEEEECC
Confidence 88876432334555543
No 298
>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=65.05 E-value=30 Score=34.25 Aligned_cols=79 Identities=8% Similarity=-0.100 Sum_probs=52.6
Q ss_pred EEEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHH
Q 006733 167 NVIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAK 243 (633)
Q Consensus 167 ~v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~ 243 (633)
+|+++.. ++.|.......+++.+++.|+.+....... .+.......++.+...++|.||+.... ......+++++
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~~~~--~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~ 78 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVGPTT--ADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKAR 78 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEECCCC--CCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHH
Confidence 3566664 356767778889999999998876421111 234455677777777889999987533 33466778887
Q ss_pred HcCC
Q 006733 244 HLRM 247 (633)
Q Consensus 244 ~~g~ 247 (633)
+.++
T Consensus 79 ~~~i 82 (298)
T cd06302 79 EAGI 82 (298)
T ss_pred HCCC
Confidence 7664
No 299
>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=64.70 E-value=28 Score=32.96 Aligned_cols=78 Identities=12% Similarity=0.033 Sum_probs=52.6
Q ss_pred EEEEEEec---CCCcchhHHHHHHHHhh--cCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHH
Q 006733 167 NVIALYVD---DDHGRNGIAALGDKLAE--KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNA 241 (633)
Q Consensus 167 ~v~ii~~d---~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~ 241 (633)
+|++|... ..++....+.+++.+++ .++++..... ..+..+....++++...+.+.|++.........+...
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~ 77 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILADS---QSDPERALEALRDLIQQGVDGIIGPPSSSSALAVVEL 77 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEecC---CCCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHHHH
Confidence 46777753 46677777888888888 6777654322 1233456677777777789999988666555556777
Q ss_pred HHHcCC
Q 006733 242 AKHLRM 247 (633)
Q Consensus 242 a~~~g~ 247 (633)
+.+.++
T Consensus 78 ~~~~~i 83 (269)
T cd01391 78 AAAAGI 83 (269)
T ss_pred HHHcCC
Confidence 777654
No 300
>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=64.56 E-value=32 Score=33.22 Aligned_cols=77 Identities=14% Similarity=0.094 Sum_probs=50.2
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|+++.. ++.|.....+.+.+.+++.|..+.....- .+.......++.+...+.+.|++.........+++.+++.
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~ 78 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANSL---NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALASL 78 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeCC---CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhC
Confidence 566664 35677777888889999999887654321 2333455667777777889888865433334566666665
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
+.
T Consensus 79 ~i 80 (269)
T cd06281 79 DL 80 (269)
T ss_pred CC
Confidence 53
No 301
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=64.54 E-value=38 Score=34.23 Aligned_cols=80 Identities=9% Similarity=0.032 Sum_probs=56.8
Q ss_pred CcEEEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChH-HHHHHHHH
Q 006733 165 WRNVIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI-WGLEVLNA 241 (633)
Q Consensus 165 w~~v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~-~~~~il~~ 241 (633)
-.+|+++.. ++.|.....+.+++.+++.|..+..... . .+.......++.+...++|.||+..... .....++.
T Consensus 25 ~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~-~--~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~~ 101 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSA-N--GNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVIKE 101 (330)
T ss_pred CceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECC-C--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHHHH
Confidence 467888774 4678888889999999999998775422 1 2344566778888888999999976433 23456677
Q ss_pred HHHcCC
Q 006733 242 AKHLRM 247 (633)
Q Consensus 242 a~~~g~ 247 (633)
+.+.+.
T Consensus 102 ~~~~~i 107 (330)
T PRK10355 102 AKQEGI 107 (330)
T ss_pred HHHCCC
Confidence 766553
No 302
>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=64.37 E-value=32 Score=33.09 Aligned_cols=77 Identities=10% Similarity=0.059 Sum_probs=51.5
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHHH
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAKH 244 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~~ 244 (633)
|+++..+ +.|.....+.+++.+++.|+.+..... . .+.......++.+...++|.||+.... ......++.+++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~~-~--~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSIA-N--QDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKK 78 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEecC-C--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHH
Confidence 4556544 567777788999999999988764321 1 233445666777777889999986543 334566777777
Q ss_pred cCC
Q 006733 245 LRM 247 (633)
Q Consensus 245 ~g~ 247 (633)
.|+
T Consensus 79 ~~i 81 (267)
T cd06322 79 AGI 81 (267)
T ss_pred CCC
Confidence 664
No 303
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=64.33 E-value=40 Score=33.77 Aligned_cols=81 Identities=9% Similarity=-0.067 Sum_probs=51.4
Q ss_pred CCcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHH
Q 006733 164 GWRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNA 241 (633)
Q Consensus 164 ~w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~ 241 (633)
.-+.|+++..+ +.|.....+.+.+.+++.|..+...... .+.......++.+...+.|.||+..........++.
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~ 136 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACSD---DQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQR 136 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHHH
Confidence 34578888753 4566667788888999999987754321 122333456677777789999886532222345566
Q ss_pred HHHcCC
Q 006733 242 AKHLRM 247 (633)
Q Consensus 242 a~~~g~ 247 (633)
+.+.++
T Consensus 137 l~~~~i 142 (328)
T PRK11303 137 LQNDGL 142 (328)
T ss_pred HHhcCC
Confidence 666553
No 304
>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=64.33 E-value=36 Score=30.33 Aligned_cols=70 Identities=13% Similarity=0.114 Sum_probs=48.4
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.+..- .+++.+.. +...++...+.+|++|+++..... . ...+ .+.|+....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~-~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08415 13 SLLPRAIARFRARHP-DVRISLHT-------LSSSTVVEAVLSGQADLGLASLPL--D-HPGL-ESEPLASGRAVCVLPP 80 (196)
T ss_pred cccHHHHHHHHHHCC-CcEEEEEe-------cchHHHHHHHHcCCccEEEEeCCC--C-CCcc-eeeeecccceEEEEcC
Confidence 456778888887762 24466666 567899999999999999864321 1 2222 3577788888888876
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
..
T Consensus 81 ~~ 82 (196)
T cd08415 81 GH 82 (196)
T ss_pred CC
Confidence 54
No 305
>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=64.32 E-value=35 Score=32.79 Aligned_cols=76 Identities=9% Similarity=-0.110 Sum_probs=51.9
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|+++.. ++.|.....+.+.+.+++.|+.+...... .+.......++.+...+.|.||+....... ..++++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~~~ 77 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNSD---ENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLLKR 77 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeCC---CCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHHhC
Confidence 566665 35677778888999999999987754321 233445567778888889999987543332 347777776
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
|.
T Consensus 78 ~i 79 (265)
T cd06299 78 GI 79 (265)
T ss_pred CC
Confidence 64
No 306
>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=64.13 E-value=69 Score=29.49 Aligned_cols=75 Identities=11% Similarity=0.005 Sum_probs=46.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 232 (633)
..++..++.. -++|+++..|. |=....+.++..++..|+.+....... .........+++.++.+.|+|++...+
T Consensus 19 aKLAa~~~~~-~~~v~lis~D~-~R~ga~eQL~~~a~~l~vp~~~~~~~~--~~~~~~~~~l~~~~~~~~D~vlIDT~G 93 (196)
T PF00448_consen 19 AKLAARLKLK-GKKVALISADT-YRIGAVEQLKTYAEILGVPFYVARTES--DPAEIAREALEKFRKKGYDLVLIDTAG 93 (196)
T ss_dssp HHHHHHHHHT-T--EEEEEEST-SSTHHHHHHHHHHHHHTEEEEESSTTS--CHHHHHHHHHHHHHHTTSSEEEEEE-S
T ss_pred HHHHHHHhhc-cccceeecCCC-CCccHHHHHHHHHHHhccccchhhcch--hhHHHHHHHHHHHhhcCCCEEEEecCC
Confidence 3344444433 67899998664 556778899999999898765422111 112234556777777889999998654
No 307
>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=64.08 E-value=35 Score=34.62 Aligned_cols=86 Identities=8% Similarity=-0.047 Sum_probs=57.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.+.++.++.+++.+|++...+.. ..+.+.+.+++.+..+ ...+..+.+.+.+....+.+++.++|.||-.+.
T Consensus 12 ~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~--~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 88 (337)
T cd08177 12 AALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT--FDGAVMHTPVEVTEAAVAAAREAGADGIVAIGGGS 88 (337)
T ss_pred HHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE--eCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcH
Confidence 45677888899999998885544333 5667777787664432 223333455667778888888889999997654
Q ss_pred hHHHHHHHHHH
Q 006733 232 DIWGLEVLNAA 242 (633)
Q Consensus 232 ~~~~~~il~~a 242 (633)
.-++.+++...
T Consensus 89 ~iD~aK~ia~~ 99 (337)
T cd08177 89 TIDLAKAIALR 99 (337)
T ss_pred HHHHHHHHHHH
Confidence 35666665543
No 308
>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=64.00 E-value=14 Score=36.90 Aligned_cols=101 Identities=8% Similarity=-0.026 Sum_probs=57.3
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++|+|++.. . .+.+.-+..++.+.++++++ .+++++++. +.....+..|.+|++|+++..
T Consensus 29 ~~~l~Ig~~~--~----------~~~~~~~~~~la~~~~~~~~-~i~v~~~~~------~~~~~~~~~l~~G~~D~~~~~ 89 (320)
T TIGR02122 29 PTFVTIGTGG--T----------GGVYYPIGGAIAQLINKKSG-KLRVRVQST------GGSVENVNLLEAGEADLAIVQ 89 (320)
T ss_pred CceEEEEeCC--C----------CCChHHHHHHHHHHHhccCC-CeeEEEEeC------cchHHHHHHHhCCCCcEEEEc
Confidence 4678888863 1 11111233467777777776 144666652 345688999999999999875
Q ss_pred eEeec------------cccceeeeccceeecceEEEEecCCCCcCccccccC
Q 006733 549 FAITT------------ERTKMVDFTQPYIESGLVVVAPIKKLNSNAWAFLNP 589 (633)
Q Consensus 549 ~~~~~------------~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~l~p 589 (633)
..... .+.+.+....+++.....+++++++. ...+..|++
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~lvv~~d~~-i~sl~dL~g 141 (320)
T TIGR02122 90 SDVAYYAYEGDGEFEFEGPVEKLRALASLYPEYIQIVVRKDSG-IKTVADLKG 141 (320)
T ss_pred chhHHHHhcCcCccccCCCCccHHhHHHhccccEEEEEECCCC-CCcHHHcCC
Confidence 32210 11122222234555667788887763 233334443
No 309
>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=63.93 E-value=27 Score=34.41 Aligned_cols=79 Identities=10% Similarity=0.082 Sum_probs=50.6
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAK 243 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~ 243 (633)
||++|..+ +.|.......+.+.+++.|..+..... . ..+.......++.+...++|.||+.... ......++++.
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~~~ 78 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATTD-A-QFDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKKVA 78 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEecC-C-CCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHHHH
Confidence 46766643 345556677888889999988763211 1 1233344566777777789998886433 33456778888
Q ss_pred HcCC
Q 006733 244 HLRM 247 (633)
Q Consensus 244 ~~g~ 247 (633)
+.|.
T Consensus 79 ~~~i 82 (294)
T cd06316 79 EAGI 82 (294)
T ss_pred HcCC
Confidence 7764
No 310
>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=63.78 E-value=1.1e+02 Score=29.37 Aligned_cols=128 Identities=13% Similarity=0.035 Sum_probs=70.4
Q ss_pred eEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHH
Q 006733 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 32 ~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~ 111 (633)
.-+||++.+........-..|+..++++.+. ..+..........+..++.+.+.+++..+..+|+. .+...+.
T Consensus 120 ~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai~~-~~d~~A~ 192 (260)
T cd06304 120 TGKVGFVGGMPIPEVNRFINGFAAGAKSVNP------DITVLVIYTGSFFDPAKGKEAALALIDQGADVIFA-AAGGTGP 192 (260)
T ss_pred CCceEEEeccccHHHHHHHHHHHHHHHHhCC------CcEEEEEEecCccCcHHHHHHHHHHHhCCCCEEEE-cCCCCch
Confidence 3567777543212223335677777765321 22332232223334455666777777766788877 4444454
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEE
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNV 168 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v 168 (633)
.+...+...++-++++... .......|-+-.+..+....+...++.+.+-.|+..
T Consensus 193 gv~~al~~~gv~vigfD~~--~~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~~ 247 (260)
T cd06304 193 GVIQAAKEAGVYAIGVDSD--QSALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKGG 247 (260)
T ss_pred HHHHHHHHcCCEEEeecCc--hhhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCCc
Confidence 5556666677666665442 222223466666666667777777777665556443
No 311
>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=63.45 E-value=92 Score=31.83 Aligned_cols=99 Identities=9% Similarity=-0.085 Sum_probs=62.0
Q ss_pred HHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEe--ecCCCCChhhHHHHHHHhhcCCCe---EEEEe
Q 006733 155 AIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKV--PLSPKGSRNQIIDTLLTVSSMMSR---ILILH 229 (633)
Q Consensus 155 al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~--~~~~~~~~~~~~~~l~~i~~~~~~---vIvl~ 229 (633)
.+.++++.++-+++.++++...+ ....+.+.+.+++.|+.+.... ....+.+.+.+...+..+++.+.| +||..
T Consensus 13 ~l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~IIAv 91 (355)
T cd08197 13 SVLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELLSVPSGEEHKTLSTLSDLVERALALGATRRSVIVAL 91 (355)
T ss_pred HHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEE
Confidence 35566777787899888865543 3356788888988887653221 122223456677888888887777 77766
Q ss_pred eC--hHHHHHHHHHHHHcCCCCCCeEEEEe
Q 006733 230 TY--DIWGLEVLNAAKHLRMMESGYVWIVT 257 (633)
Q Consensus 230 ~~--~~~~~~il~~a~~~g~~~~~~~~i~~ 257 (633)
+. ..++..++......| ..++.|.|
T Consensus 92 GGGsv~D~ak~~A~~~~rg---ip~I~IPT 118 (355)
T cd08197 92 GGGVVGNIAGLLAALLFRG---IRLVHIPT 118 (355)
T ss_pred CCcHHHHHHHHHHHHhccC---CCEEEecC
Confidence 44 356666665544334 34444444
No 312
>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=62.99 E-value=71 Score=29.91 Aligned_cols=75 Identities=11% Similarity=0.099 Sum_probs=51.5
Q ss_pred cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee--ChHHHHHHHHHHH
Q 006733 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT--YDIWGLEVLNAAK 243 (633)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~--~~~~~~~il~~a~ 243 (633)
.++++|....+. .+...+..+..+..+.....-|...+..++...-+++++.++|+|++.| +....+++++++.
T Consensus 126 ~~vGVivP~~eQ----~~~~~~kW~~l~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~~~ 201 (221)
T PF07302_consen 126 HQVGVIVPLPEQ----IAQQAEKWQPLGNPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQRAL 201 (221)
T ss_pred CeEEEEecCHHH----HHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHHHh
Confidence 899999977642 3333344444444444443333325778899999999999999999975 5678888887765
Q ss_pred H
Q 006733 244 H 244 (633)
Q Consensus 244 ~ 244 (633)
.
T Consensus 202 g 202 (221)
T PF07302_consen 202 G 202 (221)
T ss_pred C
Confidence 4
No 313
>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=62.97 E-value=34 Score=32.95 Aligned_cols=78 Identities=14% Similarity=-0.054 Sum_probs=49.5
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|+++..+ +.|.....+.+++.+++.|..+....... .........++.+...+.|.||+..........++.+.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 79 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPCDS--GSPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEA 79 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeCCC--CchHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhc
Confidence 5666643 56888888999999999998876543221 1222345555667677889888864332234556666665
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
++
T Consensus 80 ~i 81 (270)
T cd01545 80 GV 81 (270)
T ss_pred CC
Confidence 53
No 314
>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=62.88 E-value=49 Score=33.44 Aligned_cols=85 Identities=8% Similarity=0.033 Sum_probs=55.0
Q ss_pred HHHHHHHHHcCC-cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEe-ecCCCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 154 AAIADIVDYFGW-RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKV-PLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 154 ~al~~ll~~~~w-~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
..+.++++.++. +++.+|++...+.. ..+.+.+.+++.|+.+.... ....+.+...+...+..+++ +.|+||..+.
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~-~~~~i~~~L~~~~~~~~i~~~~~~~~p~~~~v~~~~~~~~~-~~d~IIaiGG 89 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKV-AGKEIIERLESNNFTKEVLERDSLLIPDEYELGEVLIKLDK-DTEFLLGIGS 89 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHH-HHHHHHHHHHHcCCeEEEEecCCCCCCCHHHHHHHHHHhhc-CCCEEEEECC
Confidence 345667777775 78888876544332 34778888988887654321 22223455667777778877 8999987754
Q ss_pred --hHHHHHHHH
Q 006733 232 --DIWGLEVLN 240 (633)
Q Consensus 232 --~~~~~~il~ 240 (633)
..++..++.
T Consensus 90 Gsv~D~aK~iA 100 (332)
T cd08549 90 GTIIDLVKFVS 100 (332)
T ss_pred cHHHHHHHHHH
Confidence 356666665
No 315
>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=62.78 E-value=1.7e+02 Score=29.11 Aligned_cols=39 Identities=18% Similarity=0.043 Sum_probs=22.4
Q ss_pred CchhhhHHHHHhhhhhh-ccccccCCCCCCCCeEEEEEEeec
Q 006733 1 MTKIYLLALVVVYNFCF-SAGISMNGVSTIPPVLNIGAVFAL 41 (633)
Q Consensus 1 Mk~~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~i~IG~l~p~ 41 (633)
|||+.++++++++.+.+ +++ |+.. ....+.++||...+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~-~~~~-~~~~~~l~Ig~~~~~ 40 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAA-CAGD-GGEPTFVTIGTGGTG 40 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHh-hccC-CCCCceEEEEeCCCC
Confidence 88876655544433332 344 5432 345668999987654
No 316
>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=62.58 E-value=38 Score=32.79 Aligned_cols=80 Identities=11% Similarity=-0.006 Sum_probs=51.4
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhhc---CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAEK---RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLN 240 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~~---g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~ 240 (633)
||+++..+ +.|-....+.+++.+++. |..+.... +....+.......++++...++|.||+.... ......++
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i-~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~ 79 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIV-TSADGDVAQQIADIRNLIAQGVDAIIINPASPTALNPVIE 79 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEE-ecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHHHH
Confidence 46676643 456667778888888888 87432222 1211244556677888888899999997544 33445677
Q ss_pred HHHHcCC
Q 006733 241 AAKHLRM 247 (633)
Q Consensus 241 ~a~~~g~ 247 (633)
.+++.|.
T Consensus 80 ~~~~~~i 86 (272)
T cd06300 80 EACEAGI 86 (272)
T ss_pred HHHHCCC
Confidence 7777664
No 317
>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=62.39 E-value=31 Score=33.80 Aligned_cols=77 Identities=9% Similarity=0.069 Sum_probs=52.4
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAK 243 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~ 243 (633)
+|++|..+ +.|.....+.+.+.+++.|..+.... .. +.......++.+...++|.||+.... .....+++++.
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~ 76 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKID---VP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKAK 76 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEcc---CC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHHH
Confidence 36666653 45667778888999999998876432 11 33344566777777889999987543 34566788888
Q ss_pred HcCC
Q 006733 244 HLRM 247 (633)
Q Consensus 244 ~~g~ 247 (633)
+.|.
T Consensus 77 ~~~i 80 (289)
T cd01540 77 AYNM 80 (289)
T ss_pred hCCC
Confidence 8664
No 318
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=62.37 E-value=40 Score=33.24 Aligned_cols=80 Identities=6% Similarity=-0.031 Sum_probs=54.2
Q ss_pred CcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHH
Q 006733 165 WRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNA 241 (633)
Q Consensus 165 w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~ 241 (633)
-+.++++..+ +.|.......+++.+++.|+.+...... .+.......++.+...+++.|++.... ......++.
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~~---~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~ 102 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDSQ---NNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKM 102 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecCC---CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHH
Confidence 5688888853 5566777888999999999987653221 233445566777777789988876543 333456777
Q ss_pred HHHcCC
Q 006733 242 AKHLRM 247 (633)
Q Consensus 242 a~~~g~ 247 (633)
+++.|.
T Consensus 103 ~~~~~i 108 (295)
T PRK10653 103 ANQANI 108 (295)
T ss_pred HHHCCC
Confidence 777654
No 319
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=61.91 E-value=1.1e+02 Score=30.87 Aligned_cols=124 Identities=10% Similarity=0.020 Sum_probs=66.9
Q ss_pred CCeEEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCCChHHHHHHHHHHHhc----CceEEEc
Q 006733 30 PPVLNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHD-TNYSRFLGMVEALTLLEN----ETVAIIG 103 (633)
Q Consensus 30 ~~~i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D-~~~~~~~a~~~~~~li~~----~v~aviG 103 (633)
.+.++++++.... ......-..|++.++++. |.++.....+ ...+...+.+.+.+++.+ .+.+|+.
T Consensus 160 ~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~--------g~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~ 231 (330)
T PRK15395 160 DGKIQYVLLKGEPGHPDAEARTTYVIKELNDK--------GIKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIA 231 (330)
T ss_pred CCceEEEEEecCCCCchHHHHHHHHHHHHHhc--------CCCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEE
Confidence 3567777664432 222334467777777653 2222222222 233555667777787764 4789887
Q ss_pred CCchhhHHHHHHhhccC---CccEEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHH
Q 006733 104 PQFSVIAHLVSHIANEF---QVPLLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDY 162 (633)
Q Consensus 104 ~~~s~~~~~va~~~~~~---~iP~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~ 162 (633)
. ++..+..+...+.+. .+|++++......... ..-+.+..+..+...++...++++.+
T Consensus 232 ~-~d~~A~gvl~al~~~Gl~~vpVvg~D~~~~~~~~~~~g~~~ttv~~~~~~~G~~a~~~l~~ 293 (330)
T PRK15395 232 N-NDAMAMGAVEALKAHNKSSIPVFGVDALPEALALVKSGAMAGTVLNDANNQAKATFDLAKN 293 (330)
T ss_pred C-CchHHHHHHHHHHhcCCCCCeEEeeCCCHHHHHHHHhCCceEEEecCHHHHHHHHHHHHHH
Confidence 4 334444455555555 4587876443222111 11134555666677788877777544
No 320
>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=61.56 E-value=40 Score=33.45 Aligned_cols=78 Identities=14% Similarity=0.064 Sum_probs=51.9
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhh--cCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee-ChHHHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAE--KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT-YDIWGLEVLNA 241 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~-~~~~~~~il~~ 241 (633)
||++|..+ +.|.....+.+.+.+++ .|+.+..... ..+.......++++...++|.||+.. ........+++
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~~---~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~ 77 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYDA---KNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVINK 77 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHHHH
Confidence 46777653 45666677788888888 7777664321 12334455677788888999988864 33445677788
Q ss_pred HHHcCC
Q 006733 242 AKHLRM 247 (633)
Q Consensus 242 a~~~g~ 247 (633)
+.+.|+
T Consensus 78 ~~~~gi 83 (303)
T cd01539 78 AKQKNI 83 (303)
T ss_pred HHHCCC
Confidence 877665
No 321
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=61.39 E-value=48 Score=33.43 Aligned_cols=80 Identities=9% Similarity=-0.073 Sum_probs=53.4
Q ss_pred CcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHH
Q 006733 165 WRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAA 242 (633)
Q Consensus 165 w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a 242 (633)
-+.++++..+ +.|.......+.+.+++.|..+..... . .+.......++.+...+.|.||+..........++.+
T Consensus 64 ~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~~-~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 140 (342)
T PRK10014 64 SGVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQG-G--KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMA 140 (342)
T ss_pred CCEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEeC-C--CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHH
Confidence 3578888854 567677778888999999987654321 1 2334456777778788899999875433334566666
Q ss_pred HHcCC
Q 006733 243 KHLRM 247 (633)
Q Consensus 243 ~~~g~ 247 (633)
.+.+.
T Consensus 141 ~~~~i 145 (342)
T PRK10014 141 EEKGI 145 (342)
T ss_pred hhcCC
Confidence 66554
No 322
>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=61.19 E-value=1.1e+02 Score=26.44 Aligned_cols=68 Identities=13% Similarity=0.016 Sum_probs=47.0
Q ss_pred hhHHHHHHHHhhcCcEEEEEeecC--CCCChhhH---HHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 180 NGIAALGDKLAEKRCRLSHKVPLS--PKGSRNQI---IDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 180 ~~~~~~~~~~~~~g~~v~~~~~~~--~~~~~~~~---~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
.....+.+.++..|+.+....... ...+..|. .+.++.+...+.+.|++.+...+....++.+++.|.
T Consensus 52 ~~~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 52 ERQRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVLVSGDSDFVPLVERLRELGK 124 (149)
T ss_pred hhHHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEEEECCccHHHHHHHHHHcCC
Confidence 356778899999999887654321 11122333 344444445578999999999999999999999763
No 323
>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=60.72 E-value=46 Score=32.09 Aligned_cols=76 Identities=11% Similarity=-0.067 Sum_probs=50.1
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
+++|.. ++.|.....+.+++.+++.|..+...... .+.......++.+...++|.||+........ .++++.+.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~-~~~~~~~~ 77 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAGH---HSAEKEREAIEFLLERRCDALILHSKALSDD-ELIELAAQ 77 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeCC---CchHHHHHHHHHHHHcCCCEEEEecCCCCHH-HHHHHhhC
Confidence 455554 36677788889999999999987754321 2333445677777778999999876432222 26677766
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
|.
T Consensus 78 ~i 79 (268)
T cd06270 78 VP 79 (268)
T ss_pred CC
Confidence 54
No 324
>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=60.47 E-value=38 Score=32.73 Aligned_cols=77 Identities=12% Similarity=-0.040 Sum_probs=51.2
Q ss_pred EEEEEe---cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHH
Q 006733 168 VIALYV---DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAK 243 (633)
Q Consensus 168 v~ii~~---d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~ 243 (633)
|++|.. ++.|.....+.+.+.+++.|+.+..... ..+.+.....++.+...++|.|++.... ......++.++
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~ 78 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLDA---NGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAK 78 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEcC---CcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHH
Confidence 556664 3467777788888899999988765422 1234445566777777789999887543 33355677777
Q ss_pred HcCC
Q 006733 244 HLRM 247 (633)
Q Consensus 244 ~~g~ 247 (633)
+.+.
T Consensus 79 ~~~i 82 (275)
T cd06317 79 QAGI 82 (275)
T ss_pred HCCC
Confidence 7664
No 325
>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=60.37 E-value=36 Score=32.93 Aligned_cols=78 Identities=10% Similarity=0.015 Sum_probs=50.4
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChH-HHHHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI-WGLEVLNAAK 243 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~-~~~~il~~a~ 243 (633)
++++|..+ +.|.....+.+.+.+++.|+.+..... ..+.......++++...++|.||+..... .....++.+.
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~~ 77 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKALGYDAVELSA---ENSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLAA 77 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhcCCeEEEecC---CCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHHH
Confidence 35666643 567677778888889899988764321 12333345667777778899998765433 3345677777
Q ss_pred HcCC
Q 006733 244 HLRM 247 (633)
Q Consensus 244 ~~g~ 247 (633)
+.+.
T Consensus 78 ~~~i 81 (277)
T cd06319 78 QAKI 81 (277)
T ss_pred HCCC
Confidence 7654
No 326
>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=60.28 E-value=37 Score=35.00 Aligned_cols=79 Identities=8% Similarity=-0.026 Sum_probs=55.0
Q ss_pred cCCcEEEEEEecCCCc-chhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--hHHHHHHH
Q 006733 163 FGWRNVIALYVDDDHG-RNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY--DIWGLEVL 239 (633)
Q Consensus 163 ~~w~~v~ii~~d~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~--~~~~~~il 239 (633)
++.+|+.+|++...+- ....+.+.+.+++.|+.+.....+.++.+.+.+...++.+++.++|.||-.+. .-++.+.+
T Consensus 21 ~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK~i 100 (375)
T cd08179 21 LKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIALGGGSPIDAAKAM 100 (375)
T ss_pred hcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHHH
Confidence 3458888887543322 24557788889888988764444555566777888888999999999998754 45666555
Q ss_pred HH
Q 006733 240 NA 241 (633)
Q Consensus 240 ~~ 241 (633)
..
T Consensus 101 a~ 102 (375)
T cd08179 101 WI 102 (375)
T ss_pred HH
Confidence 43
No 327
>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=59.96 E-value=35 Score=30.84 Aligned_cols=70 Identities=9% Similarity=0.037 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++.++.++.- ++++++.. ++...+...|.+|++|+++.... .. ...++ +.++....+.+++++
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~l~~~l~~g~~D~~~~~~~--~~-~~~~~-~~~l~~~~~~lv~~~ 81 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTH-------MTKDEQVEGLLAGTIHVGFSRFF--PR-HPGIE-IVNIAQEDLYLAVHR 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEE-------CCHHHHHHHHHcCCceEEEecCC--CC-CCceE-EEEEeeccEEEEecC
Confidence 445677788777761 25566666 67899999999999999985321 11 12222 456777788888876
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 82 ~h 83 (198)
T cd08486 82 SQ 83 (198)
T ss_pred CC
Confidence 54
No 328
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=59.90 E-value=46 Score=32.74 Aligned_cols=83 Identities=12% Similarity=0.164 Sum_probs=56.3
Q ss_pred ceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeee
Q 006733 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (633)
Q Consensus 470 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~ 549 (633)
++++||+.. .. ...+-.+++..+.++.. .+++++.. .....++..+.+|++|+++...
T Consensus 91 ~~i~I~~~~--~~------------~~~~l~~~l~~~~~~~p-~~~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (296)
T PRK11242 91 GSLRLAMTP--TF------------TAYLIGPLIDAFHARYP-GITLTIRE-------MSQERIEALLADDELDVGIAFA 148 (296)
T ss_pred eEEEEEecc--ch------------hhhhhHHHHHHHHHHCC-CCEEEEEe-------CCHHHHHHHHHCCCCcEEEEec
Confidence 578998863 11 22455677888888752 35566665 5678899999999999998532
Q ss_pred EeeccccceeeeccceeecceEEEEecCC
Q 006733 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 550 ~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
. .+.+.+ .+.++....+.++++++.
T Consensus 149 ~---~~~~~l-~~~~l~~~~~~~~~~~~~ 173 (296)
T PRK11242 149 P---VHSPEI-EAQPLFTETLALVVGRHH 173 (296)
T ss_pred C---CCCcce-eEEEeeeccEEEEEcCCC
Confidence 2 222222 347788888888887764
No 329
>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=59.64 E-value=41 Score=32.54 Aligned_cols=80 Identities=8% Similarity=0.039 Sum_probs=50.9
Q ss_pred EEEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHH
Q 006733 167 NVIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAK 243 (633)
Q Consensus 167 ~v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~ 243 (633)
++++|.. ++.|.....+.+.+.+++.|+.+.....-. ..+.......++.+...++|.||+.... ......++.+.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~ 79 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAAPS-EGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVERAK 79 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEccCC-CCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHHH
Confidence 4667664 355666777888899999998876542211 1123334566777777789998876432 33345667777
Q ss_pred HcCC
Q 006733 244 HLRM 247 (633)
Q Consensus 244 ~~g~ 247 (633)
+.+.
T Consensus 80 ~~~i 83 (275)
T cd06320 80 KKGI 83 (275)
T ss_pred HCCC
Confidence 7654
No 330
>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=59.18 E-value=57 Score=28.93 Aligned_cols=70 Identities=20% Similarity=0.138 Sum_probs=47.6
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.. .+++++.. ++...+...+.+|++|+++... +.....+ ...+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 80 (193)
T cd08442 13 VRLPPLLAAYHARYP-KVDLSLST-------GTTGALIQAVLEGRLDGAFVAG---PVEHPRL-EQEPVFQEELVLVSPK 80 (193)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEEeC---CCCCCCc-EEEEeecCcEEEEecC
Confidence 445678888887762 14466665 5678999999999999997532 2222222 2466777788888876
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 81 ~~ 82 (193)
T cd08442 81 GH 82 (193)
T ss_pred CC
Confidence 65
No 331
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=59.13 E-value=1.2e+02 Score=26.12 Aligned_cols=86 Identities=8% Similarity=0.029 Sum_probs=55.0
Q ss_pred cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC----hHHHHHHHHH
Q 006733 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY----DIWGLEVLNA 241 (633)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~----~~~~~~il~~ 241 (633)
.+|.+.....+.-.-....+...++.+|+++.+--. .....+.+..+.+.++++|.+.+. ...+..++++
T Consensus 4 ~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~------~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~~ 77 (137)
T PRK02261 4 KTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGV------MTSQEEFIDAAIETDADAILVSSLYGHGEIDCRGLREK 77 (137)
T ss_pred CEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCC------CCCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHHH
Confidence 345444433333344556777888999999875432 223456677777788999998753 3677888888
Q ss_pred HHHcCCCCCCeEEEEeC
Q 006733 242 AKHLRMMESGYVWIVTD 258 (633)
Q Consensus 242 a~~~g~~~~~~~~i~~~ 258 (633)
+++.+... -.+|++..
T Consensus 78 L~~~~~~~-~~i~vGG~ 93 (137)
T PRK02261 78 CIEAGLGD-ILLYVGGN 93 (137)
T ss_pred HHhcCCCC-CeEEEECC
Confidence 88877643 24455543
No 332
>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=58.96 E-value=45 Score=31.89 Aligned_cols=75 Identities=16% Similarity=0.026 Sum_probs=49.0
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|+++..+ +.|.....+.+++.+++.|.++..... . .+.......++++...++|.||+...... ..+++.+.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~--~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~~~ 77 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQMLLMNT-N--FSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIKKL 77 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCEEEEEeC-C--CCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHhcC
Confidence 5566643 456567788888999999988765322 1 23444567777888889999998754322 3455666655
Q ss_pred C
Q 006733 246 R 246 (633)
Q Consensus 246 g 246 (633)
+
T Consensus 78 ~ 78 (259)
T cd01542 78 N 78 (259)
T ss_pred C
Confidence 5
No 333
>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=58.34 E-value=67 Score=32.12 Aligned_cols=81 Identities=10% Similarity=-0.071 Sum_probs=52.2
Q ss_pred CCcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHH
Q 006733 164 GWRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNA 241 (633)
Q Consensus 164 ~w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~ 241 (633)
.-+.++++..+ +.|.......+.+.+++.|..+...... .+.......+..+...+.|.||+..........++.
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~ 135 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACSD---DNPDQEKVVIENLLARQVDALIVASCMPPEDAYYQK 135 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHHH
Confidence 34678888753 5566677888989999999987654321 123334566777777889998886533212345566
Q ss_pred HHHcCC
Q 006733 242 AKHLRM 247 (633)
Q Consensus 242 a~~~g~ 247 (633)
+.+.+.
T Consensus 136 l~~~~i 141 (327)
T TIGR02417 136 LQNEGL 141 (327)
T ss_pred HHhcCC
Confidence 666553
No 334
>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=58.32 E-value=55 Score=31.66 Aligned_cols=78 Identities=13% Similarity=-0.051 Sum_probs=48.2
Q ss_pred CCcEEEEEEec---------CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHH
Q 006733 164 GWRNVIALYVD---------DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIW 234 (633)
Q Consensus 164 ~w~~v~ii~~d---------~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~ 234 (633)
..+.|++|..+ +.|.....+.+++.+++.|+.+..... . .. +.....+.+...++|.||+......
T Consensus 2 ~s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~~-~--~~--~~~~~~~~l~~~~~dgiii~~~~~~ 76 (275)
T cd06295 2 RTDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSFV-S--SP--DRDWLARYLASGRADGVILIGQHDQ 76 (275)
T ss_pred CceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEeC-C--ch--hHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 35678888853 335556677788889999988765421 1 11 2334445555678999888643322
Q ss_pred HHHHHHHHHHcCC
Q 006733 235 GLEVLNAAKHLRM 247 (633)
Q Consensus 235 ~~~il~~a~~~g~ 247 (633)
...++.+.+.|.
T Consensus 77 -~~~~~~~~~~~i 88 (275)
T cd06295 77 -DPLPERLAETGL 88 (275)
T ss_pred -hHHHHHHHhCCC
Confidence 244677777664
No 335
>PRK09701 D-allose transporter subunit; Provisional
Probab=58.28 E-value=56 Score=32.58 Aligned_cols=84 Identities=6% Similarity=-0.015 Sum_probs=56.3
Q ss_pred cCCcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHH
Q 006733 163 FGWRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVL 239 (633)
Q Consensus 163 ~~w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il 239 (633)
+.-.+++++..+ +.|.....+.+.+.+++.|+.+..... +...+.......++++...++|.||+.... ......+
T Consensus 22 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l 100 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVMPV 100 (311)
T ss_pred ccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHH
Confidence 456799999864 567777788899999999988764321 111233345566777877889999987543 3333446
Q ss_pred HHHHHcCC
Q 006733 240 NAAKHLRM 247 (633)
Q Consensus 240 ~~a~~~g~ 247 (633)
.++.+.|+
T Consensus 101 ~~~~~~gi 108 (311)
T PRK09701 101 ARAWKKGI 108 (311)
T ss_pred HHHHHCCC
Confidence 66677664
No 336
>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=57.82 E-value=1.5e+02 Score=28.70 Aligned_cols=120 Identities=15% Similarity=0.034 Sum_probs=65.1
Q ss_pred EEEEEEeecC-CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CceEEEcCCchhh
Q 006733 33 LNIGAVFALN-STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN--ETVAIIGPQFSVI 109 (633)
Q Consensus 33 i~IG~l~p~~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~--~v~aviG~~~s~~ 109 (633)
=+||.+.... ......-..|++-|+++.+ + +..+.......+...+.+.+.+++.+ ++.+|+.. +...
T Consensus 119 ~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g----~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~ 189 (269)
T cd06287 119 RQIALIVGSARRNSYLEAEAAYRAFAAEHG----M----PPVVLRVDEAGGEEAGYAACAQLLAQHPDLDALCVP-VDAF 189 (269)
T ss_pred CcEEEEeCCcccccHHHHHHHHHHHHHHcC----C----CcceeEecCCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHH
Confidence 3677775332 2223344567777776521 1 11122222233445556667777765 57888874 4555
Q ss_pred HHHHHHhhccCCc--cE-Eeecc-CCCCCccCCCCceEEecCChHHHHHHHHHHHH
Q 006733 110 AHLVSHIANEFQV--PL-LSFAA-TDPSLSSLQYPFFVRTTQSDLYQMAAIADIVD 161 (633)
Q Consensus 110 ~~~va~~~~~~~i--P~-Is~~a-~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~ 161 (633)
+..+...+.+.++ |- |+..+ .+...+.-..|.+-.+..+...+++..++++.
T Consensus 190 A~gvl~al~~~gl~vP~dvsvig~~d~~~~~~~~p~ltti~~~~~~~g~~A~~~l~ 245 (269)
T cd06287 190 AVGAVRAATELGRAVPDQLRVVTRYDGLRARTSEPPLTAVDLHLDEVAEQAVDLLF 245 (269)
T ss_pred HHHHHHHHHHcCCCCCCceEEEeccCchhhccCCCCcccccCCHHHHHHHHHHHHH
Confidence 5566666666654 42 33333 33333333346666677777888888887653
No 337
>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=57.79 E-value=1.1e+02 Score=28.49 Aligned_cols=85 Identities=14% Similarity=-0.008 Sum_probs=56.7
Q ss_pred cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC----hHHHHHHHHH
Q 006733 166 RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY----DIWGLEVLNA 241 (633)
Q Consensus 166 ~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~----~~~~~~il~~ 241 (633)
.++.+.....+.-.-+..-+...++.+|+++.+-. . .......+..+.+.++++|.+.+. ...+..++++
T Consensus 89 ~~vvl~t~~gd~HdiG~~iv~~~l~~~G~~Vi~LG---~---~vp~e~~v~~~~~~~~~~V~lS~~~~~~~~~~~~~i~~ 162 (213)
T cd02069 89 GKIVLATVKGDVHDIGKNLVGVILSNNGYEVIDLG---V---MVPIEKILEAAKEHKADIIGLSGLLVPSLDEMVEVAEE 162 (213)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCCEEEECC---C---CCCHHHHHHHHHHcCCCEEEEccchhccHHHHHHHHHH
Confidence 46655555555555566778888999999987532 1 223456666777778999998754 3677778888
Q ss_pred HHHcCCCCCCeEEEEeC
Q 006733 242 AKHLRMMESGYVWIVTD 258 (633)
Q Consensus 242 a~~~g~~~~~~~~i~~~ 258 (633)
+++.+. .-.+|++..
T Consensus 163 L~~~~~--~~~i~vGG~ 177 (213)
T cd02069 163 MNRRGI--KIPLLIGGA 177 (213)
T ss_pred HHhcCC--CCeEEEECh
Confidence 888765 334566654
No 338
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=57.73 E-value=63 Score=30.94 Aligned_cols=98 Identities=11% Similarity=-0.047 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEe--ecCCCCChhhHHHHHHHhhcCCCeEEEE
Q 006733 151 YQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKV--PLSPKGSRNQIIDTLLTVSSMMSRILIL 228 (633)
Q Consensus 151 ~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~--~~~~~~~~~~~~~~l~~i~~~~~~vIvl 228 (633)
+...++.+.+..- -++|.++....+-.....+.+++... +..|+... .+. ..++ ..++++|.++++|++++
T Consensus 95 Dl~~~Ll~~a~~~-~~~vfllGgkp~V~~~a~~~l~~~~p--~l~ivg~h~GYf~---~~e~-~~i~~~I~~s~pdil~V 167 (253)
T COG1922 95 DLVEALLKRAAEE-GKRVFLLGGKPGVAEQAAAKLRAKYP--GLKIVGSHDGYFD---PEEE-EAIVERIAASGPDILLV 167 (253)
T ss_pred HHHHHHHHHhCcc-CceEEEecCCHHHHHHHHHHHHHHCC--CceEEEecCCCCC---hhhH-HHHHHHHHhcCCCEEEE
Confidence 3455666665444 34777776554433233333333322 34555443 333 2333 68999999999999999
Q ss_pred eeChHHHHHHH-HHHHHcCCCCCCeEEEEeCc
Q 006733 229 HTYDIWGLEVL-NAAKHLRMMESGYVWIVTDW 259 (633)
Q Consensus 229 ~~~~~~~~~il-~~a~~~g~~~~~~~~i~~~~ 259 (633)
....+.-..++ +.-.... .-++|+.++
T Consensus 168 gmG~P~QE~wi~~~~~~~~----~~v~igVGg 195 (253)
T COG1922 168 GMGVPRQEIWIARNRQQLP----VAVAIGVGG 195 (253)
T ss_pred eCCCchhHHHHHHhHHhcC----CceEEeccc
Confidence 86554444444 4433332 335777654
No 339
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=57.66 E-value=7.1 Score=37.68 Aligned_cols=87 Identities=18% Similarity=0.177 Sum_probs=52.9
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
..+||||....+.+.|+ .+-.-+.+.++.|++ +++... .++..++..+.+|++|++..
T Consensus 5 ~~~l~ig~~~~~~~~p~-------------~~a~~~g~f~~~G~~--ve~~~~------~~g~~~~~al~~G~iD~a~~- 62 (252)
T PF13379_consen 5 PTTLRIGYLPGPDYAPL-------------YVAQEKGLFEKEGLD--VEWVQF------ASGADILEALAAGEIDIAFV- 62 (252)
T ss_dssp ESEEEEEETSSGGGHHH-------------HHHHHTTHHHHTTSC--EEEEEE------SSHHHHHHHHHCTSSSEEEE-
T ss_pred CcEEEEEeecchHHHHH-------------HHHHHcChHHHcCCE--EEEEEc------CCHHHHHHHHHcCCCCEEEe-
Confidence 46799998743222222 111224466777966 555543 57999999999999999976
Q ss_pred eE---eeccccc-----eeeeccceeecceEEEEecC
Q 006733 549 FA---ITTERTK-----MVDFTQPYIESGLVVVAPIK 577 (633)
Q Consensus 549 ~~---~~~~r~~-----~~~fs~p~~~~~~~~lv~~~ 577 (633)
.. .-..+-. .+.........+..++++.+
T Consensus 63 ~~~~~~~~~~g~~~~~~~~~~~~~~~~~g~~lvv~~~ 99 (252)
T PF13379_consen 63 LAPALIAIAKGAGGPDVDIVVLAGLSQNGNALVVRND 99 (252)
T ss_dssp CTHHHHHHHTTTTT----EEEEEECSBSSEEEEECGG
T ss_pred chHHHHHHHcCCCCcccceEEeeccCCCceEEEEcCc
Confidence 32 1122222 23333345567788899875
No 340
>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=57.60 E-value=50 Score=29.26 Aligned_cols=70 Identities=17% Similarity=0.232 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.. ++++++.. .+...+...+.+|++|+++.... .....+. +.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd08440 13 TLLPPVLAAFRRRHP-GIRVRLRD-------VSAEQVIEAVRSGEVDFGIGSEP---EADPDLE-FEPLLRDPFVLVCPK 80 (197)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEEe-------CChHHHHHHHHcCCccEEEEeCC---CCCCCee-EEEeecccEEEEecC
Confidence 455678888887763 24566665 56789999999999999986432 2222232 367777888888876
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 81 ~~ 82 (197)
T cd08440 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 341
>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=57.42 E-value=43 Score=32.36 Aligned_cols=77 Identities=6% Similarity=-0.038 Sum_probs=49.6
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhh--cCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHH
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAE--KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAA 242 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a 242 (633)
|+++..+ +.|.......+.+.+++ .|.++..... ..+.......++.+...++|.||+.... ......++.+
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~---~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~~~ 78 (271)
T cd06321 2 IGVSVGDLGNPFFVALAKGAEAAAKKLNPGVKVTVVSA---DYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVKRA 78 (271)
T ss_pred eEEEecccCCHHHHHHHHHHHHHHHHhCCCeEEEEccC---CCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHHHH
Confidence 5666653 56777788889999999 6666543321 1233344566777777889998886543 3345667777
Q ss_pred HHcCC
Q 006733 243 KHLRM 247 (633)
Q Consensus 243 ~~~g~ 247 (633)
.+.+.
T Consensus 79 ~~~~i 83 (271)
T cd06321 79 QAAGI 83 (271)
T ss_pred HHCCC
Confidence 77553
No 342
>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=57.28 E-value=1e+02 Score=31.18 Aligned_cols=82 Identities=7% Similarity=-0.028 Sum_probs=55.0
Q ss_pred HHHHHHHH-cCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 155 AIADIVDY-FGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 155 al~~ll~~-~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
.+.++++. .+.+++.+|++...+ ....+.+++.+++.| .+... +..+.+.+.+...++.+++.++|+||..+.
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~~-~~~~~~v~~~l~~~~-~~~~~--~~~~~~~~~v~~~~~~~~~~~~d~iIaiGGGs 89 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTTK-SIAGKKVEALLEDEG-EVDVV--IVEDATYEEVEKVESSARDIGADFVIGVGGGR 89 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCchH-HHHHHHHHHHHHhcC-CeEEE--EeCCCCHHHHHHHHHHhhhcCCCEEEEeCCch
Confidence 35566663 567899888854433 356677888888887 54332 223356677888888888889999997654
Q ss_pred hHHHHHHHH
Q 006733 232 DIWGLEVLN 240 (633)
Q Consensus 232 ~~~~~~il~ 240 (633)
..++..++.
T Consensus 90 ~~D~aK~~a 98 (339)
T cd08173 90 VIDVAKVAA 98 (339)
T ss_pred HHHHHHHHH
Confidence 356666664
No 343
>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=57.13 E-value=93 Score=26.51 Aligned_cols=62 Identities=5% Similarity=-0.030 Sum_probs=45.2
Q ss_pred hhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh----HHHHHHHHHHHHcCC
Q 006733 180 NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD----IWGLEVLNAAKHLRM 247 (633)
Q Consensus 180 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~----~~~~~il~~a~~~g~ 247 (633)
-..+-+...++..|++|.....+ ......++..++.++++|++++.. +....+++++++.|.
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 44566777888999998865433 234567777888899999998644 566777778888775
No 344
>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=57.04 E-value=1.1e+02 Score=31.29 Aligned_cols=85 Identities=12% Similarity=0.002 Sum_probs=54.8
Q ss_pred HHHHHHHHHcCC--cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC---CCeEEEE
Q 006733 154 AAIADIVDYFGW--RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILIL 228 (633)
Q Consensus 154 ~al~~ll~~~~w--~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl 228 (633)
..+.++++.++. +++.+++ +...- ...+.+.+++.|+.+.....+..+.+.++.....+..++. ++|.||-
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvt-d~~~~---~~~v~~~L~~~g~~~~~f~~v~~nPt~~~v~~~~~~~~~~~~~~~D~IIa 87 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFV-DDVFQ---GKDLISRLPVESEDMIIWVDATEEPKTDQIDALTAQVKSFDGKLPCAIVG 87 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEE-Ccchh---hhHHHHHHHhcCCcEEEEcCCCCCcCHHHHHHHHHHHHhhCCCCCCEEEE
Confidence 446667777763 5566666 32221 1567777888888765444565566777788888888776 8999997
Q ss_pred eeC--hHHHHHHHHHH
Q 006733 229 HTY--DIWGLEVLNAA 242 (633)
Q Consensus 229 ~~~--~~~~~~il~~a 242 (633)
.+. .-++.+.+...
T Consensus 88 iGGGS~iD~AKaia~~ 103 (347)
T cd08184 88 IGGGSTLDVAKAVSNM 103 (347)
T ss_pred eCCcHHHHHHHHHHHH
Confidence 654 45666555443
No 345
>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=56.63 E-value=1.1e+02 Score=31.11 Aligned_cols=92 Identities=2% Similarity=-0.166 Sum_probs=56.6
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhh-cCcEEEEEeecCCCCChhhHHHHHHHhhcC---CCeEEEEe
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAE-KRCRLSHKVPLSPKGSRNQIIDTLLTVSSM---MSRILILH 229 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vIvl~ 229 (633)
..+.++++.++-+++.++++...+. ...+.+.+.++. .++.+........+.+.+.+...+..+++. +.|.||..
T Consensus 12 ~~l~~~~~~~~~~k~livtd~~v~~-~~~~~v~~~L~~~~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~~r~d~IIai 90 (344)
T cd08169 12 ESVESYTTRDLFDQYFFISDSGVAD-LIAHYIAEYLSKILPVHILVIEGGEEYKTFETVTRILERAIALGANRRTAIVAV 90 (344)
T ss_pred HHHHHHHHhcCCCeEEEEECccHHH-HHHHHHHHHHHhhcCceEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEE
Confidence 3355667777778998887544332 466778888876 566544322222234555677777777654 48888876
Q ss_pred eCh--HHHHHHHHHHHHcC
Q 006733 230 TYD--IWGLEVLNAAKHLR 246 (633)
Q Consensus 230 ~~~--~~~~~il~~a~~~g 246 (633)
+.+ .++..++......|
T Consensus 91 GGGsv~D~ak~vA~~~~rg 109 (344)
T cd08169 91 GGGATGDVAGFVASTLFRG 109 (344)
T ss_pred CCcHHHHHHHHHHHHhccC
Confidence 543 56666666554444
No 346
>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=56.59 E-value=43 Score=32.49 Aligned_cols=70 Identities=7% Similarity=-0.120 Sum_probs=48.6
Q ss_pred CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-hHHHHHHHHHHHHcCC
Q 006733 175 DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-DIWGLEVLNAAKHLRM 247 (633)
Q Consensus 175 ~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-~~~~~~il~~a~~~g~ 247 (633)
+.|.....+.+.+.+++.|..+.....- .+.......++.+...++|.||+... .......++++.+.++
T Consensus 11 ~~f~~~~~~gi~~~~~~~G~~~~~~~~~---~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~i 81 (272)
T cd06313 11 ATWCAQGKQAADEAGKLLGVDVTWYGGA---LDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGI 81 (272)
T ss_pred ChHHHHHHHHHHHHHHHcCCEEEEecCC---CCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCC
Confidence 4566667788888898999988754321 23445567777788888999999653 3445667788777664
No 347
>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=56.41 E-value=42 Score=33.27 Aligned_cols=77 Identities=14% Similarity=0.063 Sum_probs=49.9
Q ss_pred EEEEEe---cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcC--CCeEEEEeeChHHHHHHHHHH
Q 006733 168 VIALYV---DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSM--MSRILILHTYDIWGLEVLNAA 242 (633)
Q Consensus 168 v~ii~~---d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~--~~~vIvl~~~~~~~~~il~~a 242 (633)
|+++.. ++.|.......+++.+++.|..+..... . .+.......++.+... ++|.||+..........++.+
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~v~~~~~-~--~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~ 78 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIELEVLYA-E--RDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLA 78 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCeEEEEeC-C--CCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHH
Confidence 556653 3456667778888888889988765422 1 2333445667777777 899999865433345567777
Q ss_pred HHcCC
Q 006733 243 KHLRM 247 (633)
Q Consensus 243 ~~~g~ 247 (633)
.+.|+
T Consensus 79 ~~~gi 83 (305)
T cd06324 79 EGAGV 83 (305)
T ss_pred HhCCC
Confidence 77664
No 348
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=56.41 E-value=71 Score=30.27 Aligned_cols=89 Identities=17% Similarity=0.186 Sum_probs=59.9
Q ss_pred CccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHH-HHHhhccCC
Q 006733 43 STIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHL-VSHIANEFQ 121 (633)
Q Consensus 43 ~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~-va~~~~~~~ 121 (633)
...|+.-..+++-.+..|| |.. ++...+.-- ..+...+++..+.+.||-..++-.+.. +..+|..++
T Consensus 79 ~~iGk~Kv~vm~eri~~In------P~c--~V~~~~~f~----t~en~~~~~~~~~DyvIDaiD~v~~Kv~Li~~c~~~k 146 (263)
T COG1179 79 GDIGKPKVEVMKERIKQIN------PEC--EVTAINDFI----TEENLEDLLSKGFDYVIDAIDSVRAKVALIAYCRRNK 146 (263)
T ss_pred hhcccHHHHHHHHHHHhhC------CCc--eEeehHhhh----CHhHHHHHhcCCCCEEEEchhhhHHHHHHHHHHHHcC
Confidence 3456666778887888887 333 333433332 234556778888999998777655544 678899999
Q ss_pred ccEEeeccCCCCCccCCCCceEEecC
Q 006733 122 VPLLSFAATDPSLSSLQYPFFVRTTQ 147 (633)
Q Consensus 122 iP~Is~~a~~~~ls~~~~~~~~r~~p 147 (633)
+|+||.++....+. |+-+++.=
T Consensus 147 i~vIss~Gag~k~D----PTri~v~D 168 (263)
T COG1179 147 IPVISSMGAGGKLD----PTRIQVAD 168 (263)
T ss_pred CCEEeeccccCCCC----CceEEeee
Confidence 99999877665543 66676653
No 349
>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=56.17 E-value=26 Score=34.37 Aligned_cols=71 Identities=10% Similarity=-0.031 Sum_probs=50.9
Q ss_pred cEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHH
Q 006733 166 RNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLN 240 (633)
Q Consensus 166 ~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~ 240 (633)
+.+++|..+ +.|.......+.+.++++|..+.....-. ..+....++.+.+.++|.||+.+...+...+..
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~~----~~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~ 74 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTGD----DEEKEEYIELLLQRRVDGIILASSENDDEELRR 74 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEETT----THHHHHHHHHHHHTTSSEEEEESSSCTCHHHHH
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCCC----chHHHHHHHHHHhcCCCEEEEecccCChHHHHH
Confidence 468888875 56777788899999999999886544332 233338888899999999999866555333333
No 350
>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=55.85 E-value=33 Score=33.19 Aligned_cols=77 Identities=14% Similarity=0.048 Sum_probs=52.0
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHH-HHHHHHHHHH
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIW-GLEVLNAAKH 244 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~-~~~il~~a~~ 244 (633)
|+++.. ++.|.....+.+.+.+++.|+++.....- .+.......++.+...++|.||+.....+ ....++++.+
T Consensus 2 ~g~~~~~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~ 78 (273)
T cd06309 2 VGFSQVGAESPWRTAETKSIKDAAEKRGFDLKFADAQ---QKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKA 78 (273)
T ss_pred eeeccCCCCCHHHHHHHHHHHHHHHhcCCEEEEeCCC---CCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHH
Confidence 344443 45677778889999999999998764321 23445557778888888999988654332 3456777877
Q ss_pred cCC
Q 006733 245 LRM 247 (633)
Q Consensus 245 ~g~ 247 (633)
.+.
T Consensus 79 ~~i 81 (273)
T cd06309 79 AGI 81 (273)
T ss_pred CCC
Confidence 664
No 351
>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=55.52 E-value=47 Score=32.94 Aligned_cols=71 Identities=7% Similarity=0.026 Sum_probs=50.1
Q ss_pred cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHHHcCC
Q 006733 174 DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAKHLRM 247 (633)
Q Consensus 174 d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~~~g~ 247 (633)
+++|.....+.+++.+++.|..+..... ..+.....+.++.+...++|.|++.... ......++.+.+.++
T Consensus 9 ~~~~~~~~~~~i~~~a~~~g~~v~~~~~---~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~i 80 (302)
T TIGR02634 9 RLERWQKDRDIFVAAAESLGAKVFVQSA---NGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGI 80 (302)
T ss_pred chhhHHHHHHHHHHHHHhcCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCC
Confidence 4567777888899999999988765422 1234445577888888899999987543 345677787777664
No 352
>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=55.51 E-value=54 Score=31.55 Aligned_cols=76 Identities=9% Similarity=0.008 Sum_probs=50.0
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
++++.. ++.|.......+.+.+++.|+++...... .+.......++.+...+.|.|++....... ..++.+.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~ 77 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYDVVLSESG---RRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALRRT 77 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecCC---CchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHhcC
Confidence 556664 36788888899999999999887654322 223345567777877889988876443222 346666665
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
+.
T Consensus 78 ~i 79 (270)
T cd06296 78 GI 79 (270)
T ss_pred CC
Confidence 53
No 353
>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=55.14 E-value=49 Score=31.72 Aligned_cols=77 Identities=8% Similarity=-0.021 Sum_probs=50.4
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHHH
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAKH 244 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~~ 244 (633)
|++|.. ++.|.......+.+.+++.|+.+..... ..+..+....++++...++|.|++.... ......++.+.+
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~ 78 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYELTVLDA---QNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANE 78 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCceEEecCC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHH
Confidence 455554 3567777788899999999988764321 1234455677777777789998886433 233456777776
Q ss_pred cCC
Q 006733 245 LRM 247 (633)
Q Consensus 245 ~g~ 247 (633)
.+.
T Consensus 79 ~~i 81 (268)
T cd06323 79 AGI 81 (268)
T ss_pred CCC
Confidence 553
No 354
>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=55.11 E-value=55 Score=31.32 Aligned_cols=75 Identities=9% Similarity=0.049 Sum_probs=49.4
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|+++.. ++.|.....+.+.+.+++.|..+..... . .+. +....++++...++|.|++....... ..++.+.+.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~--~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~~~ 76 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQPLLINT-D--DDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECRRN 76 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCeEEEEcC-C--CCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhc
Confidence 455654 3567777788888999999988764421 1 222 56677778888889998887543222 347777766
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
|.
T Consensus 77 ~i 78 (266)
T cd06278 77 GI 78 (266)
T ss_pred CC
Confidence 64
No 355
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=54.88 E-value=20 Score=35.94 Aligned_cols=87 Identities=14% Similarity=0.037 Sum_probs=50.5
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHC-CCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEe
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELL-PYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVG 547 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~ 547 (633)
.++||||... ... ..+-.+....+.++. + +++++++. .+...++..|.+|++|+++.
T Consensus 26 ~~~lrIg~~~--~~~------------~~~l~~~~~~~~~~~p~--v~ie~~~~------~~~~~~~~aL~~G~iDia~~ 83 (314)
T PRK11553 26 PEALRIGYQK--GSI------------GLVLAKSHQLLEKRFPQ--TKISWVEF------PAGPQMLEALNVGSIDLGST 83 (314)
T ss_pred CCeEEEEeCC--Cch------------HHHHHHhhCHHHHhCCC--CeeEEEEC------CCcHHHHHHHHcCCCCEEcc
Confidence 3679999863 110 012233334455544 5 44677663 24578999999999999976
Q ss_pred eeEeecccc--ce----eeeccceeecceEEEEecCC
Q 006733 548 DFAITTERT--KM----VDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 548 ~~~~~~~r~--~~----~~fs~p~~~~~~~~lv~~~~ 578 (633)
+ .....+. .. +..+.++......+++++++
T Consensus 84 ~-~~~~~~~~~~g~~~~~v~~~~~~~~~~~lvv~~~s 119 (314)
T PRK11553 84 G-DIPPIFAQAAGADLVYVGVEPPKPKAEVILVAENS 119 (314)
T ss_pred C-CHHHHHHHhCCCCEEEEEEecCCCcceEEEEeCCC
Confidence 4 2223221 11 22245555566788888765
No 356
>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=54.82 E-value=27 Score=34.40 Aligned_cols=86 Identities=19% Similarity=0.131 Sum_probs=45.6
Q ss_pred CchhhhHHHHHhhhhhhccccccCCCCCCCCeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC
Q 006733 1 MTKIYLLALVVVYNFCFSAGISMNGVSTIPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN 80 (633)
Q Consensus 1 Mk~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~ 80 (633)
|+|+.+++++++|+ ..+|+ ......+.+++||+..+.+.. .....++--.+.+.++. |.++++....+
T Consensus 1 ~~~~~~~~~~~~~~-~~~~~---~~~~~~~~~l~vg~~~~~~~~---~~~~~~~~l~~~l~~~~----g~~v~~~~~~~- 68 (288)
T TIGR03431 1 MLRRLILSLVAAFM-LISSN---AQAEDWPKELNFGIIPTENAS---DLKQRWEPLADYLSKKL----GVKVKLFFATD- 68 (288)
T ss_pred ChhhHHHHHHHHHH-HHhcc---hhhhcCCCeEEEEEcCCCCHH---HHHHHHHHHHHHHHHHh----CCcEEEEeCCC-
Confidence 88887777776653 22222 222344568999998765421 12223333335555542 56777655332
Q ss_pred CChHHHHHHHHHHHhcCceEEEc
Q 006733 81 YSRFLGMVEALTLLENETVAIIG 103 (633)
Q Consensus 81 ~~~~~a~~~~~~li~~~v~aviG 103 (633)
... ....+....+++++.
T Consensus 69 --~~~---~~~al~~g~~D~~~~ 86 (288)
T TIGR03431 69 --YAG---VIEGMRFGKVDIAWY 86 (288)
T ss_pred --HHH---HHHHHHcCCccEEEE
Confidence 211 223334457888874
No 357
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=54.76 E-value=63 Score=32.80 Aligned_cols=81 Identities=10% Similarity=-0.104 Sum_probs=53.7
Q ss_pred CcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHH
Q 006733 165 WRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNA 241 (633)
Q Consensus 165 w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~ 241 (633)
-++|+++..+ +.|.....+.+++.+++.|..+.....-. ..+.......++.+...++|.||+.... ......+ +
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~-~~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l-~ 123 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGG-YYNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL-E 123 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCC-CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-H
Confidence 4788888854 55666777889999999998877543211 1133344567777778889999987543 3333455 6
Q ss_pred HHHcCC
Q 006733 242 AKHLRM 247 (633)
Q Consensus 242 a~~~g~ 247 (633)
+++.|.
T Consensus 124 ~~~~gi 129 (343)
T PRK10936 124 LQAANI 129 (343)
T ss_pred HHHCCC
Confidence 666664
No 358
>PRK07377 hypothetical protein; Provisional
Probab=54.69 E-value=37 Score=30.35 Aligned_cols=63 Identities=21% Similarity=0.238 Sum_probs=46.3
Q ss_pred ceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeee
Q 006733 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (633)
Q Consensus 470 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~ 549 (633)
..+|+|+.. .. ++ .+..-+-.++.++.+.+..+.+ .+++++ .+-+.+.+.+.+|++|++++.-
T Consensus 75 ~~~Rlgv~~--~~------~~-~~~~~~~l~~~l~~~~~~y~~r--lElv~y------~~~~~l~~aL~~~eVh~~c~~~ 137 (184)
T PRK07377 75 LVMRLGVLE--IE------TE-TSSVFDQLIDQLRTILDKYHLR--LELVVY------PDLQALEQALRDKEVHAICLES 137 (184)
T ss_pred cEEEEEEEe--cc------cc-ccccHHHHHHHHHHHHHHhCce--eeEEec------CCHHHHHHHHhcCCccEEecCC
Confidence 468999875 21 11 2334455678889999999955 777776 5699999999999999998754
No 359
>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=54.67 E-value=48 Score=29.16 Aligned_cols=70 Identities=23% Similarity=0.296 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.. ++++++.. ..+..++..|.+|++|+++..... ..+.++ ..++....+.+++++
T Consensus 13 ~~l~~~i~~~~~~~p-~i~i~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd05466 13 YLLPPLLAAFRQRYP-GVELSLVE-------GGSSELLEALLEGELDLAIVALPV---DDPGLE-SEPLFEEPLVLVVPP 80 (197)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEE-------CChHHHHHHHHcCCceEEEEcCCC---CCCcce-EeeeeccceEEEecC
Confidence 345567777776652 24567665 457789999999999999865433 223333 456777788888876
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 81 ~~ 82 (197)
T cd05466 81 DH 82 (197)
T ss_pred CC
Confidence 65
No 360
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=54.33 E-value=29 Score=35.14 Aligned_cols=80 Identities=9% Similarity=-0.012 Sum_probs=52.2
Q ss_pred HHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--hHHHHHH
Q 006733 161 DYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY--DIWGLEV 238 (633)
Q Consensus 161 ~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~--~~~~~~i 238 (633)
..++.+++.+|++...+.....+.+.+.+++. +.+.....+..+.+.+.....+..+++.++|.||-.+. .-++.+.
T Consensus 18 ~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~D~aKa 96 (332)
T cd08180 18 KELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPDPPIEVVAKGIKKFLDFKPDIVIALGGGSAIDAAKA 96 (332)
T ss_pred HHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEECCchHHHHHHH
Confidence 44556899888854333333567788888776 55543333444455667778888888889999997644 4566665
Q ss_pred HHH
Q 006733 239 LNA 241 (633)
Q Consensus 239 l~~ 241 (633)
+..
T Consensus 97 ~a~ 99 (332)
T cd08180 97 IIY 99 (332)
T ss_pred HHH
Confidence 543
No 361
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=54.18 E-value=1.3e+02 Score=30.68 Aligned_cols=83 Identities=7% Similarity=-0.007 Sum_probs=55.6
Q ss_pred HHHHHHHHHcCC-cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-
Q 006733 154 AAIADIVDYFGW-RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY- 231 (633)
Q Consensus 154 ~al~~ll~~~~w-~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~- 231 (633)
..+.++++.++. +++.+|.+...+. ...+.+++.+++.| .+... +.++.+.+.+...+..+++.+.|+||..+.
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~~-~~~~~l~~~l~~~~-~~~~~--~~~~~t~~~v~~~~~~~~~~~~d~IIaiGGG 97 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTKK-IAGDRVEENLEDAG-DVEVV--IVDEATMEEVEKVEEKAKDVNAGFLIGVGGG 97 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHHH-HHHHHHHHHHHhcC-CeeEE--eCCCCCHHHHHHHHHHhhccCCCEEEEeCCc
Confidence 446667777775 7888888655443 24567778887777 44322 333456677888888888888999887654
Q ss_pred -hHHHHHHHH
Q 006733 232 -DIWGLEVLN 240 (633)
Q Consensus 232 -~~~~~~il~ 240 (633)
..++..++.
T Consensus 98 sv~D~ak~vA 107 (350)
T PRK00843 98 KVIDVAKLAA 107 (350)
T ss_pred hHHHHHHHHH
Confidence 356666664
No 362
>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=54.03 E-value=68 Score=28.54 Aligned_cols=70 Identities=16% Similarity=0.111 Sum_probs=48.4
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.- ++++++.. ++..+++..|.+|++|+++... +.....+. +.|+....+.+++++
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 456678888887763 24466666 5678899999999999998532 12222232 477888888888876
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 81 ~~ 82 (198)
T cd08412 81 DH 82 (198)
T ss_pred CC
Confidence 54
No 363
>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=54.02 E-value=2.1e+02 Score=27.52 Aligned_cols=121 Identities=11% Similarity=0.020 Sum_probs=64.0
Q ss_pred eEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHH
Q 006733 32 VLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 32 ~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~ 111 (633)
-=+||++.+...........|++.++++.|.. .+ ..+...+......+...+.+.+.++++.++.+|+.. +...+.
T Consensus 121 ~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~-nd~~A~ 196 (265)
T cd06354 121 TGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPG--VP-DIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAA-AGGTGN 196 (265)
T ss_pred CCeEEEEecccChHHHHHHHHHHHHHHHHhcc--CC-CceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEEC-CCCCch
Confidence 45778775433222222336888888776521 00 122222222222234556667778887677888874 444555
Q ss_pred HHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHH
Q 006733 112 LVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIAD 158 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ 158 (633)
.+...+...++.++++... .+.....|.+..+......++.-++.
T Consensus 197 gv~~al~~~gisIvGfD~~--~~~~~~~p~lttv~~~~~~~~~~~~~ 241 (265)
T cd06354 197 GVFQAAKEAGVYAIGVDSD--QYYLAPGVVLTSMVKRVDVAVYDAIK 241 (265)
T ss_pred HHHHHHHhcCCeEEEecCc--ccccCCCcEEEEEeehhHHHHHHHHH
Confidence 5666677778777766442 23333346666665444444443333
No 364
>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=53.99 E-value=1.2e+02 Score=24.86 Aligned_cols=64 Identities=8% Similarity=-0.053 Sum_probs=37.2
Q ss_pred CCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee-Ch---HHHHHHHHHHHHc
Q 006733 176 DHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT-YD---IWGLEVLNAAKHL 245 (633)
Q Consensus 176 ~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~-~~---~~~~~il~~a~~~ 245 (633)
++-.-....+...+++.|.++...... .+.....+.+++.++|+|.+.+ .. .....+.+.+++.
T Consensus 11 ~~~~lGl~~la~~l~~~G~~v~~~d~~------~~~~~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~~~~k~~ 78 (121)
T PF02310_consen 11 EVHPLGLLYLAAYLRKAGHEVDILDAN------VPPEELVEALRAERPDVVGISVSMTPNLPEAKRLARAIKER 78 (121)
T ss_dssp SSTSHHHHHHHHHHHHTTBEEEEEESS------B-HHHHHHHHHHTTCSEEEEEESSSTHHHHHHHHHHHHHTT
T ss_pred cchhHHHHHHHHHHHHCCCeEEEECCC------CCHHHHHHHHhcCCCcEEEEEccCcCcHHHHHHHHHHHHhc
Confidence 333345667777788888877643211 1225555666667888888866 33 3455555555543
No 365
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=53.51 E-value=1.1e+02 Score=27.08 Aligned_cols=80 Identities=8% Similarity=-0.032 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHh-hcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee
Q 006733 152 QMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLA-EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT 230 (633)
Q Consensus 152 ~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~-~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 230 (633)
+++.+..|.++++.+++.++- |..-...+.+.+.+.+. -.|+++... +-.+....+++ ...+.++++++-
T Consensus 17 HGQV~~~W~~~~~~~~IiVvd-D~vA~D~~~k~~lkma~~P~gvk~~i~-------sv~~a~~~l~~-~~~~~~vlvl~~ 87 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVVD-DVVANDDIQQKLMGITAETYGFGIRFF-------TIEKTINVIGK-AAPHQKIFLICR 87 (158)
T ss_pred hHHHHHhhhcccCCCEEEEEc-chhcCCHHHHHHHHhcCCCCCCEEEEE-------EHHHHHHHHHh-ccCCceEEEEEC
Confidence 678888999999999998664 33333334444444443 356666532 23455566666 556678999999
Q ss_pred ChHHHHHHHH
Q 006733 231 YDIWGLEVLN 240 (633)
Q Consensus 231 ~~~~~~~il~ 240 (633)
++.++..+++
T Consensus 88 ~~~da~~l~~ 97 (158)
T PRK09756 88 TPQTVRKLVE 97 (158)
T ss_pred CHHHHHHHHH
Confidence 9999998876
No 366
>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=53.25 E-value=97 Score=27.14 Aligned_cols=81 Identities=14% Similarity=0.064 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 152 QMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 152 ~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
+++.+..|.++++.+++.++- |..-...+.+.+...+.-.|+++... +..+....+++-...+.++++++-+
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~lkma~P~gvk~~i~-------sve~a~~~l~~~~~~~~~v~vl~k~ 84 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVN-DDVANDEVRQTLMGIVAPTGFKVRFV-------SLEKTINVIHKPAYHDQTIFLLFRN 84 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCEEEEE-------EHHHHHHHHhCcCCCCceEEEEECC
Confidence 677888899999999998765 33333334555545544457776532 2234455555544556789999999
Q ss_pred hHHHHHHHH
Q 006733 232 DIWGLEVLN 240 (633)
Q Consensus 232 ~~~~~~il~ 240 (633)
+.++..+++
T Consensus 85 ~~da~~l~~ 93 (151)
T TIGR00854 85 PQDVLTLVE 93 (151)
T ss_pred HHHHHHHHH
Confidence 999998876
No 367
>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=53.21 E-value=67 Score=28.95 Aligned_cols=73 Identities=19% Similarity=0.212 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.- .+++.+.. .+...++..|.+|++|+++........-...+. +.+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~ 83 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVH-------AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIE-ERDWWEDTYVVIASR 83 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEE-------CChHhHHHHHHCCCccEEEecccccccCCCCEE-EEEEecCcEEEEEeC
Confidence 455678888887762 24577766 568999999999999999864322100012233 256667777777766
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 84 ~h 85 (202)
T cd08468 84 DH 85 (202)
T ss_pred CC
Confidence 55
No 368
>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=53.16 E-value=67 Score=30.81 Aligned_cols=76 Identities=11% Similarity=-0.080 Sum_probs=48.8
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|+++..+ +.|-......+.+.+++.|..+...... .+.......++.+...++|.|++.....+.. .++.+.+.
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~-~~~~~~~~ 77 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARERGYQLLIACSD---DDPETERETVETLIARQVDALIVAGSLPPDD-PYYLCQKA 77 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEcCCCCchH-HHHHHHhc
Confidence 4565543 5566677788888888999887654322 2334455677788888999999875432222 25566665
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
+.
T Consensus 78 ~i 79 (264)
T cd06274 78 GL 79 (264)
T ss_pred CC
Confidence 53
No 369
>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=53.05 E-value=77 Score=30.55 Aligned_cols=77 Identities=9% Similarity=-0.137 Sum_probs=50.5
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-H---HHHHHHHH
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-I---WGLEVLNA 241 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~---~~~~il~~ 241 (633)
|++|.. ++.|.....+.+.+.+++.|..+...... .+.......++.+...++|.|++.... . .....++.
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~ 78 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQYGYTVLLCNTY---RGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHYER 78 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHCCCEEEEEeCC---CChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHH
Confidence 456664 35677778889999999999887643221 233445677888888899998886422 2 23344566
Q ss_pred HHHcCC
Q 006733 242 AKHLRM 247 (633)
Q Consensus 242 a~~~g~ 247 (633)
+.+.|+
T Consensus 79 ~~~~~i 84 (273)
T cd06292 79 LAERGL 84 (273)
T ss_pred HHhCCC
Confidence 666554
No 370
>PRK10481 hypothetical protein; Provisional
Probab=52.98 E-value=1.4e+02 Score=28.14 Aligned_cols=68 Identities=12% Similarity=0.076 Sum_probs=43.5
Q ss_pred CCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHH
Q 006733 164 GWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWG 235 (633)
Q Consensus 164 ~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~ 235 (633)
+-++++++....+.. .+.. +.+.+.|..+.....-+.......+....++++..++|+|++.|.+-..
T Consensus 128 ~g~riGVitP~~~qi---~~~~-~kw~~~G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~ 195 (224)
T PRK10481 128 GGHQVGVIVPVEEQL---AQQA-QKWQVLQKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQ 195 (224)
T ss_pred CCCeEEEEEeCHHHH---HHHH-HHHHhcCCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH
Confidence 458999999765432 2223 3333448776644322222344567778888888999999999876444
No 371
>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=52.93 E-value=64 Score=28.75 Aligned_cols=69 Identities=13% Similarity=0.170 Sum_probs=46.6
Q ss_pred eeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEecC
Q 006733 498 YCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (633)
Q Consensus 498 ~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~ 577 (633)
+-.+++..+.++.. ++++++.. ....++...+.+|++|+++... +.....+. +.++....+.++++++
T Consensus 15 ~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~~ 82 (197)
T cd08425 15 LIGPLIDRFHARYP-GIALSLRE-------MPQERIEAALADDRLDLGIAFA---PVRSPDID-AQPLFDERLALVVGAT 82 (197)
T ss_pred hhHHHHHHHHHHCC-CcEEEEEE-------CcHHHHHHHHHcCCccEEEEec---CCCCCCcE-EEEeccccEEEEecCC
Confidence 44577888877763 35577765 4578899999999999998532 22222232 3677778888887665
Q ss_pred C
Q 006733 578 K 578 (633)
Q Consensus 578 ~ 578 (633)
.
T Consensus 83 ~ 83 (197)
T cd08425 83 H 83 (197)
T ss_pred C
Confidence 4
No 372
>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=52.87 E-value=61 Score=31.07 Aligned_cols=76 Identities=16% Similarity=0.027 Sum_probs=48.8
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|++|..+ +.|-....+.+.+.+++.|..+..... . .+.......++.+...++|.|++...... ...++.+.+.
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~~~ 77 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAAGYQLLLGNT-G--YSPEREEELLRTLLSRRPAGLILTGLEHT-ERTRQLLRAA 77 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHcCCEEEEecC-C--CCchhHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHHhc
Confidence 5666643 455666778888899999988765332 1 23345567778888888999988754322 3345555555
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
++
T Consensus 78 ~i 79 (268)
T cd01575 78 GI 79 (268)
T ss_pred CC
Confidence 53
No 373
>PRK05723 flavodoxin; Provisional
Probab=52.84 E-value=1.2e+02 Score=26.62 Aligned_cols=67 Identities=12% Similarity=-0.015 Sum_probs=39.7
Q ss_pred EEEEEEe-cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-------hHHHHHH
Q 006733 167 NVIALYV-DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-------DIWGLEV 238 (633)
Q Consensus 167 ~v~ii~~-d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-------~~~~~~i 238 (633)
++.|+|. .+.-.+..++.+.+.+.+.|..+...... ...++ .+..++.+|+.++ +.++..+
T Consensus 2 ~i~I~ygS~tG~ae~~A~~la~~l~~~g~~~~~~~~~----~~~~~-------~~~~~~~li~~~sT~G~Ge~Pd~~~~f 70 (151)
T PRK05723 2 KVAILSGSVYGTAEEVARHAESLLKAAGFEAWHNPRA----SLQDL-------QAFAPEALLAVTSTTGMGELPDNLMPL 70 (151)
T ss_pred eEEEEEEcCchHHHHHHHHHHHHHHHCCCceeecCcC----CHhHH-------HhCCCCeEEEEECCCCCCCCchhHHHH
Confidence 6788874 45556677888888888888876532111 11122 1223455555443 2677778
Q ss_pred HHHHHH
Q 006733 239 LNAAKH 244 (633)
Q Consensus 239 l~~a~~ 244 (633)
.+.+++
T Consensus 71 ~~~L~~ 76 (151)
T PRK05723 71 YSAIRD 76 (151)
T ss_pred HHHHHh
Confidence 777765
No 374
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=52.74 E-value=1.3e+02 Score=29.43 Aligned_cols=96 Identities=7% Similarity=-0.022 Sum_probs=66.2
Q ss_pred CceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhh
Q 006733 140 PFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVS 219 (633)
Q Consensus 140 ~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~ 219 (633)
.++++-..+. ..++++.++.+.+|.+++.+|.+.++ .+.+++.|+..|-+.+..+.-. .+.++... ...
T Consensus 162 D~vIQNganS-~VG~~ViQlaka~GiktinvVRdR~~-----ieel~~~Lk~lGA~~ViTeeel---~~~~~~k~--~~~ 230 (354)
T KOG0025|consen 162 DSVIQNGANS-GVGQAVIQLAKALGIKTINVVRDRPN-----IEELKKQLKSLGATEVITEEEL---RDRKMKKF--KGD 230 (354)
T ss_pred CeeeecCccc-HHHHHHHHHHHHhCcceEEEeecCcc-----HHHHHHHHHHcCCceEecHHHh---cchhhhhh--hcc
Confidence 4666666554 47899999999999999999986654 7888999998887655332111 11111111 123
Q ss_pred cCCCeEEEEeeChHHHHHHHHHHHHcC
Q 006733 220 SMMSRILILHTYDIWGLEVLNAAKHLR 246 (633)
Q Consensus 220 ~~~~~vIvl~~~~~~~~~il~~a~~~g 246 (633)
..+++.-+-|..+..+..+.+.+.+-|
T Consensus 231 ~~~prLalNcVGGksa~~iar~L~~Gg 257 (354)
T KOG0025|consen 231 NPRPRLALNCVGGKSATEIARYLERGG 257 (354)
T ss_pred CCCceEEEeccCchhHHHHHHHHhcCc
Confidence 356888888888888888988888754
No 375
>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=52.66 E-value=65 Score=28.62 Aligned_cols=70 Identities=19% Similarity=0.213 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.+... .+++.+.. .+..+++..|.+|++|+++..... ....+. ..++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE-------YGGKKVEQAVLNGELDVGITVLPV---DEEEFD-SQPLCNEPLVAVLPR 80 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE-------cCcHHHHHHHHcCCCCEEEEeccc---ccCCce-eEEeccccEEEEecC
Confidence 456678888888763 24566665 567899999999999999864322 122232 356777778888776
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 81 ~~ 82 (197)
T cd08438 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 376
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=52.60 E-value=1.6e+02 Score=30.53 Aligned_cols=100 Identities=12% Similarity=0.069 Sum_probs=57.8
Q ss_pred HHHHHHHHHHcCCcEEEEEEec-CCCcchhHHHHHHHHh--hcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEe
Q 006733 153 MAAIADIVDYFGWRNVIALYVD-DDHGRNGIAALGDKLA--EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILH 229 (633)
Q Consensus 153 ~~al~~ll~~~~w~~v~ii~~d-~~~g~~~~~~~~~~~~--~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~ 229 (633)
.....++.+...-+++.|+|.. ....+..++.+.+.++ ..|+++.... +. ..+...++..+. ++|.|++.
T Consensus 235 ~~~Y~~~~~~~~~~kv~IvY~S~~GnTe~mA~~ia~g~~~~~~g~~v~~~~-~~----~~~~~~i~~~~~--~~d~ii~G 307 (394)
T PRK11921 235 VEKYLEWAANYQENQVTILYDTMWNSTRRMAEAIAEGIKKANKDVTVKLYN-SA----KSDKNDIITEVF--KSKAILVG 307 (394)
T ss_pred HHHHHHHhhcCCcCcEEEEEECCchHHHHHHHHHHHHHhhcCCCCeEEEEE-CC----CCCHHHHHHHHH--hCCEEEEE
Confidence 3334444444455889999954 3444566788888887 5677765332 22 234445555554 47778877
Q ss_pred eCh------HHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 006733 230 TYD------IWGLEVLNAAKHLRMMESGYVWIVTDW 259 (633)
Q Consensus 230 ~~~------~~~~~il~~a~~~g~~~~~~~~i~~~~ 259 (633)
+.. .....++..+...++.+....-+++-+
T Consensus 308 spT~~~~~~~~~~~~l~~l~~~~~~~K~~a~FGsyg 343 (394)
T PRK11921 308 SSTINRGILSSTAAILEEIKGLGFKNKKAAAFGSYG 343 (394)
T ss_pred CCCcCccccHHHHHHHHHhhccCcCCCEEEEEecCC
Confidence 654 346667777766665544333444433
No 377
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=52.51 E-value=2.7e+02 Score=29.50 Aligned_cols=77 Identities=12% Similarity=-0.049 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCceEEEcCCch-hhHHHHHHhhccCCccEEe
Q 006733 49 AKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNY-SRFLGMVEALTLLENETVAIIGPQFS-VIAHLVSHIANEFQVPLLS 126 (633)
Q Consensus 49 ~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~-~~~~a~~~~~~li~~~v~aviG~~~s-~~~~~va~~~~~~~iP~Is 126 (633)
.....+..++.+|+. +. +++..+... ++..+.+++.++-.++++++|-...+ .....+...+...++|++-
T Consensus 21 ~~~~~~~~~~~l~~~-----~~--~vv~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~tf~~~~~~~~~~~~~~~Pvll 93 (452)
T cd00578 21 VEEYAREVADLLNEL-----PV--EVVDKPEVTGTPDEARKAAEEFNEANCDGLIVWMHTFGPAKMWIAGLSELRKPVLL 93 (452)
T ss_pred HHHHHHHHHHHHhcC-----Cc--eEEecCcccCCHHHHHHHHHHHhhcCCcEEEEcccccccHHHHHHHHHhcCCCEEE
Confidence 344445555666543 23 555554443 66666555555555577777754333 2333456677888999998
Q ss_pred eccCCC
Q 006733 127 FAATDP 132 (633)
Q Consensus 127 ~~a~~~ 132 (633)
++...+
T Consensus 94 ~a~~~~ 99 (452)
T cd00578 94 LATQFN 99 (452)
T ss_pred EeCCCC
Confidence 765553
No 378
>TIGR03850 bind_CPR_0540 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family. Members of this protein are the substrate-binding protein of a predicted carbohydrate transporter operon, together with permease subunits of ABC transporter homology families. This substrate-binding protein frequently co-occurs in genomes with a family of disaccharide phosphorylases, TIGR02336, suggesting that the molecule transported will include beta-D-galactopyranosyl-(1-3)-N-acetyl-D-glucosamine and related carbohydrates. Members of this family are sporadically strain by strain, often in species with a human host association, including Propionibacterium acnes and Clostridium perfringens, and Bacillus cereus.
Probab=52.44 E-value=41 Score=35.41 Aligned_cols=25 Identities=32% Similarity=0.387 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHhcCCCCCCCcEEEEEEe
Q 006733 50 KVAIEAAVEDVNSNPAILGGTKLKLTVH 77 (633)
Q Consensus 50 ~~a~~~Ave~iN~~~~il~g~~l~~~~~ 77 (633)
...++-.++++|+.. +|++|++...
T Consensus 47 ~~~~~~~~~~F~~~~---~~i~V~~~~~ 71 (437)
T TIGR03850 47 TKMWEEVVEAFEKSH---EGVKVELTVS 71 (437)
T ss_pred HHHHHHHHHHHHHHC---CCceEEEEeC
Confidence 345666788898874 5788888754
No 379
>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=52.42 E-value=75 Score=30.48 Aligned_cols=76 Identities=11% Similarity=-0.057 Sum_probs=50.1
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|+++..+ +.|.....+.+.+.+++.|..+...... .+.....+.++.+...++|.|++....... ..++++.+.
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~---~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~ 77 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYSTFVANTG---DNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELTRR 77 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHHHc
Confidence 5666653 5677777889999999999887543211 233445567778888899998887543232 346677665
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
+.
T Consensus 78 ~i 79 (265)
T cd06285 78 GV 79 (265)
T ss_pred CC
Confidence 53
No 380
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=52.36 E-value=99 Score=29.42 Aligned_cols=87 Identities=8% Similarity=-0.064 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHc--CCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEe
Q 006733 152 QMAAIADIVDYF--GWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILH 229 (633)
Q Consensus 152 ~~~al~~ll~~~--~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~ 229 (633)
.+..+++++... .-++|.++..+. ....+.+.+++.|..+.....|.......+.......+.+.+.|+|++.
T Consensus 103 ~~e~L~~~~~~~~~~~~~vL~~rg~~-----~r~~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~~~d~i~f~ 177 (240)
T PRK09189 103 DGVRLAETVAAALAPTARLLYLAGRP-----RAPVFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAILGGAPFDAVLLY 177 (240)
T ss_pred CHHHHHHHHHHhcCCCCcEEEeccCc-----ccchhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHHhcCCCCEEEEe
Confidence 366777776442 557787776443 3467888899999887665555322112222344455555667766555
Q ss_pred eChHHHHHHHHHHHH
Q 006733 230 TYDIWGLEVLNAAKH 244 (633)
Q Consensus 230 ~~~~~~~~il~~a~~ 244 (633)
++..+..+++....
T Consensus 178 -S~~~~~~f~~~~~~ 191 (240)
T PRK09189 178 -SRVAARRFFALMRL 191 (240)
T ss_pred -CHHHHHHHHHHHhh
Confidence 45567778776643
No 381
>TIGR02136 ptsS_2 phosphate binding protein. Members of this family are phosphate-binding proteins. Most are found in phosphate ABC-transporter operons, but some are found in phosphate regulatory operons. This model separates members of the current family from the phosphate ABC transporter phosphate binding protein described by TIGRFAMs model TIGR00975.
Probab=52.35 E-value=28 Score=34.40 Aligned_cols=84 Identities=14% Similarity=0.094 Sum_probs=44.6
Q ss_pred CchhhhHHHHHhhhhhhccccccCC------CCCCCCeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEE
Q 006733 1 MTKIYLLALVVVYNFCFSAGISMNG------VSTIPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKL 74 (633)
Q Consensus 1 Mk~~~~l~~~~~~~~~~~~~~~~~~------~~~~~~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~ 74 (633)
||++.+++.-++.+++.++| |+.. .......++||+.-... .-+.-.++++.+.. |+.++++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~lrig~s~s~~--------~~lp~~l~~f~~~~---P~i~v~i 68 (287)
T TIGR02136 1 MKKRIFLLIGLAAALLAAAG-CGGAIDSGIPDAKGSSTITIDGSTTVA--------PLAEAAAEEFQKIH---PGVSVTV 68 (287)
T ss_pred CchhhhHHHHHHHHHHHHhh-ccccccccchhhcccceEEEeccchHH--------HHHHHHHHHHHhhC---CCceEEE
Confidence 78876665555554555666 5442 12233479999886531 12444556665543 6667666
Q ss_pred EEecCCCChHHHHHHHHHHHhcCceEEEc
Q 006733 75 TVHDTNYSRFLGMVEALTLLENETVAIIG 103 (633)
Q Consensus 75 ~~~D~~~~~~~a~~~~~~li~~~v~aviG 103 (633)
...++. + ....+.+..+++.+.
T Consensus 69 ~~~~s~----~---l~~~L~~G~iDlai~ 90 (287)
T TIGR02136 69 QGAGSG----T---GIKALINGTVDIGNS 90 (287)
T ss_pred ccCCch----H---HHHHHHcCCCchhhc
Confidence 553222 2 123344456666443
No 382
>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=51.73 E-value=18 Score=31.02 Aligned_cols=80 Identities=18% Similarity=0.157 Sum_probs=49.4
Q ss_pred HHHHHHHhc--CceEEEcCCch--hhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc
Q 006733 88 VEALTLLEN--ETVAIIGPQFS--VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF 163 (633)
Q Consensus 88 ~~~~~li~~--~v~aviG~~~s--~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~ 163 (633)
+++.+++.+ ++.+++|.... .....+..+++..++|++..... ...-+..+|++.-...... .....+++++
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~-kg~i~~~hp~~~G~~g~~~--~~~~~~~l~~- 77 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMG-KGVIPEDHPLFLGYLGLFG--SPAANEALEQ- 77 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGG-TTSSTTTSTTEEEESCGGS--CHHHHHHHHH-
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCcc-ccccCCCCchhcccCCccC--CHHHHHHhcC-
Confidence 445566655 89999997666 78888999999999999985443 3333445687776443321 2334455544
Q ss_pred CCcEEEEEE
Q 006733 164 GWRNVIALY 172 (633)
Q Consensus 164 ~w~~v~ii~ 172 (633)
-.-+..|.
T Consensus 78 -aDlvl~iG 85 (137)
T PF00205_consen 78 -ADLVLAIG 85 (137)
T ss_dssp -SSEEEEES
T ss_pred -CCEEEEEC
Confidence 23344444
No 383
>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=51.47 E-value=1.1e+02 Score=26.71 Aligned_cols=82 Identities=11% Similarity=0.051 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 152 QMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 152 ~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
+++.+..|.++++.+++.++- |..-...+.+.+...+.-.|+++... +.++....+.+-+..+.++++++-+
T Consensus 12 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~-------sve~a~~~l~~~~~~~~~v~il~k~ 83 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVN-DEVANDELRKTLLKLAAPPGVKLRIF-------TVEKAIEAINSPKYDKQRVFLLFKN 83 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCeEEEE-------EHHHHHHHHhCcCCCCceEEEEECC
Confidence 678888999999999998664 43333344455545444457776532 2234555555544566789999999
Q ss_pred hHHHHHHHHH
Q 006733 232 DIWGLEVLNA 241 (633)
Q Consensus 232 ~~~~~~il~~ 241 (633)
+.++..+++.
T Consensus 84 ~~~~~~l~~~ 93 (151)
T cd00001 84 PQDVLRLVEG 93 (151)
T ss_pred HHHHHHHHHc
Confidence 9999988763
No 384
>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=51.16 E-value=56 Score=31.65 Aligned_cols=80 Identities=14% Similarity=-0.084 Sum_probs=49.9
Q ss_pred EEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeec-CCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHH
Q 006733 167 NVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPL-SPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAA 242 (633)
Q Consensus 167 ~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~-~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a 242 (633)
+++++..+ +.|.....+.+.+.+++.|..+...... ....+.......++.+.. +.|.|++.... ......++++
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~~~ 79 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDARIRVRIHFVESFDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVARL 79 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhccCceEEEEEccCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHHHH
Confidence 46777754 4566677788888888887643322211 111233445577777777 89999886543 3445677888
Q ss_pred HHcCC
Q 006733 243 KHLRM 247 (633)
Q Consensus 243 ~~~g~ 247 (633)
.+.|.
T Consensus 80 ~~~~i 84 (275)
T cd06307 80 AAAGV 84 (275)
T ss_pred HHCCC
Confidence 87664
No 385
>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=51.02 E-value=73 Score=30.58 Aligned_cols=76 Identities=14% Similarity=-0.005 Sum_probs=49.3
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|+++.. ++.|.......+.+.+++.|..+.... ...+.......++.+...+.|.|++.+... ....++.+++.
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~~~ 77 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVAS---SGYDLDREYAQARKLLERGVDGLALIGLDH-SPALLDLLARR 77 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEec---CCCCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHHhC
Confidence 566665 356667777889999999998877532 112344456777778777899888865432 23445566665
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
+.
T Consensus 78 ~i 79 (268)
T cd06273 78 GV 79 (268)
T ss_pred CC
Confidence 53
No 386
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=50.44 E-value=39 Score=32.95 Aligned_cols=82 Identities=12% Similarity=0.083 Sum_probs=56.1
Q ss_pred ceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHC-CCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELL-PYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 470 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
++++||+.. . ....+-.+++..+.+.. + +++.+.. +....++..|.+|++|+++..
T Consensus 89 ~~l~Ig~~~--~------------~~~~~l~~~l~~f~~~~P~--v~v~~~~-------~~~~~~~~~l~~g~~Dl~i~~ 145 (275)
T PRK03601 89 NELSIGASA--S------------LWECMLTPWLGRLYQNQEA--LQFEARI-------AQRQSLVKQLHERQLDLLITT 145 (275)
T ss_pred ceEEEeccH--H------------HHHHHHHHHHHHHHHhCCC--cEEEEEE-------CChHHHHHHHHcCCCCEEEEc
Confidence 578988863 1 12255667778887665 4 4466666 568899999999999999864
Q ss_pred eEeeccccceeeeccceeecceEEEEecCC
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
... .. ..+ ...|+....+.++++++.
T Consensus 146 ~~~--~~-~~l-~~~~l~~~~~~~v~~~~~ 171 (275)
T PRK03601 146 EAP--KM-DEF-SSQLLGHFTLALYTSAPS 171 (275)
T ss_pred CCC--cc-CCc-cEEEecceeEEEEecCch
Confidence 322 22 223 346788888888887665
No 387
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=50.43 E-value=1.1e+02 Score=30.66 Aligned_cols=79 Identities=10% Similarity=-0.068 Sum_probs=51.0
Q ss_pred CcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHH
Q 006733 165 WRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAA 242 (633)
Q Consensus 165 w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a 242 (633)
-+.|+++..+ +.|.....+.+.+.+++.|..+..... . .+.......++.+...+.|.||+..... ....++.+
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~--~~~~~~~~~~~~~~~~~vdgiI~~~~~~-~~~~~~~l 138 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDAHGYQTMLAHY-G--YKPEMEQERLESMLSWNIDGLILTERTH-TPRTLKMI 138 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHHCCCEEEEecC-C--CCHHHHHHHHHHHHhcCCCEEEEcCCCC-CHHHHHHH
Confidence 3578888754 456667788899999999988765321 1 1223334566777778899999864321 23456666
Q ss_pred HHcCC
Q 006733 243 KHLRM 247 (633)
Q Consensus 243 ~~~g~ 247 (633)
.+.|+
T Consensus 139 ~~~~i 143 (331)
T PRK14987 139 EVAGI 143 (331)
T ss_pred HhCCC
Confidence 66654
No 388
>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=49.99 E-value=75 Score=30.62 Aligned_cols=77 Identities=8% Similarity=-0.014 Sum_probs=47.7
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHH
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAK 243 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~ 243 (633)
|+++..+ +.|.......+.+.+++. |+.+..... . .+.......++.+...++|.|++.... ......++.+.
T Consensus 2 ig~~~~~~~~~~~~~~~~~i~~~~~~~~g~~~~~~~~-~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~ 78 (270)
T cd06308 2 IGFSQCNLADPWRAAMNDEIQREASNYPDVELIIADA-A--DDNSKQVADIENFIRQGVDLLIISPNEAAPLTPVVEEAY 78 (270)
T ss_pred EEEEeeCCCCHHHHHHHHHHHHHHHhcCCcEEEEEcC-C--CCHHHHHHHHHHHHHhCCCEEEEecCchhhchHHHHHHH
Confidence 5666654 345566677888888885 888764322 1 233444566777777789999887533 32345566666
Q ss_pred HcCC
Q 006733 244 HLRM 247 (633)
Q Consensus 244 ~~g~ 247 (633)
+.|+
T Consensus 79 ~~~i 82 (270)
T cd06308 79 RAGI 82 (270)
T ss_pred HCCC
Confidence 6654
No 389
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=49.66 E-value=2.5e+02 Score=27.20 Aligned_cols=38 Identities=18% Similarity=0.254 Sum_probs=29.4
Q ss_pred HHHHhcCceEEEcCCchhhHHHHHHhhccCCccEEeec
Q 006733 91 LTLLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFA 128 (633)
Q Consensus 91 ~~li~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~ 128 (633)
..++++++.+++-.-++.++.++..+=+.+++|+|...
T Consensus 61 ~~l~~~~ik~lVIACNTASa~al~~LR~~~~iPVvGvi 98 (269)
T COG0796 61 DFLLERGIKALVIACNTASAVALEDLREKFDIPVVGVI 98 (269)
T ss_pred HHHHHcCCCEEEEecchHHHHHHHHHHHhCCCCEEEec
Confidence 34455588888777788888888888889999999754
No 390
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=49.53 E-value=2.8e+02 Score=27.57 Aligned_cols=173 Identities=14% Similarity=0.016 Sum_probs=81.0
Q ss_pred CCCeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCce-EEEcCCch
Q 006733 29 IPPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETV-AIIGPQFS 107 (633)
Q Consensus 29 ~~~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~-aviG~~~s 107 (633)
.++++++|++-..+.. ......+--.+.+-++- |.+++..+.- |-... ...+...+++ +.+||.
T Consensus 33 ~~~~l~~gi~p~e~~~---~~~~~~~pl~~~L~~~l----G~~V~~~~a~---dy~~v---ieal~~g~~D~A~~~~~-- 97 (299)
T COG3221 33 DPKELRVGIVPTENPT---NLIPAWAPLADYLEKEL----GIPVEFFVAT---DYAAV---IEALRAGQVDIAWLGPS-- 97 (299)
T ss_pred CCcceEEEEcCCCChH---HHHHHHHHHHHHHHHHh----CCceEEEecc---cHHHH---HHHHhCCCeeEEecCch--
Confidence 3568999999777642 23333333334444442 6778877732 22222 2334555777 555655
Q ss_pred hhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHH
Q 006733 108 VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGD 187 (633)
Q Consensus 108 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~ 187 (633)
+...+.--....-|+......+.. ..|-..+-+...... +-++.+.-++|++--.+.-. +.-.-..
T Consensus 98 --a~~~a~~~~~~~e~~~~~~~~dg~---~~Y~S~~i~~~ds~i------~sl~dlkgk~~af~d~~StS---G~l~P~~ 163 (299)
T COG3221 98 --AYVEAVDRALAGEPLAQTVQKDGS---PGYYSVIIVRADSPI------KSLEDLKGKRFAFGDPDSTS---GYLFPLY 163 (299)
T ss_pred --hHHHHHhhcccccceeeeeccCCC---cceeEEEEEeCCCCc------chHHHhcCCeEeccCCCcch---hhHhHHH
Confidence 111111112134455443111111 123333333333322 22337788999854433332 3333334
Q ss_pred HHhhcC-cEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh
Q 006733 188 KLAEKR-CRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (633)
Q Consensus 188 ~~~~~g-~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 232 (633)
.+.+.| ++. ...+....-.......+..+.+.+.|+-.++++.
T Consensus 164 ~L~~~g~~d~--~~~f~~v~~~G~H~~a~~aV~nG~vDva~~~~~~ 207 (299)
T COG3221 164 YLAKEGGIDP--DKFFGEVIFSGGHDAAVLAVANGQVDVAAVNSSA 207 (299)
T ss_pred HHHHhcCCCh--hhhhceeeccChHHHHHHHHHcCCceEEeccHHH
Confidence 455555 432 1111111111225667777777788887766544
No 391
>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=49.22 E-value=83 Score=30.07 Aligned_cols=76 Identities=7% Similarity=-0.034 Sum_probs=48.5
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|++|.. ++.|.....+.+++.+++.|+.+..... ..+.......++.+...+.|.|++.....+. ..++.+.+.
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~-~~l~~~~~~ 77 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAHGYQVLVCNS---DNDPEKEKEYLESLLAYQVDGLIVNPTGNNK-ELYQRLAKN 77 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEcC---CCCHHHHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHhcC
Confidence 455553 3567777888999999999988754321 1233445567777777889999887543222 235666665
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
+.
T Consensus 78 ~i 79 (267)
T cd06283 78 GK 79 (267)
T ss_pred CC
Confidence 53
No 392
>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=49.12 E-value=69 Score=30.66 Aligned_cols=68 Identities=13% Similarity=-0.001 Sum_probs=39.5
Q ss_pred CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHH-hhcCCCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 175 DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLT-VSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 175 ~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~-i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
+.|.....+.+.+.+++.|+.+.....-. . .+-...+.+ +...+.|.||+....... ..++.+.+.+.
T Consensus 15 ~~~~~~~~~~i~~~~~~~g~~~~~~~~~~---~-~~~~~~~~~~~~~~~vdgiii~~~~~~~-~~~~~~~~~~i 83 (268)
T cd06271 15 DPFFAEFLSGLSEALAEHGYDLVLLPVDP---D-EDPLEVYRRLVESGLVDGVIISRTRPDD-PRVALLLERGF 83 (268)
T ss_pred CccHHHHHHHHHHHHHHCCceEEEecCCC---c-HHHHHHHHHHHHcCCCCEEEEecCCCCC-hHHHHHHhcCC
Confidence 56777778888888999998876543221 2 222233343 445578888886433221 23455555443
No 393
>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=48.64 E-value=70 Score=30.66 Aligned_cols=75 Identities=11% Similarity=0.000 Sum_probs=47.9
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|+++..+ +.|.....+.+++.+++.|..+..... . .+.......++.+...++|.||+..... ...+++.+.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~--~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~~~~~l~~~ 77 (268)
T cd06298 2 VGVIIPDITNSYFAELARGIDDIATMYKYNIILSNS-D--NDKEKELKVLNNLLAKQVDGIIFMGGKI-SEEHREEFKRS 77 (268)
T ss_pred EEEEECCCcchHHHHHHHHHHHHHHHcCCeEEEEeC-C--CCHHHHHHHHHHHHHhcCCEEEEeCCCC-cHHHHHHHhcC
Confidence 5666643 567777788888999999988765432 1 2334456667777778899999864321 12355555554
Q ss_pred C
Q 006733 246 R 246 (633)
Q Consensus 246 g 246 (633)
+
T Consensus 78 ~ 78 (268)
T cd06298 78 P 78 (268)
T ss_pred C
Confidence 4
No 394
>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=48.56 E-value=94 Score=29.70 Aligned_cols=76 Identities=8% Similarity=-0.076 Sum_probs=46.6
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
|++|.. ++.+.......+++.+++.|+.+.....-. .+.......++.+...++|.|++......... +.++.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~-~~~~~~~ 78 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSMLAE--ADEEALRAAVRRLLAQRVDGVIVNAPLDDADA-ALAAAPA 78 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeCCC--CchHHHHHHHHHHHhcCCCEEEEeCCCCChHH-HHHHHhc
Confidence 566664 345667778889999999998876542211 12244556677777788999988654333222 3334444
Q ss_pred C
Q 006733 246 R 246 (633)
Q Consensus 246 g 246 (633)
|
T Consensus 79 ~ 79 (264)
T cd01574 79 D 79 (264)
T ss_pred C
Confidence 4
No 395
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=48.54 E-value=1e+02 Score=26.98 Aligned_cols=96 Identities=11% Similarity=-0.059 Sum_probs=54.7
Q ss_pred cCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCc--EEEEEeecCCCCChhhHHHHHHHhhcCCC
Q 006733 146 TQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRC--RLSHKVPLSPKGSRNQIIDTLLTVSSMMS 223 (633)
Q Consensus 146 ~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~--~v~~~~~~~~~~~~~~~~~~l~~i~~~~~ 223 (633)
.+.-..++..++++++..+..--.|+.+.-.-....++.+. +..+. .+.....+.+..+..++...++.+.+...
T Consensus 24 t~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~---~~~~~~~~~~~~~~l~p~~~~~~~~~~l~~~~~~~~ 100 (152)
T TIGR00249 24 TTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVG---DCLNLPSSAEVLEGLTPCGDIGLVSDYLEALTNEGV 100 (152)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHH---HHcCCCcceEEccCcCCCCCHHHHHHHHHHHHhcCC
Confidence 34456788889998887654333344443332222233332 22243 23222233322344556677777665556
Q ss_pred eEEEEeeChHHHHHHHHHHHH
Q 006733 224 RILILHTYDIWGLEVLNAAKH 244 (633)
Q Consensus 224 ~vIvl~~~~~~~~~il~~a~~ 244 (633)
+.|+++++......++..+-.
T Consensus 101 ~~vliVgH~P~i~~l~~~l~~ 121 (152)
T TIGR00249 101 ASVLLVSHLPLVGYLVAELCP 121 (152)
T ss_pred CEEEEEeCCCCHHHHHHHHhC
Confidence 788889999888888887754
No 396
>PRK08105 flavodoxin; Provisional
Probab=48.42 E-value=87 Score=27.33 Aligned_cols=81 Identities=9% Similarity=-0.096 Sum_probs=45.3
Q ss_pred cEEEEEEe-cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-------hHHHHH
Q 006733 166 RNVIALYV-DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-------DIWGLE 237 (633)
Q Consensus 166 ~~v~ii~~-d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-------~~~~~~ 237 (633)
+++.|+|. .+.-.+..++.+.+.+.+.|..+.... . .++ ..+...+.+.+++.++ +.++..
T Consensus 2 ~~i~I~YgS~tGnte~~A~~l~~~l~~~g~~~~~~~-~------~~~----~~~~~~~~~~vi~~~sT~G~Ge~p~~~~~ 70 (149)
T PRK08105 2 AKVGIFVGTVYGNALLVAEEAEAILTAQGHEVTLFE-D------PEL----SDWQPYQDELVLVVTSTTGQGDLPDSIVP 70 (149)
T ss_pred CeEEEEEEcCchHHHHHHHHHHHHHHhCCCceEEec-h------hhC----CchhcccCCeEEEEECCCCCCCCChhHHH
Confidence 47888884 444555677888888888888765321 1 111 1222222344444432 267788
Q ss_pred HHHHHHHc--CCCCCCeEEEEe
Q 006733 238 VLNAAKHL--RMMESGYVWIVT 257 (633)
Q Consensus 238 il~~a~~~--g~~~~~~~~i~~ 257 (633)
++..+++. .+.+..|..++.
T Consensus 71 f~~~l~~~~~~l~~~~~avfGl 92 (149)
T PRK08105 71 LFQALKDTAGYQPNLRYGVIAL 92 (149)
T ss_pred HHHHHHhcCcccCCCEEEEEee
Confidence 88887764 333334444444
No 397
>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=48.41 E-value=60 Score=29.33 Aligned_cols=84 Identities=18% Similarity=0.186 Sum_probs=58.6
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++|+||+.. .. ..-+-.+++..+.+..- .+++++.. +....++..|.+|++|+++..
T Consensus 5 ~~~l~Ig~~~--~~------------~~~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~ 62 (209)
T PF03466_consen 5 RGTLRIGASP--SF------------ASSLLPPLLAEFRERHP-NIRIEIRE-------GDSDELIEALRSGELDLAITF 62 (209)
T ss_dssp EEEEEEEEEH--HH------------HHHTHHHHHHHHHHHST-TEEEEEEE-------ESHHHHHHHHHTTSSSEEEES
T ss_pred ceEEEEEEEh--HH------------HHHHHHHHHHHHHHHCC-CcEEEEEe-------ccchhhhHHHhcccccEEEEE
Confidence 3678888863 11 12345677888877773 25566666 568899999999999999765
Q ss_pred eEeeccccceeeeccceeecceEEEEecCC
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
... ....+. ..|+....+++++++..
T Consensus 63 ~~~---~~~~~~-~~~l~~~~~~~~~~~~~ 88 (209)
T PF03466_consen 63 GPP---PPPGLE-SEPLGEEPLVLVVSPDH 88 (209)
T ss_dssp SSS---SSTTEE-EEEEEEEEEEEEEETTS
T ss_pred eec---cccccc-cccccceeeeeeeeccc
Confidence 433 333333 47888899999998776
No 398
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=48.33 E-value=2.9e+02 Score=27.44 Aligned_cols=78 Identities=14% Similarity=0.131 Sum_probs=42.9
Q ss_pred CceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHH-Hc----CCcEEEEE
Q 006733 97 ETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVD-YF----GWRNVIAL 171 (633)
Q Consensus 97 ~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~-~~----~w~~v~ii 171 (633)
.-+.|||+. ...+......+...|+++.-.+..+. ...+..++..++ +| +-.+++++
T Consensus 77 d~VLIIGGp-~AVs~~yE~~Lks~GitV~RigG~nR-----------------~ETa~~v~~~~~~~yp~af~n~kvvvv 138 (337)
T COG2247 77 DLVLIIGGP-IAVSPNYENALKSLGITVKRIGGANR-----------------YETAEKVAKFFREDYPNAFKNVKVVVV 138 (337)
T ss_pred ceEEEECCC-CcCChhHHHHHHhCCcEEEEecCcch-----------------HHHHHHHHHHHHhhchhhhcCeEEEEE
Confidence 566677733 33344455666778887775433321 223445555554 23 33477777
Q ss_pred EecCCCcchhHHHHHHHHhhcCcEEEE
Q 006733 172 YVDDDHGRNGIAALGDKLAEKRCRLSH 198 (633)
Q Consensus 172 ~~d~~~g~~~~~~~~~~~~~~g~~v~~ 198 (633)
|.= +| ...+++.+++ |++...
T Consensus 139 ~Gw-Dy----~~~~~e~~k~-~~~p~~ 159 (337)
T COG2247 139 YGW-DY----ADALMELMKE-GIVPVI 159 (337)
T ss_pred ecc-cc----HHHHHHHHhc-CcceeE
Confidence 632 23 2267777877 877553
No 399
>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=47.82 E-value=2.1e+02 Score=27.20 Aligned_cols=120 Identities=17% Similarity=0.126 Sum_probs=57.6
Q ss_pred EEEEEEeecCC--ccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CceEEEcCCchh
Q 006733 33 LNIGAVFALNS--TIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN--ETVAIIGPQFSV 108 (633)
Q Consensus 33 i~IG~l~p~~~--~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~--~v~aviG~~~s~ 108 (633)
=+|+++..... ........|++.++++-+ + ++.........+..++.+.+.+++.+ .+.+|++....
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 36777754332 333444567776665521 1 11111111222223355566677655 47888874433
Q ss_pred hHHHHHHhhccCCc--c-EEeeccCCC-CCccCCCCceEEecCChHHHHHHHHHHHH
Q 006733 109 IAHLVSHIANEFQV--P-LLSFAATDP-SLSSLQYPFFVRTTQSDLYQMAAIADIVD 161 (633)
Q Consensus 109 ~~~~va~~~~~~~i--P-~Is~~a~~~-~ls~~~~~~~~r~~p~~~~~~~al~~ll~ 161 (633)
.+..+...+.+.++ | -|+..+.+. .......|.+..+..+...++...++.+.
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 34455555655543 3 133222221 11122234455566666777777776653
No 400
>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=47.80 E-value=42 Score=29.38 Aligned_cols=85 Identities=16% Similarity=0.079 Sum_probs=57.2
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 152 QMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 152 ~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
+++.+..|+++++.+++.++- |..-...+.+.+-+.+.-.|+++... +.++....+++....+.++++++-+
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~-------sv~~a~~~l~~~~~~~~~v~ii~k~ 84 (151)
T PF03830_consen 13 HGQVATAWVKKLNANRIIVVD-DEVANDPFQKMILKMAAPAGVKLSIF-------SVEEAIEKLKKPEYSKKRVLIIVKS 84 (151)
T ss_dssp CTTHHHHHHHHHTTSEEEEE--HHHHHSHHHHHHHHHTSHTTSEEEEE--------HHHHHHHHCGGGGTTEEEEEEESS
T ss_pred eeeeeEEEhhhcccCEEEEEC-HHHhcCHHHHHHHHHhhcCCCceEEE-------EHHHHHHHHHhcccCCceEEEEECC
Confidence 467788899999999998765 43333344555555554568877633 3345666666666677899999999
Q ss_pred hHHHHHHHHHHHH
Q 006733 232 DIWGLEVLNAAKH 244 (633)
Q Consensus 232 ~~~~~~il~~a~~ 244 (633)
+.++..++++-..
T Consensus 85 ~~d~~~l~~~g~~ 97 (151)
T PF03830_consen 85 PEDALRLVEAGVK 97 (151)
T ss_dssp HHHHHHHHHTT--
T ss_pred HHHHHHHHhcCCC
Confidence 9999988875443
No 401
>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=47.70 E-value=72 Score=30.77 Aligned_cols=77 Identities=13% Similarity=0.044 Sum_probs=49.6
Q ss_pred EEEEEe-cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHHHHHHHHHHc
Q 006733 168 VIALYV-DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGLEVLNAAKHL 245 (633)
Q Consensus 168 v~ii~~-d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a~~~ 245 (633)
|++|.. .++|.......+.+.+++.|..+.... +...+.......+..+...++|.+|+.... ......++.+.+
T Consensus 2 i~~v~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~--~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~- 78 (271)
T cd06314 2 IAVVTNGASPFWKIAEAGVKAAGKELGVDVEFVV--PQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAAA- 78 (271)
T ss_pred eEEEcCCCcHHHHHHHHHHHHHHHHcCCeEEEeC--CCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHhc-
Confidence 555553 356667778888889999998876542 111133345567777888889999987543 334566676655
Q ss_pred CC
Q 006733 246 RM 247 (633)
Q Consensus 246 g~ 247 (633)
+.
T Consensus 79 ~i 80 (271)
T cd06314 79 GI 80 (271)
T ss_pred CC
Confidence 53
No 402
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=47.57 E-value=80 Score=31.13 Aligned_cols=77 Identities=5% Similarity=-0.086 Sum_probs=47.6
Q ss_pred EEEEe--cCCCcchhHHHHHHHHhhcCc-EEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-hHHHHHHHHHHHH
Q 006733 169 IALYV--DDDHGRNGIAALGDKLAEKRC-RLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-DIWGLEVLNAAKH 244 (633)
Q Consensus 169 ~ii~~--d~~~g~~~~~~~~~~~~~~g~-~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-~~~~~~il~~a~~ 244 (633)
++|.. ++.|.....+.+.+.+++.|. .+.... +...+.......++.+...++|.||+... .......++++.+
T Consensus 2 gvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~i~~~--~~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~ 79 (302)
T TIGR02637 2 GLVVKSLGNPFFEAANKGAEEAAKELGSVYIIYTG--PTGTTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMK 79 (302)
T ss_pred EEEeccCCCHHHHHHHHHHHHHHHHhCCeeEEEEC--CCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHH
Confidence 44443 345666677788888888884 333211 11123344556777777788999888654 3444567788877
Q ss_pred cCC
Q 006733 245 LRM 247 (633)
Q Consensus 245 ~g~ 247 (633)
.|.
T Consensus 80 ~gi 82 (302)
T TIGR02637 80 RGI 82 (302)
T ss_pred CCC
Confidence 664
No 403
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=47.56 E-value=1.5e+02 Score=26.17 Aligned_cols=80 Identities=13% Similarity=0.079 Sum_probs=53.7
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 152 QMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 152 ~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
+++.+..|.++++.+++.++- |..-...+.+.+...+.-.|+++... +.++....+++ ...+.++++++-+
T Consensus 15 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~-------sv~~a~~~l~~-~~~~~~v~il~k~ 85 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVAN-DEVAEDPVQQNLMEMVLAEGIAVRFW-------TLQKVIDNIHR-AADRQKILLVCKT 85 (157)
T ss_pred hHHhhhhhhcccCCCEEEEEc-chhcCCHHHHHHHHhhCCCCCeEEEE-------EHHHHHHHHhc-cCCCceEEEEECC
Confidence 678888999999999987664 33333334444444444457776532 23455566666 5556789999999
Q ss_pred hHHHHHHHH
Q 006733 232 DIWGLEVLN 240 (633)
Q Consensus 232 ~~~~~~il~ 240 (633)
+.++..+++
T Consensus 86 ~~d~~~l~~ 94 (157)
T PRK11425 86 PADFLTLVK 94 (157)
T ss_pred HHHHHHHHH
Confidence 999988876
No 404
>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=47.41 E-value=1.3e+02 Score=26.79 Aligned_cols=65 Identities=15% Similarity=0.115 Sum_probs=43.8
Q ss_pred CcEEEEEEecCCCcc---hhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhc-CCCeEEEEeeC
Q 006733 165 WRNVIALYVDDDHGR---NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS-MMSRILILHTY 231 (633)
Q Consensus 165 w~~v~ii~~d~~~g~---~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~~ 231 (633)
..++++|...++-+. .....+...+++.|.++.....++ .+..++...+++..+ .+.|+|+..+.
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~--Dd~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVK--DDIYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcC--CCHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 457888765442221 234467778888999988776676 456677788877643 57899888643
No 405
>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=47.27 E-value=75 Score=28.60 Aligned_cols=70 Identities=17% Similarity=0.225 Sum_probs=46.9
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.- .+++++.. .....++..+.+|++|+++.... .....+. +.++....+.+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 81 (203)
T cd08445 14 GLLPELIRRFRQAAP-DVEIELIE-------MTTVQQIEALKEGRIDVGFGRLR---IEDPAIR-RIVLREEPLVVALPA 81 (203)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHcCCCcEEEecCC---CCCCCce-eEEEEeccEEEEeeC
Confidence 456677788877762 24466665 55789999999999999985322 1112222 456777888888876
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 82 ~h 83 (203)
T cd08445 82 GH 83 (203)
T ss_pred CC
Confidence 54
No 406
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=47.19 E-value=1.1e+02 Score=31.43 Aligned_cols=83 Identities=10% Similarity=0.102 Sum_probs=55.8
Q ss_pred ceEEecCChHHHHHHHHHH----HHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHH
Q 006733 141 FFVRTTQSDLYQMAAIADI----VDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLL 216 (633)
Q Consensus 141 ~~~r~~p~~~~~~~al~~l----l~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~ 216 (633)
.+.=++|.---=...+++| ....+-++|++|+.|+ |=.+..+.++.+++-.|+.+.... +..++...+.
T Consensus 205 vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDt-YRIGA~EQLk~Ya~im~vp~~vv~------~~~el~~ai~ 277 (407)
T COG1419 205 VIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDT-YRIGAVEQLKTYADIMGVPLEVVY------SPKELAEAIE 277 (407)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEecc-chhhHHHHHHHHHHHhCCceEEec------CHHHHHHHHH
Confidence 3444455432223334444 3345789999999764 767788999999988888766442 4568888888
Q ss_pred HhhcCCCeEEEEeeCh
Q 006733 217 TVSSMMSRILILHTYD 232 (633)
Q Consensus 217 ~i~~~~~~vIvl~~~~ 232 (633)
.+++ .|+|++..-+
T Consensus 278 ~l~~--~d~ILVDTaG 291 (407)
T COG1419 278 ALRD--CDVILVDTAG 291 (407)
T ss_pred Hhhc--CCEEEEeCCC
Confidence 8864 4999998554
No 407
>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=47.16 E-value=34 Score=32.26 Aligned_cols=106 Identities=10% Similarity=0.015 Sum_probs=63.2
Q ss_pred cCChHHHHHHHHHHHHH-cCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCe
Q 006733 146 TQSDLYQMAAIADIVDY-FGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSR 224 (633)
Q Consensus 146 ~p~~~~~~~al~~ll~~-~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~ 224 (633)
.|.....+..+++.+.. ..-+++.++..+.. ...+.+.+++.|..+.....|.. ............+...+.+
T Consensus 97 ~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~~-----~~~l~~~L~~~g~~v~~~~vY~~-~~~~~~~~~~~~l~~~~~~ 170 (231)
T PF02602_consen 97 VPSSEGSSEGLAELLKEQLRGKRVLILRGEGG-----RPDLPEKLREAGIEVTEVIVYET-PPEELSPELKEALDRGEID 170 (231)
T ss_dssp E-TTSSSHHHHHGGHHHCCTTEEEEEEESSSS-----CHHHHHHHHHTTEEEEEEECEEE-EEHHHHHHHHHHHHHTTTS
T ss_pred cCCCCCCHHHHHHHHHhhCCCCeEEEEcCCCc-----cHHHHHHHHHCCCeEEEEEEeec-ccccchHHHHHHHHcCCCC
Confidence 44433345777887764 44488887775543 45677889999998877666653 2223344455556555666
Q ss_pred EEEEeeChHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 006733 225 ILILHTYDIWGLEVLNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 225 vIvl~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 258 (633)
+|++.++..+..+++.+.+.+....+..++..+
T Consensus 171 -~v~ftS~~~~~~~~~~~~~~~~~~~~~~~~~ig 203 (231)
T PF02602_consen 171 -AVVFTSPSAVRAFLELLKKNGALLKRVPIVAIG 203 (231)
T ss_dssp -EEEESSHHHHHHHHHHSSGHHHHHTTSEEEESS
T ss_pred -EEEECCHHHHHHHHHHhHhhhhhhhCCEEEEEC
Confidence 455667777777877766432111334455544
No 408
>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=46.86 E-value=25 Score=34.92 Aligned_cols=66 Identities=12% Similarity=-0.013 Sum_probs=40.3
Q ss_pred HHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEee-ccccceee----eccceeecceEEEEecCC
Q 006733 505 AVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAIT-TERTKMVD----FTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 505 ~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~-~~r~~~~~----fs~p~~~~~~~~lv~~~~ 578 (633)
.+++++|.+ +++... .++..++..|.+|++|+++.+.+.. ..+.+..+ +...+......+++++++
T Consensus 20 ~~~k~~Gl~--Ve~~~~------~~~~~~~~al~~G~iD~~~~~~~~~~~a~~~g~~~~~v~~~~~~~~~~~lv~~~~s 90 (300)
T TIGR01729 20 AAAKEAGAT--IDWRKF------DSGADISTALASGNVPIGVIGSSPLAAAASRGVPIELFWILDNIGKSEALVAREGS 90 (300)
T ss_pred chHHhcCCe--eEEEec------CcHHHHHHHHHcCCCCEeccCCCHHHHHHHCCCCeEEEEEeccCCccceEEecCCC
Confidence 456678865 565553 4688999999999999997654321 22332222 222333334577777664
No 409
>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=46.23 E-value=2e+02 Score=29.20 Aligned_cols=90 Identities=6% Similarity=-0.083 Sum_probs=57.0
Q ss_pred HHHHHHH-cCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecC---CCCChhhHHHHHHHhhcCCC---eEEEE
Q 006733 156 IADIVDY-FGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLS---PKGSRNQIIDTLLTVSSMMS---RILIL 228 (633)
Q Consensus 156 l~~ll~~-~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~---~~~~~~~~~~~l~~i~~~~~---~vIvl 228 (633)
+.+++.. .+.+++.++++...+ ....+.+.+.+++.|+.+... .++ .+.+.+.+...++.+++.+. |.||.
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 356899888855443 356788888898888765432 232 23455677777777777655 88887
Q ss_pred eeCh--HHHHHHHHHHHHcCC
Q 006733 229 HTYD--IWGLEVLNAAKHLRM 247 (633)
Q Consensus 229 ~~~~--~~~~~il~~a~~~g~ 247 (633)
.+.+ .++..++......|.
T Consensus 92 iGGGsv~D~ak~vA~~~~rgi 112 (345)
T cd08195 92 LGGGVVGDLAGFVAATYMRGI 112 (345)
T ss_pred ECChHHHhHHHHHHHHHhcCC
Confidence 6544 677777766555553
No 410
>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=46.23 E-value=91 Score=26.66 Aligned_cols=92 Identities=10% Similarity=0.033 Sum_probs=43.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecC---CCCChhhH---HHHHHHhhcCCCeEEE
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLS---PKGSRNQI---IDTLLTVSSMMSRILI 227 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~---~~~~~~~~---~~~l~~i~~~~~~vIv 227 (633)
..+.+.+...+--....+|.+ +.......+.+.+++.|+.+....... ...+..|. .+.+........+.++
T Consensus 23 ~~l~~~i~~~~~~~~~~~y~~--~~~~~~~~~~~~L~~~g~~v~~~~~~~~~~~~k~~~D~~l~~d~~~~~~~~~~d~iv 100 (146)
T PF01936_consen 23 ERLLEEIRKYGPLVRIRAYGN--WDDPNQKSFQEALQRAGIKVRHFPLRKRGGGGKKGVDVALAVDILELAYENPPDTIV 100 (146)
T ss_dssp HHHHHHHTTTEEEEEEEEEE------HHHHHHHHHHHHHT-EEEE------S---S---HHHHHHHHHHHG--GG-SEEE
T ss_pred HHHHHHHHhcCCeEEEEEEee--ccccchhhHHHHHHhCeeeEEeeecccccccccCCcHHHHHHHHHHHhhccCCCEEE
Confidence 445555544333222334444 223345777788999999776543311 11122332 2333333334468899
Q ss_pred EeeChHHHHHHHHHHHHcCC
Q 006733 228 LHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 228 l~~~~~~~~~il~~a~~~g~ 247 (633)
+.+...+...+++.+++.|.
T Consensus 101 LvSgD~Df~~~v~~l~~~g~ 120 (146)
T PF01936_consen 101 LVSGDSDFAPLVRKLRERGK 120 (146)
T ss_dssp EE---GGGHHHHHHHHHH--
T ss_pred EEECcHHHHHHHHHHHHcCC
Confidence 98888999999999998773
No 411
>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=46.14 E-value=1.2e+02 Score=26.57 Aligned_cols=63 Identities=16% Similarity=0.158 Sum_probs=41.2
Q ss_pred EEEEEEecCC--Ccc---hhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhc-CCCeEEEEeeC
Q 006733 167 NVIALYVDDD--HGR---NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSS-MMSRILILHTY 231 (633)
Q Consensus 167 ~v~ii~~d~~--~g~---~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~-~~~~vIvl~~~ 231 (633)
++++|...++ .|+ .....+.+.+++.|.++.....++ .+..++.+.+++..+ .+.|+||..+.
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~--Dd~~~i~~~l~~~~~~~~~DlVittGG 70 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVP--DDKDEIREALIEWADEDGVDLILTTGG 70 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcC--CCHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 5677665432 221 234467788999999887766666 455667777776654 37899888643
No 412
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=45.76 E-value=1.6e+02 Score=29.57 Aligned_cols=77 Identities=10% Similarity=-0.055 Sum_probs=49.7
Q ss_pred CCcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHH
Q 006733 164 GWRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNA 241 (633)
Q Consensus 164 ~w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~ 241 (633)
.-+.++++..+ +.|.......+.+.+++.|..+...... .+.......+..+...++|.|++..... ....++.
T Consensus 58 ~~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~~~~~ 133 (341)
T PRK10703 58 HTKSIGLLATSSEAPYFAEIIEAVEKNCYQKGYTLILCNAW---NNLEKQRAYLSMLAQKRVDGLLVMCSEY-PEPLLAM 133 (341)
T ss_pred CCCeEEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEecCCC-CHHHHHH
Confidence 34578888754 5677777889999999999887644321 2333445667777778899988865421 1234455
Q ss_pred HHH
Q 006733 242 AKH 244 (633)
Q Consensus 242 a~~ 244 (633)
+.+
T Consensus 134 l~~ 136 (341)
T PRK10703 134 LEE 136 (341)
T ss_pred HHh
Confidence 554
No 413
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=45.55 E-value=1.1e+02 Score=30.67 Aligned_cols=82 Identities=5% Similarity=-0.089 Sum_probs=53.8
Q ss_pred cEEEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEe-eChHHHHHHHHHH
Q 006733 166 RNVIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILH-TYDIWGLEVLNAA 242 (633)
Q Consensus 166 ~~v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~-~~~~~~~~il~~a 242 (633)
.++++++. ++.|.....+.+++.+++.|...... ..+...+...-...+..+...++|.|++. .++......+++|
T Consensus 34 ~~i~~~~~~~~~~f~~~~~~g~~~~a~~~g~~~~~~-~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~~~~~v~~a 112 (322)
T COG1879 34 KTIGVVVPTLGNPFFQAVRKGAEAAAKKLGVVVAVV-IADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPDALTPAVKKA 112 (322)
T ss_pred ceEEEEeccCCChHHHHHHHHHHHHHHHcCCcEEEE-ecccccChHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHH
Confidence 56777774 35677777778888888888621111 12211223333444555556789998886 6778899999999
Q ss_pred HHcCCC
Q 006733 243 KHLRMM 248 (633)
Q Consensus 243 ~~~g~~ 248 (633)
.+.|..
T Consensus 113 ~~aGIp 118 (322)
T COG1879 113 KAAGIP 118 (322)
T ss_pred HHCCCc
Confidence 998853
No 414
>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=45.33 E-value=96 Score=29.57 Aligned_cols=73 Identities=8% Similarity=-0.039 Sum_probs=47.7
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHH
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKH 244 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~ 244 (633)
|+++..+ +.|.....+.+++.+++.|..+...... .+.......+..+...++|.|++....... ..++.+.+
T Consensus 2 i~~i~~~~~~~~~~~i~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~-~~~~~~~~ 76 (260)
T cd06286 2 IGVVLPYINHPYFSQLVDGIEKAALKHGYKVVLLQTN---YDKEKELEYLELLKTKQVDGLILCSRENDW-EVIEPYTK 76 (260)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeCC---CChHHHHHHHHHHHHcCCCEEEEeCCCCCH-HHHHHHhc
Confidence 5666653 5677788889999999999988654322 233444567777877889988886433222 33445544
No 415
>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=45.22 E-value=98 Score=29.66 Aligned_cols=68 Identities=7% Similarity=0.019 Sum_probs=40.2
Q ss_pred CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHH-hhcCCCeEEEEeeChHHHHHHHHHHHHcCC
Q 006733 175 DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLT-VSSMMSRILILHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 175 ~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~-i~~~~~~vIvl~~~~~~~~~il~~a~~~g~ 247 (633)
+.|.....+.+++.+++.|+++...... +..+....+.+ +...++|.||+...... ...++.+.+.|.
T Consensus 16 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~i 84 (270)
T cd06294 16 NPFFIEVLRGISAVANENGYDISLATGK----NEEELLEEVKKMIQQKRVDGFILLYSRED-DPIIDYLKEEKF 84 (270)
T ss_pred CCCHHHHHHHHHHHHHHCCCEEEEecCC----CcHHHHHHHHHHHHHcCcCEEEEecCcCC-cHHHHHHHhcCC
Confidence 4566677788888899999887643211 12222233433 44456898888753322 345666666554
No 416
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=44.93 E-value=4.1e+02 Score=28.97 Aligned_cols=129 Identities=11% Similarity=0.104 Sum_probs=77.2
Q ss_pred CChHHHHHHHHH-HHhcCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHH
Q 006733 81 YSRFLGMVEALT-LLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADI 159 (633)
Q Consensus 81 ~~~~~a~~~~~~-li~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~l 159 (633)
..-..+++.+.+ +..+++++||.-..+. ..+. ....+|+|.... +..+..+++..
T Consensus 47 ~~~~~~v~~~~~~~~~~~~dviIsrG~ta--~~i~---~~~~iPVv~i~~------------------s~~Dil~al~~- 102 (538)
T PRK15424 47 LGFEKAVTYIRKRLATERCDAIIAAGSNG--AYLK---SRLSVPVILIKP------------------SGFDVMQALAR- 102 (538)
T ss_pred hhHHHHHHHHHHHHhhCCCcEEEECchHH--HHHH---hhCCCCEEEecC------------------CHhHHHHHHHH-
Confidence 345667777744 5566899999744332 2233 346899997422 22233444432
Q ss_pred HHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHH
Q 006733 160 VDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVL 239 (633)
Q Consensus 160 l~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il 239 (633)
.++++ .++++|...+.. .....+.+.+ ++++... .+ .+..|....++++++.+.++||-.+. ..
T Consensus 103 a~~~~-~~iavv~~~~~~--~~~~~~~~~l---~~~i~~~-~~---~~~~e~~~~v~~lk~~G~~~vvG~~~------~~ 166 (538)
T PRK15424 103 ARKLT-SSIGVVTYQETI--PALVAFQKTF---NLRIEQR-SY---VTEEDARGQINELKANGIEAVVGAGL------IT 166 (538)
T ss_pred HHhcC-CcEEEEecCccc--HHHHHHHHHh---CCceEEE-Ee---cCHHHHHHHHHHHHHCCCCEEEcCch------HH
Confidence 34443 578887754431 2344454444 5565543 23 25679999999999999999885533 24
Q ss_pred HHHHHcCCCC
Q 006733 240 NAAKHLRMME 249 (633)
Q Consensus 240 ~~a~~~g~~~ 249 (633)
+.|++.|+.+
T Consensus 167 ~~A~~~g~~g 176 (538)
T PRK15424 167 DLAEEAGMTG 176 (538)
T ss_pred HHHHHhCCce
Confidence 5667777654
No 417
>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=44.89 E-value=1.6e+02 Score=29.39 Aligned_cols=80 Identities=10% Similarity=-0.075 Sum_probs=50.0
Q ss_pred CCcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHH
Q 006733 164 GWRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNA 241 (633)
Q Consensus 164 ~w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~ 241 (633)
.-+.|+++..+ +.|.......+++.+++.|..+.....- .+.......++.+...+.|.||+...... ..+++.
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~g~~~~i~~~~---~~~~~~~~~~~~l~~~~vdGiIi~~~~~~-~~~~~~ 133 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATMYKYNIILSNSD---EDPEKEVQVLNTLLSKQVDGIIFMGGTIT-EKLREE 133 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHHcCCEEEEEeCC---CCHHHHHHHHHHHHhCCCCEEEEeCCCCC-hHHHHH
Confidence 44678888753 4566667788888888899887654221 23333456667777788999998653211 224445
Q ss_pred HHHcCC
Q 006733 242 AKHLRM 247 (633)
Q Consensus 242 a~~~g~ 247 (633)
+.+.++
T Consensus 134 l~~~~i 139 (329)
T TIGR01481 134 FSRSPV 139 (329)
T ss_pred HHhcCC
Confidence 555453
No 418
>cd08420 PBP2_CysL_like C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold. CysL, also known as YwfK, is a regular of sulfur metabolism in Bacillus subtilis. Sulfur is required for the synthesis of proteins and essential cofactors in all living organism. Sulfur can be assimilated either from inorganic sources (sulfate and thiosulfate), or from organic sources (sulfate esters, sulfamates, and sulfonates). CysL activates the transcription of the cysJI operon encoding sulfite reductase, which reduces sulfite to sulfide. Both cysL mutant and cysJI mutant are unable to grow using sulfate or sulfite as the sulfur source. Like other LysR-type regulators, CysL also negatively regulates its own transcription. In Escherichia coli, three LysR-type activators are involved in the regulation of sulfur metabolism: CysB, Cbl and MetR. The topology
Probab=44.79 E-value=99 Score=27.36 Aligned_cols=70 Identities=16% Similarity=0.163 Sum_probs=46.5
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.+... .+++.+.. .+...+..+|.+|++|+++..... ....+. +.+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~~~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (201)
T cd08420 13 YLLPRLLARFRKRYP-EVRVSLTI-------GNTEEIAERVLDGEIDLGLVEGPV---DHPDLI-VEPFAEDELVLVVPP 80 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEecCCC---CCcceE-EEeecCccEEEEecC
Confidence 445677788877762 24466665 456788999999999999864322 222232 367777888888876
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 81 ~~ 82 (201)
T cd08420 81 DH 82 (201)
T ss_pred CC
Confidence 55
No 419
>cd08411 PBP2_OxyR The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily. OxyR senses hydrogen peroxide and is activated through the formation of an intramolecular disulfide bond. The OxyR activation induces the transcription of genes necessary for the bacterial defense against oxidative stress. The OxyR of LysR-type transcriptional regulator family is composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repre
Probab=44.77 E-value=1.1e+02 Score=27.30 Aligned_cols=69 Identities=14% Similarity=0.230 Sum_probs=45.7
Q ss_pred eeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEecC
Q 006733 498 YCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (633)
Q Consensus 498 ~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~ 577 (633)
+-.+++..+.++.. ++++++.. .+...++..|.+|++|+++..... ....+. ..++....+.++++++
T Consensus 15 ~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~ 82 (200)
T cd08411 15 LLPRLLPALRQAYP-KLRLYLRE-------DQTERLLEKLRSGELDAALLALPV---DEPGLE-EEPLFDEPFLLAVPKD 82 (200)
T ss_pred hhHHHHHHHHHHCC-CcEEEEEe-------CcHHHHHHHHHcCCccEEEEeccC---CCCCce-EEEeeccceEEEecCC
Confidence 55677777877762 24466665 567899999999999999854221 112222 3567777777787665
Q ss_pred C
Q 006733 578 K 578 (633)
Q Consensus 578 ~ 578 (633)
.
T Consensus 83 ~ 83 (200)
T cd08411 83 H 83 (200)
T ss_pred C
Confidence 4
No 420
>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=44.57 E-value=1.1e+02 Score=29.48 Aligned_cols=77 Identities=14% Similarity=0.042 Sum_probs=49.6
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHH----HHHHHHH
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIW----GLEVLNA 241 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~----~~~il~~ 241 (633)
|+++.. ++.|-....+.+.+.+++.|+.+..... . .+...-...++.+...++|.||+...... ....+++
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~--~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~ 78 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEKGYSLLLAST-N--NDPERERKCLENMLSQGIDGLIIEPTKSALPNPNIDLYLK 78 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHcCCEEEEEeC-C--CCHHHHHHHHHHHHHcCCCEEEEeccccccccccHHHHHH
Confidence 455553 3566677788889999999988865322 1 23333456777788889999998643321 2245666
Q ss_pred HHHcCC
Q 006733 242 AKHLRM 247 (633)
Q Consensus 242 a~~~g~ 247 (633)
+.+.+.
T Consensus 79 ~~~~~i 84 (273)
T cd01541 79 LEKLGI 84 (273)
T ss_pred HHHCCC
Confidence 766554
No 421
>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=44.41 E-value=2.4e+02 Score=25.38 Aligned_cols=92 Identities=14% Similarity=0.199 Sum_probs=45.0
Q ss_pred CceEEEcCCchhhHHHHHHhhccCC--cc-EEeeccCCCCCcc-CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEE
Q 006733 97 ETVAIIGPQFSVIAHLVSHIANEFQ--VP-LLSFAATDPSLSS-LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALY 172 (633)
Q Consensus 97 ~v~aviG~~~s~~~~~va~~~~~~~--iP-~Is~~a~~~~ls~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~ 172 (633)
++.+++||.++.-+.....++.... .. .+++....+.-.+ +.-.|.|-. . ..+-+.++.-..=...- +
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 6789999998886666666666542 22 2333333333322 333455531 1 22233332211111111 3
Q ss_pred ecCCCcchhHHHHHHHHhhcCcEEE
Q 006733 173 VDDDHGRNGIAALGDKLAEKRCRLS 197 (633)
Q Consensus 173 ~d~~~g~~~~~~~~~~~~~~g~~v~ 197 (633)
.++.||.. .+.+++.+++...++.
T Consensus 75 ~g~~YGt~-~~~i~~~~~~gk~~il 98 (183)
T PF00625_consen 75 DGNYYGTS-KSAIDKVLEEGKHCIL 98 (183)
T ss_dssp TTEEEEEE-HHHHHHHHHTTTEEEE
T ss_pred cchhhhhc-cchhhHhhhcCCcEEE
Confidence 34567754 4667777776666654
No 422
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=44.12 E-value=66 Score=29.08 Aligned_cols=100 Identities=16% Similarity=0.101 Sum_probs=51.7
Q ss_pred eEEEcCCchhhHHHHHHhhccCCccEEeeccCCC-------CCccCCCCceEEec-CChHHHHHHHHHHHHHcCCcEEEE
Q 006733 99 VAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDP-------SLSSLQYPFFVRTT-QSDLYQMAAIADIVDYFGWRNVIA 170 (633)
Q Consensus 99 ~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~-------~ls~~~~~~~~r~~-p~~~~~~~al~~ll~~~~w~~v~i 170 (633)
.+|+||..+.=+.....+++.+++|+|+.+-.-. .+......++-+-. -++......+-+.+.+..-.. .+
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlstgd~~r~~~~~~t~lg~~~k~~i~~g~lv~d~i~~~~v~~rl~~~d~~~-~~ 81 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDTGDILRAAIAERTELGEEIKKYIDKGELVPDEIVNGLVKERLDEADCKA-GF 81 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcHhHHhHhhhccCChHHHHHHHHHHcCCccchHHHHHHHHHHHHhhcccC-eE
Confidence 5789999988887888889999999998422110 00000001111111 122222233333344332223 56
Q ss_pred EEecCCCcchhHHHHHHHHhhcCcEEEEE
Q 006733 171 LYVDDDHGRNGIAALGDKLAEKRCRLSHK 199 (633)
Q Consensus 171 i~~d~~~g~~~~~~~~~~~~~~g~~v~~~ 199 (633)
|+.+.+-....+..++..+.+.|......
T Consensus 82 I~dg~PR~~~qa~~l~r~l~~~g~~~d~v 110 (178)
T COG0563 82 ILDGFPRTLCQARALKRLLKELGVRLDMV 110 (178)
T ss_pred EEeCCCCcHHHHHHHHHHHHHcCCCcceE
Confidence 66555555555666666666655443333
No 423
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=44.07 E-value=1e+02 Score=30.58 Aligned_cols=86 Identities=19% Similarity=0.189 Sum_probs=54.6
Q ss_pred ceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeee
Q 006733 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDF 549 (633)
Q Consensus 470 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~ 549 (633)
++++||+.. .. ...+-.+++..+.+... .+++.+.. .....++..+.+|++|+++..-
T Consensus 95 g~l~ig~~~--~~------------~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 152 (305)
T CHL00180 95 GTLIIGASQ--TT------------GTYLMPRLIGLFRQRYP-QINVQLQV-------HSTRRIAWNVANGQIDIAIVGG 152 (305)
T ss_pred ceEEEEEcC--cc------------hHhHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEEcC
Confidence 579999873 11 11345567777777652 24466655 5689999999999999998632
Q ss_pred EeeccccceeeeccceeecceEEEEecCC
Q 006733 550 AITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 550 ~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
....+..+.+ .+.++....+.++++++.
T Consensus 153 ~~~~~~~~~~-~~~~l~~~~~~~v~~~~~ 180 (305)
T CHL00180 153 EVPTELKKIL-EITPYVEDELALIIPKSH 180 (305)
T ss_pred ccCcccccce-eEEEeccCcEEEEECCCC
Confidence 2221111122 347777888888887654
No 424
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=44.00 E-value=90 Score=30.82 Aligned_cols=86 Identities=10% Similarity=0.176 Sum_probs=57.3
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++|+|++.. .. ...+-.+++..+.++.. .+++++.. .+..++...|.+|++|+++..
T Consensus 94 ~g~l~I~~~~--~~------------~~~~l~~~l~~~~~~~p-~i~~~~~~-------~~~~~~~~~l~~g~~Di~i~~ 151 (302)
T PRK09791 94 AGQINIGMGA--SI------------ARSLMPAVISRFHQQHP-QVKVRIME-------GQLVSMINELRQGELDFTINT 151 (302)
T ss_pred ceEEEEEech--HH------------HHhhhHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHCCCccEEEEe
Confidence 4789999874 11 22455677788777763 34466655 568899999999999999753
Q ss_pred eEeeccccceeeeccceeecceEEEEecCC
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
.... .....+.+ .|+....++++++++.
T Consensus 152 ~~~~-~~~~~~~~-~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 152 YYQG-PYDHEFTF-EKLLEKQFAVFCRPGH 179 (302)
T ss_pred cCCc-ccccceeE-EEeccceEEEEEcCCC
Confidence 2111 11223443 7888888999887766
No 425
>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=43.89 E-value=56 Score=24.71 Aligned_cols=41 Identities=15% Similarity=0.209 Sum_probs=32.9
Q ss_pred HHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEE
Q 006733 156 IADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLS 197 (633)
Q Consensus 156 l~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~ 197 (633)
..++++.+ -+++.+.+++|.-|......+.+.+.+.|..+.
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 34555554 689999998899999999999999999887764
No 426
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=43.70 E-value=2.2e+02 Score=24.87 Aligned_cols=121 Identities=17% Similarity=0.181 Sum_probs=72.4
Q ss_pred HHHHHhc--CceEEEcCCch--hhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCC
Q 006733 90 ALTLLEN--ETVAIIGPQFS--VIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGW 165 (633)
Q Consensus 90 ~~~li~~--~v~aviG~~~s--~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w 165 (633)
+..++++ ....|+||..- ..-..+..+.++.++|++..+++...+.++.-. +......++-.+++.-.|
T Consensus 28 ~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~~~~~~~~~i~-------~~~~~lh~it~~l~Dp~w 100 (170)
T COG1880 28 VAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASSMGNLIGRGIG-------SEYINLHAITQYLTDPNW 100 (170)
T ss_pred HHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchhhcchhhcccc-------cchhHHHHHHHHhcCCCC
Confidence 3445554 78999998655 455557789999999999877766666653311 333345667777777444
Q ss_pred ---------cEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCC-------CChhhHHHHHHHhh
Q 006733 166 ---------RNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPK-------GSRNQIIDTLLTVS 219 (633)
Q Consensus 166 ---------~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-------~~~~~~~~~l~~i~ 219 (633)
.-|.++.+-..|.....+.+++.. +=..+.....+.++ .+..++-+.|+++.
T Consensus 101 ~G~dg~g~yDlviflG~~~yy~sq~Ls~lKhFs--~i~tiaId~~Y~pnAd~SFpNl~kde~~~~L~ell 168 (170)
T COG1880 101 PGFDGNGNYDLVIFLGSIYYYLSQVLSGLKHFS--NIKTIAIDRYYQPNADYSFPNLSKDEYLAYLDELL 168 (170)
T ss_pred CCcCCCCCcceEEEEeccHHHHHHHHHHhhhhh--cceEEEeccccCcCccccCCCcCHHHHHHHHHHHh
Confidence 456666666666666666666544 21233333333322 34455666665553
No 427
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=43.68 E-value=2.6e+02 Score=30.75 Aligned_cols=83 Identities=11% Similarity=0.033 Sum_probs=56.8
Q ss_pred CCcEEEEEEecCCCcchhHHHHHHHHhhcCc-EEEEEeecCCC--CChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHH
Q 006733 164 GWRNVIALYVDDDHGRNGIAALGDKLAEKRC-RLSHKVPLSPK--GSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLN 240 (633)
Q Consensus 164 ~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~-~v~~~~~~~~~--~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~ 240 (633)
+-++|.|+.+-|..|......+...+++.|. .+.+. +|.. .+-.--...++++.+.+.+.||.+-.+.....-++
T Consensus 68 ~~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~--IP~R~~eGYGl~~~~i~~~~~~~~~LiItvD~Gi~~~e~i~ 145 (575)
T PRK11070 68 EGTRIIVVGDFDADGATSTALSVLALRSLGCSNVDYL--VPNRFEDGYGLSPEVVDQAHARGAQLIVTVDNGISSHAGVA 145 (575)
T ss_pred CCCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEE--eCCCCcCCCCCCHHHHHHHHhcCCCEEEEEcCCcCCHHHHH
Confidence 4478988877788899888889999999987 45432 2310 00001124566666677888888766666777788
Q ss_pred HHHHcCCC
Q 006733 241 AAKHLRMM 248 (633)
Q Consensus 241 ~a~~~g~~ 248 (633)
.|+++|+.
T Consensus 146 ~a~~~gid 153 (575)
T PRK11070 146 HAHALGIP 153 (575)
T ss_pred HHHHCCCC
Confidence 88998875
No 428
>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=43.66 E-value=67 Score=29.44 Aligned_cols=70 Identities=16% Similarity=0.136 Sum_probs=47.7
Q ss_pred HHHHhcCCCCCCCcEEEEEEe-cCCCChHHHHHHHHHHHhc----CceEEEcCCchhhHHHHHHhhccCCccEEee
Q 006733 57 VEDVNSNPAILGGTKLKLTVH-DTNYSRFLGMVEALTLLEN----ETVAIIGPQFSVIAHLVSHIANEFQVPLLSF 127 (633)
Q Consensus 57 ve~iN~~~~il~g~~l~~~~~-D~~~~~~~a~~~~~~li~~----~v~aviG~~~s~~~~~va~~~~~~~iP~Is~ 127 (633)
.+.||+.+-++||--+.+..+ |...+|......+..+.+. ++.+|+|+.......+. .++...++|++-.
T Consensus 5 ~~~~~~~~~~~~~~~i~~~~~~~~~~~p~~l~~v~~~l~~~~~~~~~d~Vv~~ea~Gi~la~-~lA~~Lg~p~v~v 79 (191)
T TIGR01744 5 KQKIKEEGVVLPGGILKVDSFLNHQIDPKLMQEVGEEFARRFADDGITKIVTIEASGIAPAI-MTGLKLGVPVVFA 79 (191)
T ss_pred HHHHhcCCEEcCCCEEEEehhhccccCHHHHHHHHHHHHHHhccCCCCEEEEEccccHHHHH-HHHHHHCCCEEEE
Confidence 578899999999877777554 6666776554444444332 78999997766654443 3566678999864
No 429
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=43.65 E-value=1.2e+02 Score=25.76 Aligned_cols=47 Identities=15% Similarity=0.186 Sum_probs=33.9
Q ss_pred hHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee
Q 006733 181 GIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT 230 (633)
Q Consensus 181 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 230 (633)
....+.+.+++.|.++......+ .+..++.+.+++..+. .|+||..+
T Consensus 20 n~~~l~~~l~~~G~~v~~~~~v~--Dd~~~i~~~i~~~~~~-~DlvittG 66 (133)
T cd00758 20 NGPALEALLEDLGCEVIYAGVVP--DDADSIRAALIEASRE-ADLVLTTG 66 (133)
T ss_pred hHHHHHHHHHHCCCEEEEeeecC--CCHHHHHHHHHHHHhc-CCEEEECC
Confidence 35577788889999887665555 4556677777776554 89988864
No 430
>PRK10481 hypothetical protein; Provisional
Probab=43.61 E-value=1.6e+02 Score=27.68 Aligned_cols=82 Identities=10% Similarity=0.081 Sum_probs=48.2
Q ss_pred EEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecC-CCChHHHHHHHHHHHhcCceEEEcCCchhhHH
Q 006733 33 LNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDT-NYSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 33 i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~-~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~ 111 (633)
=+||++.|... -+....+++.+. |..+.+...+. ..++....+++.++..+++.+|+-....-.+.
T Consensus 130 ~riGVitP~~~--------qi~~~~~kw~~~-----G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~~ 196 (224)
T PRK10481 130 HQVGVIVPVEE--------QLAQQAQKWQVL-----QKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQR 196 (224)
T ss_pred CeEEEEEeCHH--------HHHHHHHHHHhc-----CCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCHH
Confidence 58899988741 122223344333 33434433221 24555666677777777888877544444444
Q ss_pred HHHHhhccCCccEEee
Q 006733 112 LVSHIANEFQVPLLSF 127 (633)
Q Consensus 112 ~va~~~~~~~iP~Is~ 127 (633)
....+-...++|+|.+
T Consensus 197 ~~~~le~~lg~PVI~~ 212 (224)
T PRK10481 197 HRDLLQKALDVPVLLS 212 (224)
T ss_pred HHHHHHHHHCcCEEcH
Confidence 5566778889999975
No 431
>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=43.29 E-value=1.1e+02 Score=26.93 Aligned_cols=69 Identities=19% Similarity=0.197 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEe
Q 006733 497 GYCIDVFTAVLELL-PYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAP 575 (633)
Q Consensus 497 G~~vdl~~~ia~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~ 575 (633)
.+-..++..+.+.. + +++++.. +....+..++.+|++|+++... ......+. +.++....+.++++
T Consensus 13 ~~l~~~l~~~~~~~P~--i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~l~-~~~l~~~~~~~v~~ 79 (195)
T cd08434 13 SLVPDLIRAFRKEYPN--VTFELHQ-------GSTDELLDDLKNGELDLALCSP---VPDEPDIE-WIPLFTEELVLVVP 79 (195)
T ss_pred hhhHHHHHHHHHhCCC--eEEEEec-------CcHHHHHHHHHcCCccEEEEcc---CCCCCCee-EEEeecceEEEEec
Confidence 34556777777765 4 4466665 5678899999999999997542 22233333 36777788888886
Q ss_pred cCC
Q 006733 576 IKK 578 (633)
Q Consensus 576 ~~~ 578 (633)
++.
T Consensus 80 ~~~ 82 (195)
T cd08434 80 KDH 82 (195)
T ss_pred CCC
Confidence 654
No 432
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=43.22 E-value=1.1e+02 Score=30.75 Aligned_cols=85 Identities=15% Similarity=0.054 Sum_probs=56.8
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++++||+.. .. ...+-.+++..+.++.- .+++.+.. +....++..|.+|++|+++..
T Consensus 92 ~g~lrIg~~~--~~------------~~~~l~~~l~~f~~~~P-~v~i~l~~-------~~~~~~~~~l~~g~~Dl~i~~ 149 (327)
T PRK12680 92 QGQLTLTTTH--TQ------------ARFVLPPAVAQIKQAYP-QVSVHLQQ-------AAESAALDLLGQGDADIAIVS 149 (327)
T ss_pred ceEEEEEecc--hh------------HHHhhHHHHHHHHHHCC-CcEEEEEe-------CChHHHHHHHHCCCCcEEEEe
Confidence 3679999874 21 12345677888887773 24577766 668999999999999999853
Q ss_pred eEeeccccceeeeccceeecceEEEEecCC
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
... ....... ..|++...+.++++.+.
T Consensus 150 ~~~--~~~~~~~-~~~l~~~~~~l~~~~~h 176 (327)
T PRK12680 150 TAG--GEPSAGI-AVPLYRWRRLVVVPRGH 176 (327)
T ss_pred cCC--CCCCcce-EEEeeccceEEEEeCCC
Confidence 211 1111222 47888888888887654
No 433
>cd08449 PBP2_XapR The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold. In Escherichia coli, XapR is a positive regulator for the expression of xapA gene, encoding xanthosine phosphorylase, and xapB gene, encoding a polypeptide similar to the nucleotide transport protein NupG. As an operon, the expression of both xapA and xapB is fully dependent on the presence of both XapR and the inducer xanthosine. Expression of the xapR is constitutive but not auto-regulated, unlike many other LysR family proteins. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their
Probab=43.10 E-value=1.2e+02 Score=26.78 Aligned_cols=72 Identities=14% Similarity=0.046 Sum_probs=46.9
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-..++..+.++.- .+++.+.. .....+...+.+|++|+++...... .+...+. ..++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~ 82 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHE-------LSPEAQKAALLSKRIDLGFVRFADT-LNDPPLA-SELLWREPMVVALPE 82 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHhCCCccEEEeccccc-CCCCCce-EEEEEEeeEEEEecC
Confidence 345677778877762 24566665 5688999999999999998533211 0122222 366777888888766
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 83 ~~ 84 (197)
T cd08449 83 EH 84 (197)
T ss_pred CC
Confidence 54
No 434
>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=43.02 E-value=4.7e+02 Score=28.41 Aligned_cols=129 Identities=6% Similarity=0.041 Sum_probs=77.8
Q ss_pred CChHHHHHHHHH-HHhcCceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHH
Q 006733 81 YSRFLGMVEALT-LLENETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADI 159 (633)
Q Consensus 81 ~~~~~a~~~~~~-li~~~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~l 159 (633)
++-..+++.+.+ +..+++++||.-.. ++..+. ...++|+|.... +..+..+++. .
T Consensus 37 ~~~~~~~~~a~~~~~~~~~dviIsrG~--ta~~i~---~~~~iPVv~i~~------------------s~~Dil~al~-~ 92 (526)
T TIGR02329 37 LGFEDAVREIRQRLGAERCDVVVAGGS--NGAYLK---SRLSLPVIVIKP------------------TGFDVMQALA-R 92 (526)
T ss_pred ccHHHHHHHHHHHHHhCCCcEEEECch--HHHHHH---HhCCCCEEEecC------------------ChhhHHHHHH-H
Confidence 456677777745 55669999997443 333333 345799997422 1222344442 3
Q ss_pred HHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHH
Q 006733 160 VDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVL 239 (633)
Q Consensus 160 l~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il 239 (633)
.++++ .++++|...+.. .....+.+.+ ++.+... .+ .+..+....++++++.+.++||-.. ...
T Consensus 93 a~~~~-~~ia~vg~~~~~--~~~~~~~~ll---~~~i~~~-~~---~~~~e~~~~~~~l~~~G~~~viG~~------~~~ 156 (526)
T TIGR02329 93 ARRIA-SSIGVVTHQDTP--PALRRFQAAF---NLDIVQR-SY---VTEEDARSCVNDLRARGIGAVVGAG------LIT 156 (526)
T ss_pred HHhcC-CcEEEEecCccc--HHHHHHHHHh---CCceEEE-Ee---cCHHHHHHHHHHHHHCCCCEEECCh------HHH
Confidence 34444 578877754431 2344454444 5555533 23 2567999999999999999888543 234
Q ss_pred HHHHHcCCCC
Q 006733 240 NAAKHLRMME 249 (633)
Q Consensus 240 ~~a~~~g~~~ 249 (633)
+.|++.||..
T Consensus 157 ~~A~~~gl~~ 166 (526)
T TIGR02329 157 DLAEQAGLHG 166 (526)
T ss_pred HHHHHcCCce
Confidence 6778888764
No 435
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=42.96 E-value=1.7e+02 Score=29.64 Aligned_cols=64 Identities=13% Similarity=-0.031 Sum_probs=48.0
Q ss_pred CCcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee
Q 006733 164 GWRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT 230 (633)
Q Consensus 164 ~w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 230 (633)
+-+.++++..+ +.|-......+.+.+++.|..+.....- .+...-...++.+...++|.||+..
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~gy~~~l~~~~---~~~~~e~~~~~~l~~~~vdGiIi~~ 122 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAAREAGYSLLLANTD---DDPEKEREYLETLLQKRVDGLILLG 122 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEECCC---CCHHHHHHHHHHHHHcCCCEEEEec
Confidence 44688888763 4566677889999999999988754322 2445667778888889999999987
No 436
>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=42.87 E-value=1.3e+02 Score=26.91 Aligned_cols=72 Identities=14% Similarity=0.063 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEe
Q 006733 497 GYCIDVFTAVLELL-PYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAP 575 (633)
Q Consensus 497 G~~vdl~~~ia~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~ 575 (633)
.+-.+++..+.++. + +++.+.. .....+...+.+|++|+++............+. +.+.....+.++++
T Consensus 13 ~~l~~~l~~~~~~~P~--i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~~-~~~l~~~~~~~v~~ 82 (200)
T cd08453 13 SVLPELVRRFREAYPD--VELQLRE-------ATSDVQLEALLAGEIDAGIVIPPPGASAPPALA-YRPLLSEPLVLAVP 82 (200)
T ss_pred HHHHHHHHHHHHhCCC--ceEEEEe-------CCHHHHHHHHHcCCCCEEEEecCcccCCCccee-EEEeeeCceEEEEE
Confidence 35567778887776 4 4466665 557889999999999999753211110112222 46777778888877
Q ss_pred cCC
Q 006733 576 IKK 578 (633)
Q Consensus 576 ~~~ 578 (633)
++.
T Consensus 83 ~~h 85 (200)
T cd08453 83 AAW 85 (200)
T ss_pred CCC
Confidence 655
No 437
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=42.60 E-value=3.9e+02 Score=27.54 Aligned_cols=108 Identities=9% Similarity=-0.119 Sum_probs=0.0
Q ss_pred ChHHHHHHHHHHHHHcCCcEEEEEE-ecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEE
Q 006733 148 SDLYQMAAIADIVDYFGWRNVIALY-VDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRIL 226 (633)
Q Consensus 148 ~~~~~~~al~~ll~~~~w~~v~ii~-~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vI 226 (633)
+......+..++.+...-++|.++| +...+....++.+-+.+.+.|+.+..-. ....+...+++.+. +++.+
T Consensus 229 ~~~~i~~~Y~~W~~~~~~~~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~-----~~~~~~~eI~~~i~--~a~~~ 301 (388)
T COG0426 229 NPKEIVEAYRDWAEGQPKGKVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVIN-----LEDADPSEIVEEIL--DAKGL 301 (388)
T ss_pred CHHHHHHHHHHHHccCCcceEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEE-----cccCCHHHHHHHHh--hcceE
Q ss_pred EEeeCh------HHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 006733 227 ILHTYD------IWGLEVLNAAKHLRMMESGYVWIVTDWLSS 262 (633)
Q Consensus 227 vl~~~~------~~~~~il~~a~~~g~~~~~~~~i~~~~~~~ 262 (633)
++.+.. ..+..++-....+......-.-+++-+|..
T Consensus 302 vvGsPT~~~~~~p~i~~~l~~v~~~~~~~k~~~vfgS~GW~g 343 (388)
T COG0426 302 VVGSPTINGGAHPPIQTALGYVLALAPKNKLAGVFGSYGWSG 343 (388)
T ss_pred EEecCcccCCCCchHHHHHHHHHhccCcCceEEEEeccCCCC
No 438
>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=42.40 E-value=1.1e+02 Score=27.13 Aligned_cols=69 Identities=25% Similarity=0.297 Sum_probs=47.8
Q ss_pred eeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEecC
Q 006733 498 YCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (633)
Q Consensus 498 ~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~ 577 (633)
+-.+++..+.+..- .+++++.. ++...++..+.+|++|+++.... .....+. ..+.....+.++++++
T Consensus 14 ~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~~ 81 (198)
T cd08421 14 FLPEDLASFLAAHP-DVRIDLEE-------RLSADIVRAVAEGRADLGIVAGN---VDAAGLE-TRPYRTDRLVVVVPRD 81 (198)
T ss_pred hhHHHHHHHHHHCC-CceEEEEe-------cCcHHHHHHHhcCCceEEEEecC---CCCCCcE-EEEeecCcEEEEeCCC
Confidence 44577888887762 24566665 56788999999999999985432 2233343 3678888888888765
Q ss_pred C
Q 006733 578 K 578 (633)
Q Consensus 578 ~ 578 (633)
.
T Consensus 82 ~ 82 (198)
T cd08421 82 H 82 (198)
T ss_pred C
Confidence 5
No 439
>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=42.37 E-value=70 Score=23.83 Aligned_cols=43 Identities=9% Similarity=0.014 Sum_probs=28.9
Q ss_pred CCCcEEEEE--EecCCCChHHHHHHHHHHHhc-CceEEEcCCchhh
Q 006733 67 LGGTKLKLT--VHDTNYSRFLGMVEALTLLEN-ETVAIIGPQFSVI 109 (633)
Q Consensus 67 l~g~~l~~~--~~D~~~~~~~a~~~~~~li~~-~v~aviG~~~s~~ 109 (633)
+||++|.+. +--...|+.++++...+-.++ |..||||-..+.+
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 478887542 222333899988877776666 9999999654444
No 440
>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=42.33 E-value=2.1e+02 Score=28.17 Aligned_cols=113 Identities=12% Similarity=0.027 Sum_probs=54.4
Q ss_pred EEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchh---h
Q 006733 33 LNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSV---I 109 (633)
Q Consensus 33 i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~---~ 109 (633)
-+||+++..+..........++.+.++ .|.++.....++..+...+ .+.+.+++.+++-+.+.. .
T Consensus 132 k~igvl~~~~~~~~~~~~~~~~~~a~~--------~g~~l~~~~v~~~~~~~~~----~~~l~~~~da~~~~~~~~~~~~ 199 (294)
T PF04392_consen 132 KRIGVLYDPSEPNSVAQIEQLRKAAKK--------LGIELVEIPVPSSEDLEQA----LEALAEKVDALYLLPDNLVDSN 199 (294)
T ss_dssp -EEEEEEETT-HHHHHHHHHHHHHHHH--------TT-EEEEEEESSGGGHHHH----HHHHCTT-SEEEE-S-HHHHHT
T ss_pred CEEEEEecCCCccHHHHHHHHHHHHHH--------cCCEEEEEecCcHhHHHHH----HHHhhccCCEEEEECCcchHhH
Confidence 578888876533222222333322222 2566665555544444333 233444555555544443 2
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY 162 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~ 162 (633)
...+...+...++|+++... ... .. --+....++...+++..++++.+
T Consensus 200 ~~~i~~~~~~~~iPv~~~~~--~~v-~~--Gal~~~~~~~~~~G~~Aa~~a~~ 247 (294)
T PF04392_consen 200 FEAILQLANEAKIPVFGSSD--FYV-KA--GALGGYSVDYYEQGRQAAEMAVR 247 (294)
T ss_dssp HHHHHHHCCCTT--EEESSH--HHH-CT--T-SEEEE--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCCEEECCH--HHh-cC--CcEEEEccCHHHHHHHHHHHHHH
Confidence 23456677889999997421 111 11 24567778888888888887654
No 441
>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=42.28 E-value=1e+02 Score=29.63 Aligned_cols=61 Identities=11% Similarity=-0.020 Sum_probs=43.7
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
|+++..+ +.|.....+.+.+.+++.|..+...... .+...-...++.+...++|.||+...
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~gy~v~~~~~~---~~~~~~~~~i~~~~~~~~dgiii~~~ 64 (269)
T cd06293 2 IGLVVPDIANPFFAELADAVEEEADARGLSLVLCATR---NRPERELTYLRWLDTNHVDGLIFVTN 64 (269)
T ss_pred EEEEeCCCCCCcHHHHHHHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHHHCCCCEEEEeCC
Confidence 6777753 5677778889999999999887654322 23344566777888889999998754
No 442
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=42.10 E-value=2.7e+02 Score=25.95 Aligned_cols=83 Identities=12% Similarity=0.072 Sum_probs=47.7
Q ss_pred HHHHHHHcCCcEEEEEEecC--CCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChH
Q 006733 156 IADIVDYFGWRNVIALYVDD--DHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDI 233 (633)
Q Consensus 156 l~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~ 233 (633)
+.+.++.. -++|++|=+-. .-.....+.+++.+++.|..+....... ....++...+. +.|+|++. +.
T Consensus 24 i~n~l~g~-~~~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg~~v~~L~l~~--~~~~~Ie~~l~-----~~d~IyVg--GG 93 (224)
T COG3340 24 IANFLQGK-RKTIAFIPTASVDSEDDFYVEKVRNALAKLGLEVSELHLSK--PPLAAIENKLM-----KADIIYVG--GG 93 (224)
T ss_pred HHHHhcCC-CceEEEEecCccccchHHHHHHHHHHHHHcCCeeeeeeccC--CCHHHHHHhhh-----hccEEEEC--Cc
Confidence 34444333 45888875432 2223467899999999999988654433 23333333332 46666665 34
Q ss_pred HHHHHHHHHHHcCCC
Q 006733 234 WGLEVLNAAKHLRMM 248 (633)
Q Consensus 234 ~~~~il~~a~~~g~~ 248 (633)
+...+++.+++.|+.
T Consensus 94 NTF~LL~~lke~gld 108 (224)
T COG3340 94 NTFNLLQELKETGLD 108 (224)
T ss_pred hHHHHHHHHHHhCcH
Confidence 555666666666543
No 443
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=41.78 E-value=1.4e+02 Score=28.34 Aligned_cols=78 Identities=17% Similarity=0.111 Sum_probs=47.0
Q ss_pred cCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHH
Q 006733 163 FGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAA 242 (633)
Q Consensus 163 ~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a 242 (633)
...+++.++..+. ....+.+.+++.|..+.....|.......+.......+...+.|+ |++.++..+..+++.+
T Consensus 123 ~~~~~ili~~~~~-----~~~~l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~~~~~~d~-ivftS~~~v~~~~~~~ 196 (249)
T PRK05928 123 LKGKRVLYLRGNG-----GREVLGDTLEERGAEVDECEVYERVPPKLDGAELLARLQSGEVDA-VIFTSPSTVRAFFSLA 196 (249)
T ss_pred cCCCEEEEECCCC-----CHHHHHHHHHHCCCEEeEEEEEEeeCCCCChHHHHHHHHhCCCCE-EEECCHHHHHHHHHHh
Confidence 3567777765443 356788888889988765554442222223334444444445665 5556677778888877
Q ss_pred HHcC
Q 006733 243 KHLR 246 (633)
Q Consensus 243 ~~~g 246 (633)
.+.+
T Consensus 197 ~~~~ 200 (249)
T PRK05928 197 PELG 200 (249)
T ss_pred cccc
Confidence 6654
No 444
>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=41.60 E-value=1e+02 Score=27.31 Aligned_cols=70 Identities=20% Similarity=0.241 Sum_probs=46.7
Q ss_pred eeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEecC
Q 006733 498 YCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (633)
Q Consensus 498 ~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~ 577 (633)
+-.+++.++.++.- .+++++.. .+...+...+.+|++|+++...... ....+ .+.+++...+.++++++
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 45667888887762 24466665 5678899999999999998643221 11222 24677788888887655
Q ss_pred C
Q 006733 578 K 578 (633)
Q Consensus 578 ~ 578 (633)
.
T Consensus 84 ~ 84 (199)
T cd08451 84 H 84 (199)
T ss_pred C
Confidence 4
No 445
>PRK09271 flavodoxin; Provisional
Probab=41.53 E-value=1.3e+02 Score=26.60 Aligned_cols=85 Identities=8% Similarity=0.019 Sum_probs=48.1
Q ss_pred EEEEEEec-CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-------hHHHHHH
Q 006733 167 NVIALYVD-DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-------DIWGLEV 238 (633)
Q Consensus 167 ~v~ii~~d-~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-------~~~~~~i 238 (633)
++.|+|.. ....+..++.+.+.+++.|.++.... +. ..++.+....+ .+.++|++.++ +..+..+
T Consensus 2 kv~IvY~S~tGnTe~~A~~ia~~l~~~g~~v~~~~-~~----~~~~~~~~~~~--~~~d~vilgt~T~~~G~~p~~~~~f 74 (160)
T PRK09271 2 RILLAYASLSGNTREVAREIEERCEEAGHEVDWVE-TD----VQTLAEYPLDP--EDYDLYLLGTWTDNAGRTPPEMKRF 74 (160)
T ss_pred eEEEEEEcCCchHHHHHHHHHHHHHhCCCeeEEEe-cc----cccccccccCc--ccCCEEEEECcccCCCcCCHHHHHH
Confidence 67788854 33334567888888988888765321 21 11222221122 35788888763 2368888
Q ss_pred HHHHHHcCCCCCCeEEEEeC
Q 006733 239 LNAAKHLRMMESGYVWIVTD 258 (633)
Q Consensus 239 l~~a~~~g~~~~~~~~i~~~ 258 (633)
+..+......+..+..+++.
T Consensus 75 ~~~l~~~~~~~k~~avfgsg 94 (160)
T PRK09271 75 IAELAETIGKPPNVAVFGTG 94 (160)
T ss_pred HHHHHHHhccCCeEEEEecC
Confidence 88877643333345555553
No 446
>PRK13805 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional
Probab=41.27 E-value=2.8e+02 Score=32.35 Aligned_cols=78 Identities=9% Similarity=-0.008 Sum_probs=55.7
Q ss_pred CCcEEEEEEecCCCcchhHHHHHHHHh--hcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--hHHHHHHH
Q 006733 164 GWRNVIALYVDDDHGRNGIAALGDKLA--EKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY--DIWGLEVL 239 (633)
Q Consensus 164 ~w~~v~ii~~d~~~g~~~~~~~~~~~~--~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~--~~~~~~il 239 (633)
+.+++.+|++.........+.+.+.++ ..|+.+.....+.++.+.+.+.+.+..+++.++|.||-.+. .-++.+++
T Consensus 479 ~~~~~lvVtd~~~~~~g~~~~v~~~L~~~~~~i~~~~~~~v~~np~~~~v~~~~~~~~~~~~D~IIaiGGGSviD~AK~i 558 (862)
T PRK13805 479 GKKRAFIVTDRFMVELGYVDKVTDVLKKRENGVEYEVFSEVEPDPTLSTVRKGAELMRSFKPDTIIALGGGSPMDAAKIM 558 (862)
T ss_pred CCCEEEEEECcchhhcchHHHHHHHHhcccCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCchHHHHHHHH
Confidence 668998888544444346778888888 67877665445555566777888888999999999997644 45666665
Q ss_pred HH
Q 006733 240 NA 241 (633)
Q Consensus 240 ~~ 241 (633)
..
T Consensus 559 a~ 560 (862)
T PRK13805 559 WL 560 (862)
T ss_pred HH
Confidence 43
No 447
>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=41.22 E-value=1.4e+02 Score=25.75 Aligned_cols=47 Identities=13% Similarity=0.063 Sum_probs=34.6
Q ss_pred HHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 182 IAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 182 ~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
...+++.+++.|.++.....++ .+..++...+++..+ +.|+||..+.
T Consensus 29 ~~~l~~~l~~~G~~v~~~~~v~--Dd~~~i~~~l~~~~~-~~DliIttGG 75 (144)
T TIGR00177 29 GPLLAALLEEAGFNVSRLGIVP--DDPEEIREILRKAVD-EADVVLTTGG 75 (144)
T ss_pred HHHHHHHHHHCCCeEEEEeecC--CCHHHHHHHHHHHHh-CCCEEEECCC
Confidence 4577888889999988776666 455667777777654 6899998743
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=41.00 E-value=1.3e+02 Score=26.95 Aligned_cols=70 Identities=13% Similarity=0.105 Sum_probs=43.9
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.- ++++++.. +.-+.+..+|.+|++|+++..... . ...+. +.++....+.+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~--~-~~~l~-~~~l~~~~~~~~~~~ 81 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ-------MSKNRQIEALDAGTIDIGFGRFYP--Y-QEGVV-VRNVTNERLFLGAQK 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE-------CCHHHHHHHHHcCCccEEEecCCC--C-CCCeE-EEEeeccceEEEeCC
Confidence 345567777776651 24466665 557889999999999999854211 1 12222 356666676666654
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
..
T Consensus 82 ~~ 83 (198)
T cd08485 82 SR 83 (198)
T ss_pred CC
Confidence 44
No 449
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=40.99 E-value=1.4e+02 Score=29.44 Aligned_cols=65 Identities=12% Similarity=-0.018 Sum_probs=46.3
Q ss_pred CCcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 164 GWRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 164 ~w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
.-+.|+++..+ +.|.....+.+++.+++.|.++.... .. .+...-...++.+...+.|.|++...
T Consensus 34 ~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~-~~--~~~~~~~~~i~~l~~~~vDgiIi~~~ 100 (309)
T PRK11041 34 ESRTILVIVPDICDPFFSEIIRGIEVTAAEHGYLVLIGD-CA--HQNQQEKTFVNLIITKQIDGMLLLGS 100 (309)
T ss_pred CCcEEEEEeCCCcCccHHHHHHHHHHHHHHCCCEEEEEe-CC--CChHHHHHHHHHHHHcCCCEEEEecC
Confidence 44688988864 56777788899999999998877542 22 23334456777777788999998754
No 450
>PRK15138 aldehyde reductase; Provisional
Probab=40.88 E-value=1.2e+02 Score=31.53 Aligned_cols=84 Identities=12% Similarity=0.102 Sum_probs=53.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCC-cchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDH-GRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~-g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~- 231 (633)
..+.++++. + +++.+++.+... .....+.+.+.++ |+.+.....+.++.+.++.....+..++.++|+||-.+.
T Consensus 20 ~~l~~~l~~-~-~~~livt~~~~~~~~g~~~~v~~~L~--~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 95 (387)
T PRK15138 20 AGLREQIPA-D-ARVLITYGGGSVKKTGVLDQVLDALK--GMDVLEFGGIEPNPTYETLMKAVKLVREEKITFLLAVGGG 95 (387)
T ss_pred HHHHHHHhc-C-CeEEEECCCchHHhcCcHHHHHHHhc--CCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCh
Confidence 344555665 3 888888743322 2234566777774 666554444555566778888888888899999997644
Q ss_pred -hHHHHHHHHH
Q 006733 232 -DIWGLEVLNA 241 (633)
Q Consensus 232 -~~~~~~il~~ 241 (633)
.-++.+.+..
T Consensus 96 S~iD~AK~ia~ 106 (387)
T PRK15138 96 SVLDGTKFIAA 106 (387)
T ss_pred HHHHHHHHHHH
Confidence 4455555543
No 451
>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=40.78 E-value=1.3e+02 Score=28.74 Aligned_cols=62 Identities=11% Similarity=-0.104 Sum_probs=42.7
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 232 (633)
|+++..+ +.|.....+.+.+.+++.|.++.....- .+.......++.+...++|.||+....
T Consensus 2 Ig~i~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~~dgiii~~~~ 65 (263)
T cd06280 2 VGLIVADIRNPFFTAVSRAVEDAAYRAGLRVILCNTD---EDPEKEAMYLELMEEERVTGVIFAPTR 65 (263)
T ss_pred EEEEecccccccHHHHHHHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHHhCCCCEEEEeCCC
Confidence 5666644 4566777889999999999888644221 233445566777888889998887543
No 452
>TIGR02136 ptsS_2 phosphate binding protein. Members of this family are phosphate-binding proteins. Most are found in phosphate ABC-transporter operons, but some are found in phosphate regulatory operons. This model separates members of the current family from the phosphate ABC transporter phosphate binding protein described by TIGRFAMs model TIGR00975.
Probab=40.74 E-value=45 Score=32.89 Aligned_cols=87 Identities=14% Similarity=0.124 Sum_probs=55.0
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
..+|++|+.. . ...+-.+++..+.++.. .+++.+.. ++..+++..|.+|++|+++..
T Consensus 35 ~~~lrig~s~--s-------------~~~~lp~~l~~f~~~~P-~i~v~i~~-------~~s~~l~~~L~~G~iDlai~~ 91 (287)
T TIGR02136 35 SSTITIDGST--T-------------VAPLAEAAAEEFQKIHP-GVSVTVQG-------AGSGTGIKALINGTVDIGNSS 91 (287)
T ss_pred cceEEEeccc--h-------------HHHHHHHHHHHHHhhCC-CceEEEcc-------CCchHHHHHHHcCCCchhhcc
Confidence 3578888763 1 11344566777776662 14466665 679999999999999998754
Q ss_pred eEeeccc-----cceeee-ccceeecceEEEEecCC
Q 006733 549 FAITTER-----TKMVDF-TQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r-----~~~~~f-s~p~~~~~~~~lv~~~~ 578 (633)
-....+. .+..++ ..|+....+++++++++
T Consensus 92 ~~~~~~~~~~~~~~~~~l~~~~l~~~~l~lvv~~~h 127 (287)
T TIGR02136 92 RPIKDEELQKDKQKGIKLIEHKVAVDGLAVVVNKKN 127 (287)
T ss_pred CCCCHHHHHHHhhcCCCceEEEEEEeeEEEEECCCC
Confidence 2222211 011122 46888888988887654
No 453
>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=40.57 E-value=3.1e+02 Score=25.58 Aligned_cols=117 Identities=7% Similarity=-0.027 Sum_probs=65.1
Q ss_pred cCCccEEeeccCCC-CCccCCCCceEEecCChHHHHHHHHHHHHHc--CCcEEEEEEecCCCcchhHHHHHHHHhhcCcE
Q 006733 119 EFQVPLLSFAATDP-SLSSLQYPFFVRTTQSDLYQMAAIADIVDYF--GWRNVIALYVDDDHGRNGIAALGDKLAEKRCR 195 (633)
Q Consensus 119 ~~~iP~Is~~a~~~-~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~ 195 (633)
..++++++.+.... .+....++-.+. | ...-+..+++++... .-+++.++..+. ....+.+.+++.|..
T Consensus 76 ~~~~~~~avG~~Ta~~l~~~g~~~~~~--~-~~~~~~~L~~~i~~~~~~~~~il~~~g~~-----~~~~l~~~L~~~g~~ 147 (239)
T cd06578 76 LAGLKIAAVGPKTAEALREAGLTADFV--P-EEGDSEGLLELLELQDGKGKRILRPRGGR-----AREDLAEALRERGAE 147 (239)
T ss_pred ccCCEEEEECHHHHHHHHHcCCCceeC--C-CccCHHHHHHHHHhcCCCCCEEEEEcCcc-----hhHHHHHHHHHCCCE
Confidence 35777776655432 233333332222 2 223356788877664 445555554332 346777888888988
Q ss_pred EEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHHHHHHHHc
Q 006733 196 LSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEVLNAAKHL 245 (633)
Q Consensus 196 v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~il~~a~~~ 245 (633)
+.....|...... +.....+.+.+...+ +|++.++..+..+++.+.+.
T Consensus 148 v~~~~~Y~~~~~~-~~~~~~~~l~~~~~~-~iiftS~~~v~~f~~~~~~~ 195 (239)
T cd06578 148 VDEVEVYRTVPPD-LDAELLELLEEGAID-AVLFTSPSTVRNLLELLGKE 195 (239)
T ss_pred EEEEEEEEEECCC-CcHHHHHHHHcCCCc-EEEEeCHHHHHHHHHHHhhh
Confidence 7665544422111 112333444444344 67788888888888887764
No 454
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=40.43 E-value=1.3e+02 Score=28.97 Aligned_cols=85 Identities=12% Similarity=-0.017 Sum_probs=49.6
Q ss_pred HHHHHHHH--HHH---cCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEE
Q 006733 152 QMAAIADI--VDY---FGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRIL 226 (633)
Q Consensus 152 ~~~al~~l--l~~---~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vI 226 (633)
.+..++++ +.. ..-++|.++..+. ....+.+.+++.|..+.....|...............+...+.++|
T Consensus 112 ~se~Ll~~~~l~~~~~~~~~~vLi~rg~~-----~r~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~~~~~~~d~v 186 (255)
T PRK05752 112 DSEALLALPALRQALAVPDPRVLIMRGEG-----GRELLAERLREQGASVDYLELYRRCLPDYPAGTLLQRVEAERLNGL 186 (255)
T ss_pred CcHHHHhChhhhccccCCCCEEEEEccCc-----cHHHHHHHHHHCCCEEeEEEEEeecCCCCCHHHHHHHHHhCCCCEE
Confidence 35566665 333 2446776665443 3556889999999988766555422122223444555555567766
Q ss_pred EEeeChHHHHHHHHHH
Q 006733 227 ILHTYDIWGLEVLNAA 242 (633)
Q Consensus 227 vl~~~~~~~~~il~~a 242 (633)
++. ++..+..+++.+
T Consensus 187 ~ft-S~~~~~~~~~~~ 201 (255)
T PRK05752 187 VVS-SGQGFEHLQQLA 201 (255)
T ss_pred EEC-CHHHHHHHHHHh
Confidence 555 666666666544
No 455
>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=40.09 E-value=1.3e+02 Score=26.60 Aligned_cols=70 Identities=9% Similarity=0.009 Sum_probs=48.1
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.- .+++++.. +...++...+.+|++|+++... ......+. +.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHE-------MSSAEQIEALLRGELDLGFVHS---RRLPAGLS-ARLLHREPFVCCLPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCcceEEEeC---CCCCcCce-EEEEecCcEEEEeeC
Confidence 455677888877762 24577765 5689999999999999997532 22222332 467778888888776
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
..
T Consensus 81 ~h 82 (197)
T cd08448 81 GH 82 (197)
T ss_pred CC
Confidence 64
No 456
>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=39.85 E-value=3e+02 Score=25.24 Aligned_cols=98 Identities=7% Similarity=0.041 Sum_probs=57.5
Q ss_pred HHHHHHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHc---CCcEEEEEEecCCCcchhHHHHH
Q 006733 110 AHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYF---GWRNVIALYVDDDHGRNGIAALG 186 (633)
Q Consensus 110 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~---~w~~v~ii~~d~~~g~~~~~~~~ 186 (633)
...+..+++..++|++.... +. +. ......+.+.+++. +.+. +..-+.+.......+.
T Consensus 47 ~e~~~~~A~~lgipl~~i~~-~~--~~-------------e~~~~~l~~~l~~~~~~g~~~---vv~G~i~sd~~~~~~e 107 (194)
T cd01994 47 HELLELQAEAMGIPLIRIEI-SG--EE-------------EDEVEDLKELLRKLKEEGVDA---VVFGAILSEYQRTRVE 107 (194)
T ss_pred HHHHHHHHHHcCCcEEEEeC-CC--Cc-------------hHHHHHHHHHHHHHHHcCCCE---EEECccccHHHHHHHH
Confidence 34556788889999875422 11 11 11223344444332 3432 2233333445677788
Q ss_pred HHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh
Q 006733 187 DKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD 232 (633)
Q Consensus 187 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~ 232 (633)
+.+++.|+.....- -..+...+++++.+.+-+++|.....
T Consensus 108 ~~~~~~gl~~~~PL------W~~~~~~ll~e~~~~g~~~~iv~v~~ 147 (194)
T cd01994 108 RVCERLGLEPLAPL------WGRDQEELLREMIEAGFKAIIIKVAA 147 (194)
T ss_pred HHHHHcCCEEEecc------cCCCHHHHHHHHHHcCCeEEEEEecc
Confidence 88888898865432 23455678899988999988876544
No 457
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=39.42 E-value=51 Score=32.68 Aligned_cols=61 Identities=10% Similarity=0.043 Sum_probs=43.5
Q ss_pred ceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 470 RHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 470 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
++|++++.. .. +..+....---+.+.+.+++|.+ +++... ....++++.+.+|++|++..+
T Consensus 35 ~~l~~gi~p--~e--------~~~~~~~~~~pl~~~L~~~lG~~--V~~~~a------~dy~~vieal~~g~~D~A~~~ 95 (299)
T COG3221 35 KELRVGIVP--TE--------NPTNLIPAWAPLADYLEKELGIP--VEFFVA------TDYAAVIEALRAGQVDIAWLG 95 (299)
T ss_pred cceEEEEcC--CC--------ChHHHHHHHHHHHHHHHHHhCCc--eEEEec------ccHHHHHHHHhCCCeeEEecC
Confidence 568999874 11 12334444455679999999966 555553 469999999999999987544
No 458
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=39.22 E-value=2.5e+02 Score=26.32 Aligned_cols=81 Identities=12% Similarity=0.089 Sum_probs=53.3
Q ss_pred EEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHHhcCceEEEcCCchhhHH
Q 006733 33 LNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTN-YSRFLGMVEALTLLENETVAIIGPQFSVIAH 111 (633)
Q Consensus 33 i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~-~~~~~a~~~~~~li~~~v~aviG~~~s~~~~ 111 (633)
-+||++.|... +. ....+++..- +.++.+.....- ++..+..+++.+|..++...|+-.--..+..
T Consensus 126 ~~vGVivP~~e----Q~----~~~~~kW~~l-----~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~ 192 (221)
T PF07302_consen 126 HQVGVIVPLPE----QI----AQQAEKWQPL-----GNPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQE 192 (221)
T ss_pred CeEEEEecCHH----HH----HHHHHHHHhc-----CCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHH
Confidence 68999999741 11 2233444432 355666665544 6777888888899888999888754444444
Q ss_pred HHHHhhccCCccEEe
Q 006733 112 LVSHIANEFQVPLLS 126 (633)
Q Consensus 112 ~va~~~~~~~iP~Is 126 (633)
.=..+....++|+|-
T Consensus 193 ~r~~~~~~~g~PVlL 207 (221)
T PF07302_consen 193 MRDIVQRALGKPVLL 207 (221)
T ss_pred HHHHHHHHhCCCEEe
Confidence 445566778999996
No 459
>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=39.10 E-value=1.4e+02 Score=28.70 Aligned_cols=77 Identities=6% Similarity=-0.093 Sum_probs=46.4
Q ss_pred EEEEEe--cCCCcchhHHHHHHHHhhc-----CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-hHHHHHHH
Q 006733 168 VIALYV--DDDHGRNGIAALGDKLAEK-----RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-DIWGLEVL 239 (633)
Q Consensus 168 v~ii~~--d~~~g~~~~~~~~~~~~~~-----g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-~~~~~~il 239 (633)
++++.. ++.|.....+.+++.+++. |+.+.....- .+.......++.+...++|.|++... .......+
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~~i 78 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAYPDVEFILVTAS---NDTEQQNAQQDLLINRKIDALVILPFESAPLTQPV 78 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhCCCeEEEEEcCC---CCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHHHH
Confidence 455553 2455556667777777775 4565543211 23344556666677778998888753 34445667
Q ss_pred HHHHHcCC
Q 006733 240 NAAKHLRM 247 (633)
Q Consensus 240 ~~a~~~g~ 247 (633)
+.+.+.|.
T Consensus 79 ~~~~~~gI 86 (274)
T cd06311 79 AKAKKAGI 86 (274)
T ss_pred HHHHHCCC
Confidence 77777664
No 460
>PF13155 Toprim_2: Toprim-like
Probab=39.08 E-value=93 Score=24.42 Aligned_cols=41 Identities=15% Similarity=0.302 Sum_probs=34.5
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcC
Q 006733 153 MAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKR 193 (633)
Q Consensus 153 ~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g 193 (633)
...+.+++++.+-++|.+..++|.-|....+.+++.+...+
T Consensus 35 ~~~~~~~l~~~~~~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 35 EKQQIKFLKENPYKKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred HHHHHHHHHhCCCCcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 45788888766668898888899999999999999998876
No 461
>PF03162 Y_phosphatase2: Tyrosine phosphatase family; InterPro: IPR004861 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents protein-tyrosine phosphatases predominantly from fungi, plants and bacteria, several of which are putative enzymes. These proteins are closely related to the Y-phosphatase and DSPc families. This entry includes the PTPase SIW14 from Saccharomyces cerevisiae (Baker's yeast), which plays a role in actin filament organisation and endocytosis.; PDB: 2Q47_A 1XRI_A.
Probab=38.94 E-value=1.9e+02 Score=25.74 Aligned_cols=85 Identities=20% Similarity=0.156 Sum_probs=41.5
Q ss_pred CceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCC-----CChhhHHHH
Q 006733 140 PFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPK-----GSRNQIIDT 214 (633)
Q Consensus 140 ~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-----~~~~~~~~~ 214 (633)
+.+||-.-+.. .-..+++++|.|+|.-+..+.. .......++++|+++.....-... ...+.+.+.
T Consensus 12 ~~vYRS~~P~~----~n~~fL~~L~LKTII~L~~e~~-----~~~~~~f~~~~~I~l~~~~~~~~~~~~~~~~~~~v~~a 82 (164)
T PF03162_consen 12 PGVYRSAQPTP----ANFPFLERLGLKTIINLRPEPP-----SQDFLEFAEENGIKLIHIPMSSSKDPWVPISEEQVAEA 82 (164)
T ss_dssp TTEEEESS--H----HHHHHHHHHT-SEEEE--SS--------HHHHHHHHHTT-EEEE-------GGG----HHHHHHH
T ss_pred CCccCCCCCCh----hhHHHHHHCCCceEEEecCCCC-----CHHHHHHHhhcCceEEEeccccccCccccCCHHHHHHH
Confidence 46788775543 2345788899999998885432 234445778899987654322111 234566677
Q ss_pred HHHhhcC-CCeEEEEeeChH
Q 006733 215 LLTVSSM-MSRILILHTYDI 233 (633)
Q Consensus 215 l~~i~~~-~~~vIvl~~~~~ 233 (633)
++.+.+. +--+.|.|.++.
T Consensus 83 L~~ild~~n~PvLiHC~~G~ 102 (164)
T PF03162_consen 83 LEIILDPRNYPVLIHCNHGK 102 (164)
T ss_dssp HHHHH-GGG-SEEEE-SSSS
T ss_pred HHHHhCCCCCCEEEEeCCCC
Confidence 7766554 333444444443
No 462
>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=38.90 E-value=1.8e+02 Score=29.07 Aligned_cols=78 Identities=19% Similarity=0.108 Sum_probs=52.0
Q ss_pred cCCcEEEEEEecCC--Cc---chhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh-HHHH
Q 006733 163 FGWRNVIALYVDDD--HG---RNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD-IWGL 236 (633)
Q Consensus 163 ~~w~~v~ii~~d~~--~g---~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~-~~~~ 236 (633)
|.-.++++|.+.++ .| ......++..+++.|.++......+ .+...+...+.++.+.+.|+||..+.. .+-.
T Consensus 157 ~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~--Dd~~~I~~ai~~~~~~g~DlIItTGGtsvg~~ 234 (312)
T cd03522 157 FRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVP--HDEAAIAAAIAEALEAGAELLILTGGASVDPD 234 (312)
T ss_pred cCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcC--CCHHHHHHHHHHHhcCCCCEEEEeCCcccCCc
Confidence 34568898886442 22 2334577888889999988777776 466778888888776668999987443 3444
Q ss_pred HHHHHH
Q 006733 237 EVLNAA 242 (633)
Q Consensus 237 ~il~~a 242 (633)
++..++
T Consensus 235 D~tp~A 240 (312)
T cd03522 235 DVTPAA 240 (312)
T ss_pred chHHHH
Confidence 444333
No 463
>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=38.66 E-value=3.6e+02 Score=25.82 Aligned_cols=115 Identities=13% Similarity=0.062 Sum_probs=61.0
Q ss_pred CeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhH
Q 006733 31 PVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIA 110 (633)
Q Consensus 31 ~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~ 110 (633)
+.-+||++.+.....+.....+++.++++ .|.++...... +.....+.+.+++. +..+|+.+......
T Consensus 130 g~~~i~~l~~~~~~~~~~r~~g~~~~~~~--------~g~~~~~~~~~---~~~~~~~~~~~~~~-~~dai~~~~d~~a~ 197 (281)
T cd06325 130 DAKTVGVLYNPSEANSVVQVKELKKAAAK--------LGIEVVEATVS---SSNDVQQAAQSLAG-KVDAIYVPTDNTVA 197 (281)
T ss_pred CCcEEEEEeCCCCccHHHHHHHHHHHHHh--------CCCEEEEEecC---CHHHHHHHHHHhcc-cCCEEEEcCchhHH
Confidence 45678888655433344445666666654 14444332211 22233344444443 45787775544322
Q ss_pred HHH---HHhhccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHH
Q 006733 111 HLV---SHIANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDY 162 (633)
Q Consensus 111 ~~v---a~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~ 162 (633)
..+ .......++|++++.... +. .|.+.....+...+++..++++.+
T Consensus 198 ~~~~~~~~~~~~~~ipvig~d~~~--~~---~~~l~tv~~~~~~~G~~a~~~l~~ 247 (281)
T cd06325 198 SAMEAVVKVANEAKIPVIASDDDM--VK---RGGLATYGIDYYELGRQTGKMAAK 247 (281)
T ss_pred hHHHHHHHHHHHcCCCEEEcCHHH--Hh---CCceEEecCCHHHHHHHHHHHHHH
Confidence 222 222222479999765432 21 256666777777888888887643
No 464
>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=38.52 E-value=1.2e+02 Score=27.31 Aligned_cols=70 Identities=16% Similarity=0.166 Sum_probs=45.9
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
++-.+++..+.++.- .+++++.. .....++..|.+|++|+++...... ...+.. .+.....+.+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~~-~~l~~~~~~lv~~~ 80 (200)
T cd08465 13 LVLPALMRQLRAEAP-GIDLAVSQ-------ASREAMLAQVADGEIDLALGVFPEL---PEELHA-ETLFEERFVCLADR 80 (200)
T ss_pred HhhhHHHHHHHHHCC-CcEEEEec-------CChHhHHHHHHCCCccEEEeccccC---CcCeeE-EEeeeccEEEEEeC
Confidence 455667777766542 24566665 5689999999999999998532211 122332 46667777777766
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 81 ~h 82 (200)
T cd08465 81 AT 82 (200)
T ss_pred CC
Confidence 65
No 465
>cd08450 PBP2_HcaR The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold. HcaR, a member of the LysR family of transcriptional regulators, controls the expression of the hcA1, A2, B, C, and D operon, encoding for the 3-phenylpropionate dioxygenase complex and 3-phenylpropionate-2',3'-dihydrodiol dehydrogenase, that oxidizes 3-phenylpropionate to 3-(2,3-dihydroxyphenyl) propionate. Dioxygenases play an important role in protecting the cell against the toxic effects of dioxygen. The expression of hcaR is negatively auto-regulated, as for other members of the LysR family, and is strongly repressed in the presence of glucose. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, an
Probab=38.44 E-value=1.2e+02 Score=26.78 Aligned_cols=70 Identities=20% Similarity=0.193 Sum_probs=46.2
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.- .+++++.. +....+...+.+|++|+++...... ...+. +.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08450 13 QWLPEVLPILREEHP-DLDVELSS-------LFSPQLAEALMRGKLDVAFMRPEIQ---SDGID-YQLLLKEPLIVVLPA 80 (196)
T ss_pred hhHHHHHHHHHhhCC-CcEEEEEe-------cChHHHHHHHhcCCccEEEEeCCCC---CCCcE-EEEEEccceEEEecC
Confidence 445677777777762 24466665 5678999999999999998532211 12222 466777788888866
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 81 ~~ 82 (196)
T cd08450 81 DH 82 (196)
T ss_pred CC
Confidence 54
No 466
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=38.42 E-value=1.5e+02 Score=29.43 Aligned_cols=85 Identities=19% Similarity=0.181 Sum_probs=54.0
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++|+||+.. .. ...+-..++..+.++.. .+++.+.. +.++++...|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~--~~------------~~~~l~~~i~~f~~~~P-~i~l~~~~-------~~~~~~~~~L~~~~~D~~i~~ 149 (309)
T PRK12683 92 SGHLTVATTH--TQ------------ARYALPKVVRQFKEVFP-KVHLALRQ-------GSPQEIAEMLLNGEADIGIAT 149 (309)
T ss_pred CceEEEEecc--ch------------HHHHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEec
Confidence 3679999863 11 11334567777777662 24466665 679999999999999999753
Q ss_pred eEeeccccceeeeccceeecceEEEEecCC
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
... .....+.+ .|+....+.++++++.
T Consensus 150 ~~~--~~~~~l~~-~~l~~~~~~~v~~~~h 176 (309)
T PRK12683 150 EAL--DREPDLVS-FPYYSWHHVVVVPKGH 176 (309)
T ss_pred CCC--CCCCCceE-EEcccCeEEEEecCCC
Confidence 211 11223333 4677777777777655
No 467
>PRK06703 flavodoxin; Provisional
Probab=38.30 E-value=2.3e+02 Score=24.51 Aligned_cols=80 Identities=6% Similarity=0.032 Sum_probs=43.3
Q ss_pred EEEEEEec-CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-------hHHHHHH
Q 006733 167 NVIALYVD-DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-------DIWGLEV 238 (633)
Q Consensus 167 ~v~ii~~d-~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-------~~~~~~i 238 (633)
++.|+|.. ....+..++.+.+.+++.|..+.... +. ..+.. .+. +.+.|++.++ +..+..+
T Consensus 3 kv~IiY~S~tGnT~~iA~~ia~~l~~~g~~v~~~~-~~----~~~~~----~l~--~~d~viigspt~~~g~~p~~~~~f 71 (151)
T PRK06703 3 KILIAYASMSGNTEDIADLIKVSLDAFDHEVVLQE-MD----GMDAE----ELL--AYDGIILGSYTWGDGDLPYEAEDF 71 (151)
T ss_pred eEEEEEECCCchHHHHHHHHHHHHHhcCCceEEEe-hh----hCCHH----HHh--cCCcEEEEECCCCCCcCcHHHHHH
Confidence 67788854 33444567788888888887765322 21 11111 232 4566666543 2357778
Q ss_pred HHHHHHcCCCCCCeEEEEe
Q 006733 239 LNAAKHLRMMESGYVWIVT 257 (633)
Q Consensus 239 l~~a~~~g~~~~~~~~i~~ 257 (633)
+..+.+..+.+..+..+++
T Consensus 72 ~~~l~~~~l~~k~~~vfg~ 90 (151)
T PRK06703 72 HEDLENIDLSGKKVAVFGS 90 (151)
T ss_pred HHHHhcCCCCCCEEEEEcc
Confidence 7777654444333333333
No 468
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=38.23 E-value=4.3e+02 Score=26.57 Aligned_cols=104 Identities=12% Similarity=0.104 Sum_probs=62.2
Q ss_pred CCCceEEecC-ChHHHHHHHHHHHHHc--CCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHH
Q 006733 138 QYPFFVRTTQ-SDLYQMAAIADIVDYF--GWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDT 214 (633)
Q Consensus 138 ~~~~~~r~~p-~~~~~~~al~~ll~~~--~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~ 214 (633)
..|+.+-+.- +-.-=...++++..+| ..++|.+...|+ |=....+.++...++.|+.+.... .. .....-.-+.
T Consensus 137 ~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DT-FRAaAiEQL~~w~er~gv~vI~~~-~G-~DpAaVafDA 213 (340)
T COG0552 137 KKPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDT-FRAAAIEQLEVWGERLGVPVISGK-EG-ADPAAVAFDA 213 (340)
T ss_pred CCcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecch-HHHHHHHHHHHHHHHhCCeEEccC-CC-CCcHHHHHHH
Confidence 3477666543 2211223344443333 556887777665 545567788888888999887532 21 1223345677
Q ss_pred HHHhhcCCCeEEEEeeCh--HHHHHHHHHHHH
Q 006733 215 LLTVSSMMSRILILHTYD--IWGLEVLNAAKH 244 (633)
Q Consensus 215 l~~i~~~~~~vIvl~~~~--~~~~~il~~a~~ 244 (633)
++..+..+.|++++...+ .+-..++.++++
T Consensus 214 i~~Akar~~DvvliDTAGRLhnk~nLM~EL~K 245 (340)
T COG0552 214 IQAAKARGIDVVLIDTAGRLHNKKNLMDELKK 245 (340)
T ss_pred HHHHHHcCCCEEEEeCcccccCchhHHHHHHH
Confidence 888888999999998554 344444444444
No 469
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=37.90 E-value=1.2e+02 Score=30.12 Aligned_cols=85 Identities=16% Similarity=0.130 Sum_probs=54.8
Q ss_pred CceEEEEecCCCCCcCcEEecCCCCceeeeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEee
Q 006733 469 GRHLRIGVPSQVIYPEFVAQGKGTDKFSGYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGD 548 (633)
Q Consensus 469 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~ 548 (633)
.++++||+.. .. ...+-.+++..+.++.. .+++.+.. +....++..|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~--~~------------~~~~l~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~L~~g~~D~~i~~ 149 (313)
T PRK12684 92 QGNLTIATTH--TQ------------ARYALPAAIKEFKKRYP-KVRLSILQ-------GSPTQIAEMVLHGQADLAIAT 149 (313)
T ss_pred CCeEEEEech--HH------------HHHHhHHHHHHHHHHCC-CceEEEEe-------CChHHHHHHHHCCCcCEEEee
Confidence 4679999863 11 12345677888877662 24566665 568899999999999999754
Q ss_pred eEeeccccceeeeccceeecceEEEEecCC
Q 006733 549 FAITTERTKMVDFTQPYIESGLVVVAPIKK 578 (633)
Q Consensus 549 ~~~~~~r~~~~~fs~p~~~~~~~~lv~~~~ 578 (633)
-... .. ..+. +.|+....+.+++++..
T Consensus 150 ~~~~-~~-~~l~-~~~l~~~~~~~v~~~~~ 176 (313)
T PRK12684 150 EAIA-DY-KELV-SLPCYQWNHCVVVPPDH 176 (313)
T ss_pred cCCC-CC-CCce-EEEeccceEEEEeCCCC
Confidence 2111 11 1222 46777777777777655
No 470
>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=37.85 E-value=2.4e+02 Score=28.56 Aligned_cols=88 Identities=6% Similarity=-0.172 Sum_probs=54.0
Q ss_pred HHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEe--ecCCCCChhhHHHHHHHhhcCCC---eEEEEee
Q 006733 156 IADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKV--PLSPKGSRNQIIDTLLTVSSMMS---RILILHT 230 (633)
Q Consensus 156 l~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~--~~~~~~~~~~~~~~l~~i~~~~~---~vIvl~~ 230 (633)
+.+.++. .+++.+|++...+ ....+.+.+.+++.|+.+.... ....+.+.+.+...++.+++.+. |.||..+
T Consensus 13 l~~~l~~--~~~~livtd~~~~-~~~~~~v~~~L~~~g~~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIavG 89 (344)
T TIGR01357 13 LVEELAE--PSKLVIITDETVA-DLYADKLLEALQALGYNVLKLTVPDGEESKSLETVQRLYDQLLEAGLDRSSTIIALG 89 (344)
T ss_pred HHHHhhc--CCeEEEEECCchH-HHHHHHHHHHHHhcCCceeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEEc
Confidence 4455554 3899888854443 3466778888888887653221 11222345667777777776554 8888765
Q ss_pred Ch--HHHHHHHHHHHHcC
Q 006733 231 YD--IWGLEVLNAAKHLR 246 (633)
Q Consensus 231 ~~--~~~~~il~~a~~~g 246 (633)
.+ -++..++......+
T Consensus 90 GGsv~D~aK~iA~~~~~~ 107 (344)
T TIGR01357 90 GGVVGDLAGFVAATYMRG 107 (344)
T ss_pred ChHHHHHHHHHHHHHccC
Confidence 44 57777766555544
No 471
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=37.83 E-value=1.5e+02 Score=31.00 Aligned_cols=57 Identities=14% Similarity=0.088 Sum_probs=43.9
Q ss_pred cEEEEEEecCCCChHHHH-HHHHHHHhc--CceEEEcCCchhhHHHHHHhhccCCccEEe
Q 006733 70 TKLKLTVHDTNYSRFLGM-VEALTLLEN--ETVAIIGPQFSVIAHLVSHIANEFQVPLLS 126 (633)
Q Consensus 70 ~~l~~~~~D~~~~~~~a~-~~~~~li~~--~v~aviG~~~s~~~~~va~~~~~~~iP~Is 126 (633)
..-++.++|+=|++..-- +++.+|+.+ .+.+|||+..|+.+..++++|...++|..-
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 344667788888766644 455666543 777899999999999999999999999754
No 472
>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=37.66 E-value=1.4e+02 Score=26.48 Aligned_cols=69 Identities=13% Similarity=0.120 Sum_probs=46.2
Q ss_pred eeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEecC
Q 006733 498 YCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (633)
Q Consensus 498 ~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~ 577 (633)
+-.+++..+.++.- .+++++.. +.+..+...|.+|++|+++..... ....+ -+.++....+.++++++
T Consensus 15 ~l~~~i~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~~ 82 (198)
T cd08446 15 TVPRLLRAFLTARP-DVTVSLHN-------MTKDEQIEALRAGRIHIGFGRFYP---VEPDI-AVENVAQERLYLAVPKS 82 (198)
T ss_pred HHHHHHHHHHHHCC-CeEEEEee-------CCHHHHHHHHHCCCccEEEEecCC---CCCCc-eeEEeeeccEEEEEeCC
Confidence 45677777777762 24466665 568899999999999999853211 11222 24667778888887765
Q ss_pred C
Q 006733 578 K 578 (633)
Q Consensus 578 ~ 578 (633)
.
T Consensus 83 ~ 83 (198)
T cd08446 83 H 83 (198)
T ss_pred C
Confidence 5
No 473
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=37.64 E-value=1.1e+02 Score=28.39 Aligned_cols=30 Identities=13% Similarity=-0.016 Sum_probs=19.6
Q ss_pred HHHHHhhcCCCeEEEEeeCh-HHHHHHHHHH
Q 006733 213 DTLLTVSSMMSRILILHTYD-IWGLEVLNAA 242 (633)
Q Consensus 213 ~~l~~i~~~~~~vIvl~~~~-~~~~~il~~a 242 (633)
...+.+++.++++|++.|-+ ..+..-++++
T Consensus 165 ~~~~a~~edgAeaIiLGCAGms~la~~Lq~~ 195 (230)
T COG4126 165 EAAEALKEDGAEAIILGCAGMSDLADQLQKA 195 (230)
T ss_pred HHHHHhhhcCCCEEEEcCccHHHHHHHHHHH
Confidence 34455667899999998765 5555555443
No 474
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=37.57 E-value=3.5e+02 Score=27.02 Aligned_cols=89 Identities=15% Similarity=0.072 Sum_probs=50.0
Q ss_pred CeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhc-----CceEEE--
Q 006733 31 PVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNY-SRFLGMVEALTLLEN-----ETVAII-- 102 (633)
Q Consensus 31 ~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~-~~~~a~~~~~~li~~-----~v~avi-- 102 (633)
-+-+||++.+.+ -.|++..+..+++.. |..++.+...--++ +....+..+.+.+.. .+++||
T Consensus 13 ~p~~I~vITs~~-------gAa~~D~~~~~~~r~---~~~~~~~~p~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~ 82 (319)
T PF02601_consen 13 FPKRIAVITSPT-------GAAIQDFLRTLKRRN---PIVEIILYPASVQGEGAAASIVSALRKANEMGQADDFDVIIII 82 (319)
T ss_pred CCCEEEEEeCCc-------hHHHHHHHHHHHHhC---CCcEEEEEeccccccchHHHHHHHHHHHHhccccccccEEEEe
Confidence 367999999976 345566667777654 34454443333333 222223333333332 355554
Q ss_pred -cCCchh-----hHHHHHHhhccCCccEEeecc
Q 006733 103 -GPQFSV-----IAHLVSHIANEFQVPLLSFAA 129 (633)
Q Consensus 103 -G~~~s~-----~~~~va~~~~~~~iP~Is~~a 129 (633)
|+++-. ....++.......+|+||-.+
T Consensus 83 RGGGs~eDL~~FN~e~varai~~~~~PvisaIG 115 (319)
T PF02601_consen 83 RGGGSIEDLWAFNDEEVARAIAASPIPVISAIG 115 (319)
T ss_pred cCCCChHHhcccChHHHHHHHHhCCCCEEEecC
Confidence 333322 455678888889999998544
No 475
>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=37.37 E-value=1.7e+02 Score=29.86 Aligned_cols=85 Identities=9% Similarity=0.039 Sum_probs=53.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC--
Q 006733 154 AAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-- 231 (633)
Q Consensus 154 ~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-- 231 (633)
..+.+++++++ +++.+|++...+ ....+.+++.+++.++.+. .+....+.+.+...+..+++.++|.||-.+.
T Consensus 13 ~~l~~~~~~~~-~~~liv~d~~~~-~~~~~~l~~~L~~~~~~~~---~~~~~p~~~~v~~~~~~~~~~~~D~iIavGGGs 87 (347)
T cd08172 13 DELGELLKRFG-KRPLIVTGPRSW-AAAKPYLPESLAAGEAFVL---RYDGECSEENIERLAAQAKENGADVIIGIGGGK 87 (347)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH-HHHHHHHHHHHhcCeEEEE---EeCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcH
Confidence 34556677664 888888865443 2455667677755555432 2221146677888888888889999997654
Q ss_pred hHHHHHHHHHHH
Q 006733 232 DIWGLEVLNAAK 243 (633)
Q Consensus 232 ~~~~~~il~~a~ 243 (633)
.-++.+++....
T Consensus 88 ~~D~aK~ia~~~ 99 (347)
T cd08172 88 VLDTAKAVADRL 99 (347)
T ss_pred HHHHHHHHHHHh
Confidence 356666665443
No 476
>PF13362 Toprim_3: Toprim domain
Probab=37.35 E-value=1.3e+02 Score=23.77 Aligned_cols=51 Identities=20% Similarity=0.181 Sum_probs=38.0
Q ss_pred CCcEEEEEEecCCC--cchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHH
Q 006733 164 GWRNVIALYVDDDH--GRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLT 217 (633)
Q Consensus 164 ~w~~v~ii~~d~~~--g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~ 217 (633)
..++|.|..++|.. |+.....+.+.+.+.|..+..... + ....|+.+.++.
T Consensus 40 ~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~p-~--~~g~D~ND~l~~ 92 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVEP-G--PEGKDWNDLLQA 92 (96)
T ss_pred CCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEECC-C--CCCchHHHHHHh
Confidence 77899777777777 888899999999999988765433 1 234588887764
No 477
>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=36.82 E-value=2.2e+02 Score=25.32 Aligned_cols=71 Identities=18% Similarity=0.129 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.- ++++++.. ++...+...+.+|++|+++.... ......+. +.++....+.+++++
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 456678888877762 24466665 56788999999999999985321 11112232 467777788878766
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 82 ~h 83 (198)
T cd08443 82 DH 83 (198)
T ss_pred CC
Confidence 54
No 478
>PRK09492 treR trehalose repressor; Provisional
Probab=36.70 E-value=2.2e+02 Score=28.06 Aligned_cols=64 Identities=9% Similarity=-0.040 Sum_probs=44.0
Q ss_pred CcEEEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 165 WRNVIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 165 w~~v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
-+.|+++..+ +.|.....+.+.+.+++.|..+..... . .+.......++.+...+.|.||+...
T Consensus 62 ~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~-~--~~~~~~~~~~~~l~~~~vdgiIi~~~ 127 (315)
T PRK09492 62 DKVVGIIVSRLDSLSENQAVRTMLPAFYEQGYDPIIMES-Q--FSPEKVNEHLGVLKRRNVDGVILFGF 127 (315)
T ss_pred CCeEEEEecCCcCcccHHHHHHHHHHHHHcCCeEEEEec-C--CChHHHHHHHHHHHhcCCCEEEEeCC
Confidence 3578888864 456667788889999999988764322 1 22333456677777788999888753
No 479
>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=36.68 E-value=1.9e+02 Score=27.87 Aligned_cols=80 Identities=10% Similarity=-0.048 Sum_probs=48.3
Q ss_pred EEEEEEec----CCCcchhHHHHHHHHhh-------cCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHH
Q 006733 167 NVIALYVD----DDHGRNGIAALGDKLAE-------KRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWG 235 (633)
Q Consensus 167 ~v~ii~~d----~~~g~~~~~~~~~~~~~-------~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~ 235 (633)
+|+++... ..++......++..+++ .|.++..... ....+.......++++.+.+.++||.......+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~-d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVE-DTQGDPEAAAAAARELVDDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEe-cCCCCHHHHHHHHHHHHhCCceEEEcCCcchhH
Confidence 35666644 35676777777666665 3455544432 222234455566777777788888776655566
Q ss_pred HHHHHHHHHcCC
Q 006733 236 LEVLNAAKHLRM 247 (633)
Q Consensus 236 ~~il~~a~~~g~ 247 (633)
..+...+.+.++
T Consensus 80 ~~~~~~~~~~~i 91 (298)
T cd06268 80 LAAAPVAEEAGV 91 (298)
T ss_pred HhhHHHHHhCCC
Confidence 667777777664
No 480
>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=36.67 E-value=90 Score=27.06 Aligned_cols=70 Identities=11% Similarity=-0.004 Sum_probs=40.9
Q ss_pred cEEEEEEecCC-CcchhHHHHHHHHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHH
Q 006733 166 RNVIALYVDDD-HGRNGIAALGDKLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGL 236 (633)
Q Consensus 166 ~~v~ii~~d~~-~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~ 236 (633)
++|.|+|+.+. .-......|.+.|++. |+++.....-.......+....+.+-. .+++.|++.+++....
T Consensus 1 ~kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~-~~ad~Vliv~S~~~~~ 72 (150)
T PF08357_consen 1 RKVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQI-READKVLIVCSPGYKE 72 (150)
T ss_pred CeEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHH-hcCCEEEEEeccchhH
Confidence 47889997543 2235567888888888 999876643321112334455554443 3466666666644333
No 481
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=36.64 E-value=5.2e+02 Score=27.07 Aligned_cols=116 Identities=11% Similarity=0.087 Sum_probs=70.7
Q ss_pred CCceEEecC----ChHHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhh-HHH
Q 006733 139 YPFFVRTTQ----SDLYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQ-IID 213 (633)
Q Consensus 139 ~~~~~r~~p----~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~-~~~ 213 (633)
.|+.+-+.- .-+..+..++.++++ .-+++.++..|. |=-...+.++...++.|+.+-.. ..+.+.-+ ...
T Consensus 99 ~P~vImmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~-~RpAA~eQL~~La~q~~v~~f~~---~~~~~Pv~Iak~ 173 (451)
T COG0541 99 PPTVILMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADT-YRPAAIEQLKQLAEQVGVPFFGS---GTEKDPVEIAKA 173 (451)
T ss_pred CCeEEEEEeccCCChHhHHHHHHHHHHH-cCCceEEEeccc-CChHHHHHHHHHHHHcCCceecC---CCCCCHHHHHHH
Confidence 355555442 224456678888888 667888887664 55566788888888888775433 11122222 367
Q ss_pred HHHHhhcCCCeEEEEeeCh--HHHHHHHHHHHHc-CCCCCCeEEEEeCc
Q 006733 214 TLLTVSSMMSRILILHTYD--IWGLEVLNAAKHL-RMMESGYVWIVTDW 259 (633)
Q Consensus 214 ~l~~i~~~~~~vIvl~~~~--~~~~~il~~a~~~-g~~~~~~~~i~~~~ 259 (633)
.++..+....|+||+.+.+ ..=..++.++++. ....|.-+.+..|.
T Consensus 174 al~~ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDa 222 (451)
T COG0541 174 ALEKAKEEGYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDA 222 (451)
T ss_pred HHHHHHHcCCCEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEec
Confidence 7788888889999998655 2233344444442 13346666666654
No 482
>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=36.60 E-value=3.3e+02 Score=28.27 Aligned_cols=128 Identities=16% Similarity=0.133 Sum_probs=66.1
Q ss_pred hccCCccEEeeccCCCCCccCCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEecCCCcch---hHHHHHHHHhhcC
Q 006733 117 ANEFQVPLLSFAATDPSLSSLQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVDDDHGRN---GIAALGDKLAEKR 193 (633)
Q Consensus 117 ~~~~~iP~Is~~a~~~~ls~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~---~~~~~~~~~~~~g 193 (633)
...+++|++..+-.... +.+ ....+ ...+..+...+++.|.-..+++|.+..+.... ....+++.+.+.|
T Consensus 212 ~~~yg~~~~G~sIPa~e-----HS~-i~s~~-~~~E~~AF~~~~~~fp~~~~~lv~DTYD~~~~~~~~~~~lk~~i~~~g 284 (407)
T cd01569 212 AYYYEDPMAGFSIPAAE-----HST-MTAWG-RERELEAFRNLLEQFGPGIVSVVSDSYDFWNALTLWGPRLKDEILARG 284 (407)
T ss_pred HHhcCCCcccccccHHH-----hHH-HHhCC-CccHHHHHHHHHHHcCCCcEEEEecCccHHHHHHHHHHHHHHHHHhcC
Confidence 57788888754221111 111 11111 12356889999998876667777755554322 1234555444456
Q ss_pred cEEEEEeecCCCCChhhHHHHHHHhh-c--------CC-----CeEEEEeeCh---HHHHHHHHHHHHcCCCCCCeEE
Q 006733 194 CRLSHKVPLSPKGSRNQIIDTLLTVS-S--------MM-----SRILILHTYD---IWGLEVLNAAKHLRMMESGYVW 254 (633)
Q Consensus 194 ~~v~~~~~~~~~~~~~~~~~~l~~i~-~--------~~-----~~vIvl~~~~---~~~~~il~~a~~~g~~~~~~~~ 254 (633)
..++.+ .+. .+..++.....++. + .+ +++-|+.++. ..+..|++.+++.|....+..|
T Consensus 285 ~~lviR--pDS-GD~~~l~~~~~~~L~~~FG~~~n~kGykvl~~~v~Ii~gd~ide~~i~~Il~~L~~~G~~~dNi~f 359 (407)
T cd01569 285 GTLVIR--PDS-GDPVDIICGVLEILGEIFGGTVNSKGYKVLNPHVRIIQGDGITLERIEEILERLKAKGFASENIVF 359 (407)
T ss_pred CcEEEE--CCC-CCHHHHHHHHHHHHHHHhCCcccCCcccccCCceEEEEcCCCCHHHHHHHHHHHHHCCCccccceE
Confidence 555322 221 12222222222222 1 13 4666666554 6777788889988876654333
No 483
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=36.49 E-value=1.7e+02 Score=31.01 Aligned_cols=142 Identities=9% Similarity=0.033 Sum_probs=85.2
Q ss_pred CceEEEcCCchhhHHHHHHhhccCCccEEeeccCCCCCcc--CCCCceEEecCChHHHHHHHHHHHHHcCCcEEEEEEec
Q 006733 97 ETVAIIGPQFSVIAHLVSHIANEFQVPLLSFAATDPSLSS--LQYPFFVRTTQSDLYQMAAIADIVDYFGWRNVIALYVD 174 (633)
Q Consensus 97 ~v~aviG~~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~--~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~d 174 (633)
+...++|...+.....+.+++++.+|-+..+.. +....+ .-....+.- +.....++++..+-++++-.++.+=
T Consensus 194 ~~vnl~G~~~~~~~~~i~~lL~~lGI~v~~~lp-~~~~~eL~~~~~~~~~c-~~~P~ls~aa~~Le~~~gvp~~~~P--- 268 (457)
T CHL00073 194 PPLVLFGSLPSTVASQLTLELKRQGIKVSGWLP-SQRYTDLPSLGEGVYVC-GVNPFLSRTATTLMRRRKCKLIGAP--- 268 (457)
T ss_pred CcEEEEEecCcccHHHHHHHHHHcCCeEeEEeC-CCCHHHHHhhCcccEEE-EcCcchHHHHHHHHHHhCCceeecC---
Confidence 347889988888888999999999999986555 444443 112333322 2222234555555677887776643
Q ss_pred CCCcchhHHHHHHHHhhc-CcEEEEEeecCCCCChhhHHHHHHHhhc--CCCeEEEEeeChHHHHHHHHHHHHcCCCC
Q 006733 175 DDHGRNGIAALGDKLAEK-RCRLSHKVPLSPKGSRNQIIDTLLTVSS--MMSRILILHTYDIWGLEVLNAAKHLRMME 249 (633)
Q Consensus 175 ~~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~~~~~~l~~i~~--~~~~vIvl~~~~~~~~~il~~a~~~g~~~ 249 (633)
..+|......+...+.+. |+. .+.+. .....+.+.+...++ .+-++. +.+++.....+.+.+.++||..
T Consensus 269 ~PiGi~~Td~fLr~Ia~~~G~~---pe~l~--~Er~rl~dal~d~~~~L~GKrva-i~Gdp~~~i~LarfL~elGmev 340 (457)
T CHL00073 269 FPIGPDGTRAWIEKICSVFGIE---PQGLE--EREEQIWESLKDYLDLVRGKSVF-FMGDNLLEISLARFLIRCGMIV 340 (457)
T ss_pred CcCcHHHHHHHHHHHHHHhCcC---HHHHH--HHHHHHHHHHHHHHHHHCCCEEE-EECCCcHHHHHHHHHHHCCCEE
Confidence 348877776666555543 542 22221 111222233333222 345554 8888888889999999999853
No 484
>PRK10991 fucI L-fucose isomerase; Provisional
Probab=36.00 E-value=6.1e+02 Score=27.66 Aligned_cols=88 Identities=9% Similarity=-0.035 Sum_probs=55.7
Q ss_pred CCcEEEEEEecCC-CChHHHHHHHHHHHhcCceEEE-cCCc-hhhHHHHHHhhccCCccEEeeccCCCCCccCCCCceEE
Q 006733 68 GGTKLKLTVHDTN-YSRFLGMVEALTLLENETVAII-GPQF-SVIAHLVSHIANEFQVPLLSFAATDPSLSSLQYPFFVR 144 (633)
Q Consensus 68 ~g~~l~~~~~D~~-~~~~~a~~~~~~li~~~v~avi-G~~~-s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~~~~~r 144 (633)
.|..++.++.|+. +++.++.+++.++-.++|.++| .+.+ ...+..+ ....++|++-++..++.-.
T Consensus 47 ~g~~ve~viad~~I~~~~eA~~~aekFk~e~Vd~~I~vt~cw~fG~Et~---d~~~~~PvllWg~~dperP--------- 114 (588)
T PRK10991 47 CGEPVECVIADTCIGGVAEAAACEEKFSSENVGLTITVTPCWCYGSETI---DMDPTRPKAIWGFNGTERP--------- 114 (588)
T ss_pred CCCeEEEEeCccccCCHHHHHHHHHHHhhcCCCEEEEecCcccchhHHH---hcCCCCCEEEeCCCCCCCC---------
Confidence 4678899998876 4788888888888888898888 5555 3333333 2237889998766554322
Q ss_pred ecCChHHHHHHHHHHHHHcCCcEEEEE
Q 006733 145 TTQSDLYQMAAIADIVDYFGWRNVIAL 171 (633)
Q Consensus 145 ~~p~~~~~~~al~~ll~~~~w~~v~ii 171 (633)
..-.++ +...-+.++|...+.|-
T Consensus 115 ---Gav~L~-A~laa~~Q~Gip~~~Iy 137 (588)
T PRK10991 115 ---GAVYLA-AALAAHSQKGIPAFSIY 137 (588)
T ss_pred ---cHHHHH-HHHHHHHhcCCCeEEEe
Confidence 112222 33334457887765544
No 485
>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=35.91 E-value=1.8e+02 Score=27.84 Aligned_cols=61 Identities=8% Similarity=-0.025 Sum_probs=42.0
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
|+++..+ +.|.....+.+.+.+++.|..+.... . ..+.......++.+...++|.|++...
T Consensus 2 igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~--~-~~~~~~~~~~i~~l~~~~vdgiii~~~ 64 (269)
T cd06275 2 IGMLVTTSTNPFFAEVVRGVEQYCYRQGYNLILCN--T-EGDPERQRSYLRMLAQKRVDGLLVMCS 64 (269)
T ss_pred EEEEeCCCCcchHHHHHHHHHHHHHHcCCEEEEEe--C-CCChHHHHHHHHHHHHcCCCEEEEecC
Confidence 5666643 56777778889999999998876432 1 123344556777887888999888754
No 486
>cd08431 PBP2_HupR The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold. HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, p
Probab=35.88 E-value=1.5e+02 Score=26.28 Aligned_cols=69 Identities=13% Similarity=0.011 Sum_probs=43.3
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEe
Q 006733 497 GYCIDVFTAVLELL-PYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAP 575 (633)
Q Consensus 497 G~~vdl~~~ia~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~ 575 (633)
.+-.+++..+.++. + +++++.. .+...++.++.+|++|+++..... .....+ .+.++....+.++++
T Consensus 13 ~~l~~~l~~~~~~~P~--v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~-~~~~l~~~~~~~v~~ 80 (195)
T cd08431 13 QPLYPLIAEFYQLNKA--TRIRLSE-------EVLGGTWDALASGRADLVIGATGE--LPPGGV-KTRPLGEVEFVFAVA 80 (195)
T ss_pred HHHHHHHHHHHHHCCC--CceEEEE-------eccchHHHHHhCCCCCEEEEecCC--CCCCce-EEEecccceEEEEEc
Confidence 45667888888876 4 4466665 456788999999999999853211 111112 235555556666665
Q ss_pred cC
Q 006733 576 IK 577 (633)
Q Consensus 576 ~~ 577 (633)
++
T Consensus 81 ~~ 82 (195)
T cd08431 81 PN 82 (195)
T ss_pred CC
Confidence 44
No 487
>PRK11914 diacylglycerol kinase; Reviewed
Probab=35.87 E-value=2.2e+02 Score=28.30 Aligned_cols=79 Identities=11% Similarity=-0.011 Sum_probs=50.5
Q ss_pred HcCCcEEEEEEecCC-Cc--chhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeChHHHHHH
Q 006733 162 YFGWRNVIALYVDDD-HG--RNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYDIWGLEV 238 (633)
Q Consensus 162 ~~~w~~v~ii~~d~~-~g--~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~~~~~~i 238 (633)
+..-+++.+|+.-.. -| ....+.+.+.+++.|+++..... ....+...+.++..+.+.|+||+.+.......+
T Consensus 5 ~~~~~~~~iI~NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~t----~~~~~~~~~a~~~~~~~~d~vvv~GGDGTi~ev 80 (306)
T PRK11914 5 RHEIGKVTVLTNPLSGHGAAPHAAERAIARLHHRGVDVVEIVG----TDAHDARHLVAAALAKGTDALVVVGGDGVISNA 80 (306)
T ss_pred cCCCceEEEEECCCCCCCcHHHHHHHHHHHHHHcCCeEEEEEe----CCHHHHHHHHHHHHhcCCCEEEEECCchHHHHH
Confidence 345578888883222 12 23355677788888987653322 124566777777766778988888777777777
Q ss_pred HHHHHH
Q 006733 239 LNAAKH 244 (633)
Q Consensus 239 l~~a~~ 244 (633)
+..+..
T Consensus 81 v~~l~~ 86 (306)
T PRK11914 81 LQVLAG 86 (306)
T ss_pred hHHhcc
Confidence 766643
No 488
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=35.78 E-value=2.4e+02 Score=27.01 Aligned_cols=92 Identities=10% Similarity=-0.023 Sum_probs=60.6
Q ss_pred HHHHHHHHHHHHHcC--CcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEE
Q 006733 150 LYQMAAIADIVDYFG--WRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILI 227 (633)
Q Consensus 150 ~~~~~al~~ll~~~~--w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIv 227 (633)
...+..++..+..+. -+++.++..+.. ...+.+.+.+.|+.+.....|.......+.......++..+.|+ |
T Consensus 106 ~~~~~~l~~~l~~~~~~~~~vl~~~~~~~-----r~~l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~~~~~~d~-v 179 (248)
T COG1587 106 DGDSEGLLEELPELLKGGKRVLILRGNGG-----REVLEEKLEERGAEVREVEVYRTEPPPLDEATLIELLKLGEVDA-V 179 (248)
T ss_pred ccchHHHHHHhhhhccCCCeEEEEcCCCc-----hHHHHHHHHhCCCEEEEEeeeeecCCCccHHHHHHHHHhCCCCE-E
Confidence 345667777766554 468887775542 36788999999999887766654333333333344555566664 5
Q ss_pred EeeChHHHHHHHHHHHHcCC
Q 006733 228 LHTYDIWGLEVLNAAKHLRM 247 (633)
Q Consensus 228 l~~~~~~~~~il~~a~~~g~ 247 (633)
++.++..++.++..+...+.
T Consensus 180 ~ftS~~~v~~~~~~~~~~~~ 199 (248)
T COG1587 180 VFTSSSAVRALLALAPESGI 199 (248)
T ss_pred EEeCHHHHHHHHHHccccch
Confidence 56677888889888887553
No 489
>TIGR00363 lipoprotein, YaeC family. This family of putative lipoproteins contains a consensus site for lipoprotein signal sequence cleavage. Included in this family is the E. coli hypothetical protein yaeC. About half of the proteins between the noise and trusted cutoffs contain the consensus lipoprotein signature and may belong to this family.
Probab=35.76 E-value=81 Score=30.51 Aligned_cols=56 Identities=16% Similarity=0.154 Sum_probs=31.0
Q ss_pred CCeEEEEEEeecCCccchhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEE
Q 006733 30 PPVLNIGAVFALNSTIGKVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAII 102 (633)
Q Consensus 30 ~~~i~IG~l~p~~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~avi 102 (633)
..+|+||+....+ ...+..+. +..-++ .|++++++.+++...+.+ .+....+++-+
T Consensus 17 ~~~l~vG~~~~~~---~~~~~~~~----~~~~~~----~G~~Ve~~~f~d~~~~~~------Al~~G~ID~~~ 72 (258)
T TIGR00363 17 PLHIKVGVISGAE---QQVAEVAA----KVAKEK----YGLDVELVEFNDYALPNE------AVSKGDLDANA 72 (258)
T ss_pred CCcEEEEeCCCCh---HHHHHHHH----HHHHHh----cCCEEEEEEeCCcHHHHH------HHHcCCCCeEe
Confidence 3579999875432 12222333 332222 378999999886544432 34445677644
No 490
>PRK01215 competence damage-inducible protein A; Provisional
Probab=35.48 E-value=2.5e+02 Score=27.29 Aligned_cols=74 Identities=7% Similarity=0.039 Sum_probs=46.7
Q ss_pred cEEEEEEecCC--Ccc---hhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeC-hHHHHHHH
Q 006733 166 RNVIALYVDDD--HGR---NGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTY-DIWGLEVL 239 (633)
Q Consensus 166 ~~v~ii~~d~~--~g~---~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~-~~~~~~il 239 (633)
.+++||...++ .|. .....+.+.+.+.|+.+.....++ .+..++...++++.+ ..|+||+.+. +....++.
T Consensus 4 ~~v~Ii~~GdEll~G~i~dtn~~~l~~~L~~~G~~v~~~~~v~--Dd~~~I~~~l~~a~~-~~DlVIttGG~g~t~dD~t 80 (264)
T PRK01215 4 WFAWIITIGNELLIGRTVNTNASWIARRLTYLGYTVRRITVVM--DDIEEIVSAFREAID-RADVVVSTGGLGPTYDDKT 80 (264)
T ss_pred CEEEEEEEChhccCCeEEEhhHHHHHHHHHHCCCeEEEEEEeC--CCHHHHHHHHHHHhc-CCCEEEEeCCCcCChhhhH
Confidence 46677665443 232 235577888889999988776666 456677787777765 4688888643 33444444
Q ss_pred HHH
Q 006733 240 NAA 242 (633)
Q Consensus 240 ~~a 242 (633)
.++
T Consensus 81 ~ea 83 (264)
T PRK01215 81 NEG 83 (264)
T ss_pred HHH
Confidence 433
No 491
>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=35.42 E-value=2e+02 Score=25.51 Aligned_cols=69 Identities=12% Similarity=0.070 Sum_probs=46.2
Q ss_pred eeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEecC
Q 006733 498 YCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPIK 577 (633)
Q Consensus 498 ~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~~ 577 (633)
+-.+++..+.++.- ++++++.. +...++...|.+|++|+++... ......+. +.++....+.+++++.
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~lv~~~~ 81 (197)
T cd08452 14 FLPPIVREYRKKFP-SVKVELRE-------LSSPDQVEELLKGRIDIGFLHP---PIQHTALH-IETVQSSPCVLALPKQ 81 (197)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEe-------cChHHHHHHHHCCCccEEEeeC---CCCCCCee-EEEeeeccEEEEEeCC
Confidence 44577788877762 24466665 5688899999999999998532 22222333 4577777778777665
Q ss_pred C
Q 006733 578 K 578 (633)
Q Consensus 578 ~ 578 (633)
.
T Consensus 82 h 82 (197)
T cd08452 82 H 82 (197)
T ss_pred C
Confidence 4
No 492
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=35.34 E-value=5.3e+02 Score=27.13 Aligned_cols=104 Identities=10% Similarity=0.083 Sum_probs=57.8
Q ss_pred HHHHHHHHHHHHHcCCcEEEEEEecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhh-HHHHHHHhhcCCCeEEEE
Q 006733 150 LYQMAAIADIVDYFGWRNVIALYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQ-IIDTLLTVSSMMSRILIL 228 (633)
Q Consensus 150 ~~~~~al~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~-~~~~l~~i~~~~~~vIvl 228 (633)
+..+..++.++++.|+ +|+++..| .|-....+.++...+..++.+... .. ..+... ....++.+++.+.|+|++
T Consensus 114 TTtaaKLA~~l~~~G~-kV~lV~~D-~~R~aA~eQLk~~a~~~~vp~~~~--~~-~~dp~~i~~~~l~~~~~~~~DvViI 188 (429)
T TIGR01425 114 TTTCTKLAYYYQRKGF-KPCLVCAD-TFRAGAFDQLKQNATKARIPFYGS--YT-ESDPVKIASEGVEKFKKENFDIIIV 188 (429)
T ss_pred HHHHHHHHHHHHHCCC-CEEEEcCc-ccchhHHHHHHHHhhccCCeEEee--cC-CCCHHHHHHHHHHHHHhCCCCEEEE
Confidence 3455666666766564 88888765 454566777777777777655321 11 011111 234566666678899999
Q ss_pred eeChH--HHHHHHHHHHHcC-CCCCCeEEEEeC
Q 006733 229 HTYDI--WGLEVLNAAKHLR-MMESGYVWIVTD 258 (633)
Q Consensus 229 ~~~~~--~~~~il~~a~~~g-~~~~~~~~i~~~ 258 (633)
.+.+. .-...++++.+.. ...+.-+++..+
T Consensus 189 DTaGr~~~d~~lm~El~~i~~~~~p~e~lLVld 221 (429)
T TIGR01425 189 DTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMD 221 (429)
T ss_pred ECCCCCcchHHHHHHHHHHhhhcCCcEEEEEec
Confidence 87652 2223444444421 223444555554
No 493
>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=35.26 E-value=1.3e+02 Score=26.82 Aligned_cols=70 Identities=17% Similarity=0.184 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.- .+++++.. ++...+...|.+|++|+++... +.....+. +.++....+.+++++
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 445567777777762 24466665 5688999999999999998532 12222222 467778888888876
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 81 ~~ 82 (200)
T cd08466 81 DH 82 (200)
T ss_pred CC
Confidence 65
No 494
>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=35.23 E-value=1.4e+02 Score=27.02 Aligned_cols=71 Identities=13% Similarity=0.284 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.- .+++++... +++..+...|.+|++|+++..... ..+.+++ .|+....+.+++++
T Consensus 13 ~~~~~~l~~~~~~~P-~~~v~~~~~------~~~~~l~~~L~~g~lDl~i~~~~~---~~~~l~~-~~l~~~~~~lv~~~ 81 (203)
T cd08463 13 LFLPELVARFRREAP-GARLEIHPL------GPDFDYERALASGELDLVIGNWPE---PPEHLHL-SPLFSDEIVCLMRA 81 (203)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEeC------CcchhHHHHHhcCCeeEEEecccc---CCCCcEE-eEeecCceEEEEeC
Confidence 456678888887762 244666641 246789999999999999863211 1122333 67777888888876
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 82 ~h 83 (203)
T cd08463 82 DH 83 (203)
T ss_pred CC
Confidence 65
No 495
>cd08209 RLP_DK-MTP-1-P-enolase 2,3-diketo-5-methylthiopentyl-1-phosphate enolase. Ribulose bisphosphate carboxylase like proteins (RLPs) similar to B. subtilis YkrW protein, have been identified as 2,3-diketo-5-methylthiopentyl-1-phosphate enolases. They catalyze the tautomerization of 2,3-diketo-5-methylthiopentane 1-phosphate (DK-MTP 1-P). This is an important step in the methionine salvage pathway in which 5-methylthio-D-ribose (MTR) derived from 5'-methylthioadenosine is converted to methionine.
Probab=35.09 E-value=5.3e+02 Score=26.72 Aligned_cols=166 Identities=13% Similarity=0.079 Sum_probs=84.9
Q ss_pred HHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCceEEEcCCchhhHHHHHHhhc--cCCccEEe
Q 006733 49 AKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLENETVAIIGPQFSVIAHLVSHIAN--EFQVPLLS 126 (633)
Q Consensus 49 ~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~~v~aviG~~~s~~~~~va~~~~--~~~iP~Is 126 (633)
-..++.-|+++.|++.|- .++ ...+..++..+..+.+....+.|..++.-.....--.++..+.. ..++|+..
T Consensus 174 Rv~a~~~a~~~a~~eTG~---~~~--ya~NiT~~~~em~~ra~~~~~~G~~~~mv~~~~~G~~~l~~l~~~~~~~lpIha 248 (391)
T cd08209 174 RIRACRPVLQEVYEQTGR---RTL--YAVNLTGPVFTLKEKARRLVEAGANALLFNVFAYGLDVLEALASDPEINVPIFA 248 (391)
T ss_pred HHHHHHHHHHHHHHhhCC---cce--EEEEcCCCHHHHHHHHHHHHHhCCCEEEEeccccchHHHHHHHhcCcCCcEEEe
Confidence 357777888888888532 232 23333456788888887777766554443233322223444444 56888887
Q ss_pred eccCCCCCccCCCCceEEecCChHHHH-HHHHHHHHHcCCcEEEE--EEecCCCcchhHHHHHHHHhhcCcEEEEEeecC
Q 006733 127 FAATDPSLSSLQYPFFVRTTQSDLYQM-AAIADIVDYFGWRNVIA--LYVDDDHGRNGIAALGDKLAEKRCRLSHKVPLS 203 (633)
Q Consensus 127 ~~a~~~~ls~~~~~~~~r~~p~~~~~~-~al~~ll~~~~w~~v~i--i~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~ 203 (633)
.-+.+..++. .|...... ..+.++++-.|-..+-+ ++..-.+...-...+.+.+.+.+. + ...+|
T Consensus 249 Hra~~ga~~~---------~~~~Gis~~~~l~kl~RLaGaD~~~~~~~~Gk~~~~~~~~~~~~~~~~~~~~-~--k~~~P 316 (391)
T cd08209 249 HPAFAGALYG---------SPDYGIAASVLLGTLMRLAGADAVLFPSPYGSVALSKEEALAIAEALRRGGA-F--KGVFP 316 (391)
T ss_pred cCCccccccc---------CCCCCCcHHHHHHHHHHHcCCCccccCCccCCcCCCHHHHHHHHHHHhCcCC-C--CCceE
Confidence 6555544432 22222222 56788888888776543 222222333333445555555433 2 22222
Q ss_pred CCCChhhHHHHHHHhhcCCCeEEEEeeC
Q 006733 204 PKGSRNQIIDTLLTVSSMMSRILILHTY 231 (633)
Q Consensus 204 ~~~~~~~~~~~l~~i~~~~~~vIvl~~~ 231 (633)
...+-.....+-.-+...+.|+|++.+.
T Consensus 317 v~sgG~~~g~vp~~~~~~G~Dvi~~~GG 344 (391)
T cd08209 317 VPSAGIHPGLVPQLLRDFGTDVILNAGG 344 (391)
T ss_pred ecCCCCChhHHHHHHHHhCCceEEecCc
Confidence 2122222223233333456788777643
No 496
>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=34.66 E-value=1.7e+02 Score=27.80 Aligned_cols=60 Identities=12% Similarity=0.069 Sum_probs=40.2
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEee
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHT 230 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~ 230 (633)
|+++..+ +.|.....+.+++.+++.|+.+..... ..+.......++.+...++|.|++..
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~~~~~~vdgiii~~ 63 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREAGYGVLLGDT---RSDPEREQEYLDLLRRKQADGIILLD 63 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecC---CCChHHHHHHHHHHHHcCCCEEEEec
Confidence 4555543 567777888999999999988764321 12333345667777778899888854
No 497
>PRK05569 flavodoxin; Provisional
Probab=34.55 E-value=2.9e+02 Score=23.47 Aligned_cols=85 Identities=8% Similarity=0.004 Sum_probs=0.0
Q ss_pred cEEEEEE-ecCCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHHHhhcCCCeEEEEeeCh--------HHHH
Q 006733 166 RNVIALY-VDDDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLLTVSSMMSRILILHTYD--------IWGL 236 (633)
Q Consensus 166 ~~v~ii~-~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~~i~~~~~~vIvl~~~~--------~~~~ 236 (633)
+++.|+| +........++.+.+.+++.|.++.....-. .+..++.+ .|.|++.+.. ....
T Consensus 2 ~ki~iiY~S~tGnT~~iA~~i~~~~~~~g~~v~~~~~~~--~~~~~~~~---------~d~iilgsPty~~~~~~~~~~~ 70 (141)
T PRK05569 2 KKVSIIYWSCGGNVEVLANTIADGAKEAGAEVTIKHVAD--AKVEDVLE---------ADAVAFGSPSMDNNNIEQEEMA 70 (141)
T ss_pred CeEEEEEECCCCHHHHHHHHHHHHHHhCCCeEEEEECCc--CCHHHHhh---------CCEEEEECCCcCCCcCChHHHH
Q ss_pred HHHHHHHHcCCCCCCeEEEEeCccc
Q 006733 237 EVLNAAKHLRMMESGYVWIVTDWLS 261 (633)
Q Consensus 237 ~il~~a~~~g~~~~~~~~i~~~~~~ 261 (633)
.+++........+.....+++.++.
T Consensus 71 ~~~~~l~~~~~~~K~v~~f~t~g~~ 95 (141)
T PRK05569 71 PFLDQFKLTPNENKKCILFGSYGWD 95 (141)
T ss_pred HHHHHhhccCcCCCEEEEEeCCCCC
No 498
>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=34.55 E-value=1.6e+02 Score=26.32 Aligned_cols=71 Identities=18% Similarity=0.129 Sum_probs=48.1
Q ss_pred eeeHHHHHHHHHHCCCccceEEEeCCCCCCCCCHHhHHHHHHcCcccEEEeeeEeeccccceeeeccceeecceEEEEec
Q 006733 497 GYCIDVFTAVLELLPYAVPYKLVPFGDGHNSPKRFDLLRLVSEEVYDAAVGDFAITTERTKMVDFTQPYIESGLVVVAPI 576 (633)
Q Consensus 497 G~~vdl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~~~~~~~~~~~r~~~~~fs~p~~~~~~~~lv~~ 576 (633)
.+-.+++..+.++.- .+++++.. +....+...+.+|++|+++..... .....+. +.+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08413 13 YVLPPVIAAFRKRYP-KVKLSLHQ-------GTPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCVIVPP 81 (198)
T ss_pred hhccHHHHHHHHhCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEEEecC
Confidence 345677888888763 24567766 568899999999999999853211 1122233 467777888888876
Q ss_pred CC
Q 006733 577 KK 578 (633)
Q Consensus 577 ~~ 578 (633)
+.
T Consensus 82 ~h 83 (198)
T cd08413 82 GH 83 (198)
T ss_pred CC
Confidence 65
No 499
>COG4143 TbpA ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]
Probab=34.53 E-value=3.1e+02 Score=27.35 Aligned_cols=78 Identities=17% Similarity=0.187 Sum_probs=44.9
Q ss_pred CCeEEEEEEeecCCccc--hhHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc----CceEEEc
Q 006733 30 PPVLNIGAVFALNSTIG--KVAKVAIEAAVEDVNSNPAILGGTKLKLTVHDTNYSRFLGMVEALTLLEN----ETVAIIG 103 (633)
Q Consensus 30 ~~~i~IG~l~p~~~~~g--~~~~~a~~~Ave~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~~~~li~~----~v~aviG 103 (633)
..+++|+..=++...+| .....+ +|.- -+.+++++...+. ++...+++.+ +.++|+|
T Consensus 25 t~~LtVytydSF~~ewg~Gp~vk~~----FE~~-------~~~~v~fV~~~d~------v~llnRl~leg~~~~ADvvvG 87 (336)
T COG4143 25 TPTLTVYTYDSFASEWGPGPKVKKA----FEAE-------YGCKVNFVALGDG------VELLNRLILEGKNPKADVVVG 87 (336)
T ss_pred CceEEEEEEeeeecccCCcHHHHHH----HHHH-------hCceEEEEEcCcH------HHHHHHHHHcCCCCCCcEEEe
Confidence 36899998877654443 333443 3332 2578888885443 3344555543 7889999
Q ss_pred CCchhhHHHH-HHhhccCCccE
Q 006733 104 PQFSVIAHLV-SHIANEFQVPL 124 (633)
Q Consensus 104 ~~~s~~~~~v-a~~~~~~~iP~ 124 (633)
-.....+.+- +.++..++++.
T Consensus 88 ldn~~l~~A~~~glf~~~~~d~ 109 (336)
T COG4143 88 LDNNLLARARETGLFAPYGVDA 109 (336)
T ss_pred cChHHHHHHHhcCCcccCCCCc
Confidence 6666555443 23444444443
No 500
>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=34.34 E-value=1.9e+02 Score=27.83 Aligned_cols=75 Identities=19% Similarity=0.151 Sum_probs=48.3
Q ss_pred EEEEEec--CCCcchhHHHHHHHHhhcCcEEEEEeecCCCCChhhHHHHHH-HhhcCCCeEEEEeeChHHHHHHHHHHHH
Q 006733 168 VIALYVD--DDHGRNGIAALGDKLAEKRCRLSHKVPLSPKGSRNQIIDTLL-TVSSMMSRILILHTYDIWGLEVLNAAKH 244 (633)
Q Consensus 168 v~ii~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~l~-~i~~~~~~vIvl~~~~~~~~~il~~a~~ 244 (633)
++++..+ +.|.....+.+.+.+++.|..+...... +..+....+. .+...++|.|++.....+ ...++.+.+
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~~----~~~~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~~l~~ 76 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLEQRYDLALFPLL----SLARLKRYLESTTLAYLTDGLLLASYDLT-ERLAERRLP 76 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHHCCCEEEEEeCC----CcHHHHHHHHHHHHhcCCCEEEEecCccC-hHHHHHHhh
Confidence 5666653 5677778889999999999887764322 1223445554 466678999988764333 345566666
Q ss_pred cCC
Q 006733 245 LRM 247 (633)
Q Consensus 245 ~g~ 247 (633)
.|.
T Consensus 77 ~~i 79 (269)
T cd06297 77 TER 79 (269)
T ss_pred cCC
Confidence 553
Done!