Query 006567
Match_columns 640
No_of_seqs 312 out of 3696
Neff 10.1
Searched_HMMs 46136
Date Thu Mar 28 11:17:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006567.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006567hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054 Glutamate-gated AMPA-t 100.0 3.5E-68 7.5E-73 519.4 40.4 556 28-638 23-611 (897)
2 KOG4440 NMDA selective glutama 100.0 1.6E-63 3.5E-68 489.0 38.7 534 25-638 29-629 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 6.3E-52 1.4E-56 422.4 47.7 485 78-635 81-622 (1258)
4 cd06392 PBP1_iGluR_delta_1 N-t 100.0 2.1E-48 4.6E-53 395.5 38.8 365 33-421 1-399 (400)
5 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 1.5E-47 3.2E-52 389.9 37.6 355 33-420 1-363 (364)
6 cd06393 PBP1_iGluR_Kainate_Glu 100.0 1.9E-47 4.1E-52 396.5 39.0 365 31-421 2-382 (384)
7 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 3.7E-47 8E-52 385.6 38.9 361 33-420 1-371 (372)
8 cd06374 PBP1_mGluR_groupI Liga 100.0 1.5E-46 3.2E-51 399.7 39.4 375 26-422 4-469 (472)
9 cd06362 PBP1_mGluR Ligand bind 100.0 3E-46 6.4E-51 397.2 39.9 370 30-420 1-450 (452)
10 cd06375 PBP1_mGluR_groupII Lig 100.0 5.7E-46 1.2E-50 391.6 40.4 364 30-416 1-454 (458)
11 cd06365 PBP1_Pheromone_recepto 100.0 8.2E-46 1.8E-50 392.1 38.0 367 30-416 1-452 (469)
12 cd06376 PBP1_mGluR_groupIII Li 100.0 2.8E-45 6E-50 389.4 40.1 366 30-416 1-452 (463)
13 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 4.1E-45 8.8E-50 373.9 39.1 361 33-421 1-370 (371)
14 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 4.6E-45 9.9E-50 378.6 39.9 337 28-417 16-364 (377)
15 cd06361 PBP1_GPC6A_like Ligand 100.0 4.9E-45 1.1E-49 378.0 39.8 346 34-418 2-395 (403)
16 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 3.8E-45 8.2E-50 375.2 38.1 360 33-421 1-369 (370)
17 cd06364 PBP1_CaSR Ligand-bindi 100.0 1.2E-44 2.6E-49 385.5 41.5 373 27-417 8-494 (510)
18 cd06391 PBP1_iGluR_delta_2 N-t 100.0 9.2E-45 2E-49 373.3 39.1 365 33-420 1-398 (400)
19 cd06367 PBP1_iGluR_NMDA N-term 100.0 4.9E-45 1.1E-49 376.7 34.8 339 31-416 2-351 (362)
20 cd06380 PBP1_iGluR_AMPA N-term 100.0 2.8E-44 6.2E-49 373.8 40.0 370 33-420 1-381 (382)
21 cd06386 PBP1_NPR_C_like Ligand 100.0 9.3E-44 2E-48 368.7 39.7 351 35-418 3-380 (387)
22 cd06366 PBP1_GABAb_receptor Li 100.0 2.7E-43 5.8E-48 362.6 37.6 337 33-421 1-347 (350)
23 cd06385 PBP1_NPR_A Ligand-bind 100.0 6.4E-43 1.4E-47 366.2 37.8 356 33-418 1-392 (405)
24 cd06370 PBP1_Speract_GC_like L 100.0 8.8E-43 1.9E-47 364.2 37.0 349 32-409 1-387 (404)
25 cd06372 PBP1_GC_G_like Ligand- 100.0 1.7E-42 3.7E-47 361.4 38.8 355 33-418 1-387 (391)
26 cd06363 PBP1_Taste_receptor Li 100.0 1.7E-42 3.7E-47 362.8 38.5 352 28-417 3-396 (410)
27 cd06373 PBP1_NPR_like Ligand b 100.0 3.2E-42 7E-47 360.0 35.8 357 33-418 1-390 (396)
28 cd06394 PBP1_iGluR_Kainate_KA1 100.0 8.9E-43 1.9E-47 348.1 28.5 323 33-421 1-332 (333)
29 cd06371 PBP1_sensory_GC_DEF_li 100.0 1.2E-41 2.7E-46 351.9 36.5 348 33-414 1-369 (382)
30 KOG1056 Glutamate-gated metabo 100.0 3.3E-41 7.2E-46 356.4 37.2 393 26-460 26-495 (878)
31 cd06384 PBP1_NPR_B Ligand-bind 100.0 6.8E-41 1.5E-45 349.6 38.6 356 33-418 1-393 (399)
32 cd06382 PBP1_iGluR_Kainate N-t 100.0 8.7E-42 1.9E-46 347.7 31.0 316 33-420 1-326 (327)
33 cd06352 PBP1_NPR_GC_like Ligan 100.0 6.2E-41 1.3E-45 350.2 37.7 359 33-419 1-384 (389)
34 PF01094 ANF_receptor: Recepto 100.0 1.1E-39 2.3E-44 336.4 32.0 334 48-404 2-348 (348)
35 cd06381 PBP1_iGluR_delta_like 100.0 8.9E-38 1.9E-42 318.1 35.9 333 33-420 1-362 (363)
36 cd06368 PBP1_iGluR_non_NMDA_li 100.0 2.4E-38 5.2E-43 322.4 31.4 316 33-420 1-323 (324)
37 PRK15404 leucine ABC transport 100.0 7.2E-37 1.6E-41 314.8 37.2 338 27-407 21-363 (369)
38 KOG1052 Glutamate-gated kainat 100.0 7.2E-37 1.6E-41 338.5 36.6 379 215-638 5-397 (656)
39 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 9.6E-37 2.1E-41 312.3 34.1 328 33-403 1-334 (334)
40 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 3.4E-36 7.3E-41 300.2 35.8 340 27-422 14-376 (382)
41 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 1.7E-36 3.6E-41 308.3 30.3 304 78-422 43-355 (362)
42 cd06350 PBP1_GPCR_family_C_lik 100.0 1E-35 2.2E-40 306.3 31.4 308 33-417 1-340 (348)
43 cd06383 PBP1_iGluR_AMPA_Like N 100.0 1.9E-36 4.1E-41 309.0 25.0 333 41-400 7-357 (368)
44 cd06346 PBP1_ABC_ligand_bindin 100.0 1.1E-35 2.3E-40 300.5 29.9 305 33-401 1-311 (312)
45 cd06345 PBP1_ABC_ligand_bindin 100.0 2.6E-35 5.7E-40 302.3 33.2 320 33-394 1-337 (344)
46 cd06338 PBP1_ABC_ligand_bindin 100.0 2.5E-35 5.4E-40 303.0 33.0 328 33-402 1-344 (345)
47 cd06348 PBP1_ABC_ligand_bindin 100.0 9.9E-35 2.2E-39 298.1 33.7 334 33-400 1-343 (344)
48 cd06340 PBP1_ABC_ligand_bindin 100.0 3.5E-34 7.7E-39 293.8 30.5 324 33-396 1-342 (347)
49 cd06355 PBP1_FmdD_like Peripla 100.0 3.7E-33 7.9E-38 286.0 34.3 336 33-410 1-344 (348)
50 cd06344 PBP1_ABC_ligand_bindin 100.0 1.5E-33 3.3E-38 287.6 30.9 320 33-396 1-327 (332)
51 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 2.6E-33 5.7E-38 286.2 32.0 312 33-416 1-322 (328)
52 cd06331 PBP1_AmiC_like Type I 100.0 2.9E-33 6.3E-38 285.7 31.9 322 33-396 1-328 (333)
53 cd06347 PBP1_ABC_ligand_bindin 100.0 5.4E-33 1.2E-37 284.6 33.5 321 33-397 1-330 (334)
54 COG0683 LivK ABC-type branched 100.0 9.6E-33 2.1E-37 283.6 33.5 338 29-406 8-355 (366)
55 cd06329 PBP1_SBP_like_3 Peripl 100.0 8.2E-33 1.8E-37 283.3 31.8 315 33-391 1-332 (342)
56 TIGR03669 urea_ABC_arch urea A 100.0 2.1E-32 4.5E-37 280.9 34.4 341 32-415 1-349 (374)
57 cd06343 PBP1_ABC_ligand_bindin 100.0 6.4E-32 1.4E-36 279.4 35.4 342 29-408 4-362 (362)
58 cd06349 PBP1_ABC_ligand_bindin 100.0 5.5E-32 1.2E-36 277.3 33.6 330 33-407 1-339 (340)
59 TIGR03407 urea_ABC_UrtA urea A 100.0 8.6E-32 1.9E-36 277.0 34.7 319 32-392 1-326 (359)
60 cd06327 PBP1_SBP_like_1 Peripl 100.0 2.1E-32 4.6E-37 279.5 29.6 318 33-394 1-328 (334)
61 cd06330 PBP1_Arsenic_SBP_like 100.0 5.7E-32 1.2E-36 278.1 31.8 322 33-392 1-335 (346)
62 cd06336 PBP1_ABC_ligand_bindin 100.0 3.5E-32 7.5E-37 279.1 29.7 323 33-397 1-343 (347)
63 cd06359 PBP1_Nba_like Type I p 100.0 9.4E-32 2E-36 274.5 32.4 324 33-401 1-331 (333)
64 PF13458 Peripla_BP_6: Peripla 100.0 7.3E-32 1.6E-36 277.3 29.6 332 31-404 1-339 (343)
65 cd06357 PBP1_AmiC Periplasmic 100.0 5.5E-31 1.2E-35 271.1 35.9 340 33-412 1-347 (360)
66 cd06360 PBP1_alkylbenzenes_lik 100.0 4.3E-31 9.2E-36 270.7 33.7 325 33-398 1-332 (336)
67 cd06328 PBP1_SBP_like_2 Peripl 100.0 8.2E-31 1.8E-35 267.1 32.6 315 33-391 1-323 (333)
68 cd06335 PBP1_ABC_ligand_bindin 100.0 2.4E-30 5.1E-35 265.5 31.7 319 33-392 1-337 (347)
69 cd06356 PBP1_Amide_Urea_BP_lik 100.0 4.4E-30 9.6E-35 261.8 32.8 317 33-392 1-325 (334)
70 cd06358 PBP1_NHase Type I peri 100.0 4.4E-30 9.5E-35 262.2 32.1 315 33-392 1-324 (333)
71 cd06334 PBP1_ABC_ligand_bindin 100.0 3.1E-30 6.7E-35 263.7 30.9 331 33-392 1-347 (351)
72 cd06332 PBP1_aromatic_compound 100.0 1.2E-29 2.7E-34 259.6 32.9 320 33-396 1-327 (333)
73 KOG1055 GABA-B ion channel rec 100.0 1.8E-30 3.8E-35 265.9 20.0 371 27-419 37-432 (865)
74 PF13433 Peripla_BP_5: Peripla 100.0 2.6E-28 5.7E-33 237.7 28.9 352 32-459 1-359 (363)
75 cd06337 PBP1_ABC_ligand_bindin 100.0 1.4E-28 3.1E-33 253.0 27.9 330 33-407 1-356 (357)
76 cd06326 PBP1_STKc_like Type I 100.0 2.8E-27 6E-32 242.4 32.2 319 32-391 1-328 (336)
77 cd06339 PBP1_YraM_LppC_lipopro 100.0 3.8E-28 8.2E-33 247.3 24.0 302 33-393 1-329 (336)
78 cd06269 PBP1_glutamate_recepto 100.0 2.7E-27 5.8E-32 238.2 28.9 224 33-264 1-235 (298)
79 cd06369 PBP1_GC_C_enterotoxin_ 100.0 2.5E-26 5.5E-31 222.8 30.3 323 46-418 18-366 (380)
80 TIGR03863 PQQ_ABC_bind ABC tra 100.0 2E-26 4.4E-31 233.0 25.5 297 45-400 10-312 (347)
81 cd04509 PBP1_ABC_transporter_G 99.9 4.6E-26 1E-30 229.3 26.8 280 33-324 1-290 (299)
82 cd06341 PBP1_ABC_ligand_bindin 99.9 1.9E-25 4.2E-30 229.1 29.1 308 33-383 1-318 (341)
83 cd06333 PBP1_ABC-type_HAAT_lik 99.9 5.1E-25 1.1E-29 222.9 29.0 279 33-326 1-293 (312)
84 cd06268 PBP1_ABC_transporter_L 99.9 7.5E-24 1.6E-28 213.0 27.8 280 33-326 1-287 (298)
85 cd01391 Periplasmic_Binding_Pr 99.6 1E-13 2.3E-18 136.4 23.6 215 33-261 1-219 (269)
86 PF04348 LppC: LppC putative l 99.4 2.1E-11 4.5E-16 129.7 21.7 308 31-404 219-534 (536)
87 PRK11917 bifunctional adhesin/ 99.3 1E-11 2.2E-16 121.3 11.5 102 463-573 36-138 (259)
88 PRK15010 ABC transporter lysin 99.3 9.2E-12 2E-16 122.2 8.4 98 464-573 25-122 (260)
89 PRK15437 histidine ABC transpo 99.3 8.2E-12 1.8E-16 122.5 7.9 98 464-573 25-122 (259)
90 PRK10797 glutamate and asparta 99.3 1.6E-11 3.5E-16 122.5 10.0 100 464-573 39-143 (302)
91 PRK09495 glnH glutamine ABC tr 99.3 1.4E-11 3.1E-16 119.9 8.7 107 464-583 24-130 (247)
92 PF00497 SBP_bac_3: Bacterial 99.2 2.6E-11 5.7E-16 116.2 8.0 94 467-572 1-94 (225)
93 PRK15007 putative ABC transpor 99.2 5.6E-11 1.2E-15 115.5 9.1 98 464-573 20-117 (243)
94 PF10613 Lig_chan-Glu_bd: Liga 99.2 1.8E-11 3.8E-16 88.3 3.6 47 486-534 14-65 (65)
95 TIGR02995 ectoine_ehuB ectoine 99.1 7.6E-11 1.7E-15 116.6 7.6 98 463-573 31-129 (275)
96 PRK11260 cystine transporter s 99.1 1.8E-10 3.9E-15 113.4 8.8 99 463-573 39-137 (266)
97 TIGR01096 3A0103s03R lysine-ar 99.1 2.3E-10 4.9E-15 111.8 8.7 97 465-573 24-120 (250)
98 TIGR03870 ABC_MoxJ methanol ox 99.1 1.9E-10 4.1E-15 111.7 6.7 88 466-573 1-91 (246)
99 PRK10859 membrane-bound lytic 99.0 1.6E-09 3.4E-14 115.4 9.1 98 463-573 41-138 (482)
100 TIGR02285 conserved hypothetic 98.9 3.9E-09 8.4E-14 104.0 8.4 96 464-573 17-114 (268)
101 cd01537 PBP1_Repressors_Sugar_ 98.9 1.8E-07 3.9E-12 91.9 18.9 205 33-257 1-211 (264)
102 PRK09959 hybrid sensory histid 98.8 1E-08 2.2E-13 123.1 10.2 97 465-573 302-398 (1197)
103 PRK09959 hybrid sensory histid 98.8 1.2E-08 2.6E-13 122.4 9.8 101 463-573 54-154 (1197)
104 COG0834 HisJ ABC-type amino ac 98.8 2.6E-08 5.7E-13 98.7 9.5 118 464-589 33-151 (275)
105 cd01536 PBP1_ABC_sugar_binding 98.8 1.5E-06 3.2E-11 85.6 21.9 205 33-257 1-213 (267)
106 cd06300 PBP1_ABC_sugar_binding 98.7 1.4E-06 2.9E-11 86.3 20.4 200 33-249 1-209 (272)
107 TIGR03871 ABC_peri_MoxJ_2 quin 98.7 2.8E-08 6E-13 95.8 7.9 89 467-573 2-90 (232)
108 cd06267 PBP1_LacI_sugar_bindin 98.7 1.3E-06 2.9E-11 85.6 18.6 205 33-257 1-210 (264)
109 COG3107 LppC Putative lipoprot 98.7 2.5E-06 5.4E-11 86.0 19.3 254 30-303 256-539 (604)
110 cd00134 PBPb Bacterial peripla 98.6 1.7E-07 3.7E-12 88.7 7.9 95 467-573 1-95 (218)
111 cd06320 PBP1_allose_binding Pe 98.6 1.7E-05 3.8E-10 78.4 22.7 206 33-257 1-214 (275)
112 cd06325 PBP1_ABC_uncharacteriz 98.6 7E-06 1.5E-10 81.5 19.8 201 33-248 1-208 (281)
113 smart00062 PBPb Bacterial peri 98.4 8.6E-07 1.9E-11 83.8 9.0 96 466-573 1-96 (219)
114 PRK10653 D-ribose transporter 98.4 0.00014 3E-09 72.9 24.1 210 28-258 23-239 (295)
115 COG2984 ABC-type uncharacteriz 98.4 0.00024 5.2E-09 68.3 23.3 204 28-249 27-241 (322)
116 cd06282 PBP1_GntR_like_2 Ligan 98.3 4.9E-05 1.1E-09 74.7 18.6 198 33-252 1-204 (266)
117 cd06323 PBP1_ribose_binding Pe 98.3 0.00014 3.1E-09 71.5 21.6 203 34-258 2-213 (268)
118 cd06273 PBP1_GntR_like_1 This 98.2 0.00014 3.1E-09 71.5 19.1 200 33-254 1-208 (268)
119 cd06319 PBP1_ABC_sugar_binding 98.2 0.00032 6.9E-09 69.4 21.6 206 33-257 1-217 (277)
120 PRK10936 TMAO reductase system 98.2 0.00085 1.8E-08 68.7 25.0 201 29-249 44-255 (343)
121 cd06312 PBP1_ABC_sugar_binding 98.2 0.00045 9.7E-09 68.2 22.1 207 33-257 1-215 (271)
122 cd06317 PBP1_ABC_sugar_binding 98.2 0.00026 5.6E-09 70.0 20.4 208 33-257 1-219 (275)
123 cd06310 PBP1_ABC_sugar_binding 98.2 0.0008 1.7E-08 66.4 23.7 208 33-258 1-216 (273)
124 cd06301 PBP1_rhizopine_binding 98.1 0.00053 1.1E-08 67.6 21.8 209 33-259 1-218 (272)
125 cd06305 PBP1_methylthioribose_ 98.1 0.00067 1.4E-08 66.9 21.4 208 33-259 1-217 (273)
126 PF13407 Peripla_BP_4: Peripla 98.1 0.00035 7.5E-09 68.3 18.6 202 34-251 1-209 (257)
127 COG4623 Predicted soluble lyti 98.0 4.5E-06 9.8E-11 80.6 4.7 108 464-584 22-129 (473)
128 PRK09701 D-allose transporter 98.0 0.0047 1E-07 62.3 26.8 211 33-258 26-249 (311)
129 cd01545 PBP1_SalR Ligand-bindi 98.0 0.00061 1.3E-08 67.1 19.7 206 34-258 2-214 (270)
130 cd06309 PBP1_YtfQ_like Peripla 98.0 0.0013 2.8E-08 64.9 20.8 208 33-257 1-218 (273)
131 cd06298 PBP1_CcpA_like Ligand- 97.9 0.0011 2.3E-08 65.2 19.2 206 33-258 1-212 (268)
132 cd06289 PBP1_MalI_like Ligand- 97.9 0.0012 2.7E-08 64.7 19.0 201 33-252 1-206 (268)
133 cd06284 PBP1_LacI_like_6 Ligan 97.9 0.0016 3.5E-08 63.9 19.7 196 34-250 2-202 (267)
134 cd06303 PBP1_LuxPQ_Quorum_Sens 97.8 0.0047 1E-07 61.2 22.3 211 33-258 1-223 (280)
135 cd06322 PBP1_ABC_sugar_binding 97.7 0.01 2.2E-07 58.3 22.6 194 34-248 2-203 (267)
136 cd01539 PBP1_GGBP Periplasmic 97.7 0.0095 2.1E-07 59.8 22.3 208 33-251 1-228 (303)
137 cd06288 PBP1_sucrose_transcrip 97.7 0.003 6.6E-08 62.0 18.4 204 33-257 1-210 (269)
138 cd06275 PBP1_PurR Ligand-bindi 97.7 0.004 8.7E-08 61.2 19.2 205 33-256 1-210 (269)
139 cd06308 PBP1_sensor_kinase_lik 97.7 0.0088 1.9E-07 58.8 21.7 207 33-259 1-216 (270)
140 cd06311 PBP1_ABC_sugar_binding 97.7 0.012 2.6E-07 58.1 22.5 202 34-249 2-210 (274)
141 PRK15395 methyl-galactoside AB 97.7 0.014 3.1E-07 59.3 23.5 208 28-248 21-249 (330)
142 cd01575 PBP1_GntR Ligand-bindi 97.7 0.0051 1.1E-07 60.3 19.6 201 34-254 2-207 (268)
143 PF00532 Peripla_BP_1: Peripla 97.7 0.0025 5.4E-08 63.0 16.9 203 33-254 3-211 (279)
144 cd06306 PBP1_TorT-like TorT-li 97.6 0.011 2.4E-07 58.1 21.5 204 33-257 1-215 (268)
145 PRK10355 xylF D-xylose transpo 97.6 0.016 3.5E-07 58.8 23.1 202 29-249 23-236 (330)
146 cd01540 PBP1_arabinose_binding 97.6 0.014 3.1E-07 58.0 22.3 214 33-258 1-228 (289)
147 COG1879 RbsB ABC-type sugar tr 97.6 0.023 4.9E-07 57.6 23.8 206 30-250 32-245 (322)
148 cd06271 PBP1_AglR_RafR_like Li 97.6 0.0063 1.4E-07 59.7 19.0 202 34-256 2-213 (268)
149 TIGR01481 ccpA catabolite cont 97.6 0.0075 1.6E-07 61.3 20.1 201 30-252 58-264 (329)
150 cd06321 PBP1_ABC_sugar_binding 97.6 0.016 3.5E-07 56.9 21.8 206 33-259 1-214 (271)
151 cd06283 PBP1_RegR_EndR_KdgR_li 97.6 0.011 2.5E-07 57.8 20.6 204 33-256 1-210 (267)
152 cd01542 PBP1_TreR_like Ligand- 97.6 0.0081 1.8E-07 58.6 19.4 199 34-257 2-206 (259)
153 cd01574 PBP1_LacI Ligand-bindi 97.6 0.016 3.4E-07 56.8 21.3 201 33-256 1-206 (264)
154 cd06293 PBP1_LacI_like_11 Liga 97.6 0.013 2.7E-07 57.7 20.6 205 33-257 1-210 (269)
155 cd06295 PBP1_CelR Ligand bindi 97.5 0.0077 1.7E-07 59.4 18.9 204 31-254 3-216 (275)
156 cd06270 PBP1_GalS_like Ligand 97.5 0.014 3.1E-07 57.3 20.5 199 33-251 1-204 (268)
157 cd06316 PBP1_ABC_sugar_binding 97.5 0.026 5.6E-07 56.3 22.7 212 33-259 1-219 (294)
158 cd06324 PBP1_ABC_sugar_binding 97.5 0.018 3.9E-07 57.9 21.5 208 34-257 2-236 (305)
159 cd06274 PBP1_FruR Ligand bindi 97.5 0.018 3.9E-07 56.4 21.1 206 33-257 1-211 (264)
160 cd06278 PBP1_LacI_like_2 Ligan 97.5 0.011 2.4E-07 57.8 19.6 190 34-246 2-196 (266)
161 cd01538 PBP1_ABC_xylose_bindin 97.5 0.023 5E-07 56.5 21.7 199 33-250 1-216 (288)
162 cd06285 PBP1_LacI_like_7 Ligan 97.5 0.012 2.6E-07 57.6 19.3 202 33-257 1-209 (265)
163 cd06281 PBP1_LacI_like_5 Ligan 97.4 0.01 2.2E-07 58.3 18.1 199 33-252 1-204 (269)
164 PRK11303 DNA-binding transcrip 97.4 0.029 6.2E-07 57.0 21.9 203 30-254 60-268 (328)
165 cd06299 PBP1_LacI_like_13 Liga 97.4 0.013 2.8E-07 57.4 18.4 204 33-256 1-207 (265)
166 PRK10703 DNA-binding transcrip 97.4 0.017 3.6E-07 59.2 19.8 207 31-256 59-271 (341)
167 PRK10014 DNA-binding transcrip 97.4 0.023 4.9E-07 58.2 20.5 202 30-250 63-269 (342)
168 PRK15408 autoinducer 2-binding 97.4 0.091 2E-06 53.4 24.5 200 32-249 24-234 (336)
169 cd06296 PBP1_CatR_like Ligand- 97.4 0.014 3.1E-07 57.2 18.3 205 34-258 2-213 (270)
170 cd06314 PBP1_tmGBP Periplasmic 97.4 0.078 1.7E-06 52.1 23.5 203 33-257 1-211 (271)
171 COG1609 PurR Transcriptional r 97.3 0.035 7.6E-07 56.3 20.9 203 30-252 57-265 (333)
172 cd06290 PBP1_LacI_like_9 Ligan 97.3 0.025 5.5E-07 55.3 19.5 199 33-252 1-204 (265)
173 TIGR02955 TMAO_TorT TMAO reduc 97.3 0.057 1.2E-06 53.9 22.1 196 33-249 1-208 (295)
174 PRK10423 transcriptional repre 97.3 0.039 8.5E-07 56.0 21.1 206 30-256 55-267 (327)
175 cd06307 PBP1_uncharacterized_s 97.3 0.081 1.8E-06 52.1 22.6 209 33-258 1-218 (275)
176 cd01541 PBP1_AraR Ligand-bindi 97.3 0.022 4.8E-07 56.0 18.4 205 34-257 2-216 (273)
177 cd06318 PBP1_ABC_sugar_binding 97.3 0.093 2E-06 51.8 23.0 200 33-249 1-215 (282)
178 cd06292 PBP1_LacI_like_10 Liga 97.3 0.038 8.2E-07 54.3 20.1 206 34-257 2-214 (273)
179 cd06286 PBP1_CcpB_like Ligand- 97.3 0.033 7.1E-07 54.4 19.3 198 33-252 1-203 (260)
180 cd06313 PBP1_ABC_sugar_binding 97.2 0.11 2.5E-06 51.0 22.7 178 68-257 29-214 (272)
181 TIGR02417 fruct_sucro_rep D-fr 97.2 0.049 1.1E-06 55.3 20.6 205 30-257 59-271 (327)
182 cd06294 PBP1_ycjW_transcriptio 97.2 0.033 7.1E-07 54.6 18.7 205 33-257 1-217 (270)
183 cd06302 PBP1_LsrB_Quorum_Sensi 97.2 0.11 2.4E-06 51.9 22.7 208 33-257 1-217 (298)
184 cd06272 PBP1_hexuronate_repres 97.2 0.031 6.7E-07 54.6 18.0 197 33-254 1-202 (261)
185 PF04392 ABC_sub_bind: ABC tra 97.2 0.036 7.7E-07 55.3 18.4 185 33-233 1-194 (294)
186 cd06277 PBP1_LacI_like_1 Ligan 97.1 0.057 1.2E-06 52.9 19.7 198 33-251 1-204 (268)
187 cd06280 PBP1_LacI_like_4 Ligan 97.1 0.053 1.2E-06 53.0 19.4 199 33-256 1-204 (263)
188 cd06354 PBP1_BmpA_PnrA_like Pe 97.1 0.068 1.5E-06 52.4 20.1 196 33-247 1-206 (265)
189 cd06291 PBP1_Qymf_like Ligand 97.1 0.072 1.6E-06 52.1 19.9 194 33-252 1-201 (265)
190 cd06297 PBP1_LacI_like_12 Liga 97.1 0.059 1.3E-06 52.9 19.0 200 34-257 2-213 (269)
191 PRK09526 lacI lac repressor; R 97.1 0.13 2.8E-06 52.5 22.0 201 31-254 63-270 (342)
192 PRK10727 DNA-binding transcrip 97.0 0.068 1.5E-06 54.7 19.8 204 30-254 58-267 (343)
193 cd06304 PBP1_BmpA_like Peripla 97.0 0.093 2E-06 51.2 19.4 199 33-247 1-202 (260)
194 cd01543 PBP1_XylR Ligand-bindi 97.0 0.056 1.2E-06 52.9 17.5 203 33-259 1-207 (265)
195 cd06279 PBP1_LacI_like_3 Ligan 96.9 0.086 1.9E-06 52.2 18.8 194 34-251 2-222 (283)
196 PRK09492 treR trehalose repres 96.9 0.16 3.5E-06 51.1 20.6 191 30-248 61-256 (315)
197 PRK14987 gluconate operon tran 96.8 0.22 4.7E-06 50.6 21.0 206 31-257 63-272 (331)
198 PRK10401 DNA-binding transcrip 96.8 0.21 4.5E-06 51.1 20.8 204 30-254 58-267 (346)
199 PRK11041 DNA-binding transcrip 96.5 0.33 7.1E-06 48.7 20.0 207 30-257 34-246 (309)
200 PF00060 Lig_chan: Ligand-gate 96.5 0.00092 2E-08 59.1 1.0 51 586-636 1-58 (148)
201 TIGR02634 xylF D-xylose ABC tr 96.5 0.62 1.3E-05 46.6 21.2 171 68-249 28-209 (302)
202 TIGR01098 3A0109s03R phosphate 96.3 0.0099 2.2E-07 57.9 7.3 92 464-573 31-131 (254)
203 TIGR02405 trehalos_R_Ecol treh 96.3 0.61 1.3E-05 46.8 20.6 191 30-248 58-253 (311)
204 cd01544 PBP1_GalR Ligand-bindi 96.2 0.38 8.3E-06 47.1 18.0 193 33-252 1-207 (270)
205 TIGR02637 RhaS rhamnose ABC tr 95.9 2 4.4E-05 42.8 23.6 198 34-249 1-210 (302)
206 cd06315 PBP1_ABC_sugar_binding 95.8 2.2 4.7E-05 42.0 21.4 204 33-251 2-216 (280)
207 cd06353 PBP1_BmpA_Med_like Per 95.7 0.61 1.3E-05 45.4 16.5 196 33-247 1-200 (258)
208 COG1744 Med Uncharacterized AB 94.8 3.8 8.3E-05 41.6 19.3 206 28-248 32-244 (345)
209 TIGR02990 ectoine_eutA ectoine 94.4 0.42 9E-06 45.6 10.6 91 152-245 108-203 (239)
210 PRK00489 hisG ATP phosphoribos 94.4 0.045 9.8E-07 54.2 4.2 51 523-573 51-103 (287)
211 cd06287 PBP1_LacI_like_8 Ligan 94.3 4.1 8.8E-05 39.9 18.0 154 93-256 53-210 (269)
212 COG4213 XylF ABC-type xylose t 94.3 5.4 0.00012 38.8 17.4 207 26-250 20-243 (341)
213 cd06276 PBP1_FucR_like Ligand- 92.6 8 0.00017 37.2 16.7 144 89-253 45-191 (247)
214 PRK10339 DNA-binding transcrip 92.3 9.6 0.00021 38.4 17.5 145 95-252 113-262 (327)
215 cd06353 PBP1_BmpA_Med_like Per 90.8 3.5 7.5E-05 40.1 11.8 86 33-127 122-207 (258)
216 PF12683 DUF3798: Protein of u 90.4 17 0.00037 34.7 15.6 207 31-247 2-223 (275)
217 PF13377 Peripla_BP_3: Peripla 89.0 1.4 3E-05 39.1 6.9 93 156-252 1-96 (160)
218 TIGR00035 asp_race aspartate r 88.6 5.1 0.00011 38.1 10.9 44 81-125 59-103 (229)
219 TIGR03431 PhnD phosphonate ABC 88.5 1.2 2.5E-05 44.3 6.7 67 496-573 48-125 (288)
220 COG3473 Maleate cis-trans isom 87.4 23 0.0005 32.4 13.1 90 153-245 107-201 (238)
221 COG1454 EutG Alcohol dehydroge 87.3 6.6 0.00014 40.1 11.1 92 152-245 17-110 (377)
222 PRK09860 putative alcohol dehy 87.0 6.1 0.00013 40.9 11.1 88 153-242 20-109 (383)
223 PF02608 Bmp: Basic membrane p 86.9 35 0.00076 34.1 17.9 200 32-248 2-212 (306)
224 cd08192 Fe-ADH7 Iron-containin 85.4 8.6 0.00019 39.7 11.2 89 153-243 13-103 (370)
225 PRK15454 ethanol dehydrogenase 84.9 8.4 0.00018 40.1 10.8 87 153-241 38-126 (395)
226 cd08189 Fe-ADH5 Iron-containin 84.1 11 0.00023 39.1 11.2 90 152-243 14-105 (374)
227 cd08193 HVD 5-hydroxyvalerate 84.1 9.3 0.0002 39.5 10.8 88 153-242 15-104 (376)
228 cd08190 HOT Hydroxyacid-oxoaci 83.8 9.8 0.00021 39.9 10.9 88 152-241 11-100 (414)
229 PRK10624 L-1,2-propanediol oxi 83.4 11 0.00024 39.1 11.0 88 152-241 18-107 (382)
230 cd08551 Fe-ADH iron-containing 83.3 11 0.00023 38.9 10.9 90 152-243 11-102 (370)
231 PRK10200 putative racemase; Pr 83.1 14 0.00031 35.1 10.7 44 81-125 59-103 (230)
232 cd08194 Fe-ADH6 Iron-containin 82.7 12 0.00027 38.6 11.1 87 153-241 12-100 (375)
233 PF03808 Glyco_tran_WecB: Glyc 81.5 29 0.00062 31.3 11.6 100 149-260 34-135 (172)
234 TIGR02638 lactal_redase lactal 80.9 14 0.00031 38.2 10.7 88 152-241 17-106 (379)
235 PF02608 Bmp: Basic membrane p 80.0 8.5 0.00018 38.5 8.5 88 33-127 128-220 (306)
236 cd08188 Fe-ADH4 Iron-containin 78.4 22 0.00048 36.7 11.2 87 152-240 16-104 (377)
237 COG0078 ArgF Ornithine carbamo 78.3 72 0.0016 31.3 15.3 160 31-227 44-210 (310)
238 PF13407 Peripla_BP_4: Peripla 78.0 5.2 0.00011 38.6 6.2 78 167-248 1-81 (257)
239 cd08185 Fe-ADH1 Iron-containin 77.8 20 0.00043 37.2 10.7 87 153-242 15-104 (380)
240 KOG3857 Alcohol dehydrogenase, 77.1 22 0.00048 35.1 9.6 93 138-232 40-136 (465)
241 COG1794 RacX Aspartate racemas 77.0 64 0.0014 30.1 15.2 85 81-196 59-146 (230)
242 COG1744 Med Uncharacterized AB 76.9 34 0.00073 34.8 11.7 75 31-111 161-235 (345)
243 cd08176 LPO Lactadehyde:propan 75.3 14 0.00031 38.1 8.8 88 152-241 16-105 (377)
244 cd08191 HHD 6-hydroxyhexanoate 75.2 30 0.00064 36.0 11.1 87 153-242 12-100 (386)
245 cd00755 YgdL_like Family of ac 75.1 45 0.00098 31.7 11.3 115 44-174 62-182 (231)
246 cd08181 PPD-like 1,3-propanedi 75.1 31 0.00068 35.3 11.1 85 153-240 15-102 (357)
247 cd06533 Glyco_transf_WecG_TagA 75.0 33 0.00071 30.9 10.0 99 149-259 32-132 (171)
248 PF13685 Fe-ADH_2: Iron-contai 74.6 14 0.0003 35.5 7.8 100 153-259 8-108 (250)
249 cd08182 HEPD Hydroxyethylphosp 74.2 24 0.00053 36.3 10.2 86 153-243 12-99 (367)
250 PRK15116 sulfur acceptor prote 73.6 72 0.0016 31.1 12.4 114 45-174 82-208 (268)
251 cd07766 DHQ_Fe-ADH Dehydroquin 73.6 29 0.00063 35.1 10.4 100 153-259 12-113 (332)
252 PF06506 PrpR_N: Propionate ca 73.2 71 0.0015 28.8 13.2 128 80-249 17-145 (176)
253 PF00465 Fe-ADH: Iron-containi 73.2 12 0.00027 38.5 7.7 89 153-245 12-102 (366)
254 PRK00945 acetyl-CoA decarbonyl 72.2 30 0.00065 31.0 8.7 117 95-220 35-168 (171)
255 TIGR00315 cdhB CO dehydrogenas 72.1 48 0.001 29.4 9.9 41 95-135 28-70 (162)
256 TIGR02122 TRAP_TAXI TRAP trans 72.0 93 0.002 31.0 13.8 41 1-41 1-41 (320)
257 cd08186 Fe-ADH8 Iron-containin 71.1 39 0.00085 35.0 10.9 88 153-242 12-105 (383)
258 cd08170 GlyDH Glycerol dehydro 70.3 20 0.00042 36.7 8.4 84 153-241 12-97 (351)
259 cd06305 PBP1_methylthioribose_ 70.2 20 0.00042 34.8 8.2 78 167-249 2-82 (273)
260 PRK07475 hypothetical protein; 69.6 29 0.00062 33.4 8.8 44 81-125 62-106 (245)
261 COG1464 NlpA ABC-type metal io 69.5 19 0.00041 34.5 7.2 46 30-86 29-74 (268)
262 COG1179 Dinucleotide-utilizing 69.4 51 0.0011 31.2 9.7 86 44-145 81-167 (263)
263 PRK15408 autoinducer 2-binding 69.1 22 0.00049 36.0 8.4 83 163-249 22-107 (336)
264 cd08187 BDH Butanol dehydrogen 67.2 29 0.00064 35.9 9.0 85 153-240 18-105 (382)
265 cd08171 GlyDH-like2 Glycerol d 66.8 34 0.00073 34.9 9.2 86 153-242 12-99 (345)
266 PF01177 Asp_Glu_race: Asp/Glu 66.8 1.1E+02 0.0024 28.5 12.2 123 92-245 61-198 (216)
267 TIGR02122 TRAP_TAXI TRAP trans 66.6 11 0.00024 37.7 5.7 80 495-583 48-140 (320)
268 cd06312 PBP1_ABC_sugar_binding 66.5 23 0.00049 34.4 7.7 79 166-248 1-83 (271)
269 cd08183 Fe-ADH2 Iron-containin 65.2 47 0.001 34.3 10.0 83 153-242 12-96 (374)
270 cd06301 PBP1_rhizopine_binding 64.9 24 0.00052 34.2 7.6 79 166-249 1-83 (272)
271 cd02071 MM_CoA_mut_B12_BD meth 64.8 60 0.0013 27.2 8.9 77 172-257 7-87 (122)
272 cd06306 PBP1_TorT-like TorT-li 64.3 25 0.00054 34.1 7.5 81 166-249 1-83 (268)
273 cd08438 PBP2_CidR The C-termin 63.7 38 0.00083 30.2 8.3 70 492-573 13-82 (197)
274 TIGR00854 pts-sorbose PTS syst 62.4 58 0.0013 28.5 8.5 81 151-241 13-93 (151)
275 PRK09423 gldA glycerol dehydro 62.2 36 0.00079 35.0 8.5 84 153-241 19-104 (366)
276 cd06267 PBP1_LacI_sugar_bindin 62.2 25 0.00053 33.7 7.0 77 167-249 2-80 (264)
277 PRK11063 metQ DL-methionine tr 61.9 23 0.0005 34.6 6.6 58 27-101 28-85 (271)
278 cd08415 PBP2_LysR_opines_like 61.7 48 0.001 29.6 8.6 70 492-573 13-82 (196)
279 cd00001 PTS_IIB_man PTS_IIB, P 61.5 60 0.0013 28.4 8.4 81 151-241 12-92 (151)
280 cd08486 PBP2_CbnR The C-termin 61.3 40 0.00087 30.5 8.0 70 492-573 14-83 (198)
281 cd01537 PBP1_Repressors_Sugar_ 60.9 25 0.00053 33.6 6.8 78 166-248 1-80 (264)
282 PRK09756 PTS system N-acetylga 60.9 69 0.0015 28.3 8.8 80 151-241 17-97 (158)
283 cd01538 PBP1_ABC_xylose_bindin 60.2 40 0.00086 33.2 8.2 77 167-248 2-81 (288)
284 PRK05452 anaerobic nitric oxid 60.2 2E+02 0.0044 30.8 13.8 141 100-261 198-348 (479)
285 cd06310 PBP1_ABC_sugar_binding 59.7 35 0.00077 33.0 7.7 80 166-248 1-83 (273)
286 cd08412 PBP2_PAO1_like The C-t 59.6 45 0.00097 29.8 8.0 71 491-573 12-82 (198)
287 cd08425 PBP2_CynR The C-termin 59.5 53 0.0012 29.4 8.5 70 492-573 14-83 (197)
288 cd05466 PBP2_LTTR_substrate Th 59.5 33 0.00071 30.3 7.0 70 492-573 13-82 (197)
289 cd06302 PBP1_LsrB_Quorum_Sensi 59.4 38 0.00083 33.5 8.0 78 167-248 2-82 (298)
290 cd08175 G1PDH Glycerol-1-phosp 59.3 48 0.001 33.8 8.7 87 153-241 12-100 (348)
291 cd08442 PBP2_YofA_SoxR_like Th 58.6 52 0.0011 29.2 8.2 70 492-573 13-82 (193)
292 cd08440 PBP2_LTTR_like_4 TThe 58.3 52 0.0011 29.2 8.2 70 492-573 13-82 (197)
293 cd06316 PBP1_ABC_sugar_binding 58.2 36 0.00077 33.6 7.5 79 166-248 1-82 (294)
294 PRK11425 PTS system N-acetylga 58.1 82 0.0018 27.8 8.7 80 151-241 15-94 (157)
295 cd01536 PBP1_ABC_sugar_binding 57.6 43 0.00093 32.1 7.9 78 166-248 1-81 (267)
296 PRK00002 aroB 3-dehydroquinate 57.2 91 0.002 31.9 10.3 102 153-259 20-127 (358)
297 cd08178 AAD_C C-terminal alcoh 57.1 70 0.0015 33.3 9.6 79 162-242 19-99 (398)
298 COG1880 CdhB CO dehydrogenase/ 57.0 1.3E+02 0.0029 26.2 10.3 123 88-219 27-167 (170)
299 cd01545 PBP1_SalR Ligand-bindi 56.7 48 0.001 32.0 8.0 78 167-248 2-81 (270)
300 cd06318 PBP1_ABC_sugar_binding 56.5 42 0.00091 32.7 7.6 77 167-248 2-81 (282)
301 cd06277 PBP1_LacI_like_1 Ligan 56.3 60 0.0013 31.3 8.7 75 167-248 2-81 (268)
302 cd06304 PBP1_BmpA_like Peripla 56.3 1.9E+02 0.0041 27.7 13.2 131 32-171 121-251 (260)
303 PF03830 PTSIIB_sorb: PTS syst 56.1 26 0.00056 30.8 5.2 83 151-243 13-95 (151)
304 cd01540 PBP1_arabinose_binding 56.0 37 0.0008 33.2 7.2 76 167-248 2-80 (289)
305 cd06289 PBP1_MalI_like Ligand- 55.9 44 0.00096 32.1 7.7 77 167-248 2-80 (268)
306 PRK00865 glutamate racemase; P 55.8 1.4E+02 0.0029 29.1 10.8 35 91-125 62-96 (261)
307 cd08468 PBP2_Pa0477 The C-term 55.7 51 0.0011 29.8 7.7 73 492-573 13-85 (202)
308 PF13379 NMT1_2: NMT1-like fam 55.5 16 0.00034 35.3 4.3 88 464-572 5-99 (252)
309 PRK07377 hypothetical protein; 55.5 38 0.00083 30.3 6.0 63 465-544 75-137 (184)
310 PF03466 LysR_substrate: LysR 55.4 46 0.00099 30.2 7.4 83 465-573 6-88 (209)
311 cd08550 GlyDH-like Glycerol_de 55.3 48 0.001 33.8 7.9 84 153-241 12-97 (349)
312 cd08445 PBP2_BenM_CatM_CatR Th 55.3 50 0.0011 29.9 7.6 70 492-573 14-83 (203)
313 PRK11553 alkanesulfonate trans 55.2 19 0.0004 36.1 4.9 69 496-573 44-119 (314)
314 PRK11242 DNA-binding transcrip 55.0 58 0.0013 32.0 8.5 83 465-573 91-173 (296)
315 cd06300 PBP1_ABC_sugar_binding 54.7 52 0.0011 31.8 7.9 80 166-248 1-86 (272)
316 PF04392 ABC_sub_bind: ABC tra 54.4 93 0.002 30.8 9.7 114 31-161 131-247 (294)
317 cd06303 PBP1_LuxPQ_Quorum_Sens 54.1 43 0.00092 32.7 7.2 81 166-247 1-84 (280)
318 cd06282 PBP1_GntR_like_2 Ligan 53.9 56 0.0012 31.3 8.0 78 167-249 2-81 (266)
319 cd08411 PBP2_OxyR The C-termin 53.8 65 0.0014 28.9 8.1 70 492-573 14-83 (200)
320 cd06320 PBP1_allose_binding Pe 53.6 53 0.0011 31.8 7.8 80 166-248 1-83 (275)
321 PRK03692 putative UDP-N-acetyl 53.4 1.6E+02 0.0034 28.3 10.4 87 150-245 92-179 (243)
322 TIGR02370 pyl_corrinoid methyl 53.0 1.2E+02 0.0026 28.0 9.4 86 166-259 86-175 (197)
323 cd08197 DOIS 2-deoxy-scyllo-in 52.9 1.2E+02 0.0025 31.1 10.2 102 153-259 12-119 (355)
324 TIGR01098 3A0109s03R phosphate 52.6 34 0.00073 32.9 6.1 20 212-231 183-202 (254)
325 cd06167 LabA_like LabA_like pr 52.5 1.5E+02 0.0033 25.5 11.4 95 153-248 27-124 (149)
326 cd01391 Periplasmic_Binding_Pr 52.5 52 0.0011 31.1 7.5 78 166-248 1-83 (269)
327 cd08420 PBP2_CysL_like C-termi 52.4 73 0.0016 28.3 8.2 70 492-573 13-82 (201)
328 cd08177 MAR Maleylacetate redu 52.4 59 0.0013 33.0 8.0 98 152-259 11-110 (337)
329 PRK10936 TMAO reductase system 52.2 65 0.0014 32.7 8.4 80 165-248 47-129 (343)
330 PRK03601 transcriptional regul 51.9 47 0.001 32.4 7.1 83 465-573 89-171 (275)
331 cd08179 NADPH_BDH NADPH-depend 51.7 75 0.0016 32.8 8.7 78 162-241 21-101 (375)
332 cd06322 PBP1_ABC_sugar_binding 51.7 60 0.0013 31.2 7.8 77 167-248 2-81 (267)
333 PF00448 SRP54: SRP54-type pro 51.7 1.7E+02 0.0036 27.0 10.2 65 164-233 29-93 (196)
334 cd06299 PBP1_LacI_like_13 Liga 51.6 63 0.0014 31.0 7.9 76 167-248 2-79 (265)
335 TIGR00696 wecB_tagA_cpsF bacte 51.1 1.9E+02 0.0041 26.1 11.4 85 149-243 34-120 (177)
336 cd01539 PBP1_GGBP Periplasmic 50.8 63 0.0014 32.0 7.9 79 166-249 1-84 (303)
337 TIGR00249 sixA phosphohistidin 50.7 73 0.0016 27.9 7.3 96 144-244 23-120 (152)
338 PRK15395 methyl-galactoside AB 50.3 1.8E+02 0.0038 29.3 11.2 123 30-161 161-293 (330)
339 PF04273 DUF442: Putative phos 50.2 1.4E+02 0.0031 24.5 9.4 85 158-244 22-107 (110)
340 PRK11303 DNA-binding transcrip 49.9 95 0.002 31.1 9.2 81 163-248 60-142 (328)
341 PRK09189 uroporphyrinogen-III 49.7 75 0.0016 30.3 7.9 88 150-245 102-191 (240)
342 PRK10014 DNA-binding transcrip 49.6 95 0.0021 31.3 9.2 81 163-248 63-145 (342)
343 TIGR01729 taurine_ABC_bnd taur 49.0 36 0.00078 33.8 5.8 66 500-573 20-90 (300)
344 COG1609 PurR Transcriptional r 48.6 2.1E+02 0.0047 28.9 11.4 120 32-160 176-304 (333)
345 cd06295 PBP1_CelR Ligand bindi 48.6 89 0.0019 30.2 8.5 77 164-248 3-88 (275)
346 cd08430 PBP2_IlvY The C-termin 48.4 1.3E+02 0.0028 26.7 9.2 71 492-573 13-83 (199)
347 PRK09701 D-allose transporter 48.3 87 0.0019 31.2 8.5 84 162-248 22-108 (311)
348 cd08421 PBP2_LTTR_like_1 The C 48.1 79 0.0017 28.2 7.7 70 492-573 13-82 (198)
349 PRK10355 xylF D-xylose transpo 48.1 94 0.002 31.4 8.7 79 165-248 26-107 (330)
350 cd08465 PBP2_ToxR The C-termin 48.1 68 0.0015 29.0 7.2 70 492-573 13-82 (200)
351 PF13380 CoA_binding_2: CoA bi 48.0 28 0.0006 29.0 4.0 86 165-259 1-88 (116)
352 PF00532 Peripla_BP_1: Peripla 47.9 39 0.00085 33.2 5.8 74 165-244 2-77 (279)
353 PRK13957 indole-3-glycerol-pho 47.9 2.1E+02 0.0046 27.4 10.3 87 153-249 64-153 (247)
354 PF07302 AroM: AroM protein; 47.6 1.8E+02 0.0038 27.4 9.4 74 165-244 126-201 (221)
355 cd06314 PBP1_tmGBP Periplasmic 47.2 63 0.0014 31.2 7.2 77 167-248 2-80 (271)
356 COG3340 PepE Peptidase E [Amin 46.7 2.2E+02 0.0048 26.5 9.6 85 153-249 22-108 (224)
357 TIGR02417 fruct_sucro_rep D-fr 46.7 1.3E+02 0.0028 30.1 9.5 81 163-248 59-141 (327)
358 PRK09791 putative DNA-binding 46.5 88 0.0019 30.9 8.2 86 464-573 94-179 (302)
359 cd08449 PBP2_XapR The C-termin 46.5 1.1E+02 0.0024 27.2 8.3 72 492-573 13-84 (197)
360 cd08446 PBP2_Chlorocatechol Th 46.5 89 0.0019 27.9 7.7 70 492-573 14-83 (198)
361 PF00218 IGPS: Indole-3-glycer 46.4 1.5E+02 0.0033 28.5 9.2 88 152-249 70-160 (254)
362 cd06281 PBP1_LacI_like_5 Ligan 46.4 93 0.002 30.0 8.2 77 167-248 2-80 (269)
363 cd03364 TOPRIM_DnaG_primases T 46.4 43 0.00094 25.4 4.6 41 155-196 35-75 (79)
364 PRK00278 trpC indole-3-glycero 45.6 1.7E+02 0.0036 28.4 9.6 87 153-249 73-162 (260)
365 cd08180 PDD 1,3-propanediol de 45.6 66 0.0014 32.6 7.1 78 160-240 18-97 (332)
366 COG0134 TrpC Indole-3-glycerol 45.4 63 0.0014 31.0 6.3 87 153-249 69-158 (254)
367 cd06354 PBP1_BmpA_PnrA_like Pe 45.4 2.9E+02 0.0062 26.6 13.5 109 31-145 121-229 (265)
368 cd08485 PBP2_ClcR The C-termin 45.4 1.2E+02 0.0025 27.3 8.4 70 492-573 14-83 (198)
369 cd08466 PBP2_LeuO The C-termin 45.3 88 0.0019 28.0 7.5 70 492-573 13-82 (200)
370 cd06270 PBP1_GalS_like Ligand 45.3 1.1E+02 0.0024 29.4 8.5 76 167-248 2-79 (268)
371 CHL00180 rbcR LysR transcripti 45.3 97 0.0021 30.7 8.3 86 465-573 95-180 (305)
372 cd06278 PBP1_LacI_like_2 Ligan 44.8 91 0.002 29.8 7.9 75 167-248 2-78 (266)
373 cd01324 cbb3_Oxidase_CcoQ Cyto 44.8 29 0.00062 23.6 2.9 25 588-612 12-36 (48)
374 PRK10653 D-ribose transporter 44.6 1E+02 0.0022 30.4 8.3 80 164-248 26-108 (295)
375 TIGR02637 RhaS rhamnose ABC tr 44.4 87 0.0019 30.9 7.8 71 174-248 10-82 (302)
376 cd06315 PBP1_ABC_sugar_binding 44.2 1.2E+02 0.0025 29.6 8.6 79 165-248 1-82 (280)
377 PF13155 Toprim_2: Toprim-like 44.0 48 0.001 26.2 4.7 41 152-192 35-75 (96)
378 cd01574 PBP1_LacI Ligand-bindi 43.8 1.2E+02 0.0025 29.1 8.4 76 167-247 2-79 (264)
379 cd08463 PBP2_DntR_like_4 The C 43.7 85 0.0019 28.5 7.2 72 491-573 12-83 (203)
380 PRK12680 transcriptional regul 43.7 99 0.0021 31.2 8.1 84 465-573 93-176 (327)
381 cd02067 B12-binding B12 bindin 43.5 1.6E+02 0.0035 24.2 8.1 67 173-247 8-78 (119)
382 cd08450 PBP2_HcaR The C-termin 43.2 1E+02 0.0022 27.3 7.6 70 492-573 13-82 (196)
383 PRK09861 cytoplasmic membrane 43.2 95 0.0021 30.4 7.5 26 278-303 228-253 (272)
384 cd08549 G1PDH_related Glycerol 43.1 1.2E+02 0.0025 30.8 8.4 98 153-259 12-113 (332)
385 PRK15424 propionate catabolism 43.0 3.4E+02 0.0074 29.6 12.2 127 82-250 49-176 (538)
386 cd06323 PBP1_ribose_binding Pe 42.8 94 0.002 29.8 7.6 77 167-248 2-81 (268)
387 cd08413 PBP2_CysB_like The C-t 42.4 1E+02 0.0022 27.7 7.4 71 492-573 13-83 (198)
388 cd06324 PBP1_ABC_sugar_binding 42.4 85 0.0018 31.1 7.3 77 167-248 2-83 (305)
389 cd06273 PBP1_GntR_like_1 This 42.3 1.2E+02 0.0025 29.2 8.2 76 167-248 2-79 (268)
390 PRK09508 leuO leucine transcri 42.2 87 0.0019 31.3 7.4 70 492-573 125-194 (314)
391 cd06325 PBP1_ABC_uncharacteriz 42.2 3.2E+02 0.007 26.2 11.8 115 30-161 130-247 (281)
392 PF10661 EssA: WXG100 protein 42.0 28 0.0006 30.2 3.1 29 582-610 114-142 (145)
393 cd06317 PBP1_ABC_sugar_binding 42.0 1E+02 0.0022 29.8 7.7 78 167-249 2-83 (275)
394 PRK08105 flavodoxin; Provision 41.9 1.2E+02 0.0027 26.4 7.3 81 165-258 2-92 (149)
395 TIGR02424 TF_pcaQ pca operon t 41.8 1.2E+02 0.0027 29.8 8.5 86 464-573 92-177 (300)
396 cd06321 PBP1_ABC_sugar_binding 41.7 1E+02 0.0022 29.7 7.7 77 167-248 2-83 (271)
397 PRK05752 uroporphyrinogen-III 41.4 1.3E+02 0.0027 29.1 8.1 88 148-243 109-201 (255)
398 cd08448 PBP2_LTTR_aromatics_li 41.3 1.3E+02 0.0028 26.6 7.9 70 492-573 13-82 (197)
399 cd01542 PBP1_TreR_like Ligand- 41.3 1.2E+02 0.0026 28.9 8.0 75 167-247 2-78 (259)
400 PRK07239 bifunctional uroporph 41.2 2.3E+02 0.0049 29.3 10.5 97 151-248 127-225 (381)
401 COG2984 ABC-type uncharacteriz 41.2 2E+02 0.0043 28.7 9.0 82 32-125 160-244 (322)
402 cd08459 PBP2_DntR_NahR_LinR_li 41.0 88 0.0019 28.0 6.8 70 492-573 13-82 (201)
403 PRK12681 cysB transcriptional 40.8 1.3E+02 0.0027 30.3 8.3 85 464-573 92-176 (324)
404 PRK11914 diacylglycerol kinase 40.8 1.4E+02 0.003 29.8 8.5 78 160-244 4-85 (306)
405 cd01575 PBP1_GntR Ligand-bindi 40.7 1.2E+02 0.0025 29.1 7.9 76 167-248 2-79 (268)
406 cd06307 PBP1_uncharacterized_s 40.5 91 0.002 30.2 7.1 81 166-248 1-84 (275)
407 PRK12684 transcriptional regul 40.3 1.3E+02 0.0028 30.1 8.3 85 464-573 92-176 (313)
408 cd08467 PBP2_SyrM The C-termin 40.3 92 0.002 28.0 6.8 70 492-573 13-82 (200)
409 cd06319 PBP1_ABC_sugar_binding 40.2 97 0.0021 29.9 7.3 77 167-248 2-81 (277)
410 cd08451 PBP2_BudR The C-termin 40.2 1.2E+02 0.0026 26.9 7.6 70 493-573 15-84 (199)
411 TIGR01256 modA molybdenum ABC 40.2 45 0.00096 31.1 4.6 69 495-572 9-83 (216)
412 PF13377 Peripla_BP_3: Peripla 39.6 2.5E+02 0.0054 24.2 9.2 118 33-161 11-136 (160)
413 cd06296 PBP1_CatR_like Ligand- 39.6 1.3E+02 0.0028 28.9 8.0 76 167-248 2-79 (270)
414 cd08431 PBP2_HupR The C-termin 39.5 1.4E+02 0.003 26.5 7.9 70 492-572 13-82 (195)
415 PRK10481 hypothetical protein; 39.4 2.1E+02 0.0046 27.0 8.7 68 163-236 128-195 (224)
416 cd08462 PBP2_NodD The C-termin 39.3 92 0.002 28.0 6.6 69 492-573 13-81 (200)
417 cd06287 PBP1_LacI_like_8 Ligan 39.3 3.4E+02 0.0074 26.1 11.0 119 33-160 120-245 (269)
418 TIGR02667 moaB_proteo molybden 39.3 2.2E+02 0.0049 25.2 8.7 64 164-231 4-71 (163)
419 PF00205 TPP_enzyme_M: Thiamin 39.2 51 0.0011 28.2 4.5 56 87-143 2-61 (137)
420 cd08173 Gro1PDH Sn-glycerol-1- 39.1 1.7E+02 0.0037 29.7 9.0 83 153-241 13-98 (339)
421 PLN02460 indole-3-glycerol-pho 38.9 1.1E+02 0.0025 30.7 7.2 87 153-249 142-232 (338)
422 PF00625 Guanylate_kin: Guanyl 38.6 3E+02 0.0064 24.8 10.6 92 96-196 3-98 (183)
423 TIGR02634 xylF D-xylose ABC tr 38.6 1.2E+02 0.0026 30.0 7.7 72 173-249 9-81 (302)
424 cd08452 PBP2_AlsR The C-termin 38.5 1.5E+02 0.0033 26.4 8.0 70 492-573 13-82 (197)
425 cd08429 PBP2_NhaR The C-termin 38.5 1.3E+02 0.0028 27.4 7.5 72 492-572 13-84 (204)
426 TIGR00177 molyb_syn molybdenum 38.5 1.7E+02 0.0036 25.3 7.6 47 180-231 28-74 (144)
427 PRK12683 transcriptional regul 38.5 1.6E+02 0.0035 29.2 8.7 70 493-573 107-176 (309)
428 cd08436 PBP2_LTTR_like_3 The C 38.4 1.4E+02 0.0029 26.4 7.6 71 492-573 13-83 (194)
429 cd08443 PBP2_CysB The C-termin 38.4 2.1E+02 0.0045 25.6 8.9 71 492-573 13-83 (198)
430 PF01936 NYN: NYN domain; Int 38.3 1.5E+02 0.0032 25.4 7.4 101 152-258 22-126 (146)
431 PF12273 RCR: Chitin synthesis 38.1 24 0.00051 30.1 2.1 24 587-610 2-25 (130)
432 cd08414 PBP2_LTTR_aromatics_li 37.9 1.3E+02 0.0029 26.5 7.4 70 492-573 13-82 (197)
433 cd08453 PBP2_IlvR The C-termin 37.9 1.5E+02 0.0033 26.4 7.9 73 492-573 13-85 (200)
434 PRK14987 gluconate operon tran 37.9 2E+02 0.0044 28.7 9.4 79 164-248 63-143 (331)
435 cd08461 PBP2_DntR_like_3 The C 37.6 98 0.0021 27.6 6.5 70 492-573 13-82 (198)
436 PRK10341 DNA-binding transcrip 37.4 1.4E+02 0.003 29.7 8.0 71 493-573 111-181 (312)
437 cd08456 PBP2_LysR The C-termin 37.4 1.1E+02 0.0024 27.1 6.9 69 492-572 13-81 (196)
438 cd06274 PBP1_FruR Ligand bindi 37.3 1.6E+02 0.0035 28.1 8.3 76 167-248 2-79 (264)
439 cd08419 PBP2_CbbR_RubisCO_like 37.2 1.3E+02 0.0028 26.6 7.2 70 492-573 12-81 (197)
440 PF02602 HEM4: Uroporphyrinoge 37.2 77 0.0017 29.9 5.8 92 145-245 97-189 (231)
441 cd06578 HemD Uroporphyrinogen- 37.2 2.2E+02 0.0047 26.7 9.1 88 150-246 106-195 (239)
442 PRK05569 flavodoxin; Provision 37.1 2.6E+02 0.0057 23.8 8.8 85 165-262 2-95 (141)
443 TIGR03884 sel_bind_Methan sele 37.1 61 0.0013 24.2 3.7 42 66-107 9-53 (74)
444 cd00886 MogA_MoaB MogA_MoaB fa 37.1 2.2E+02 0.0047 24.9 8.2 62 166-231 2-69 (152)
445 PRK11151 DNA-binding transcrip 36.9 1.3E+02 0.0027 29.8 7.6 70 492-573 104-173 (305)
446 cd08169 DHQ-like Dehydroquinat 36.9 2.7E+02 0.0058 28.4 9.9 101 153-259 12-118 (344)
447 cd06285 PBP1_LacI_like_7 Ligan 36.7 1.4E+02 0.0031 28.5 7.8 76 167-248 2-79 (265)
448 cd08441 PBP2_MetR The C-termin 36.6 1.4E+02 0.0031 26.5 7.4 69 493-573 14-82 (198)
449 TIGR03850 bind_CPR_0540 carboh 36.6 1.2E+02 0.0025 32.0 7.7 25 49-76 47-71 (437)
450 PRK12679 cbl transcriptional r 36.6 1.8E+02 0.0039 29.0 8.6 84 465-573 93-176 (316)
451 cd06308 PBP1_sensor_kinase_lik 36.2 1.4E+02 0.003 28.7 7.7 77 167-248 2-82 (270)
452 cd06309 PBP1_YtfQ_like Peripla 36.2 93 0.002 30.0 6.4 72 173-249 10-82 (273)
453 cd08418 PBP2_TdcA The C-termin 36.0 1.7E+02 0.0037 25.9 7.9 72 492-573 13-84 (201)
454 COG0563 Adk Adenylate kinase a 36.0 64 0.0014 29.2 4.7 29 98-126 3-31 (178)
455 KOG0025 Zn2+-binding dehydroge 35.9 2.1E+02 0.0046 28.1 8.1 94 139-247 162-257 (354)
456 PRK15088 PTS system mannose-sp 35.9 2.1E+02 0.0045 28.8 8.7 82 150-241 175-256 (322)
457 TIGR00288 conserved hypothetic 35.9 3E+02 0.0066 24.4 8.6 81 153-243 69-149 (160)
458 PRK09986 DNA-binding transcrip 35.9 1.8E+02 0.0039 28.4 8.5 85 465-573 97-181 (294)
459 TIGR00067 glut_race glutamate 35.8 2.5E+02 0.0054 27.1 9.0 128 88-233 52-182 (251)
460 cd08444 PBP2_Cbl The C-termina 35.8 1.5E+02 0.0032 26.6 7.4 71 492-573 13-83 (198)
461 cd08184 Fe-ADH3 Iron-containin 35.7 3.5E+02 0.0075 27.6 10.5 84 153-242 12-102 (347)
462 cd00758 MoCF_BD MoCF_BD: molyb 35.7 1.9E+02 0.004 24.6 7.4 47 180-231 20-66 (133)
463 cd08195 DHQS Dehydroquinate sy 35.7 3.4E+02 0.0073 27.6 10.5 101 154-259 13-120 (345)
464 PF08357 SEFIR: SEFIR domain; 35.7 69 0.0015 27.8 4.8 75 165-242 1-77 (150)
465 cd08417 PBP2_Nitroaromatics_li 35.5 1E+02 0.0023 27.4 6.3 70 492-573 13-82 (200)
466 COG0796 MurI Glutamate racemas 35.1 2.7E+02 0.0059 27.0 8.8 39 89-127 60-98 (269)
467 PF02310 B12-binding: B12 bind 35.1 2.5E+02 0.0055 23.0 9.3 46 178-231 14-59 (121)
468 cd06283 PBP1_RegR_EndR_KdgR_li 34.8 1.6E+02 0.0035 28.0 7.9 76 167-248 2-79 (267)
469 cd06292 PBP1_LacI_like_10 Liga 34.8 1.6E+02 0.0034 28.4 7.8 77 167-248 2-84 (273)
470 COG1879 RbsB ABC-type sugar tr 34.7 1.6E+02 0.0035 29.4 8.0 82 165-249 34-118 (322)
471 cd06291 PBP1_Qymf_like Ligand 34.5 3.7E+02 0.0081 25.5 10.4 117 33-160 114-240 (265)
472 cd08416 PBP2_MdcR The C-termin 34.5 1.6E+02 0.0035 26.1 7.4 72 492-573 13-84 (199)
473 TIGR00640 acid_CoA_mut_C methy 34.4 2.8E+02 0.006 23.6 8.1 68 173-248 11-82 (132)
474 CHL00073 chlN photochlorophyll 34.4 1.7E+02 0.0037 31.1 8.0 140 97-249 195-339 (457)
475 cd06298 PBP1_CcpA_like Ligand- 34.4 1.6E+02 0.0034 28.2 7.7 76 167-248 2-79 (268)
476 PF12974 Phosphonate-bd: ABC t 34.1 56 0.0012 31.2 4.3 71 495-573 17-95 (243)
477 cd08427 PBP2_LTTR_like_2 The C 33.8 1.8E+02 0.0039 25.6 7.6 72 492-573 13-84 (195)
478 PRK05723 flavodoxin; Provision 33.8 2.2E+02 0.0047 25.0 7.5 31 166-196 2-33 (151)
479 TIGR01357 aroB 3-dehydroquinat 33.8 2.9E+02 0.0063 28.0 9.7 99 154-259 12-116 (344)
480 cd03522 MoeA_like MoeA_like. T 33.7 2.5E+02 0.0055 28.0 8.8 78 162-243 157-240 (312)
481 PRK01844 hypothetical protein; 33.7 59 0.0013 24.1 3.2 23 587-609 3-26 (72)
482 TIGR01744 XPRTase xanthine pho 33.7 1E+02 0.0022 28.3 5.7 69 56-125 5-78 (191)
483 PRK05331 putative phosphate ac 33.4 5.2E+02 0.011 26.1 11.9 139 81-234 71-233 (334)
484 PRK00843 egsA NAD(P)-dependent 33.4 2.3E+02 0.005 28.9 8.9 96 153-259 22-120 (350)
485 cd01541 PBP1_AraR Ligand-bindi 33.4 1.9E+02 0.0041 27.8 8.1 77 167-248 2-84 (273)
486 cd08435 PBP2_GbpR The C-termin 33.4 2.2E+02 0.0047 25.2 8.1 72 492-573 13-84 (201)
487 COG1587 HemD Uroporphyrinogen- 33.4 2.4E+02 0.0053 27.0 8.6 92 149-248 106-199 (248)
488 cd08426 PBP2_LTTR_like_5 The C 33.2 1.6E+02 0.0035 26.1 7.2 70 492-573 13-82 (199)
489 PF13362 Toprim_3: Toprim doma 32.9 1.3E+02 0.0027 23.8 5.5 51 163-218 40-92 (96)
490 cd06271 PBP1_AglR_RafR_like Li 32.9 1.7E+02 0.0036 28.0 7.6 68 174-248 15-83 (268)
491 cd08437 PBP2_MleR The substrat 32.8 1.9E+02 0.0041 25.7 7.6 72 492-573 13-84 (198)
492 COG1707 ACT domain-containing 32.8 3.1E+02 0.0067 24.2 7.8 82 45-128 92-176 (218)
493 cd08460 PBP2_DntR_like_1 The C 32.8 1.2E+02 0.0026 27.2 6.2 70 491-573 12-81 (200)
494 TIGR00363 lipoprotein, YaeC fa 32.7 78 0.0017 30.7 5.0 44 28-82 16-59 (258)
495 cd08434 PBP2_GltC_like The sub 32.7 1.6E+02 0.0035 25.8 7.1 70 492-573 13-82 (195)
496 cd06268 PBP1_ABC_transporter_L 32.7 2.4E+02 0.0053 27.1 8.9 80 167-249 2-92 (298)
497 PRK11070 ssDNA exonuclease Rec 32.5 2.7E+02 0.0059 30.6 9.5 85 163-249 68-153 (575)
498 cd06297 PBP1_LacI_like_12 Liga 32.4 1.8E+02 0.004 27.9 7.8 75 167-248 2-79 (269)
499 TIGR03339 phn_lysR aminoethylp 32.2 1.8E+02 0.004 28.0 7.8 69 493-573 98-166 (279)
500 PRK06975 bifunctional uroporph 32.2 3E+02 0.0065 31.0 10.1 95 145-245 116-214 (656)
No 1
>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=3.5e-68 Score=519.40 Aligned_cols=556 Identities=17% Similarity=0.302 Sum_probs=447.1
Q ss_pred CCeeEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCC-CcEEEEEEccC-CCChHHHHHHHHHhHhcCcEEEEcCCC
Q 006567 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILH-GTKLNITMQSS-NCSGFIGMVEALRFMETDIVAIIGPQC 105 (640)
Q Consensus 28 ~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-g~~i~~~~~D~-~~~~~~a~~~a~~l~~~~v~aiiGp~~ 105 (640)
-+.+|.||.+||.+. .+...|+++|+...|.+..--+ -++|.+++... ..++...+.+.|+..++||.||+|-+.
T Consensus 23 f~~tiqigglF~~n~---~qe~~Afr~~~~~~~~~~~~~~~pf~L~~~~d~~e~a~Sf~~tnafCsq~s~Gv~Aifg~yd 99 (897)
T KOG1054|consen 23 FPNTIQIGGLFPRNT---DQEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLESANSFAVTNAFCSQFSRGVYAIFGFYD 99 (897)
T ss_pred CCCceeeccccCCcc---hHHHHHHHHHHHHhhcCCCCCCCCcccccccchhhhhhhHHHHHHHHHHHhhhHhhheeccc
Confidence 567899999999986 3568899999998887543211 14555544322 257788899999999999999999999
Q ss_pred hHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHH
Q 006567 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (640)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~ 185 (640)
......+..+|+..++|+|+++... +...++.+++.|+- ..++++++.||+|.++.++| |.+.|...++.+.
T Consensus 100 ~ks~~~ltsfc~aLh~~~vtpsfp~----~~~~~Fviq~RP~l---~~al~s~i~hy~W~~fv~ly-D~~rg~s~Lqai~ 171 (897)
T KOG1054|consen 100 KKSVNTLTSFCGALHVSFVTPSFPT----DGDNQFVIQMRPAL---KGALLSLIDHYKWEKFVYLY-DTDRGLSILQAIM 171 (897)
T ss_pred ccchhhhhhhccceeeeeecccCCc----CCCceEEEEeCchH---HHHHHHHHHhcccceEEEEE-cccchHHHHHHHH
Confidence 9999999999999999999875422 22346778888874 48999999999999999999 5557888899999
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCcccccc
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (640)
+.+.++++.|.....-.++ +..+++.+++.+.....+.|++.|..+....++.++-+.+-...+|||++.+..-...
T Consensus 172 ~~a~~~nw~VtA~~v~~~~---d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~d~ 248 (897)
T KOG1054|consen 172 EAAAQNNWQVTAINVGNIN---DVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFTDI 248 (897)
T ss_pred HHHHhcCceEEEEEcCCcc---cHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCchh
Confidence 9999999999876544433 4566999999999999999999999999999999998888888999999987543332
Q ss_pred CCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcC------CCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcc
Q 006567 266 DSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (640)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~ 339 (640)
|. +.+.....++.+++..+.+++..++|.++|+.... ++.++...++..|||+++.++|++.+.++..+.
T Consensus 249 dl----~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~~~ 324 (897)
T KOG1054|consen 249 DL----ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRIDI 324 (897)
T ss_pred hH----HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhhch
Confidence 22 33445666789999999999999999999987542 335667789999999999999999998876544
Q ss_pred cccCCccccccCCCCcccC--cccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEeCC
Q 006567 340 SFSNDSRLKTMEGGNLHLG--AMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNY 417 (640)
Q Consensus 340 ~~~~~~~~~~~~~~~~~c~--~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~ 417 (640)
.. .+....|. +..+|.+|..+.++++++.++|+||+|+||..|+|.+++.+|+++..++-+++|.|++.
T Consensus 325 ~r---------RG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e~ 395 (897)
T KOG1054|consen 325 SR---------RGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNEG 395 (897)
T ss_pred hc---------cCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeeccc
Confidence 32 22222343 35689999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcCCCcccccCCCCCCCccccceeEEeCCCCCCCCCceeecCCCCeEEEEeecCCCccceEEe---ecCCcceeeee
Q 006567 418 SGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVFPNNGKLLKIGVPNRASYREFVSK---VRGSDMFQGFC 494 (640)
Q Consensus 418 ~~l~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~~~~l~v~~~~~~~~~p~~~~---~~~~~~~~G~~ 494 (640)
.|+....... +... . ....+.++..|.+.-..||..+... .+||++++|||
T Consensus 396 ~~fv~~~t~a-------------~~~~------d-------~~~~~n~tvvvttiL~spyvm~kkn~~~~egn~ryEGyC 449 (897)
T KOG1054|consen 396 EGFVPGSTVA-------------QSRN------D-------QASKENRTVVVTTILESPYVMLKKNHEQLEGNERYEGYC 449 (897)
T ss_pred Cceeeccccc-------------cccc------c-------ccccccceEEEEEecCCchhHHHhhHHHhcCCcccceeH
Confidence 8865432210 0000 0 0001235555555533344333222 24789999999
Q ss_pred HHHHHHHHHhCCCCccEEEEEcCCCC-----CCCC-HhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEE
Q 006567 495 IDVFTAAVNLLPYAVPYQFVAFGDGH-----KNPS-YTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVV 568 (640)
Q Consensus 495 ~dl~~~i~~~l~~~~~~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il 568 (640)
|||+.+||+..+.+ |++..++|++ .+++ |+||+++|..|+||++++++|||.+|+++||||+|||.+|++|+
T Consensus 450 vdLa~~iAkhi~~~--Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIM 527 (897)
T KOG1054|consen 450 VDLAAEIAKHIGIK--YKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIM 527 (897)
T ss_pred HHHHHHHHHhcCce--EEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEE
Confidence 99999999999998 7777776765 4445 99999999999999999999999999999999999999999999
Q ss_pred EecCC-CCcCcceeccccchhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCc-------------cccchhhhHhHhhhh
Q 006567 569 VPFRK-LNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPP-------------KRQVITILWFSLSTL 634 (640)
Q Consensus 569 ~~~~~-~~~~~~~~l~pf~~~vw~~i~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~w~~~~~~ 634 (640)
+++|+ ..++.|+||+|+..+.|+||+++++.|++++|++.|++|+||.-.. ..+++||+||++|++
T Consensus 528 IKKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAF 607 (897)
T KOG1054|consen 528 IKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAF 607 (897)
T ss_pred EeCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHH
Confidence 99999 8899999999999999999999999999999999999999985322 235899999999999
Q ss_pred hhcc
Q 006567 635 FFAH 638 (640)
Q Consensus 635 ~~~~ 638 (640)
|=++
T Consensus 608 MQQG 611 (897)
T KOG1054|consen 608 MQQG 611 (897)
T ss_pred HhcC
Confidence 8654
No 2
>KOG4440 consensus NMDA selective glutamate-gated ion channel receptor subunit GRIN1 [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1.6e-63 Score=489.00 Aligned_cols=534 Identities=25% Similarity=0.405 Sum_probs=429.0
Q ss_pred ccCCCeeEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEcc--CCCChHHHHHHHHH-hHhcCcEEEE
Q 006567 25 VSARPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQS--SNCSGFIGMVEALR-FMETDIVAII 101 (640)
Q Consensus 25 ~~~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D--~~~~~~~a~~~a~~-l~~~~v~aii 101 (640)
+++.+++++||.++... ..++-|.-++.++|++.+ ..++.+.... ...++...+..+|+ +++.+|.+|+
T Consensus 29 a~~np~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~---s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~ 100 (993)
T KOG4440|consen 29 AACNPKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHG---SWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVL 100 (993)
T ss_pred cCCCccceeeeeeeech-----hHHHHHHHHHHHhhcccc---ceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEE
Confidence 45678899999998864 468889999999997653 3555543322 23456666667775 5667888777
Q ss_pred c--CCCh-H--HHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC
Q 006567 102 G--PQCS-T--VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE 175 (640)
Q Consensus 102 G--p~~s-~--~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~ 175 (640)
- |.++ + .-.+++..++.+.||++.....+..+++ +-++.|.|+.|+.++++....++|.+|.|++|.++.++|.
T Consensus 101 vSh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~ 180 (993)
T KOG4440|consen 101 VSHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDH 180 (993)
T ss_pred ecCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEcccc
Confidence 4 2222 2 2344566788999999999888999998 5689999999999999999999999999999999999999
Q ss_pred CCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEE
Q 006567 176 YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (640)
Q Consensus 176 ~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~ 255 (640)
-|+....+++...++..-++.....+.|+ ..++...+.++|+.++|++++..+.+++..++++|-.++|++++|+|
T Consensus 181 ~gra~~~r~qt~~e~~~~~~e~v~~f~p~----~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnmTG~G~VW 256 (993)
T KOG4440|consen 181 EGRAAQKRLQTLLEERESKAEKVLQFDPG----TKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNMTGSGYVW 256 (993)
T ss_pred cchhHHhHHHHHHHHHhhhhhhheecCcc----cchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcccCceEEE
Confidence 99888888888888766666655667776 67889999999999999999999999999999999999999999999
Q ss_pred EEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhc
Q 006567 256 IATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (640)
Q Consensus 256 i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~ 335 (640)
|.++..... .....|+++.+.....+ ..++.-|++.+++.|++++++.
T Consensus 257 iV~E~a~~~----------nn~PdG~LGlqL~~~~~----------------------~~~hirDsv~vlasAv~e~~~~ 304 (993)
T KOG4440|consen 257 IVGERAISG----------NNLPDGILGLQLINGKN----------------------ESAHIRDSVGVLASAVHELLEK 304 (993)
T ss_pred EEecccccc----------CCCCCceeeeEeecCcc----------------------ccceehhhHHHHHHHHHHHHhh
Confidence 998754332 12467888887643221 3367889999999999999876
Q ss_pred CCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCc-ccccccceEEccCCCcccccEEEEEEe-cccEEEEEE
Q 006567 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGY 413 (640)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~-f~g~tG~v~Fd~~g~r~~~~~~I~~~~-~~~~~~vG~ 413 (640)
.. ++ ..+..||++...|..|..+.+.++... ..|.||+|.||++|+|....|+|+|++ +...+-+|.
T Consensus 305 e~-I~----------~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~ 373 (993)
T KOG4440|consen 305 EN-IT----------DPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGI 373 (993)
T ss_pred cc-CC----------CCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhcc
Confidence 43 21 234568899999999999999888755 689999999999999999999999996 344455666
Q ss_pred EeCCCCCCcCCCcccccCCCCCCCccccceeEEeCCCCCCCCCceeecCCCCeEEEEeecCCCccceEEeec--------
Q 006567 414 WSNYSGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVFPNNGKLLKIGVPNRASYREFVSKVR-------- 485 (640)
Q Consensus 414 w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~-------- 485 (640)
++... . ..+.+.|+||||.+++|.++.+| ++||+++.+.+ ||++..+
T Consensus 374 yd~~r---~----------------~~nd~~IiWpGg~~~KP~gi~~p---thLrivTi~~~---PFVYv~p~~sd~~c~ 428 (993)
T KOG4440|consen 374 YDGTR---V----------------IPNDRKIIWPGGETEKPRGIQMP---THLRIVTIHQE---PFVYVKPTLSDGTCK 428 (993)
T ss_pred cccee---e----------------ccCCceeecCCCCcCCCcccccc---ceeEEEEeccC---CeEEEecCCCCcchh
Confidence 65421 1 12336899999999999999987 67999998764 4555421
Q ss_pred -----------------------------CCcceeeeeHHHHHHHHHhCCCCccEEEEEcCC-CC----------CCCCH
Q 006567 486 -----------------------------GSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGD-GH----------KNPSY 525 (640)
Q Consensus 486 -----------------------------~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~-~~----------~~~~~ 525 (640)
...||.||||||+-+++++.||+|+..+.+.+. |. ...+|
T Consensus 429 eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew 508 (993)
T KOG4440|consen 429 EEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEW 508 (993)
T ss_pred hhccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeeccccccccee
Confidence 023789999999999999999996555554331 11 12379
Q ss_pred hhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEecCCCCcCcceeccccchhHHHHHHHHHHHHHHHHH
Q 006567 526 TQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVW 605 (640)
Q Consensus 526 ~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~~~~~~~~~~~l~pf~~~vw~~i~~~~~~~~~~~~ 605 (640)
+||||+|.+++|||+++++||++||+++|+||.||...|+.||.+++.+.+.+.+||+||+.++|+++++++.+|++++|
T Consensus 509 ~G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lY 588 (993)
T KOG4440|consen 509 NGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLY 588 (993)
T ss_pred hhhhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcccCCC-CCCCc-------cccchhhhHhHhhhhhhcc
Q 006567 606 ILEHRINDE-FRGPP-------KRQVITILWFSLSTLFFAH 638 (640)
Q Consensus 606 ~~~~~~~~~-~~~~~-------~~~~~~~~w~~~~~~~~~~ 638 (640)
+++|++|.+ |.... ...+.+.|||+||.|+=++
T Consensus 589 lLDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSG 629 (993)
T KOG4440|consen 589 LLDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSG 629 (993)
T ss_pred HHHhcCcccceeeccCccchhhhcchhhhHHHHhHhhhccc
Confidence 999999985 32211 2348999999999998543
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=6.3e-52 Score=422.35 Aligned_cols=485 Identities=21% Similarity=0.362 Sum_probs=372.7
Q ss_pred CCCChHHHHHHHHHhHhc-CcEEEEcCCChH---HHHHHHHhhccCCceEEecccCCC-CCCCC-CCCcEEEecCCchHH
Q 006567 78 SNCSGFIGMVEALRFMET-DIVAIIGPQCST---VAHIVSYVSNELQVPLLSFGVTDP-TLSSL-QYPFFVRTTQSDSYQ 151 (640)
Q Consensus 78 ~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~---~~~~v~~~~~~~~iP~is~~~~~~-~l~~~-~~~~~~r~~p~~~~~ 151 (640)
+..||...+...|+++.. +|.+|+-...+. .+..+--+.....||+|+..+.+. .++++ ....++++.|+-+++
T Consensus 81 N~tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieqq 160 (1258)
T KOG1053|consen 81 NTTDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQQ 160 (1258)
T ss_pred CCCCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHHH
Confidence 447999999999999976 888776544443 334455567788999999765443 34443 335799999999999
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhc--CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEE
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVL 229 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl 229 (640)
++++.++|+.|+|.+++++.+..++.+.++..+++..... |+++.......+. ..+...-...++++-++.||++
T Consensus 161 a~Vml~iL~~ydW~~Fs~vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s---~~d~~a~~q~qLkki~a~Vill 237 (1258)
T KOG1053|consen 161 AQVMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPS---TDDLLAKLQAQLKKIQAPVILL 237 (1258)
T ss_pred HHHHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCC---CCchHHHHHHHHHhcCCcEEEE
Confidence 9999999999999999999988887778888888776643 5565554455544 1222333445566667899999
Q ss_pred ecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCC
Q 006567 230 HVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSL 309 (640)
Q Consensus 230 ~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 309 (640)
+|+.+++..||..|.+.||++++|+||+++..... + ..-.+...|.+.+... .|+
T Consensus 238 yC~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~---~---~~pa~~P~GLisv~~~------------~w~------- 292 (1258)
T KOG1053|consen 238 YCSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL---E---PRPAEFPLGLISVSYD------------TWR------- 292 (1258)
T ss_pred EecHHHHHHHHHHHHhcCCcCCceEEEeehhccCC---C---CCCccCccceeeeecc------------chh-------
Confidence 99999999999999999999999999997644321 1 1123456677766542 122
Q ss_pred CCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCccccccCCCCcccCccc--ccCchHHHHHHHHhCcccccccceEE
Q 006567 310 GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMS--IFDDGMLLLGNILQSNLVGLTGPLKF 387 (640)
Q Consensus 310 ~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~--~~~~g~~l~~~l~~~~f~g~tG~v~F 387 (640)
..+.+.+-|++.+++.|.+.++.....++ .....|-... ....+..+.++|.|+.++| +.++|
T Consensus 293 --~~l~~rVrdgvaiva~aa~s~~~~~~~lp-----------~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf 357 (1258)
T KOG1053|consen 293 --YSLEARVRDGVAIVARAASSMLRIHGFLP-----------EPKMDCREQEETRLTSGETLHRFLANVTWDG--RDLSF 357 (1258)
T ss_pred --hhHHHHHhhhHHHHHHHHHHHHhhcccCC-----------CcccccccccCccccchhhhhhhhheeeecc--cceee
Confidence 23457788999999999999988765543 3344554322 3334889999999999999 78999
Q ss_pred ccCCCcccccEEEEEEe-cccEEEEEEEeCCCCCCcCCCcccccCCCCCCCccccceeEEeCCCCCCCCCceeecCCCCe
Q 006567 388 NSDRSLIHAAYDIINVI-GTGFRMIGYWSNYSGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVFPNNGKL 466 (640)
Q Consensus 388 d~~g~r~~~~~~I~~~~-~~~~~~vG~w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~~~~ 466 (640)
+++|..++++..++.+. ...|.+||.|..++ |. ++..+||.-. ..+. +.| +..|
T Consensus 358 ~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L~--------------------M~y~vWPr~~-~~~q--~~~-d~~H 412 (1258)
T KOG1053|consen 358 NEDGYLVHPNLVVIDLNRDRTWERVGSWENGT-LV--------------------MKYPVWPRYH-KFLQ--PVP-DKLH 412 (1258)
T ss_pred cCCceeeccceEEEecCCCcchheeceecCCe-EE--------------------Eecccccccc-CccC--CCC-Ccce
Confidence 99998889988887775 46799999998653 33 3456788432 1122 211 3468
Q ss_pred EEEEeecCCCccceEEeec----------------------------C----CcceeeeeHHHHHHHHHhCCCCccEEEE
Q 006567 467 LKIGVPNRASYREFVSKVR----------------------------G----SDMFQGFCIDVFTAAVNLLPYAVPYQFV 514 (640)
Q Consensus 467 l~v~~~~~~~~~p~~~~~~----------------------------~----~~~~~G~~~dl~~~i~~~l~~~~~~~~~ 514 (640)
|+|++.+++| |++..+ . ..||+||||||+++|++..||+ |.++
T Consensus 413 L~VvTLeE~P---FVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~Ft--YDLY 487 (1258)
T KOG1053|consen 413 LTVVTLEERP---FVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFT--YDLY 487 (1258)
T ss_pred eEEEEeccCC---eEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcc--eEEE
Confidence 9999987744 444311 0 2489999999999999999999 7777
Q ss_pred EcCCCC----CCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEecCCCCcCcceeccccchhHH
Q 006567 515 AFGDGH----KNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMW 590 (640)
Q Consensus 515 ~~~~~~----~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~~~~~~~~~~~l~pf~~~vw 590 (640)
.+++|| .|+.|+|||++|..++|||+++.++|++||.++||||.||..+|++|+|+..+...+..+||.||+++||
T Consensus 488 lVtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svW 567 (1258)
T KOG1053|consen 488 LVTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVW 567 (1258)
T ss_pred EecCCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHH
Confidence 777776 7889999999999999999999999999999999999999999999999999988899999999999999
Q ss_pred HHHHHHHHHHH-HHHHhhhcccCCCCC---------CCccccchhhhHhHhhhhh
Q 006567 591 TVTACFFVVVG-IVVWILEHRINDEFR---------GPPKRQVITILWFSLSTLF 635 (640)
Q Consensus 591 ~~i~~~~~~~~-~~~~~~~~~~~~~~~---------~~~~~~~~~~~w~~~~~~~ 635 (640)
++|++++++++ +.+|++|+++|.++. +.+.+.++.++|..|+.+|
T Consensus 568 VmmFVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvF 622 (1258)
T KOG1053|consen 568 VMMFVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVF 622 (1258)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHh
Confidence 99999988765 556799999998653 2244568999999998765
No 4
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=2.1e-48 Score=395.54 Aligned_cols=365 Identities=20% Similarity=0.302 Sum_probs=289.9
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEE-ccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITM-QSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~-~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||+||+..+ .+.+.||++|++++|.+..++++.+|.+.+ +++.+|++.+..++|+++++||.|||||.++.++..
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 4899999865 346899999999999999888999999998 899999999999999999999999999999999999
Q ss_pred HHHhhccCCceEEecccC-----------CCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCccc
Q 006567 112 VSYVSNELQVPLLSFGVT-----------DPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG 180 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~-----------~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~ 180 (640)
++++|+.++||+|+++.. +|.++.. +|.+.+.|+ ..+.+|+++++.+|+|++|++|| |+++|...
T Consensus 78 v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~--~~~~~lrp~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~ 153 (400)
T cd06392 78 LQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGE--EYTLAARPP-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRG 153 (400)
T ss_pred HHHHhccCcCCcEeecccccccccccccCCCCcCcC--ceeEEecCc-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHH
Confidence 999999999999997552 2333333 445666666 57788999999999999999999 78899999
Q ss_pred HHHHHHHHhhcCeEEEEeeccCCCCC-----CChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEE
Q 006567 181 VSALNDKLAERRCRISYKSGIPPESG-----VNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (640)
Q Consensus 181 ~~~~~~~~~~~g~~v~~~~~~~~~~~-----~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~ 255 (640)
++.+.+.+.+.+..|.... +..+.+ ......+..|.+++... ++||++|+++.+..+|++|+++||+..+|+|
T Consensus 154 lq~L~~~~~~~~~~I~~~~-v~~~~~~~~~~~l~~~~~~~L~~~~~~~-r~iVv~~s~~~~~~il~qA~~lgM~~~~y~w 231 (400)
T cd06392 154 LQSFLDQASRLGLDVSLQK-VDRNISRVFTNLFTTMKTEELNRYRDTL-RRAILLLSPRGAQTFINEAVETNLASKDSHW 231 (400)
T ss_pred HHHHHHHHhhcCceEEEEE-cccCcchhhhhHHHHHHHhhhhhccccc-eEEEEEcCcHHHHHHHHHHHHhCcccCCeEE
Confidence 9999999999998888665 221100 01222233334444334 8899999999999999999999999999999
Q ss_pred EEeCccccccCCCCCChhhhhhcc-ceEEEEEccCCchhHHHHH----HHHhhhcCC---C--CCCCchhhhhhhHHHHH
Q 006567 256 IATDWLAYMLDSASLPSETLESMQ-GVLVLRQHIPESDRKKNFL----SRWKNLTGG---S--LGMNSYGLYAYDSVWLL 325 (640)
Q Consensus 256 i~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~f~----~~~~~~~~~---~--~~~~~~~~~~yDav~~~ 325 (640)
|++++.....+. .+.++... ++++++.+.+.+....+|. .+|++...+ . ..+..+++++||||+++
T Consensus 232 I~t~~~~~~~dl----~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~l~~~aalayDaV~~~ 307 (400)
T cd06392 232 VFVNEEISDTEI----LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGYLQMLQVSNLYLYDSVLML 307 (400)
T ss_pred EEecCCcccccH----HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHHHH
Confidence 999987654433 33444443 5667998888776555553 666533211 1 14678999999999999
Q ss_pred HHHHHHHhhcCCcccccCCccccccCCCCccc--CcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEE
Q 006567 326 AHAIESFFNQGGKISFSNDSRLKTMEGGNLHL--GAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINV 403 (640)
Q Consensus 326 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c--~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~ 403 (640)
|+|+++++.+.... ....+.| ....+|++|..|+++|++++|+|+||+|.||++|+|.++.|+|+|+
T Consensus 308 A~Al~~ll~~~~~~-----------~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi~l 376 (400)
T cd06392 308 ANAFHRKLEDRKWH-----------SMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEILGT 376 (400)
T ss_pred HHHHHHHhhccccC-----------CCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEEec
Confidence 99999876433222 2233567 5578999999999999999999999999999999999999999996
Q ss_pred e-----cccEEEEEEEeCCCCCC
Q 006567 404 I-----GTGFRMIGYWSNYSGLS 421 (640)
Q Consensus 404 ~-----~~~~~~vG~w~~~~~l~ 421 (640)
+ +.++++||+|++..|++
T Consensus 377 ~~~~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 377 SYSETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred cccccCCCCceEeEEecCCCCCC
Confidence 5 55699999999988863
No 5
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.5e-47 Score=389.90 Aligned_cols=355 Identities=18% Similarity=0.242 Sum_probs=296.0
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
+||+||+.++ ...+.||++|++++|.+..+++. ++ +-+..|++.+.+++|+++++||.|||||.++.++..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~~--~~---~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLPQ--ID---IVNISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCcccccc--eE---EeccccHHHHHHHHHHHhhcCceEEEccCChhHHHHH
Confidence 4899999864 35799999999999987644431 11 1234588999999999999999999999999999999
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcC
Q 006567 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERR 192 (640)
Q Consensus 113 ~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g 192 (640)
+++|+..+||+|++.. |..+ ...+++++.|+ +.+|+++++++|+|++|++||+++ ||...++.+.+.+++.|
T Consensus 73 ~sic~~~~vP~i~~~~--~~~~--~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~ 144 (364)
T cd06390 73 TSFCGALHVCFITPSF--PVDT--SNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKN 144 (364)
T ss_pred HHhhcCCCCCceecCC--CCCC--CCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccC
Confidence 9999999999998744 3222 23568999997 789999999999999999999655 99999999999999999
Q ss_pred eEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCCh
Q 006567 193 CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPS 272 (640)
Q Consensus 193 ~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~ 272 (640)
++|.....++.. ..+++..|++++..++++||++|+.+.+..+|+++.+.+|+..+|+||+++......+. .
T Consensus 145 ~~I~~~~~~~~~----~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~~----~ 216 (364)
T cd06390 145 WQVTAVNILTTT----EEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDIDL----T 216 (364)
T ss_pred ceeeEEEeecCC----hHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccccH----H
Confidence 999877665533 56899999999999999999999999999999999888888999999999843322222 3
Q ss_pred hhhhhccceEEEEEccCCchhHHHHHHHHhhhcC------CCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCcc
Q 006567 273 ETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (640)
Q Consensus 273 ~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (640)
.......|+++++++.+.++.+++|..+|++... +...++.+++++||||+++|+|++++..++...+..
T Consensus 217 ~~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~---- 292 (364)
T cd06390 217 KFRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRR---- 292 (364)
T ss_pred HHhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccC----
Confidence 4556788999999999999999999999987543 112467899999999999999999986654432211
Q ss_pred ccccCCCCcccCc--ccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEeCCCCC
Q 006567 347 LKTMEGGNLHLGA--MSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (640)
Q Consensus 347 ~~~~~~~~~~c~~--~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~~~l 420 (640)
+....|.. ..+|++|..|+++|++++|+|+||++.|+++|+|.++.|+|+|+.+.++++||.|++..|+
T Consensus 293 -----~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 293 -----GNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred -----CCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEEECCCCCc
Confidence 12234643 3479999999999999999999999999999999999999999999999999999998775
No 6
>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated
Probab=100.00 E-value=1.9e-47 Score=396.53 Aligned_cols=365 Identities=21% Similarity=0.314 Sum_probs=305.6
Q ss_pred eEEEEEEee-cC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCC-ChHHHHHHHHHhHhcCcEEEEcCCC
Q 006567 31 VVNVGALFT-LD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC-SGFIGMVEALRFMETDIVAIIGPQC 105 (640)
Q Consensus 31 ~i~IG~l~~-~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~-~~~~a~~~a~~l~~~~v~aiiGp~~ 105 (640)
.|+||+++| .+ +..|...+.|+++|+++||+++++|++..|.+.+.+.++ ++..+...+|+++.++|.|||||.+
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~~~V~AiiGp~~ 81 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLALGVVAIFGPSQ 81 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhcccccCcEEEECCCC
Confidence 589999999 44 455778899999999999999999999999999998654 7767888999988889999999999
Q ss_pred hHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHH
Q 006567 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (640)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~ 185 (640)
|..+.+++++++.++||+|+++++++.+++.. .+++|+.|++..++.++++++++++|++|++||+++. |...++.+.
T Consensus 82 S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~~-~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g~~~l~~~~ 159 (384)
T cd06393 82 GSCTNAVQSICNALEVPHIQLRWKHHPLDNKD-TFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-GLIRLQELI 159 (384)
T ss_pred hHHHHHHHHHHhccCCCeEeccCCCcccCccc-eeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-hHHHHHHHH
Confidence 99999999999999999999988888887643 5678888999889999999999999999999997654 555556788
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCcccccc
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (640)
+.+++.|++|... .++.+ ..+++.++++++..++++||+.+...++..++++|+++||+.+.|+|++++......
T Consensus 160 ~~~~~~g~~v~~~-~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~ 234 (384)
T cd06393 160 MAPSRYNIRLKIR-QLPTD----SDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYAL 234 (384)
T ss_pred HhhhccCceEEEE-ECCCC----chHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCccccc
Confidence 8788889998864 35544 689999999999999999999999999999999999999999999999887543332
Q ss_pred CCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhh-cCCCC---------CCCchhhhhhhHHHHHHHHHHHHhhc
Q 006567 266 DSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL-TGGSL---------GMNSYGLYAYDSVWLLAHAIESFFNQ 335 (640)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~---------~~~~~~~~~yDav~~~a~Al~~~~~~ 335 (640)
+. ..+.....++++++...+.++.+++|.++|+.+ ++... .++.+++++||||+++++|++++.+.
T Consensus 235 ~~----~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~~~~~ 310 (384)
T cd06393 235 DL----EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQRAPQM 310 (384)
T ss_pred cc----hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhhhhhc
Confidence 22 111122333578888888889999999999753 42110 12568999999999999999975321
Q ss_pred CCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEcc-CCCcccccEEEEEEecccEEEEEEE
Q 006567 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRSLIHAAYDIINVIGTGFRMIGYW 414 (640)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~-~g~r~~~~~~I~~~~~~~~~~vG~w 414 (640)
....+.|....+|++|..|+++|++++|+|+||+++||+ +|.|.++.|+|+|+.++++++||+|
T Consensus 311 ---------------~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W 375 (384)
T cd06393 311 ---------------TVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVW 375 (384)
T ss_pred ---------------CCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEE
Confidence 123446888889999999999999999999999999996 6899999999999999999999999
Q ss_pred eCCCCCC
Q 006567 415 SNYSGLS 421 (640)
Q Consensus 415 ~~~~~l~ 421 (640)
++..||+
T Consensus 376 ~~~~g~~ 382 (384)
T cd06393 376 NPNTGLN 382 (384)
T ss_pred cCCCCcC
Confidence 9998875
No 7
>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=3.7e-47 Score=385.63 Aligned_cols=361 Identities=15% Similarity=0.220 Sum_probs=299.7
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCC-cEEEEEEccC-CCChHHHHHHHHHhHhcCcEEEEcCCChHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHG-TKLNITMQSS-NCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g-~~i~~~~~D~-~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~ 110 (640)
.||+||+.++ .+.+.||++|++++|.+..+++. .+|.+.+... ..|++.+.+++|+++++||.||+||.++.++.
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 3899999765 35789999999999998876664 5888765543 46899999999999999999999999999999
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhh
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE 190 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~ 190 (640)
++.++|+..+||+|.+... .+...++.+++.|+ +.+|+++++++|+|++|++|| |+++|...++.+.+.+..
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 9999999999999986332 12334677899998 689999999999999999999 667888888888888888
Q ss_pred cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCC
Q 006567 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASL 270 (640)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~ 270 (640)
.+..|......+. ....+++.+++++++.+.++||++|+++.+..+|++|.++||+..+|+||+++......+.
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 8888876654332 2356899999999999999999999999999999999999999999999999854443333
Q ss_pred ChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcC------CCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCC
Q 006567 271 PSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (640)
Q Consensus 271 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 344 (640)
.+++....+++++++..+.++..++|.++|++... ...+++.+++++||||+++|+|++++..++...+.
T Consensus 224 -~~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~--- 299 (372)
T cd06387 224 -ERVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSR--- 299 (372)
T ss_pred -HHhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCccc---
Confidence 23444455599999999999999999999987643 11245678999999999999999998654433221
Q ss_pred ccccccCCCCcccCc--ccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEeCCCCC
Q 006567 345 SRLKTMEGGNLHLGA--MSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (640)
Q Consensus 345 ~~~~~~~~~~~~c~~--~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~~~l 420 (640)
.+....|.. ..+|++|..|.++|++++|+|+||++.|+++|+|.++.|+|+|+.++++++||.|++..|+
T Consensus 300 ------~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 300 ------RGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred ------CCCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEEEECCCCCc
Confidence 112335643 4589999999999999999999999999999999999999999999999999999998875
No 8
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=1.5e-46 Score=399.69 Aligned_cols=375 Identities=21% Similarity=0.327 Sum_probs=307.7
Q ss_pred cCCCeeEEEEEEeecCC-----------------ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHH
Q 006567 26 SARPAVVNVGALFTLDS-----------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVE 88 (640)
Q Consensus 26 ~~~~~~i~IG~l~~~~~-----------------~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~ 88 (640)
...+++|.||++||.|. ..|.+...|+.+|+|+||+++++|||++|++.++|+|+++..|++.
T Consensus 4 ~~~~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~ 83 (472)
T cd06374 4 ARMDGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQ 83 (472)
T ss_pred EEecCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHH
Confidence 34678999999999983 1356778999999999999999999999999999999999999999
Q ss_pred HHHhHh--------------------------cCcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcE
Q 006567 89 ALRFME--------------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFF 141 (640)
Q Consensus 89 a~~l~~--------------------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~ 141 (640)
+.+++. .+|.|||||.+|..+.++++++..++||+|+++++++.+++ ..||++
T Consensus 84 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~ 163 (472)
T cd06374 84 SIEFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYF 163 (472)
T ss_pred HHHHHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCce
Confidence 999885 27999999999999999999999999999999999988887 479999
Q ss_pred EEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhc
Q 006567 142 VRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL 221 (640)
Q Consensus 142 ~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~ 221 (640)
||+.|++..++.++++++++++|++|++||++++||....+.+++.+++.|++|+....++.. ....+++.++.+|++
T Consensus 164 fRt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~lk~ 241 (472)
T cd06374 164 LRVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSN--AGEQSFDRLLRKLRS 241 (472)
T ss_pred EEcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CchHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999999999988777543 347899999999997
Q ss_pred C--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHH-
Q 006567 222 M--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFL- 298 (640)
Q Consensus 222 ~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~- 298 (640)
. ++++|++++....+..++++|+++|+. .+++||+++.|...... .....+..+|.+++.+..+..+.+++|.
T Consensus 242 ~~~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~---~~~~~~~~~G~l~~~~~~~~~~~F~~~l~ 317 (472)
T cd06374 242 RLPKARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDV---VEGYEEEAEGGITIKLQSPEVPSFDDYYL 317 (472)
T ss_pred cCCCcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHh---hhcchhhhheeEEEEecCCCCccHHHHHH
Confidence 5 456777778888899999999999996 56899999988653211 1123456789999988877766666643
Q ss_pred --------------HHHhhhcCC-------CC-----------------CCCchhhhhhhHHHHHHHHHHHHhhcCCccc
Q 006567 299 --------------SRWKNLTGG-------SL-----------------GMNSYGLYAYDSVWLLAHAIESFFNQGGKIS 340 (640)
Q Consensus 299 --------------~~~~~~~~~-------~~-----------------~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~ 340 (640)
+.|+..++. .. ..+.++.++||||+++|+||++++++.+..
T Consensus 318 ~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~- 396 (472)
T cd06374 318 KLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPG- 396 (472)
T ss_pred hCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCC-
Confidence 345444320 00 012456689999999999999998654311
Q ss_pred ccCCccccccCCCCcccCcccccCchHHHHHHHHhCccccccc-ceEEccCCCcccccEEEEEEec-----ccEEEEEEE
Q 006567 341 FSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG-----TGFRMIGYW 414 (640)
Q Consensus 341 ~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG-~v~Fd~~g~r~~~~~~I~~~~~-----~~~~~vG~w 414 (640)
....|..... .++..|.++|++++|+|++| +|.||++|++. ..|+|+|++. .++++||.|
T Consensus 397 ------------~~~~c~~~~~-~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w 462 (472)
T cd06374 397 ------------HVGLCDAMKP-IDGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSW 462 (472)
T ss_pred ------------CCCCCcCCCC-CCHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEE
Confidence 1113554332 35999999999999999999 69999999975 5899999994 357999999
Q ss_pred eCCCCCCc
Q 006567 415 SNYSGLSK 422 (640)
Q Consensus 415 ~~~~~l~~ 422 (640)
++ .+|.+
T Consensus 463 ~~-~~l~~ 469 (472)
T cd06374 463 HE-GDLGI 469 (472)
T ss_pred eC-Ccccc
Confidence 85 45654
No 9
>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=3e-46 Score=397.19 Aligned_cols=370 Identities=24% Similarity=0.376 Sum_probs=306.0
Q ss_pred eeEEEEEEeecCC-------------ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHh--
Q 006567 30 AVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-- 94 (640)
Q Consensus 30 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~-- 94 (640)
+++.||++||.|. ..|.+...|+++|+|+||+++++|||++|+++++|+|+++..|+..+.+++.
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 4689999999983 3466779999999999999999999999999999999999999999888874
Q ss_pred ---------------------cCcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHH
Q 006567 95 ---------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (640)
Q Consensus 95 ---------------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~ 152 (640)
.+|.|||||.+|..+.++++++..+++|+|+++++++.+++ ..|+++||+.|++..++
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 38999999999999999999999999999999999988887 57899999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhc-CCceEEEEec
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHV 231 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vivl~~ 231 (640)
.++++++++++|++|++|+++++||....+.+.+.+++.|++|+....++.. ....+++++++++++ .++|+||+++
T Consensus 161 ~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~--~~~~d~~~~l~~l~~~~~a~viil~~ 238 (452)
T cd06362 161 QAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEKLAAERGICIAGSEKIPSS--ATEEEFDNIIRKLLSKPNARVVVLFC 238 (452)
T ss_pred HHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEEEEEEcCCC--CCHHHHHHHHHHHhhcCCCeEEEEEc
Confidence 9999999999999999999999999999999999999999999988777654 347899999999987 5799999999
Q ss_pred ChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHH-------------
Q 006567 232 SPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFL------------- 298 (640)
Q Consensus 232 ~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------------- 298 (640)
...++..++++|++.|++ .++.||+++.|...... .....+..+|++++.+.....+.+++|+
T Consensus 239 ~~~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~---~~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~~ 314 (452)
T cd06362 239 REDDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSV---VEGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNPW 314 (452)
T ss_pred ChHHHHHHHHHHHHcCCc-CceEEEEeccccccchh---hcccccccceEEEEEecccccccHHHHhhhCCcCcCCCChH
Confidence 999999999999999997 56899999887653211 1223456788888777665544444433
Q ss_pred --HHHhhhcC------CC----------------CCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCccccccCCCC
Q 006567 299 --SRWKNLTG------GS----------------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGN 354 (640)
Q Consensus 299 --~~~~~~~~------~~----------------~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (640)
+.|+..++ .. .....+++++||||+++|+||++++++++... .
T Consensus 315 ~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~-------------~ 381 (452)
T cd06362 315 FREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGT-------------T 381 (452)
T ss_pred HHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCC-------------C
Confidence 23333332 00 01234788999999999999999987653210 1
Q ss_pred cccCcccccCchHHHHHHHHhCccccccc-ceEEccCCCcccccEEEEEEec----ccEEEEEEEeCCCCC
Q 006567 355 LHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG----TGFRMIGYWSNYSGL 420 (640)
Q Consensus 355 ~~c~~~~~~~~g~~l~~~l~~~~f~g~tG-~v~Fd~~g~r~~~~~~I~~~~~----~~~~~vG~w~~~~~l 420 (640)
..|.... |.++..|.++|++++|.|++| .|.||++|+|. ..|+|++++. ..+++||.|++..||
T Consensus 382 ~~c~~~~-~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~~-~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 382 GLCDAMK-PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDGP-GRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CCCcCcc-CCCHHHHHHHHHhCCcCCCCCceEEECCCCCCC-CceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 1255433 456999999999999999998 79999999974 6999999984 358999999987664
No 10
>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=5.7e-46 Score=391.61 Aligned_cols=364 Identities=22% Similarity=0.373 Sum_probs=305.4
Q ss_pred eeEEEEEEeecCC-------------ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHh--
Q 006567 30 AVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-- 94 (640)
Q Consensus 30 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~-- 94 (640)
++|.||++||.|. ..|.+...|+.+|+|+||+++++|||++|++.++|+|+++..+++++.+++.
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 4699999999982 3477889999999999999999999999999999999999999998877772
Q ss_pred -----------------------cCcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchH
Q 006567 95 -----------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSY 150 (640)
Q Consensus 95 -----------------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~ 150 (640)
.+|.|||||.+|..+.++++++..++||+|+++++++.+++ ..|+++||+.|++..
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 HHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhc-CCceEEEE
Q 006567 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVL 229 (640)
Q Consensus 151 ~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vivl 229 (640)
+++|+++++++++|++|++||++++||....+.+++.+++.|+||+..+.++.. ....++..+++++++ .++|+||+
T Consensus 161 qa~ai~~ll~~~~W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~l~~~~~a~vVvl 238 (458)
T cd06375 161 QAKAMAEILRFFNWTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRS--ADRKSYDSVIRKLLQKPNARVVVL 238 (458)
T ss_pred HHHHHHHHHHHCCCeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CCHHHHHHHHHHHhccCCCEEEEE
Confidence 999999999999999999999999999999999999999999999988877654 446899999999875 68999999
Q ss_pred ecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHH---------
Q 006567 230 HVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSR--------- 300 (640)
Q Consensus 230 ~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~--------- 300 (640)
++...++..++++|+++|+. +.||+++.|...... ........+|++++.+.....+.+++|++.
T Consensus 239 ~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~---~~~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~n 312 (458)
T cd06375 239 FTRSEDARELLAAAKRLNAS---FTWVASDGWGAQESI---VKGSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTRN 312 (458)
T ss_pred ecChHHHHHHHHHHHHcCCc---EEEEEeccccccchh---hhccchhhceEEEEEeccccchhHHHHHHhCCcCcCCCC
Confidence 99999999999999999985 799999988643211 112335678999999988777777766544
Q ss_pred ------HhhhcC---C--C-----------------CCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCccccccCC
Q 006567 301 ------WKNLTG---G--S-----------------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEG 352 (640)
Q Consensus 301 ------~~~~~~---~--~-----------------~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~ 352 (640)
|+..++ . . ......+.++||||+++|+|||+++++++...
T Consensus 313 ~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~------------ 380 (458)
T cd06375 313 PWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNT------------ 380 (458)
T ss_pred cHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCC------------
Confidence 444443 0 0 01134688899999999999999997654311
Q ss_pred CCcccCcccccCchHHHH-HHHHhCccc-----cccc-ceEEccCCCcccccEEEEEEec--c--c--EEEEEEEeC
Q 006567 353 GNLHLGAMSIFDDGMLLL-GNILQSNLV-----GLTG-PLKFNSDRSLIHAAYDIINVIG--T--G--FRMIGYWSN 416 (640)
Q Consensus 353 ~~~~c~~~~~~~~g~~l~-~~l~~~~f~-----g~tG-~v~Fd~~g~r~~~~~~I~~~~~--~--~--~~~vG~w~~ 416 (640)
...|+.....+ +.++. .+|++++|. |.+| +|.||++|+. ...|+|+|++. + . +++||.|+.
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 12476655554 88999 599999999 9988 5999999994 67899999993 3 2 689999964
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=8.2e-46 Score=392.05 Aligned_cols=367 Identities=20% Similarity=0.291 Sum_probs=301.3
Q ss_pred eeEEEEEEeecCC----------------------ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHH
Q 006567 30 AVVNVGALFTLDS----------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMV 87 (640)
Q Consensus 30 ~~i~IG~l~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~ 87 (640)
++|.||++||.|. ..|.+...|+.+|+|+||++..+|||++|++.++|+||++..++.
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 4689999999872 125677899999999999999999999999999999999999999
Q ss_pred HHHHhHh--------------cCcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHH
Q 006567 88 EALRFME--------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (640)
Q Consensus 88 ~a~~l~~--------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~ 152 (640)
.+.+++. .+++|+|||.+|..+.++++++..++||+|+++++++.+++ ..|||+||+.|++..++
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 9998885 36999999999999999999999999999999998988987 57899999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~ 232 (640)
.|+++++++|+|++|++|+++++||....+.+.+.+++.|+||+..+.++........++..++++++++++|+||++++
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 99999999999999999999999999999999999999999999988887652122348899999999999999999999
Q ss_pred hhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHH------------
Q 006567 233 PSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSR------------ 300 (640)
Q Consensus 233 ~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~------------ 300 (640)
..++..++.++.+.+. .+++||+++.|...... .....+..+|++++++..+..+.+++|.++
T Consensus 241 ~~~~~~l~~~~~~~~~--~~~~wi~s~~w~~~~~~---~~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw~ 315 (469)
T cd06365 241 TDSLLEVSFRLWQYLL--IGKVWITTSQWDVTTSP---KDFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIFL 315 (469)
T ss_pred cHHHHHHHHHHHHhcc--CceEEEeeccccccccc---cccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccHH
Confidence 8888777666666554 46899999988654322 123446789999999998888888877655
Q ss_pred ---HhhhcC---------------CC------------CCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCcccccc
Q 006567 301 ---WKNLTG---------------GS------------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTM 350 (640)
Q Consensus 301 ---~~~~~~---------------~~------------~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~ 350 (640)
|+..++ .. ......+.++||||+++|+|||++++++...
T Consensus 316 ~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~----------- 384 (469)
T cd06365 316 EKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVET----------- 384 (469)
T ss_pred HhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccC-----------
Confidence 333322 00 0012356789999999999999999865421
Q ss_pred CCCCcccCcccccCchHHHHHHHHhCcccccccc-eEEccCCCcccccEEEEEEec--c---cEEEEEEEeC
Q 006567 351 EGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGP-LKFNSDRSLIHAAYDIINVIG--T---GFRMIGYWSN 416 (640)
Q Consensus 351 ~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~-v~Fd~~g~r~~~~~~I~~~~~--~---~~~~vG~w~~ 416 (640)
....+|.. ... ++.+|.++|++++|.|.+|. |.||+||++ ...|+|+|++. + .+++||.|+.
T Consensus 385 -~~~~~~~~-~~~-~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~ 452 (469)
T cd06365 385 -QSENNGKR-LIF-LPWQLHSFLKNIQFKNPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSP 452 (469)
T ss_pred -CCcCCCCC-CCc-cHHHHHHHHHhccccCCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeC
Confidence 01123432 223 37899999999999999995 999999995 67999999983 2 3699999985
No 12
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=2.8e-45 Score=389.38 Aligned_cols=366 Identities=23% Similarity=0.393 Sum_probs=296.4
Q ss_pred eeEEEEEEeecCC-------------ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHH----Hh
Q 006567 30 AVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEAL----RF 92 (640)
Q Consensus 30 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~----~l 92 (640)
++|+||++||.|. ..|.+...|+++|+|+||+++++|||++|+++++|+|+++..+.+.+. ++
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 4699999999981 256677899999999999999999999999999999987755444444 33
Q ss_pred Hh-------------------cCcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHH
Q 006567 93 ME-------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (640)
Q Consensus 93 ~~-------------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~ 152 (640)
+. ++|.|||||.+|..+.++++++..++||+|+++++++.+++ ..|+++||+.|++..++
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 37999999999999999999999999999999999998987 56899999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhc-CCceEEEEe
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLH 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vivl~ 230 (640)
+++++++++++|++|++||++++||....+.+.+.+++. +++|.....++.. ....+++.+++++++ .++|+||+.
T Consensus 161 ~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~--~~~~d~~~~l~~ik~~~~~~vIvl~ 238 (463)
T cd06376 161 QAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQISREAGGVCIAQSIKIPRE--PRPGEFDKIIKRLLETPNARAVIIF 238 (463)
T ss_pred HHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHHHHHHcCCceEEEEEecCCC--CCHHHHHHHHHHHhccCCCeEEEEe
Confidence 999999999999999999999999999999999999887 4788765555443 447899999999987 699999999
Q ss_pred cChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHH-----------
Q 006567 231 VSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLS----------- 299 (640)
Q Consensus 231 ~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~----------- 299 (640)
+...++..++++|+++|+.+ .|+||+++.|....... ........|.+++.+.....+.+++|..
T Consensus 239 ~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~---~~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~~ 314 (463)
T cd06376 239 ANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPI---LQQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRNV 314 (463)
T ss_pred cChHHHHHHHHHHHhcCCcC-ceEEEEecccccccccc---ccCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCCc
Confidence 99999999999999999874 69999999886543221 1123467899999887776666666544
Q ss_pred ----HHhhhcCC-----CC---------------------CCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCccccc
Q 006567 300 ----RWKNLTGG-----SL---------------------GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKT 349 (640)
Q Consensus 300 ----~~~~~~~~-----~~---------------------~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~ 349 (640)
.|+..++. .. .....++++||||+++|+|||+++++++..
T Consensus 315 ~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~---------- 384 (463)
T cd06376 315 WFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPG---------- 384 (463)
T ss_pred HHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCC----------
Confidence 56554320 00 011267899999999999999998654321
Q ss_pred cCCCCcccCcccccCchHHHHHHHHhCccccccc-ceEEccCCCcccccEEEEEEec-----ccEEEEEEEeC
Q 006567 350 MEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG-----TGFRMIGYWSN 416 (640)
Q Consensus 350 ~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG-~v~Fd~~g~r~~~~~~I~~~~~-----~~~~~vG~w~~ 416 (640)
....|.... |.++..|.++|++++|+|.+| +|.||++|++ ...|+|.+++. .++++||.|++
T Consensus 385 ---~~~~C~~~~-~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~-~~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 385 ---YTGVCPEME-PADGKKLLKYIRAVNFNGSAGTPVMFNENGDA-PGRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred ---CCCCCccCC-CCCHHHHHHHHHhCCccCCCCCeEEeCCCCCC-CCceEEEEEEecCCCceeEEEEEEECC
Confidence 112465543 446999999999999999999 6999999996 46799999883 35799999975
No 13
>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=4.1e-45 Score=373.92 Aligned_cols=361 Identities=17% Similarity=0.216 Sum_probs=290.5
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCC-CcEEEEEEccC-CCChHHHHHHHHHhHhcCcEEEEcCCChHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILH-GTKLNITMQSS-NCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-g~~i~~~~~D~-~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~ 110 (640)
+||+||+..+ .+.+.||++|++.+|.+...+. +.+|..++... ..|++.+.+++|+++++||.||+||.++..+.
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 4899999754 3468999999999998864433 35777765544 35899999999999999999999999999999
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhh
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE 190 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~ 190 (640)
+++++|+..+||+|+++.. +...+.+.+++.|+ +..++++++++++|++|+++|+++ ++...++.|.+.+++
T Consensus 78 ~v~~i~~~~~IP~I~~~~~----~~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd~~-~~~~~lq~l~~~~~~ 149 (371)
T cd06388 78 TLTSFCSALHISLITPSFP----TEGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYDTD-RGYSILQAIMEKAGQ 149 (371)
T ss_pred HHHHHhhCCCCCeeecCcc----ccCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEecCC-ccHHHHHHHHHhhHh
Confidence 9999999999999987543 12334555666666 468888899999999999999533 455678899999999
Q ss_pred cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCC
Q 006567 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASL 270 (640)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~ 270 (640)
.|++|........+ ..+++.+|++++..++++||+.|+.+.+..++++|+++||+.++|+||+++......+.
T Consensus 150 ~g~~v~~~~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l--- 222 (371)
T cd06388 150 NGWQVSAICVENFN----DASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISL--- 222 (371)
T ss_pred cCCeeeeEEeccCC----cHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccccH---
Confidence 99998865544332 56999999999999999999999999999999999999999999999998753222111
Q ss_pred ChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcC-----CCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCc
Q 006567 271 PSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG-----GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (640)
Q Consensus 271 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~-----~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (640)
.+++....++.+++...+.++..++|.++|++.+. .+..++.+++++||||+++++|++++.......+
T Consensus 223 -~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~----- 296 (371)
T cd06388 223 -ERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSESPPKYTSALTYDGVLVMAEAFRNLRRQKIDIS----- 296 (371)
T ss_pred -HHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCCCCccchHHHHHHHHHHHHHHHHHHHhcCCCcc-----
Confidence 22233445588899888888889999999976542 1135778999999999999999998754322211
Q ss_pred cccccCCCCcccC--cccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEeCCCCCC
Q 006567 346 RLKTMEGGNLHLG--AMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (640)
Q Consensus 346 ~~~~~~~~~~~c~--~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~~~l~ 421 (640)
..+....|. ...+|++|..|+++|++++|+|+||+++||++|+|.++.++|++++.+++++||+|++..||+
T Consensus 297 ----~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~~~~g~~ 370 (371)
T cd06388 297 ----RRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWNDMDKLV 370 (371)
T ss_pred ----cCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEcCCCCcc
Confidence 012233563 356899999999999999999999999999999999999999999999999999999988864
No 14
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=100.00 E-value=4.6e-45 Score=378.60 Aligned_cols=337 Identities=25% Similarity=0.349 Sum_probs=275.7
Q ss_pred CCeeEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHH-HhHhcCcEEEEc-CC-
Q 006567 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEAL-RFMETDIVAIIG-PQ- 104 (640)
Q Consensus 28 ~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~-~l~~~~v~aiiG-p~- 104 (640)
.+.+|+||+++|.+ ..+.|+++|++++|++.+.+++.+++....+..+++..+...+| +|++++|.||+| +.
T Consensus 16 ~~~~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~~V~aii~~~~~ 90 (377)
T cd06379 16 SPKTVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLISNQVYAVIVSHPP 90 (377)
T ss_pred CCcEEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhhcceEEEEEeCCC
Confidence 35789999999843 57999999999999965433343333322222346666555666 577889999974 33
Q ss_pred ChH---HHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCccc
Q 006567 105 CST---VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG 180 (640)
Q Consensus 105 ~s~---~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~ 180 (640)
++. .+.+++.+++.++||+|+++++++.+++ ..|+++||+.|++..+++++++++++++|++|++||++++||...
T Consensus 91 ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~ 170 (377)
T cd06379 91 TSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEGRAA 170 (377)
T ss_pred CCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcchhHH
Confidence 332 4667888999999999999888888877 458999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhcCe----EEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 181 VSALNDKLAERRC----RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 181 ~~~~~~~~~~~g~----~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
.+.+++.+++.|+ ++.....++++ ..+++.+++++++.++|+|+++++..++..++++|+++||++++|+||
T Consensus 171 ~~~~~~~~~~~g~~~~~~v~~~~~~~~~----~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~~~wi 246 (377)
T cd06379 171 QKRFETLLEEREIEFKIKVEKVVEFEPG----EKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEGYVWI 246 (377)
T ss_pred HHHHHHHHHhcCCccceeeeEEEecCCc----hhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 9999999999999 88877777655 689999999999999999999999999999999999999999899999
Q ss_pred EeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcC
Q 006567 257 ATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (640)
Q Consensus 257 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~ 336 (640)
+++.+... .....|++++++..+ ..+++++||||+++|+|++++.+..
T Consensus 247 ~t~~~~~~----------~~~~~g~~g~~~~~~----------------------~~~~~~~yDAV~~~A~Al~~~~~~~ 294 (377)
T cd06379 247 VSEQAGAA----------RNAPDGVLGLQLING----------------------KNESSHIRDAVAVLASAIQELFEKE 294 (377)
T ss_pred Eecccccc----------ccCCCceEEEEECCC----------------------CCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 99876321 134578889887542 1246789999999999999987632
Q ss_pred CcccccCCccccccCCCCcccCcc-cccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEe
Q 006567 337 GKISFSNDSRLKTMEGGNLHLGAM-SIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWS 415 (640)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~c~~~-~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~ 415 (640)
. . ......|... .+|.+|..+.++|++++|+|+||+|.||++|+|....|+|+++++.++++||.|+
T Consensus 295 ~-~-----------~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG~w~ 362 (377)
T cd06379 295 N-I-----------TEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVGLYN 362 (377)
T ss_pred C-C-----------CCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEeeEEc
Confidence 1 1 1122345543 3688899999999999999999999999999998899999999999999999998
Q ss_pred CC
Q 006567 416 NY 417 (640)
Q Consensus 416 ~~ 417 (640)
+.
T Consensus 363 ~~ 364 (377)
T cd06379 363 GD 364 (377)
T ss_pred Cc
Confidence 64
No 15
>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=4.9e-45 Score=378.03 Aligned_cols=346 Identities=23% Similarity=0.348 Sum_probs=290.5
Q ss_pred EEEEeecCCc---------------------cchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHh
Q 006567 34 VGALFTLDST---------------------IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRF 92 (640)
Q Consensus 34 IG~l~~~~~~---------------------~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l 92 (640)
||++||.|.. .|.+...|+.+|+|+||+++ +|||++|+++++|+|+++..|+.++.++
T Consensus 2 lgglf~vh~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~l 80 (403)
T cd06361 2 IGGLFAIHEAMLSVEDTPSRPQIQECVGFEIKGFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLRF 80 (403)
T ss_pred EEEEEECcccccccccccCCCCCCcccccChhHHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHHH
Confidence 7888888742 26678899999999999999 5689999999999999999999999999
Q ss_pred Hhc-------------------CcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHH
Q 006567 93 MET-------------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (640)
Q Consensus 93 ~~~-------------------~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~ 152 (640)
+++ +|.|||||.+|..+.++++++..++||+|+++++++.+++ ..|||+||+.|++..++
T Consensus 81 i~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa 160 (403)
T cd06361 81 LSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQT 160 (403)
T ss_pred HhhcccccccccccccCCCCCCCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHH
Confidence 873 7999999999999999999999999999999999999997 67899999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCC---hhHHHHHHHHHhcCCceEEEE
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVN---TGYVMDLLVKVALMESRVIVL 229 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~---~~~~~~~l~~l~~~~~~vivl 229 (640)
+++++++++++|++|++|+++++||+...+.|++.+++.|+||+..+.++...... ..++..+++.++++++|+||+
T Consensus 161 ~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv 240 (403)
T cd06361 161 KAMAHLIKKSGWNWVGIIITDDDYGRSALETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVV 240 (403)
T ss_pred HHHHHHHHHcCCcEEEEEEecCchHHHHHHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEE
Confidence 99999999999999999999999999999999999999999999888887642111 156667777788999999999
Q ss_pred ecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCC
Q 006567 230 HVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSL 309 (640)
Q Consensus 230 ~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 309 (640)
.+...++..++++|+++|+ +++||+++.|...... ..........|.+++.+..+..+.+.+| +++.+
T Consensus 241 ~~~~~~~~~l~~~a~~~g~---~~~wigs~~w~~~~~~--~~~~~~~~~~g~ig~~~~~~~~~~F~~~---~~~~~---- 308 (403)
T cd06361 241 FARQFHVFLLFNKAIERNI---NKVWIASDNWSTAKKI--LTDPNVKKIGKVVGFTFKSGNISSFHQF---LKNLL---- 308 (403)
T ss_pred EeChHHHHHHHHHHHHhCC---CeEEEEECcccCcccc--ccCCcccccceEEEEEecCCccchHHHH---HHHhh----
Confidence 9999999999999999998 5899999998753222 1112224677888988876555555444 44332
Q ss_pred CCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEcc
Q 006567 310 GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS 389 (640)
Q Consensus 310 ~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~ 389 (640)
..++||||+++|+||+++..++ .|...... ++..|+++|++++|.|.+|++.||+
T Consensus 309 -----~~~v~~AVyaiA~Al~~~~~~~-------------------~c~~~~~~-~~~~l~~~L~~~~f~g~~~~v~Fd~ 363 (403)
T cd06361 309 -----IHSIQLAVFALAHAIRDLCQER-------------------QCQNPNAF-QPWELLGQLKNVTFEDGGNMYHFDA 363 (403)
T ss_pred -----HHHHHHHHHHHHHHHHHhccCC-------------------CCCCCCCc-CHHHHHHHHheeEEecCCceEEECC
Confidence 3468999999999999864321 25443333 4889999999999999988999999
Q ss_pred CCCcccccEEEEEEecc----cEEEEEEEeCCC
Q 006567 390 DRSLIHAAYDIINVIGT----GFRMIGYWSNYS 418 (640)
Q Consensus 390 ~g~r~~~~~~I~~~~~~----~~~~vG~w~~~~ 418 (640)
+|+. ...|+|.+++++ .+++||.|++.+
T Consensus 364 ~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~ 395 (403)
T cd06361 364 NGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQN 395 (403)
T ss_pred CCCC-CcceEEEEeEecCCcEEEEEEEEEeCCC
Confidence 9995 678999999963 269999999865
No 16
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=3.8e-45 Score=375.25 Aligned_cols=360 Identities=17% Similarity=0.245 Sum_probs=293.0
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEcc-CCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQS-SNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D-~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
+||+||+... .+.+.||++|++.+|.. +.+|...+.. ...|++.+.+++|+++++||.||+||.++..+.+
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~-----~~~l~~~~~~~~~~dsf~~~~~~C~~~~~GV~AI~Gp~ss~~~~~ 72 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTS-----EFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNT 72 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhccc-----CceeeeeeEEecccchHHHHHHHHHHhhcCcEEEEecCCHHHHHH
Confidence 4899999765 35689999999999985 3567665443 3458999999999999999999999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhc
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~ 191 (640)
++++|+..+||+|++.++. +..+.+.+++.|+ ...++++++++++|++|++||+ +++|...++.+.+.+++.
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 9999999999999875442 2356788899988 5799999999999999999997 559999999999999999
Q ss_pred CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCC
Q 006567 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLP 271 (640)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~ 271 (640)
|++|...............+++.+|++++..++++||+.|+.+++..++++|+++||+.+.|+||+++......+.
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 9887643321111112366999999999999999999999999999999999999999999999998753222211
Q ss_pred hhhhhhccceEEEEEccCCchhHHHHHHHHhh----hcCC--CCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCc
Q 006567 272 SETLESMQGVLVLRQHIPESDRKKNFLSRWKN----LTGG--SLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (640)
Q Consensus 272 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----~~~~--~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (640)
........++.+++...+.++..++|.++|++ .+++ ...++..++++||||+++++|++++...+....
T Consensus 221 ~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~----- 295 (370)
T cd06389 221 SKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEIS----- 295 (370)
T ss_pred hhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc-----
Confidence 11222345688888888888899999999986 4421 245778999999999999999999855433221
Q ss_pred cccccCCCCcccCc--ccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEeCCCCCC
Q 006567 346 RLKTMEGGNLHLGA--MSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (640)
Q Consensus 346 ~~~~~~~~~~~c~~--~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~~~l~ 421 (640)
..++...|.. ..+|++|..|+++|++++|+|+||+++||++|+|.++.++|++++.+++++||.|++..|++
T Consensus 296 ----~~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~~ 369 (370)
T cd06389 296 ----RRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKMV 369 (370)
T ss_pred ----cCCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCcc
Confidence 1122335643 56899999999999999999999999999999999999999999999999999999988763
No 17
>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=1.2e-44 Score=385.46 Aligned_cols=373 Identities=20% Similarity=0.311 Sum_probs=305.6
Q ss_pred CCCeeEEEEEEeecCC----------------------ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHH
Q 006567 27 ARPAVVNVGALFTLDS----------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFI 84 (640)
Q Consensus 27 ~~~~~i~IG~l~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~ 84 (640)
..+++|.||++||.|. ..|.+...|+.+|+|+||+++++||+++|++.++|+|+++..
T Consensus 8 ~~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~ 87 (510)
T cd06364 8 QKKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSK 87 (510)
T ss_pred eecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHH
Confidence 4578899999999984 236788999999999999999999999999999999999999
Q ss_pred HHHHHHHhHhc-------------------CcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEe
Q 006567 85 GMVEALRFMET-------------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRT 144 (640)
Q Consensus 85 a~~~a~~l~~~-------------------~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~ 144 (640)
|++++.+++.+ +|.|||||.+|..+.++++++..++||+|+++++++.+++ ..|+++||+
T Consensus 88 a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt 167 (510)
T cd06364 88 ALEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRT 167 (510)
T ss_pred HHHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeEc
Confidence 99999999754 2469999999999999999999999999999999888887 579999999
Q ss_pred cCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCc
Q 006567 145 TQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMES 224 (640)
Q Consensus 145 ~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~ 224 (640)
.|++..+++++++++++++|++|++|+.|++||+...+.+++.+++.|+||+..+.++.. ....++.+++.+++++++
T Consensus 168 ~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~--~~~~d~~~~l~klk~~~a 245 (510)
T cd06364 168 IPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQY--SDEEEIQRVVEVIQNSTA 245 (510)
T ss_pred CCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCC--CCHHHHHHHHHHHHhcCC
Confidence 999999999999999999999999999999999999999999999999999988777653 347799999999999999
Q ss_pred eEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHH----
Q 006567 225 RVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSR---- 300 (640)
Q Consensus 225 ~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~---- 300 (640)
|+||+++...++..++++|+++|+. +++||+++.|...... ......+...|.+++.+.....+.+++|++.
T Consensus 246 ~vVvl~~~~~~~~~ll~qa~~~g~~--~~iwI~s~~w~~~~~~--~~~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p~ 321 (510)
T cd06364 246 KVIVVFSSGPDLEPLIKEIVRRNIT--GKIWLASEAWASSSLI--AMPEYFDVMGGTIGFALKAGQIPGFREFLQKVHPK 321 (510)
T ss_pred eEEEEEeCcHHHHHHHHHHHHhCCC--CcEEEEEchhhccccc--ccCCccceeeEEEEEEECCCcCccHHHHHHhCCcc
Confidence 9999999999999999999999986 4699999988653222 1123446788888988876655555544433
Q ss_pred -----------HhhhcC---CC---C------------------------C--------------------CCchhhhhh
Q 006567 301 -----------WKNLTG---GS---L------------------------G--------------------MNSYGLYAY 319 (640)
Q Consensus 301 -----------~~~~~~---~~---~------------------------~--------------------~~~~~~~~y 319 (640)
|+..++ .. . . ...++.++|
T Consensus 322 ~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~ 401 (510)
T cd06364 322 KSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVY 401 (510)
T ss_pred cCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHH
Confidence 343332 00 0 0 112356799
Q ss_pred hHHHHHHHHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCccccccc-ceEEccCCCcccccE
Q 006567 320 DSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAY 398 (640)
Q Consensus 320 Dav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG-~v~Fd~~g~r~~~~~ 398 (640)
|||+++|+|||+++.+..... ......|+.....+ +.+|+++|++++|.|.+| +|.||++|+. ...|
T Consensus 402 ~AVyAvAhaLh~~~~c~~~~~----------~~~~~~c~~~~~~~-~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~Y 469 (510)
T cd06364 402 LAVYSIAHALQDIYTCTPGKG----------LFTNGSCADIKKVE-AWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGNY 469 (510)
T ss_pred HHHHHHHHHHHHHhcCCCCCC----------CccCCCCCCCCCCC-HHHHHHHHHhcEEecCCCCEEEEecCCCC-ccce
Confidence 999999999999987542110 00112476644443 889999999999999998 5999999995 6799
Q ss_pred EEEEEec---c---cEEEEEEEeCC
Q 006567 399 DIINVIG---T---GFRMIGYWSNY 417 (640)
Q Consensus 399 ~I~~~~~---~---~~~~vG~w~~~ 417 (640)
+|+|++. + .+++||.|++.
T Consensus 470 dI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 470 SIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred eEEEeeecCCCCcEEEEEEEEEcCC
Confidence 9999994 1 26899999863
No 18
>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=9.2e-45 Score=373.33 Aligned_cols=365 Identities=22% Similarity=0.340 Sum_probs=289.8
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEE--EEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNI--TMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~--~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~ 110 (640)
+||+||+.++..+ +.|+++|++++|++..+|++.+|++ ...|++ ++..+..++|+++++||.||+||.++..+.
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 4899999987543 6799999999999998999985554 788885 999999999999999999999998888888
Q ss_pred HHHHhhccCCceEEec----ccCC-----CCCCC--CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcc
Q 006567 111 IVSYVSNELQVPLLSF----GVTD-----PTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRN 179 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~----~~~~-----~~l~~--~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~ 179 (640)
.++++|+.++||+|++ .+++ +.+++ ..|++++| |+ ..+.+|+++++++|+|++++++| ++++|..
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 23333 35666666 54 67889999999999999999865 5668888
Q ss_pred cHHHHHHHHhhcCeEEEEeeccCCCCC-CChhHHHH-HHHHHhc--CCceEEEEecChhhHHHHHHHHHHcCCccCCeEE
Q 006567 180 GVSALNDKLAERRCRISYKSGIPPESG-VNTGYVMD-LLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (640)
Q Consensus 180 ~~~~~~~~~~~~g~~v~~~~~~~~~~~-~~~~~~~~-~l~~l~~--~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~ 255 (640)
.++.+.+.+++.++||..... ..... .....++. .++++++ ...++||++|+.+.+..+|++|+++||++.+|+|
T Consensus 153 ~l~~l~~~~~~~~i~I~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y~w 231 (400)
T cd06391 153 GIQEFLDKVSQQGMDVALQKV-ENNINKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLVAFDCHW 231 (400)
T ss_pred HHHHHHHHHHHcCCeEEEEec-CcchhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCCCCCeEE
Confidence 899999999999999987442 21100 00112332 4556665 6679999999999999999999999999999999
Q ss_pred EEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCC---------CCCCCchhhhhhhHHHHHH
Q 006567 256 IATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG---------SLGMNSYGLYAYDSVWLLA 326 (640)
Q Consensus 256 i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~~~~~~~~~~~yDav~~~a 326 (640)
|++++.....|.. ........|+.+++++.|.+...++|..+|+.+++. ...++.+++++||||+++|
T Consensus 232 i~t~~~~~~~dl~---~~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDaV~~~A 308 (400)
T cd06391 232 IIINEEISDMDVQ---ELVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDTVLLLA 308 (400)
T ss_pred EEeCccccccccc---hHHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHHHHHHH
Confidence 9999887776651 112234567778888888878888888888765421 1135688999999999999
Q ss_pred HHHHHHhhcCCcccccCCccccccCCCCcccCc--ccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEe
Q 006567 327 HAIESFFNQGGKISFSNDSRLKTMEGGNLHLGA--MSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (640)
Q Consensus 327 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~--~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~ 404 (640)
+|++++...+... ....+.|.. ..+|+.|..|+++|++++|+|+||++.|+++|+|.++.|+|+|+.
T Consensus 309 ~A~~~l~~~~~~~-----------~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~~ 377 (400)
T cd06391 309 NAFHKKLEDRKWH-----------SMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGTN 377 (400)
T ss_pred HHHHHHHhhcccc-----------CCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEee
Confidence 9999876433221 123345643 458999999999999999999999999999999999999999996
Q ss_pred -----cccEEEEEEEeCCCCC
Q 006567 405 -----GTGFRMIGYWSNYSGL 420 (640)
Q Consensus 405 -----~~~~~~vG~w~~~~~l 420 (640)
+.++++||+|++..|+
T Consensus 378 ~~~~~~~g~rkiG~Ws~~~gl 398 (400)
T cd06391 378 YGEDLGRGVRKLGCWNPITGL 398 (400)
T ss_pred ccccCCCcceEEEEEcCCcCC
Confidence 7889999999998875
No 19
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=100.00 E-value=4.9e-45 Score=376.67 Aligned_cols=339 Identities=21% Similarity=0.273 Sum_probs=291.0
Q ss_pred eEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH-
Q 006567 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV- 108 (640)
Q Consensus 31 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~- 108 (640)
.|+||+++|.+. .+.+++.|+..+|.+..+..+++++++..|+.++|..++.++|+++.+ +|.+|+||.++..
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 368888899988887755568999999999999999999999998865 7889999999988
Q ss_pred --HHHHHHhhccCCceEEecccCCCCC-CC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHH
Q 006567 109 --AHIVSYVSNELQVPLLSFGVTDPTL-SS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSAL 184 (640)
Q Consensus 109 --~~~v~~~~~~~~iP~is~~~~~~~l-~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~ 184 (640)
+.+++++++.++||+|+++++++.+ ++ ..|+++||+.|++..+++++++++++++|++|++||+++++|++..+.+
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 8999999999999999999888888 76 6789999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcCeE--EEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccc
Q 006567 185 NDKLAERRCR--ISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (640)
Q Consensus 185 ~~~~~~~g~~--v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~ 262 (640)
++.+++.|++ +.....+++. ...++...+.++++.++|+||++|+..++..++++|+++||+.++|+||+++.+.
T Consensus 157 ~~~l~~~g~~~~i~~~~~~~~~---~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~~ 233 (362)
T cd06367 157 ETTLEESFVGWEFQLVLTLDLS---DDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELAL 233 (362)
T ss_pred HHHHHhcccceeeeeeEEeccC---CCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcccc
Confidence 9999999988 7666666554 1227888999999999999999999999999999999999999999999999875
Q ss_pred cccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCccccc
Q 006567 263 YMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (640)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 342 (640)
... ........|++++++... ..+.+++||||+++++|++++++++...
T Consensus 234 ~~~------~~~~~~~~G~~g~~~~~~----------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~~--- 282 (362)
T cd06367 234 GSG------LAPEGLPVGLLGVGLDTW----------------------YSLEARVRDAVAIVARAAESLLRDKGAL--- 282 (362)
T ss_pred ccc------CCccCCCCeeEEEEeccc----------------------ccHHHHHHHHHHHHHHHHHHHHHhcCCC---
Confidence 421 122345678999987532 2356889999999999999997753321
Q ss_pred CCccccccCCCCcccCccc--ccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEe-cccEEEEEEEeC
Q 006567 343 NDSRLKTMEGGNLHLGAMS--IFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGYWSN 416 (640)
Q Consensus 343 ~~~~~~~~~~~~~~c~~~~--~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~-~~~~~~vG~w~~ 416 (640)
..+...|.... .|.+|..|.++|++++|.|.+|+|.||++|+|.++.|+|++++ +.+|++||.|++
T Consensus 283 --------~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 283 --------PEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred --------CCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEcC
Confidence 12334576653 2788999999999999999999999999999988999999999 789999999975
No 20
>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=2.8e-44 Score=373.83 Aligned_cols=370 Identities=20% Similarity=0.283 Sum_probs=296.7
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCC-CChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~-~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
+||+||+.+. ...+.|+++|++++|.+...+++.+|.+.+.++. +|+..+.+++|++++++|.|||||.+|..+.+
T Consensus 1 ~iG~if~~~~---~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~ 77 (382)
T cd06380 1 PIGGLFDVDE---DQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSRGVFAIFGSYDKSSVNT 77 (382)
T ss_pred CceeEECCCC---hHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhcCcEEEEecCcHHHHHH
Confidence 4899999983 6789999999999999876667888887777665 79999999999999999999999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhc
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~ 191 (640)
++++|+.++||+|+++++.+.++ ..++|+||+.|+. ..++++++++++|++|++||++++ |...++.+.+.+++.
T Consensus 78 ~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~~ 152 (382)
T cd06380 78 LTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLREK 152 (382)
T ss_pred HHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhcc
Confidence 99999999999999988887774 3568999998863 468999999999999999997664 566777888888888
Q ss_pred C--eEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCC
Q 006567 192 R--CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (640)
Q Consensus 192 g--~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~ 269 (640)
| +.+.... +... ....|++.+|+++++.++|+||+.++..++..++++|+++||..++|+||+++......+.
T Consensus 153 g~~i~v~~~~-~~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~~~~-- 227 (382)
T cd06380 153 DNKWQVTARR-VDNV--TDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDDIDL-- 227 (382)
T ss_pred CCceEEEEEE-ecCC--CcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCcccccH--
Confidence 8 6665432 3221 2357999999999999999999999999999999999999999999999998754332221
Q ss_pred CChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCC------CCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccC
Q 006567 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG------SLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (640)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 343 (640)
........++.+++...+..+.+++|.++|++.++. ...++.+++++||||+++++|++++.+.+.......
T Consensus 228 --~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~~ 305 (382)
T cd06380 228 --SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHRI 305 (382)
T ss_pred --HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhcccccccc
Confidence 111222334667776666778899999999987731 123667899999999999999999875442110000
Q ss_pred CccccccCCCCcccCc--ccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEeCCCCC
Q 006567 344 DSRLKTMEGGNLHLGA--MSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (640)
Q Consensus 344 ~~~~~~~~~~~~~c~~--~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~~~l 420 (640)
.. ........|.. ..+|.+|..|+++|++++|+|+||++.||++|+|.+..++|++++++++++||+|++..|+
T Consensus 306 -~~--~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 306 -DI--SRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNEDDGL 381 (382)
T ss_pred -cc--ccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCCcCc
Confidence 00 01123344643 4578899999999999999999999999999999889999999999999999999998764
No 21
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=100.00 E-value=9.3e-44 Score=368.71 Aligned_cols=351 Identities=16% Similarity=0.248 Sum_probs=286.8
Q ss_pred EEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 35 GALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 35 G~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
=+|+|.+. ......+.|+++|+|+||+++++++|++|+++++|++|++..+...+..+.+++|.|||||.|+..+.+
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 35677552 234677999999999999999988999999999999999877777777666779999999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCC--CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCccc---HHHHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG---VSALND 186 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~--~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~---~~~~~~ 186 (640)
++++++.++||+|+++++++.+++ ..||+++|+.|++..++.++++++++|+|++|++||+++++++.. ++.+.+
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 999999999999999888888876 358899999999999999999999999999999999999898876 889999
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccC
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (640)
.+++.|++|.....++.. ..++..+++++++.+ |+||++++.+.++.++++|+++||+..+|+||..+...+...
T Consensus 163 ~~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~ 237 (387)
T cd06386 163 VFQEEGYHMSIYPFDETK----DLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSY 237 (387)
T ss_pred HHHhcCceEEEEecCCCC----cccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEeccccccc
Confidence 999999999876554433 578999999999987 999999999999999999999999999999999975531110
Q ss_pred C-------CCCCh---hhhhhccceEEEEEccCCchhHHHHHHHHhhhcC--C----CCCCCchhhhhhhHHHHHHHHHH
Q 006567 267 S-------ASLPS---ETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG--G----SLGMNSYGLYAYDSVWLLAHAIE 330 (640)
Q Consensus 267 ~-------~~~~~---~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~--~----~~~~~~~~~~~yDav~~~a~Al~ 330 (640)
. +..+. ...+...|+..++ +.++.+++|.+++++++. + ...++.+++.+|||++++|+|++
T Consensus 238 ~~~~w~~~~~~~~~~~~a~~~~~~v~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~A~Al~ 314 (387)
T cd06386 238 GDGSWKRGDKHDFEAKQAYSSLNTVTLLR---TVKPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLYALALH 314 (387)
T ss_pred CCCCCccCCCcCHHHHHHHHhheEEeccC---CCChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHHHHHHH
Confidence 0 00121 1223344444443 445678888888874332 1 12244789999999999999999
Q ss_pred HHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEec---cc
Q 006567 331 SFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIG---TG 407 (640)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~---~~ 407 (640)
++++.+.. +.+|..|+++|++++|+|+||.+.||++|+|. ..|.|+.+++ ++
T Consensus 315 ~~~~~g~~------------------------~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~ 369 (387)
T cd06386 315 EVLKNGYS------------------------KKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGT 369 (387)
T ss_pred HHhhCCCC------------------------CCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCcc
Confidence 98765421 34699999999999999999999999999984 6999999964 67
Q ss_pred EEEEEEEeCCC
Q 006567 408 FRMIGYWSNYS 418 (640)
Q Consensus 408 ~~~vG~w~~~~ 418 (640)
++.||.|....
T Consensus 370 ~~~~~~~~~~~ 380 (387)
T cd06386 370 YEVVGNYFGKN 380 (387)
T ss_pred EEEEeEEcccc
Confidence 89999998543
No 22
>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=2.7e-43 Score=362.58 Aligned_cols=337 Identities=47% Similarity=0.809 Sum_probs=298.6
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~~~ 110 (640)
+||+++|++ +..|.....|+++|+++||+++++++|++|+++++|++|+|..+++++++|+.+ +|.+|+||.++..+.
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 778899999999999999999876689999999999999999999999999987 999999999999999
Q ss_pred HHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHh
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~ 189 (640)
++++++..++||+|+++++++.+++ ..++++||+.|++..++.++++++++++|+++++|++++++|....+.+++.++
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 9999999999999999888888855 568999999999999999999999999999999999999999999999999999
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCC--
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS-- 267 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~-- 267 (640)
+.|++|.....++.. .+..++.++++++++.++|+|++++...++..++++++++|+....|+|++++.+....+.
T Consensus 161 ~~g~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 238 (350)
T cd06366 161 EAGIEISYRAAFPPS--ANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGYVWILTDWLSSNWWSSS 238 (350)
T ss_pred HcCCEEEEEeccCCC--CChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCEEEEECcchhhhhccCC
Confidence 999999988888764 3368999999999999999999999999999999999999998888999998765432210
Q ss_pred CCCChhhhhhccceEEEEEccCC-chhHHHHHHHHhhhcCCC----CCCCchhhhhhhHHHHHHHHHHHHhhcCCccccc
Q 006567 268 ASLPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGS----LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (640)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~----~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 342 (640)
............|++++.++.+. .+.+++|.++|+++++.. ..++.++++.|||+++
T Consensus 239 ~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~p~~~a~~~YDav~~------------------ 300 (350)
T cd06366 239 DCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPELTEPSIYALYAYDAVWA------------------ 300 (350)
T ss_pred CCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcCcCCCCcccchhhhheee------------------
Confidence 11223445678899999988877 778999999999988311 1578899999999998
Q ss_pred CCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEeCCCCCC
Q 006567 343 NDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (640)
Q Consensus 343 ~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~~~l~ 421 (640)
+.+|.|++|+++||++|++.+..|+++++.++++++||+|++..|++
T Consensus 301 --------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~ 347 (350)
T cd06366 301 --------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLS 347 (350)
T ss_pred --------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCcc
Confidence 12688999999999999988899999999999999999999887764
No 23
>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=6.4e-43 Score=366.17 Aligned_cols=356 Identities=21% Similarity=0.284 Sum_probs=287.1
Q ss_pred EEEEEeecCCc---cc-hHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHH-----HHHHHh-HhcCcEEEEc
Q 006567 33 NVGALFTLDST---IG-RVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGM-----VEALRF-METDIVAIIG 102 (640)
Q Consensus 33 ~IG~l~~~~~~---~g-~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~-----~~a~~l-~~~~v~aiiG 102 (640)
+||+++|++.. .+ .....|+++|+|+||+++++|+|++|++++.|+++++..+. ..+.++ ..++|.+|||
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 58999998743 44 67789999999999999999999999999999876554322 223322 3469999999
Q ss_pred CCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEE-EEEcCC-CCcc
Q 006567 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSV-IFVDNE-YGRN 179 (640)
Q Consensus 103 p~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~i-i~~~~~-~g~~ 179 (640)
|.||..+.+++++++.++||+|+++++++.+++ ..|+++||+.|++..++.++++++++++|+++++ +|.++. +++.
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 999999999999999999999999999888887 6799999999999999999999999999999985 565443 3333
Q ss_pred ---cHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 180 ---GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 180 ---~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
..+.+.+.+++.|++|......+. +..+++.++++++... |+||++++...++.++++|.++||+.+.|+||
T Consensus 161 ~~~~~~~l~~~~~~~gi~v~~~~~~~~----~~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i 235 (405)
T cd06385 161 CYFAMEGLYMELKKNNITVVDLVFEED----DLINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREGLPSEDYVFF 235 (405)
T ss_pred hHHHHHHHHHHHHhCCeEEEEeeccCC----chhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 457888899999999987653322 2678999999998764 99999999999999999999999999999999
Q ss_pred EeCccccccCC----------CCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhh----cCCC---CCCCchhhhhh
Q 006567 257 ATDWLAYMLDS----------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TGGS---LGMNSYGLYAY 319 (640)
Q Consensus 257 ~~~~~~~~~~~----------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~---~~~~~~~~~~y 319 (640)
+++.+....+. +..+......+++++......+.++.+++|.++|+++ ++.. ..++.+++++|
T Consensus 236 ~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~Y 315 (405)
T cd06385 236 YIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFY 315 (405)
T ss_pred EeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHH
Confidence 98764332221 1111233456788888777777778899999999875 4211 11567889999
Q ss_pred hHHHHHHHHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEE
Q 006567 320 DSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYD 399 (640)
Q Consensus 320 Dav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~ 399 (640)
|||++++.|++++.++++. +.+|+.|+++|++++|+|++|.+.||++|+|. ..|.
T Consensus 316 Dav~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~-~~~~ 370 (405)
T cd06385 316 DGVMLYAHALNETMAKGGT------------------------RPPGTAITQRMWNRTFYGVTGFVKIDDNGDRE-TDFA 370 (405)
T ss_pred HHHHHHHHHHHHHHhcCCC------------------------CCCHHHHHHHhhCceEeeceeEEEEcCCCCEe-ceeE
Confidence 9999999999998665321 33599999999999999999999999999984 7888
Q ss_pred EEEE---ecccEEEEEEEeCCC
Q 006567 400 IINV---IGTGFRMIGYWSNYS 418 (640)
Q Consensus 400 I~~~---~~~~~~~vG~w~~~~ 418 (640)
|+++ ++++++.||+|+..+
T Consensus 371 ~~~~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 371 LWDMTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred EEEccCCCCCcEEEEEEEcccC
Confidence 8755 567899999998644
No 24
>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=8.8e-43 Score=364.16 Aligned_cols=349 Identities=20% Similarity=0.316 Sum_probs=289.8
Q ss_pred EEEEEEeecCC----ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChH
Q 006567 32 VNVGALFTLDS----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST 107 (640)
Q Consensus 32 i~IG~l~~~~~----~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~ 107 (640)
|+||++.|++. ..|.....|+++|+++||+++++++|++|++++.|++|++..++.++++++.++|.+||||.+|.
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 44888899999999999999999889999999999999999999999999999999999999984
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~ 186 (640)
. +++.++..++||+|+++++++.+++ ..|++++|+.|++..++.++++++++++|+++++|+++++||....+.+++
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 4567999999999999998888887 568999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCeEEEEeeccCCCCC---CChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCc-cCCeEEEEeCccc
Q 006567 187 KLAERRCRISYKSGIPPESG---VNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMM-GNGYVWIATDWLA 262 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~---~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~-~~~~~~i~~~~~~ 262 (640)
.+++.|++|+....++.... ....++..++++++.. ++++|++++..++..++++|+++||. ..+|+||+.+...
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 99999999998887775410 1246888888888765 67788888778899999999999998 6789999866311
Q ss_pred ccc---------------C-CCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCC------------CCCCCch
Q 006567 263 YML---------------D-SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG------------SLGMNSY 314 (640)
Q Consensus 263 ~~~---------------~-~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------------~~~~~~~ 314 (640)
... . .........++.+|++.+.+..+ ++.+++|.+.|++.... ...++.+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (404)
T cd06370 238 YDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIE 316 (404)
T ss_pred ccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccccccccccee
Confidence 100 0 01112344567888888776555 66778999999876421 2246678
Q ss_pred hhhhhhHHHHHHHHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCccccccc-ceEEccCCCc
Q 006567 315 GLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSL 393 (640)
Q Consensus 315 ~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG-~v~Fd~~g~r 393 (640)
++++|||++++++|++++++++... .++..|+++|++++|+|+|| +|.||++|+|
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 24899999999999999999 8999999997
Q ss_pred ccccEEEEEEecccEE
Q 006567 394 IHAAYDIINVIGTGFR 409 (640)
Q Consensus 394 ~~~~~~I~~~~~~~~~ 409 (640)
...|.|++++++.|-
T Consensus 373 -~~~y~v~~~~~~~~~ 387 (404)
T cd06370 373 -EGNYSVLALQPIPPG 387 (404)
T ss_pred -ccceEEEEecccccc
Confidence 589999999876543
No 25
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=1.7e-42 Score=361.40 Aligned_cols=355 Identities=17% Similarity=0.262 Sum_probs=283.5
Q ss_pred EEEEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||++.|.+. ..+.....|+++|+++||+++++++|++|++++.|++|++..++.++++++.+ +|.|||||.||..
T Consensus 1 ~vg~~~p~~~~~~~~~~~~~~a~~lAi~~IN~~~~~l~~~~l~~~~~D~~~~~~~a~~~~~~l~~~~~v~aiiGp~~S~~ 80 (391)
T cd06372 1 TVGFQAPWNISHPFSAQRLGAALQIAMDKVNSDPVYLGNYSMEFTYTNSTCSAKESLAGFIDQVQKEHISALFGPACPEA 80 (391)
T ss_pred CceeeccccccCchhhhhHHHHHHHHHHHHhcCCCCCCCceEEEEEecCCCCccHHHHHHHHHHHhcCceEEECCCCCcH
Confidence 5899999752 34566679999999999999999889999999999999999999999999875 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC---CCCc--ccHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGR--NGVS 182 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~---~~g~--~~~~ 182 (640)
+.++++++..++||+|+++++++.+++ ..|++++|+.|++..++.++++++++++|++|++||+++ .++. ...+
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 999999999999999999888998987 568999999999999999999999999999999998643 2331 1233
Q ss_pred HHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCc--
Q 006567 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW-- 260 (640)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~-- 260 (640)
.+.+.++ .++++.....+..+ ..++...+.+.+..++|+||++++..+++.++++|+++||..++|+||++..
T Consensus 161 ~~~~~~~-~~~~i~~~~~~~~~----~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~ 235 (391)
T cd06372 161 AVENQLK-FHFNITATVRYSSS----NPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLLQQFE 235 (391)
T ss_pred HHHHHHh-hCEEEEEEEecCCC----ChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEehhhc
Confidence 4445553 57888877777654 5666666666667889999999999999999999999999888899999532
Q ss_pred ---cccccCCCCCChhhhhhccceEEEEEccCC-chhHHHHHHHHhhhcCCC---------CCCCchhhhhhhHHHHHHH
Q 006567 261 ---LAYMLDSASLPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGS---------LGMNSYGLYAYDSVWLLAH 327 (640)
Q Consensus 261 ---~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~---------~~~~~~~~~~yDav~~~a~ 327 (640)
|..... ........+...|++++.+..+. .+..++|.++|++++... ...+.+++++||||+++++
T Consensus 236 ~~~w~~~~~-~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~ 314 (391)
T cd06372 236 DNFWKEVLT-DDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYAL 314 (391)
T ss_pred CccccccCC-CcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHH
Confidence 221110 00112233467788888776542 345677888777665201 1235789999999999999
Q ss_pred HHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHH---hCcccccccceEEccCCCcccccEEEEEEe
Q 006567 328 AIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNIL---QSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (640)
Q Consensus 328 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~---~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~ 404 (640)
|++++++++.. |.+|..+.++|+ +++|+|+||+|.||++|+| ...|.|++++
T Consensus 315 Al~~~~~~g~~------------------------~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r-~~~y~i~~~~ 369 (391)
T cd06372 315 AVKEMLKAGKD------------------------FRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR-QMDYSVYALQ 369 (391)
T ss_pred HHHHHHhcCCC------------------------CCCHHHHHHHHhhccCceEeccceeEEECCCCCc-ceeEEEEecc
Confidence 99998765321 346899999999 6899999999999999997 6899999998
Q ss_pred c----ccEEEEEEEeCCC
Q 006567 405 G----TGFRMIGYWSNYS 418 (640)
Q Consensus 405 ~----~~~~~vG~w~~~~ 418 (640)
+ ..+++||+|+..+
T Consensus 370 ~~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 370 KSGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred ccCCccceeeEEEecchh
Confidence 5 2389999998754
No 26
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=1.7e-42 Score=362.76 Aligned_cols=352 Identities=24% Similarity=0.369 Sum_probs=292.6
Q ss_pred CCeeEEEEEEeecCC---------------------ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHH
Q 006567 28 RPAVVNVGALFTLDS---------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGM 86 (640)
Q Consensus 28 ~~~~i~IG~l~~~~~---------------------~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~ 86 (640)
.++++.||++||.|. ..|.....|+++|+++||+++++|+|++|+++++|+|+ +..++
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 568899999999974 12556789999999999999999999999999999977 66788
Q ss_pred HHHHHhHh----------------cCcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCch
Q 006567 87 VEALRFME----------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDS 149 (640)
Q Consensus 87 ~~a~~l~~----------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~ 149 (640)
+.+.+++. ++|.|||||.+|..+.++++++..+++|+|+++++++.+++ ..|+++||+.|++.
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 88888874 58999999999999999999999999999999988888886 57899999999999
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEE
Q 006567 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVL 229 (640)
Q Consensus 150 ~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl 229 (640)
.++.++++++++++|+++++++++++||....+.+++.+++.|+++.....++... ....++.+++.+++++++|+|++
T Consensus 162 ~~~~al~~~l~~~~~k~vaii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~-~~~~d~~~~l~~i~~~~~dvIil 240 (410)
T cd06363 162 DQIEAMVQLLQEFGWNWVAFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIPLDT-DPETDYQQILKQINQTKVNVIVV 240 (410)
T ss_pred HHHHHHHHHHHHCCCcEEEEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEecCCC-chHHHHHHHHHHHhcCCCeEEEE
Confidence 99999999999999999999999999999999999999999999999877776421 24679999999999999999999
Q ss_pred ecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCC
Q 006567 230 HVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSL 309 (640)
Q Consensus 230 ~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 309 (640)
.+..+++..++++|+++|+.. ..|++++.+...... ......+...+++++....+..+.+++|.++
T Consensus 241 ~~~~~~~~~il~qa~~~g~~~--~~~i~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~--------- 307 (410)
T cd06363 241 FASRQPAEAFFNSVIQQNLTG--KVWIASEAWSLNDEL--PSLPGIRNIGTVLGVAQQTVTIPGFSDFIYS--------- 307 (410)
T ss_pred EcChHHHHHHHHHHHhcCCCC--CEEEEeCcccccccc--cCCccceeeccEEEEEeCCCCCccHHHHHHH---------
Confidence 999999999999999999854 488988765432111 0111122344667777777777778888765
Q ss_pred CCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEcc
Q 006567 310 GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS 389 (640)
Q Consensus 310 ~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~ 389 (640)
+++.+||||+++++|++++++++.. .|.... ..+++.|+++|++++|+|++|++.||+
T Consensus 308 ----~~~~~YDaV~~~a~Al~~a~~~~~~-----------------~~~~~~-~~~~~~l~~~L~~~~~~g~~g~i~fd~ 365 (410)
T cd06363 308 ----FAFSVYAAVYAVAHALHNVLQCGSG-----------------GCPKRV-PVYPWQLLEELKKVNFTLLGQTVRFDE 365 (410)
T ss_pred ----HHHHHHHHHHHHHHHHHHHhCCCCC-----------------CCCCCC-CCCHHHHHHHHhccEEecCCcEEEeCC
Confidence 4467999999999999999765432 133211 224788999999999999999999999
Q ss_pred CCCcccccEEEEEEecc----cEEEEEEEeCC
Q 006567 390 DRSLIHAAYDIINVIGT----GFRMIGYWSNY 417 (640)
Q Consensus 390 ~g~r~~~~~~I~~~~~~----~~~~vG~w~~~ 417 (640)
+|++ ...+.|++++.. ++++||+|++.
T Consensus 366 ~G~~-~~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 366 NGDP-NFGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred CCCC-ccceEEEEEEEcCCceeEEEEEEEECC
Confidence 9995 567999999643 48999999874
No 27
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=3.2e-42 Score=359.98 Aligned_cols=357 Identities=19% Similarity=0.300 Sum_probs=293.2
Q ss_pred EEEEEeecCC----ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCC----ChHHHHHHHHHhH-hcCcEEEEcC
Q 006567 33 NVGALFTLDS----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC----SGFIGMVEALRFM-ETDIVAIIGP 103 (640)
Q Consensus 33 ~IG~l~~~~~----~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~----~~~~a~~~a~~l~-~~~v~aiiGp 103 (640)
+||+++|.+. ..+.....|+++|+|+||+++++++|++|++++.|+++ ++..++..+.+++ +++|.|||||
T Consensus 1 ~~g~l~p~~~~~~~~~~~~~~~a~~lAve~IN~~gg~l~G~~l~~~~~D~~~~~~~~~~~a~~~a~~~~~~~~v~aiiGp 80 (396)
T cd06373 1 TLAVLLPKNNTSYPWSLPRVGPAIDIAVERVNADPGLLPGHNITLVFEDSECKCGCSESEAPLVAVDLYFQHKPDAFLGP 80 (396)
T ss_pred CeEEEcCCCCCCcccchhhhhhHHHHHHHHHhcCCCcCCCeEEEEEEecCccccccchhhhHHHHHHHHhccCCeEEECC
Confidence 5899999984 23567789999999999999988889999999999998 8888888888876 5599999999
Q ss_pred CChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCC----c
Q 006567 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYG----R 178 (640)
Q Consensus 104 ~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g----~ 178 (640)
.||..+.++++++..++||+|+++++++.+++ ..|+++||+.|++..++.++++++++++|++++++|++++++ .
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 99999999999999999999999988888887 578999999999999999999999999999999999887664 4
Q ss_pred ccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEe
Q 006567 179 NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (640)
Q Consensus 179 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 258 (640)
...+.+.+.+++.|++|.... +... ....++..+++++++.. |+|++++...++..++++|+++|+...+|+||..
T Consensus 161 ~~~~~~~~~~~~~g~~v~~~~-~~~~--~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~~yv~i~~ 236 (396)
T cd06373 161 FTLEGVYTVLKEENITVSDFP-FDED--KELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSGEYVFFNI 236 (396)
T ss_pred HHHHHHHHHHhhcCceeeEEe-ecCC--ccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 457888888988899887543 4432 11478999999999875 9999999999999999999999999999999987
Q ss_pred CccccccC---------CCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhh----cC---CCCCCCchhhhhhhHH
Q 006567 259 DWLAYMLD---------SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TG---GSLGMNSYGLYAYDSV 322 (640)
Q Consensus 259 ~~~~~~~~---------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~---~~~~~~~~~~~~yDav 322 (640)
+....... .........+..++++.+....+..+.+++|.++|+++ ++ +...++.+++.+|||+
T Consensus 237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav 316 (396)
T cd06373 237 DLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAV 316 (396)
T ss_pred ccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHH
Confidence 64422110 00111233345678888888877788899999999874 31 0113457889999999
Q ss_pred HHHHHHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEE
Q 006567 323 WLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIIN 402 (640)
Q Consensus 323 ~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~ 402 (640)
+++++|++++.++++. +.++..|+++|++++|+|++|.+.||++|+| ...|.|+.
T Consensus 317 ~~~a~Al~~~~~~~~~------------------------~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~-~~~~~v~~ 371 (396)
T cd06373 317 LLYALALNETLAEGGD------------------------PRDGTNITRRMWNRTFEGITGNVSIDENGDR-ESDFSLWD 371 (396)
T ss_pred HHHHHHHHHHHhccCC------------------------CCChHHHHHHhcCCceecccCceEeecCCcc-cceeeeee
Confidence 9999999998654321 1258999999999999999999999999997 47788876
Q ss_pred E---ecccEEEEEEEeCCC
Q 006567 403 V---IGTGFRMIGYWSNYS 418 (640)
Q Consensus 403 ~---~~~~~~~vG~w~~~~ 418 (640)
+ +++.++.+|+++..+
T Consensus 372 ~~~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 372 MTDTETGTFEVVANYNGSN 390 (396)
T ss_pred ccCCCCceEEEEeeccccc
Confidence 5 567899999998754
No 28
>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=8.9e-43 Score=348.12 Aligned_cols=323 Identities=20% Similarity=0.284 Sum_probs=261.0
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChH-HHHHHHHHhHhcCcEEEEcCCChHH-HH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGF-IGMVEALRFMETDIVAIIGPQCSTV-AH 110 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~-~a~~~a~~l~~~~v~aiiGp~~s~~-~~ 110 (640)
+||+||+..+..|...+.|+++|++++|++++++++.+|++++.|...++. .+..++|+++++||.|||||.+|.. +.
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 589999999999999999999999999999988777799999999988664 7888999999999999999999965 67
Q ss_pred HHHHhhccCCceEEecccCC-CCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHh
Q 006567 111 IVSYVSNELQVPLLSFGVTD-PTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~-~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~ 189 (640)
+++++|+..+||+|+++... +.+...+++ .+++.|++..+.+|+++++++|+|++|++||+++++ +..+++.++
T Consensus 81 ~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~-~i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~----l~~L~~~l~ 155 (333)
T cd06394 81 IVSHICGEKEIPHFKVGPEETPKLQYLRFA-SVNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC----LLRLEELLR 155 (333)
T ss_pred HHHHHhhccCCceEEeccccCcccccccce-EEEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH----HHHHHHHHH
Confidence 99999999999999975433 222223333 389999999999999999999999999999998874 677777776
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCC
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~ 269 (640)
...+ ....+++....+..++++++++++..++++||+.|+.+.+..++++|+++||+.+.|+|++++......+.
T Consensus 156 ~~~~---~~~~i~~~~~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L-- 230 (333)
T cd06394 156 QFLI---SKETLSVRMLDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPLLRL-- 230 (333)
T ss_pred hhcc---cCCceeeEEccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCcccccH--
Confidence 5432 11122221112366899999999999999999999999999999999999999999999998865443232
Q ss_pred CChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCC--CC----CCCchhhhhhhHHHHHHHHHHHHhhcCCcccccC
Q 006567 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG--SL----GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (640)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~--~~----~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 343 (640)
.++.....++.+++..+++++..++|.+.|++++.. +. .....+++.||||+++
T Consensus 231 --~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~------------------ 290 (333)
T cd06394 231 --DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV------------------ 290 (333)
T ss_pred --HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE------------------
Confidence 233334556888999999999999999988775520 01 1112455555555443
Q ss_pred CccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEeCCCCCC
Q 006567 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (640)
Q Consensus 344 ~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~~~l~ 421 (640)
|+||+|.||++|+|.+++++|++++.++.++||+|++..||+
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 889999999999999999999999999999999999988864
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=1.2e-41 Score=351.85 Aligned_cols=348 Identities=20% Similarity=0.282 Sum_probs=281.4
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~ 109 (640)
+||++.|++ +..|...+.|+++|+|+||+++++++|++|+++++|++|++..++.++.++ .++|.+||||.||..+
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 589999986 444677899999999999999999889999999999999987665443332 4689999999999999
Q ss_pred HHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~ 188 (640)
.+++++++.++||+|+++++++.+++ ..|++++|+.|++ ++++++++++|+|++|++|+++++++....+.+++.+
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 99999999999999999999988887 6789999999876 4678899999999999999999999988999999999
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC-ceEEEEecCh-----hhHHHHHHHHHHcCCccCCeEEEEeCccc
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSP-----SLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~vivl~~~~-----~~~~~il~~a~~~gl~~~~~~~i~~~~~~ 262 (640)
++.|++|.....++.+ ..+++++|++++..+ +|+||++++. .++..++++|+++||++.+|+||+++...
T Consensus 157 ~~~gi~v~~~~~~~~~----~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~ 232 (382)
T cd06371 157 RAHGLPVGLVTSMGPD----EKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPYDTLL 232 (382)
T ss_pred HHCCCcEEEEEEecCC----HHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEecccc
Confidence 9999999887777755 779999999999987 6999988765 67789999999999999999999988532
Q ss_pred cccC-----C--CCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhh-cCCC---CCCCchhhhhhhHHHHHHHHHHH
Q 006567 263 YMLD-----S--ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL-TGGS---LGMNSYGLYAYDSVWLLAHAIES 331 (640)
Q Consensus 263 ~~~~-----~--~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~---~~~~~~~~~~yDav~~~a~Al~~ 331 (640)
...+ . ...+....+..++++.+++..+..+.+++|.+.|+.. ++.+ ...+.+++++|||+++++.|+++
T Consensus 233 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~ 312 (382)
T cd06371 233 YSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGEIPSDLEPEQVSPLFGTIYNSIYLLAHAVEN 312 (382)
T ss_pred ccCCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCCCCCCCccccchhHHHHHHHHHHHHHHHHH
Confidence 1110 0 0112333356788877777655555566676665321 1101 12345666899999999999999
Q ss_pred HhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEE
Q 006567 332 FFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMI 411 (640)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~v 411 (640)
+++.+.. .++..++++|++++|+|++|.++||++|+| ...|.|+++++.+++-+
T Consensus 313 a~~~g~~-------------------------~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~~~~ 366 (382)
T cd06371 313 ARAAGGG-------------------------VSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGDQLY 366 (382)
T ss_pred HHHhCCC-------------------------ccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCCeee
Confidence 9765432 148999999999999999999999999996 69999999998776544
Q ss_pred EEE
Q 006567 412 GYW 414 (640)
Q Consensus 412 G~w 414 (640)
-++
T Consensus 367 ~~~ 369 (382)
T cd06371 367 PTY 369 (382)
T ss_pred eeE
Confidence 433
No 30
>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=3.3e-41 Score=356.35 Aligned_cols=393 Identities=24% Similarity=0.422 Sum_probs=332.0
Q ss_pred cCCCeeEEEEEEeecCC-------------ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHh
Q 006567 26 SARPAVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRF 92 (640)
Q Consensus 26 ~~~~~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l 92 (640)
...+++|.||++||.|. ..|.+...|+.+|+|+||+ +.+|||.++++.++|+|+.+..|.++..++
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 45678999999999872 2356778999999999999 899999999999999999999999999888
Q ss_pred Hhc-----------------CcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHH
Q 006567 93 MET-----------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTA 154 (640)
Q Consensus 93 ~~~-----------------~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~a 154 (640)
+.. .|.++|||..|..+.+++.+..-++||+|+++++++.+++ .+|++|.|+.|+|..|++|
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 742 4899999999999999999999999999999999999999 7899999999999999999
Q ss_pred HHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhc-CCceEEEEecCh
Q 006567 155 VAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHVSP 233 (640)
Q Consensus 155 l~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vivl~~~~ 233 (640)
|++++++|+|++|..++++++||+.+.++|++..+++|+||...+.+... ..+..++..++++.. .++++||+++..
T Consensus 185 m~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~--~~~~~~~~~l~kl~~~~~a~vvV~F~~~ 262 (878)
T KOG1056|consen 185 MVDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQL--SIEQEFDCVLRKLLETPNARVVVVFCRG 262 (878)
T ss_pred HHHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccc--cchhHHHHHHHHHhhcCCCeEEEEecCc
Confidence 99999999999999999999999999999999999999999988766655 668889999999988 889999999999
Q ss_pred hhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHH-------------
Q 006567 234 SLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSR------------- 300 (640)
Q Consensus 234 ~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~------------- 300 (640)
++++.++++|++.++++ .++|+.+++|+...+. -.......+|.+++.+..+..+.+++|.+.
T Consensus 263 ~~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~---~~~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~ 338 (878)
T KOG1056|consen 263 EDARRLLKAARRANLTG-EFLWIASDGWASQNSP---TEAPEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFA 338 (878)
T ss_pred chHHHHHHHHHHhCCCc-ceEEEecchhhccCCh---hhhhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccc
Confidence 99999999999999875 6999999999875433 122334788999999988877777766554
Q ss_pred --HhhhcC------------------CC---CC-----CCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCccccccCC
Q 006567 301 --WKNLTG------------------GS---LG-----MNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEG 352 (640)
Q Consensus 301 --~~~~~~------------------~~---~~-----~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~ 352 (640)
|+..++ ++ .. -..-...++|||+.+|+||+.+.++-.. +
T Consensus 339 e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~-------------~ 405 (878)
T KOG1056|consen 339 EFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCP-------------G 405 (878)
T ss_pred hhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcC-------------C
Confidence 333332 01 00 1123567999999999999999876432 1
Q ss_pred CCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecc----cEEEEEEEeCCCCCCcCCCccc
Q 006567 353 GNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGT----GFRMIGYWSNYSGLSKEPPETL 428 (640)
Q Consensus 353 ~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~----~~~~vG~w~~~~~l~~~~~~~~ 428 (640)
....|+.+... +|..|.++++++.|.+..|.+.||++|| ....|+|++++.. ++..+|+|+....|
T Consensus 406 ~~~~C~~m~~~-dg~~L~~~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~l-------- 475 (878)
T KOG1056|consen 406 TSGLCSAMKAI-DGSLLLKYLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLSL-------- 475 (878)
T ss_pred ccccCcCcccc-CHHHHHhhhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeecccccc--------
Confidence 23357777765 4999999999999999999999999999 5789999999842 57999999986543
Q ss_pred ccCCCCCCCccccceeEEeCCCCCCCCCceee
Q 006567 429 YAQPFNRSSTIQHLHSVIWPGETLSKPRGWVF 460 (640)
Q Consensus 429 ~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~ 460 (640)
+...+.|.++....|.+.|.
T Consensus 476 ------------~i~~~~w~~~~~~v~~S~CS 495 (878)
T KOG1056|consen 476 ------------NIEDLDWTTKPSGVPKSVCS 495 (878)
T ss_pred ------------cceeeeeccCCCCCcccccc
Confidence 23577898888888988874
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=6.8e-41 Score=349.62 Aligned_cols=356 Identities=17% Similarity=0.259 Sum_probs=282.8
Q ss_pred EEEEEeecCCc---cc-hHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCCh----HHHHHHHHHh-HhcCcEEEEcC
Q 006567 33 NVGALFTLDST---IG-RVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSG----FIGMVEALRF-METDIVAIIGP 103 (640)
Q Consensus 33 ~IG~l~~~~~~---~g-~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~----~~a~~~a~~l-~~~~v~aiiGp 103 (640)
+||+++|.+.. ++ .....|+++|+|+||+++++++|++|++.++|+++++ ..+...+..+ +.+++.+||||
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 48899987532 11 3557899999999999999878999999999986553 3332222221 34678999999
Q ss_pred CChHHHHHHHHhhccCCceEEecccCCCCCCC--CCCCcEEEecCCchHHHHHHHHHHHhcCCc-EEEEEEEcCCCCc--
Q 006567 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWN-AVSVIFVDNEYGR-- 178 (640)
Q Consensus 104 ~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~--~~~~~~~r~~p~~~~~~~al~~ll~~~~w~-~v~ii~~~~~~g~-- 178 (640)
.||..+.+++++++.++||+|+++++++.+++ ..|+++||+.|++..++.++..++++++|+ ++++||.++..+.
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 99999999999999999999999999888876 378999999999999999988889999999 6889986542221
Q ss_pred --ccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 179 --NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 179 --~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
...+.+.+.+++.|++|+....+..+ ..++++++++++. ++|+|+++++..++..++++|+++||..+.|+||
T Consensus 161 ~~~~~~~~~~~~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~~~y~~i 235 (399)
T cd06384 161 HYFISEGVFLALQEENANVSAHPYHIEK----NSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTPGDYVFF 235 (399)
T ss_pred ceEehHHHHHHHHhcCceEEEEEEeccc----hhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCCCcEEEE
Confidence 13566778888899998876554433 7799999999997 8999999999999999999999999999999999
Q ss_pred EeCccccccCC-----------CCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhh----cCCCCCC---Cchhhhh
Q 006567 257 ATDWLAYMLDS-----------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TGGSLGM---NSYGLYA 318 (640)
Q Consensus 257 ~~~~~~~~~~~-----------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~~~---~~~~~~~ 318 (640)
+.+........ ....+...+..++++.++++.+.++.+++|.++|+++ ++.+..+ +.+++++
T Consensus 236 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~ 315 (399)
T cd06384 236 YLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCF 315 (399)
T ss_pred EehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhh
Confidence 87754321110 0112344457888998888888888899999999874 4211223 5678999
Q ss_pred hhHHHHHHHHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccE
Q 006567 319 YDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAY 398 (640)
Q Consensus 319 yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~ 398 (640)
||||++++.|++++.++++ .|.+|..|+++|++++|+|++|++.||++|+| ...|
T Consensus 316 YDav~l~a~Al~~~~~~~~------------------------~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r-~~~~ 370 (399)
T cd06384 316 YDGVMLYAMALNETLAEGG------------------------SQKDGLNITRKMQDRRFWGVTGLVSIDKNNDR-DIDF 370 (399)
T ss_pred HHHHHHHHHHHHHHHhcCC------------------------CCCCcHhHHHHHhCceeecceeEEEECCCCCc-ccce
Confidence 9999999999999865432 24469999999999999999999999999997 4567
Q ss_pred EE---EEEecccEEEEEEEeCCC
Q 006567 399 DI---INVIGTGFRMIGYWSNYS 418 (640)
Q Consensus 399 ~I---~~~~~~~~~~vG~w~~~~ 418 (640)
.+ .++++++++.+|+|+..+
T Consensus 371 ~~~~~~~~~~g~~~~v~~~~~~~ 393 (399)
T cd06384 371 DLWAMTDHETGKYEVVAHYNGIT 393 (399)
T ss_pred EEEEeecCCCCeEEEEEEEcCCC
Confidence 77 366789999999998754
No 32
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=8.7e-42 Score=347.69 Aligned_cols=316 Identities=21% Similarity=0.337 Sum_probs=267.9
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCC-CChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~-~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
+||++|+. ..|...+.|+++|+|+||+++++++|++|++++.|++ +++..+..++|++++++|.+|+||.+|..+.+
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 4578899999999999999999988999999999998 89999999999999889999999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhc
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~ 191 (640)
++++++.++||+|+++++++.++ .++++||+.|++..++.++++++++++|++++++|+++++ ...+++.+++.
T Consensus 79 v~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~----~~~l~~~~~~~ 152 (327)
T cd06382 79 VQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEG----LLRLQELLQAF 152 (327)
T ss_pred HHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHH----HHHHHHHHHhh
Confidence 99999999999999877777665 4578899999999999999999999999999999988764 34455666555
Q ss_pred Ce---EEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCC
Q 006567 192 RC---RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (640)
Q Consensus 192 g~---~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (640)
+. .+.. ..+++. . |+++++.++++.++|+|++.+...++..++++|+++||..+.|+|++++......+.
T Consensus 153 ~~~g~~v~~-~~~~~~----~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l- 225 (327)
T cd06382 153 GISGITITV-RQLDDD----L-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHTLDL- 225 (327)
T ss_pred ccCCCeEEE-EEccCC----c-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccccch-
Confidence 54 4443 345544 4 999999999999999999999999999999999999999989999998765443222
Q ss_pred CCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCC------CCCCchhhhhhhHHHHHHHHHHHHhhcCCccccc
Q 006567 269 SLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGS------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (640)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 342 (640)
........+++++++..++++.+++|.++|+++++.. ..|+.+++.+|||++++
T Consensus 226 ---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~----------------- 285 (327)
T cd06382 226 ---EDYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF----------------- 285 (327)
T ss_pred ---hhhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe-----------------
Confidence 1122233467778888888889999999999988311 12667788888887766
Q ss_pred CCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEeCCCCC
Q 006567 343 NDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (640)
Q Consensus 343 ~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~~~l 420 (640)
|+||.|+||++|+|.++.|+|+|++++++++||.|+++.|+
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 33
>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=6.2e-41 Score=350.22 Aligned_cols=359 Identities=21% Similarity=0.391 Sum_probs=307.7
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
|||+++|++ +..|.....|+++|+|+||+++++++|++|++++.|+++++..++..+.+++.+ +|.+|+||.+|..
T Consensus 1 kvG~~~~~sG~~~~~g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~~~~~~a~~~a~~l~~~~~v~aiiG~~~s~~ 80 (389)
T cd06352 1 TVGVLLPWNTDYPFSLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTECSESVALLAAVDLYWEHNVDAFIGPGCPYA 80 (389)
T ss_pred CeEEEcCCCCCCCchhhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCCCchhhhHHHHHHHHhhcCCcEEECCCChhH
Confidence 699999997 455788899999999999999976689999999999999999999999999875 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC-CCcccHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALND 186 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~-~g~~~~~~~~~ 186 (640)
+.++++++..++||+|+++++++.+++ ..++|+||+.|++..++.++++++++++|++++++++++. ||....+.+++
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 999999999999999999888888876 4689999999999999999999999999999999998877 89999999999
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccC
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (640)
.+++.|++|.....++.. ....++..+++++++.+ |+|++++...++..++++++++|+...+++|++.+.+.....
T Consensus 161 ~~~~~G~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~ 237 (389)
T cd06352 161 ALREFNLTVSHVVFMEDN--SGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLFNYSLP 237 (389)
T ss_pred HHHhcCCeEEEEEEecCC--ccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehhccccc
Confidence 999999999988777754 12578999999999887 999999999999999999999999878899999876544321
Q ss_pred C---------CCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCC--------CCCCCchhhhhhhHHHHHHHHH
Q 006567 267 S---------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG--------SLGMNSYGLYAYDSVWLLAHAI 329 (640)
Q Consensus 267 ~---------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~~~yDav~~~a~Al 329 (640)
. ....+...+...|++++.+..+.++.+++|.++|+++++. ...++.++..+|||++++++|+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 317 (389)
T cd06352 238 YQNSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHAL 317 (389)
T ss_pred cCCCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHH
Confidence 0 0112234466788888888777788899999999988731 1245778999999999999999
Q ss_pred HHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEec--cc
Q 006567 330 ESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIG--TG 407 (640)
Q Consensus 330 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~--~~ 407 (640)
+++..++.. |.++..+.+.|++++|.|++|.+.||++|+|. ..|.|+++++ +.
T Consensus 318 ~~~~~~~~~------------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~-~~~~v~~~~~~~~~ 372 (389)
T cd06352 318 NETLAEGGD------------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDRE-GDYSLLDLDSTGGQ 372 (389)
T ss_pred HHHHHhCCC------------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCee-eeEEEEEecCCCce
Confidence 998765321 23588899999999999999999999999974 7899999996 56
Q ss_pred EEEEEEEeCCCC
Q 006567 408 FRMIGYWSNYSG 419 (640)
Q Consensus 408 ~~~vG~w~~~~~ 419 (640)
+..++.++..++
T Consensus 373 ~~~~~~~~~~~~ 384 (389)
T cd06352 373 LEVVYLYDTSSG 384 (389)
T ss_pred EEEEEeccccce
Confidence 788998876543
No 34
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=100.00 E-value=1.1e-39 Score=336.37 Aligned_cols=334 Identities=31% Similarity=0.528 Sum_probs=279.1
Q ss_pred HHHHHHHHHHHHhccCCCCCCcEEEEEEccCCC-ChHHHHHHHHHhHhcCcEEEEcCCChHHHHHHHHhhccCCceEEec
Q 006567 48 AKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC-SGFIGMVEALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSF 126 (640)
Q Consensus 48 ~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~-~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 126 (640)
+..|+++|+++||++++++++++|++.+.|+++ +........|.+..++|.+||||.|+..+.+++.+++.++||+|++
T Consensus 2 ~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~ 81 (348)
T PF01094_consen 2 VLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQISP 81 (348)
T ss_dssp HHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEES
T ss_pred HHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCCcccccchhhhccCCCcEEEECCCcccccchhheeecccccceeec
Confidence 578999999999999998899999999999985 4455555566666679999999999999999999999999999999
Q ss_pred ccCCCCCCC--CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcC-eEEEEeeccCC
Q 006567 127 GVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERR-CRISYKSGIPP 203 (640)
Q Consensus 127 ~~~~~~l~~--~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g-~~v~~~~~~~~ 203 (640)
+++++.+++ ..||+++|+.|++..+++++++++++|+|++|++||+++.+|.+....+++.+++.+ .++........
T Consensus 82 ~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 (348)
T PF01094_consen 82 GSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISVVIS 161 (348)
T ss_dssp SGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEET
T ss_pred cccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccccccchhhhhhhcccccceecccccccc
Confidence 999998887 479999999999999999999999999999999999999998889999999999865 44444122222
Q ss_pred CCCCChhHHHHHHHHHhc--CCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccce
Q 006567 204 ESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGV 281 (640)
Q Consensus 204 ~~~~~~~~~~~~l~~l~~--~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~ 281 (640)
. ..+....++.+++ .++++||++++..++..++++|.++||...+|+||+++.+...... ..........|+
T Consensus 162 ~----~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~--~~~~~~~~~~~~ 235 (348)
T PF01094_consen 162 S----DSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQ--NNEDFREAFQGV 235 (348)
T ss_dssp T----TSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTS--THCHHHCCHTTE
T ss_pred c----ccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeeccccccccc--ccccccccccce
Confidence 2 3445555555555 9999999999999999999999999999999999999986554211 224566788999
Q ss_pred EEEEEccCCchhHHHHHHHHhhhc------CCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCccccccCCCCc
Q 006567 282 LVLRQHIPESDRKKNFLSRWKNLT------GGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNL 355 (640)
Q Consensus 282 ~~~~~~~~~~~~~~~f~~~~~~~~------~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (640)
+++++..+..+.+++|.++|+... .....+..+++++|||++++++|++++.++++...
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 999999999999999999998642 13456788999999999999999999987654321
Q ss_pred ccCcccccCchHHHHHHHHhCcccccccceEEcc-CCCcccccEEEEEEe
Q 006567 356 HLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRSLIHAAYDIINVI 404 (640)
Q Consensus 356 ~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~-~g~r~~~~~~I~~~~ 404 (640)
.....|.+|..+.++|++++|+|++|++.||+ +|+|.+..|+|++++
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 01146788999999999999999999999999 999999999999875
No 35
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=100.00 E-value=8.9e-38 Score=318.07 Aligned_cols=333 Identities=16% Similarity=0.187 Sum_probs=252.4
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
+||+||+.++.. ....-++.+|++++|++++. .+..+.++.+|+.+||..++.++|+|+++||.||+||.++..+.++
T Consensus 1 ~IG~if~~~~~~-~~~af~~ala~~~iN~~gg~-~~~~i~~v~~dd~~d~~~a~~~~c~Li~~gV~AI~G~~~s~~~~av 78 (363)
T cd06381 1 HIGAIFSESALE-DDEVFAVAVIDLNINEQILQ-TEKITLSISFIDLNNHFDAVQEACDLMNQGILALVTSTGCASAIAL 78 (363)
T ss_pred CeeeeccCCcch-HHHHHHHHHHHhhccccccC-CccceeeeEeecCCChHHHHHHHHHHHhcCcEEEEecCChhHHHHH
Confidence 599999987532 23334444455567777765 4677888889999999999999999999999999999999999999
Q ss_pred HHhhccCCceEEecccCCC--------CCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHH
Q 006567 113 SYVSNELQVPLLSFGVTDP--------TLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSA 183 (640)
Q Consensus 113 ~~~~~~~~iP~is~~~~~~--------~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~ 183 (640)
+++|...+||+|++.+... .+.+ ...+|.|++.|++ .+..++++++++++|++|+++|++++ |...++.
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 9999999999998643211 0111 1234666777774 68899999999999999999998775 5566788
Q ss_pred HHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHh-------cCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA-------LMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~-------~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
+.+.+++.|+.+.... ...+ ....+...++.++ ..+.++||++|++..+..++++|+++||+..+|+||
T Consensus 157 ~~~~~~~~g~~v~~~~-~~~~---~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi 232 (363)
T cd06381 157 FLDQLSRQGIDVLLQK-VDLN---ISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKDSHWF 232 (363)
T ss_pred HHHHHHhcCceEEEEe-cccc---cchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEE
Confidence 8888888888665432 2211 1223333333332 445668899999999999999999999999999999
Q ss_pred EeCccccccCCCCCChhhhhhccceEEEEEccCCchhHH----HHHHHHhhhcCC----CCCCCchhhhhhhHHHHHHHH
Q 006567 257 ATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKK----NFLSRWKNLTGG----SLGMNSYGLYAYDSVWLLAHA 328 (640)
Q Consensus 257 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~----~f~~~~~~~~~~----~~~~~~~~~~~yDav~~~a~A 328 (640)
+++.+..... .-........|+++++...+.+...+ +|.+.|+..+.. ...+...++++||||+++
T Consensus 233 ~~~~l~~~~~---~l~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~yDaV~~~--- 306 (363)
T cd06381 233 LINEEISDTE---IDELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDGYLQMLEISNLYIYDSVLLL--- 306 (363)
T ss_pred Eeccccccch---hhHHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCCCCCChhHHHHHHHHHHHHH---
Confidence 8876655211 11345678889999999988766666 455566443311 123456799999999999
Q ss_pred HHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEeccc-
Q 006567 329 IESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTG- 407 (640)
Q Consensus 329 l~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~- 407 (640)
+++|+++.|+|+||+|.||++|.|.++.++|+++..++
T Consensus 307 -----------------------------------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~~ 345 (363)
T cd06381 307 -----------------------------------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSET 345 (363)
T ss_pred -----------------------------------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCCc
Confidence 14677789999999999999999999999999999655
Q ss_pred ----EEEEEEEeCCCCC
Q 006567 408 ----FRMIGYWSNYSGL 420 (640)
Q Consensus 408 ----~~~vG~w~~~~~l 420 (640)
.+.+|+|++..|+
T Consensus 346 ~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 346 LGKDGRWLATWNPSKGL 362 (363)
T ss_pred cccceEEeeeccCCCCC
Confidence 7899999998775
No 36
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=2.4e-38 Score=322.37 Aligned_cols=316 Identities=23% Similarity=0.358 Sum_probs=265.1
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccC-CCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSS-NCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~-~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
+||+|+|.+. .....|+++|+++||++++++++.+|++.+.|+ .+++..++.++|+|+.++|.+|+||.+|..+.+
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 589999999999999999999999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhc
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~ 191 (640)
++++++.++||+|+++++++.++. ++.+++.|++..++.++++++++++|++++++|+++. +...++.+.+.+++.
T Consensus 78 v~~i~~~~~ip~is~~~~~~~~~~---~~~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~-~~~~l~~~~~~~~~~ 153 (324)
T cd06368 78 VQSICDALEIPHITTSWSPNPKPR---QFTINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDE-GLLRLQELLDALSPK 153 (324)
T ss_pred HHHHHhccCCCcEEecCCcCCCCC---cceEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcH-hHHHHHHHHHhhccC
Confidence 999999999999999888776652 3445666777799999999999999999999997765 445566677777778
Q ss_pred CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCC
Q 006567 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLP 271 (640)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~ 271 (640)
|+++......+ . ..++++++.++++.++|+||+.+...++..++++|+++||..+.|+|++++......+.
T Consensus 154 g~~v~~~~~~~-~----~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~---- 224 (324)
T cd06368 154 GIQVTVRRLDD-D----TDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL---- 224 (324)
T ss_pred CceEEEEEecC-C----chHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch----
Confidence 88988765333 3 23899999999999999999999999999999999999999889999998754332211
Q ss_pred hhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCC------CCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCc
Q 006567 272 SETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGS------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (640)
Q Consensus 272 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (640)
........++.++....+.++.+++|.++|+++++.. ..|+.+++.+|||++++
T Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~-------------------- 284 (324)
T cd06368 225 ELFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF-------------------- 284 (324)
T ss_pred hhhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe--------------------
Confidence 1122233456777777778889999999999988421 16788899999998876
Q ss_pred cccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEeCCCCC
Q 006567 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (640)
Q Consensus 346 ~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~~~l 420 (640)
||+++||++|+|.++.++|+++..++++++|.|++..|+
T Consensus 285 ------------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 ------------------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred ------------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 678999999999999999999999999999999987653
No 37
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=7.2e-37 Score=314.78 Aligned_cols=338 Identities=17% Similarity=0.222 Sum_probs=286.4
Q ss_pred CCCeeEEEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcC
Q 006567 27 ARPAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGP 103 (640)
Q Consensus 27 ~~~~~i~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp 103 (640)
..+++|+||++.|++ +..|...+.++++|++++|+.+|+ .|++|++++.|++++|..+.+.+.+|++++|.+|+|+
T Consensus 21 ~~~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi-~G~~ielv~~D~~~~p~~a~~~~~~Li~~~V~~iiG~ 99 (369)
T PRK15404 21 ALADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGI-KGDKLEGVEYDDACDPKQAVAVANKVVNDGIKYVIGH 99 (369)
T ss_pred ccCCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCC-CCeEEEEEeecCCCCHHHHHHHHHHHHhCCceEEEcC
Confidence 345689999999998 446888999999999999999998 5899999999999999999999999999899999999
Q ss_pred CChHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcCCCCcccHH
Q 006567 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVS 182 (640)
Q Consensus 104 ~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~~~~~g~~~~~ 182 (640)
.++..+.++++++...++|+|++.++++.+++..++++||+.+.+..++.++++++ ++++|++++++++|+.||++..+
T Consensus 100 ~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~~~ 179 (369)
T PRK15404 100 LCSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEGLAR 179 (369)
T ss_pred CCchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHHHHH
Confidence 99999999999999999999998888888877668899999999999999999975 45699999999999999999999
Q ss_pred HHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccc
Q 006567 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (640)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~ 262 (640)
.+++.+++.|.++.....++.+ ..|+..++.++++.++|+|++.+...+...+++++++.|+.. .|+++....
T Consensus 180 ~~~~~~~~~G~~v~~~~~~~~g----~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~---~~i~~~~~~ 252 (369)
T PRK15404 180 SVKDGLKKAGANVVFFEGITAG----DKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT---QFMGPEGVG 252 (369)
T ss_pred HHHHHHHHcCCEEEEEEeeCCC----CCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC---eEEecCcCC
Confidence 9999999999999988888866 789999999999999999998887888899999999999753 466654322
Q ss_pred cccCCCCCChhhhhhccceEEEEEcc-CCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccc
Q 006567 263 YMLDSASLPSETLESMQGVLVLRQHI-PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (640)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~ 341 (640)
.. . ......+..+|++...+.. ..++..++|.+.|++++ ..+++.++...||++++++.|++++...
T Consensus 253 ~~-~---~~~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~Y~~~~~l~~Al~~aG~~------ 320 (369)
T PRK15404 253 NK-S---LSNIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKK--QDPSGPFVWTTYAAVQSLAAGINRAGSD------ 320 (369)
T ss_pred CH-H---HHHhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhc--CCCCccchHHHHHHHHHHHHHHHhhCCC------
Confidence 11 0 0011234667877665432 24567899999999876 3455667889999999999999975211
Q ss_pred cCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEeccc
Q 006567 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTG 407 (640)
Q Consensus 342 ~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~ 407 (640)
++..|.++|++..|+|++|++.|+++|++....|.|+++++++
T Consensus 321 -----------------------~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~ 363 (369)
T PRK15404 321 -----------------------DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADG 363 (369)
T ss_pred -----------------------CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCC
Confidence 3789999999999999999999999998777889998887654
No 38
>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=7.2e-37 Score=338.54 Aligned_cols=379 Identities=37% Similarity=0.683 Sum_probs=311.8
Q ss_pred HHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhH
Q 006567 215 LLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRK 294 (640)
Q Consensus 215 ~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 294 (640)
.+.+++....+++++++.+..+..++.+|.++||....|+|+.++......+.... ....+...+.+....+.+.+...
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~s~~~ 83 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDEL-YSLIDVMNGVLGLRGHIPRSELL 83 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhccccc-ccchhheeeEEeeccCCCccHHH
Confidence 34455567788999998888888999999999999999999999877666555222 33445677888888888889999
Q ss_pred HHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHH
Q 006567 295 KNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNIL 374 (640)
Q Consensus 295 ~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~ 374 (640)
++|..+|+.. ......++..+||++++++.|+++.... . ...++|.....|.++..+.+.++
T Consensus 84 ~~~~~~~~~~---~~~~~~~~~~~~D~~~~~a~~~~~~~~~-~--------------~~~~~~~~~~~~~~~~~~~~~~~ 145 (656)
T KOG1052|consen 84 QNFVTRWQTS---NVELLVYALWAYDAIQALARAVESLLNI-G--------------NLSLSCGRNNSWLDALGVFNFGK 145 (656)
T ss_pred HHHHHHHhhc---cccccchhhHHHHHHHHHHHHHHHhhcC-C--------------CCceecCCCCcccchhHHHHHHH
Confidence 9999988754 2345778999999999999999987641 1 23455766667788899999998
Q ss_pred hCccc---ccccceEEccCCCcccccEEEEEEecccEEEEEEEeCCCCCCcCCCcccccCCCCCCCccccceeEEeCCCC
Q 006567 375 QSNLV---GLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGET 451 (640)
Q Consensus 375 ~~~f~---g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~ 451 (640)
..... |.+|.+.++.++.+....|+|+++...+-..+|.|++..| ..|.||+..
T Consensus 146 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-----------------------~~i~~~~~~ 202 (656)
T KOG1052|consen 146 KLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-----------------------ENISWPGKD 202 (656)
T ss_pred hhhhhccccceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-----------------------ceeeccCCc
Confidence 87654 4557788887888999999999999988888999998653 368899999
Q ss_pred CCCCCceeecCCCCeEEEEeecCCCccceEEee---cCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCC--CCCCHh
Q 006567 452 LSKPRGWVFPNNGKLLKIGVPNRASYREFVSKV---RGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGH--KNPSYT 526 (640)
Q Consensus 452 ~~~p~~~~~~~~~~~l~v~~~~~~~~~p~~~~~---~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~--~~~~~~ 526 (640)
...|.++..+.+|++++|++...+||..+.... .++.++.|+|+||++++++++||++++...+.+.+. ++++|+
T Consensus 203 ~~~~~~~~~~~~~~~l~v~~~~~~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~ 282 (656)
T KOG1052|consen 203 YFVPKGWFFPTNGKPLRVGVVTEPPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWD 282 (656)
T ss_pred ccCcCCccccCCCceEEEEEeccCCceeeeecccccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChh
Confidence 999999887778999999999876665444431 145789999999999999999999666665554443 447999
Q ss_pred hHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEecCCCCcCcceeccccchhHHHHHHHHHHHHHHHHHh
Q 006567 527 QLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWI 606 (640)
Q Consensus 527 ~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~~~~~~~~~~~l~pf~~~vw~~i~~~~~~~~~~~~~ 606 (640)
||+++|.+|++|++ ++++++++|++++|||.||+..+++++++++......+.|++||++.||++++++++++++++|+
T Consensus 283 g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~ 361 (656)
T KOG1052|consen 283 GLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWI 361 (656)
T ss_pred HHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999 99999999999999999999999999999999554499999999999999999999999999999
Q ss_pred hhcccCCCCCCCcc------ccchhhhHhHhhhhhhcc
Q 006567 607 LEHRINDEFRGPPK------RQVITILWFSLSTLFFAH 638 (640)
Q Consensus 607 ~~~~~~~~~~~~~~------~~~~~~~w~~~~~~~~~~ 638 (640)
++|++|++| ++. ....+++|+++|+++-++
T Consensus 362 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~q~ 397 (656)
T KOG1052|consen 362 LERLSPYEL--PPRQIVTSLFSLLNCLWLTVGSLLQQG 397 (656)
T ss_pred HhccccccC--CccccceeEeecccchhhhhHHHhccC
Confidence 999999999 222 124667899999887665
No 39
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=9.6e-37 Score=312.28 Aligned_cols=328 Identities=19% Similarity=0.248 Sum_probs=282.4
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~ 109 (640)
+||++.|++ +..|.....|+++|++++|+++++ +|++|+++++|+++++..+.+.+.++++++|.+|+||.++..+
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 456788999999999999999877 6999999999999999999999999999999999999999999
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcCCCCcccHHHHHHHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~~~~~g~~~~~~~~~~~ 188 (640)
.+++++++..+||+|++.+..+.+.+..++++||+.|++..++.++++++ ++++|++|+++++++++|....+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999998877666666668999999999999999999985 57899999999999999999999999999
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCC
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (640)
++.|++|.....++++ ..++...+.++++.++++|++.+...++..+++++++.|+. ..|+.++.+... .
T Consensus 160 ~~~g~~v~~~~~~~~~----~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~~~-~-- 229 (334)
T cd06342 160 KAAGGKVVAREGTTDG----ATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLK---APFMGGDGLCDP-E-- 229 (334)
T ss_pred HHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCC---CcEEecCccCCH-H--
Confidence 9999999988888765 78899999999999999999999999999999999999984 356665533211 0
Q ss_pred CCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCcc
Q 006567 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (640)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (640)
.........+|++...++.+ .++..++|.++|++++ +..++.++..+||+++++++|++++.
T Consensus 230 -~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~al~~~~------------- 293 (334)
T cd06342 230 -FIKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKF--GDPPGAYAPYAYDAANVLAEAIKKAG------------- 293 (334)
T ss_pred -HHHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHh--CCCCchhHHHHHHHHHHHHHHHHHhC-------------
Confidence 01112245678877766655 3677899999999888 34567889999999999999999851
Q ss_pred ccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEE
Q 006567 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINV 403 (640)
Q Consensus 347 ~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~ 403 (640)
..++..+.++|++.+|+|++|++.|+++|++.+..|+|+|+
T Consensus 294 ----------------~~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 294 ----------------STDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred ----------------CCCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 01388999999999999999999999999999999999874
No 40
>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=3.4e-36 Score=300.21 Aligned_cols=340 Identities=14% Similarity=0.143 Sum_probs=252.4
Q ss_pred CCCeeEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCC-CChHHHHHHHHHh-HhcCcEEEEcC-
Q 006567 27 ARPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRF-METDIVAIIGP- 103 (640)
Q Consensus 27 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~-~~~~~a~~~a~~l-~~~~v~aiiGp- 103 (640)
..+..|+||+||+.. ...+.||++|++.+|++..++++.+|++++.... .|++.+...+|++ +.+||.||+||
T Consensus 14 ~~~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg~p 89 (382)
T cd06377 14 RIGHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLAFP 89 (382)
T ss_pred hcCCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEecC
Confidence 345679999999976 3479999999999999988878899998887654 5999999999999 59999999994
Q ss_pred CChHHHHHHHHhhccCCceEEecccCCCCC-CCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHH
Q 006567 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTL-SSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVS 182 (640)
Q Consensus 104 ~~s~~~~~v~~~~~~~~iP~is~~~~~~~l-~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~ 182 (640)
.++..+..+..+|+.++||+|++....+.. ++..+...+++.|+...++.|+++++++|+|++|++||+.+.. ..
T Consensus 90 ~s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~g----l~ 165 (382)
T cd06377 90 QTRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERD----PT 165 (382)
T ss_pred CCHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcC----HH
Confidence 887888999999999999999985544333 2233333456799999999999999999999999999987763 44
Q ss_pred HHHHHHhhcCe-----EEEEeeccCCCCCCChhHH-HHHHHHHhcCC-ceEEEEecChhhHHHHHHHHHHcCCccCCeEE
Q 006567 183 ALNDKLAERRC-----RISYKSGIPPESGVNTGYV-MDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (640)
Q Consensus 183 ~~~~~~~~~g~-----~v~~~~~~~~~~~~~~~~~-~~~l~~l~~~~-~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~ 255 (640)
.|++.++..+. .+... ..+.. +.+..++ +++|+++++.. .++|++.|+.+.+..+|+++.+ .|+|
T Consensus 166 ~lq~l~~~~~~~~~~~~i~v~-~~~~~-~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~------~y~w 237 (382)
T cd06377 166 GLLLLWTNHARFHLGSVLNLS-RNDPS-TADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP------GPHW 237 (382)
T ss_pred HHHHHHHHhcccccCceEEEE-eccCc-cCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc------ceEE
Confidence 45555554431 22222 22211 0134455 99999999999 9999999999999999987754 4999
Q ss_pred EEeCccccccCCCCCChhhh--hhccceEEEEEccCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHh
Q 006567 256 IATDWLAYMLDSASLPSETL--ESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFF 333 (640)
Q Consensus 256 i~~~~~~~~~~~~~~~~~~~--~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 333 (640)
|+++. .+. +.+. ...-|++. |.+ .......+++||||+++++|++.+.
T Consensus 238 Iv~~~----~~l----e~~~~~g~nigLl~-----------------~~~-----~~~~~l~ali~DAV~lvA~a~~~l~ 287 (382)
T cd06377 238 ILGDP----LPP----EALRTEGLPPGLLA-----------------HGE-----TTQPPLEAYVQDALELVARAVGSAT 287 (382)
T ss_pred EEcCC----cCh----hhccCCCCCceEEE-----------------Eee-----cccccHHHHHHHHHHHHHHHHHHhh
Confidence 99872 111 1111 11222221 110 1111337899999999999999863
Q ss_pred hcCCcccccCCccccccCCCCcccCcc--c-ccCchHHHHHHHHhCcccccccceEEccCCCc--ccccEEEEEEe--cc
Q 006567 334 NQGGKISFSNDSRLKTMEGGNLHLGAM--S-IFDDGMLLLGNILQSNLVGLTGPLKFNSDRSL--IHAAYDIINVI--GT 406 (640)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~~~~~~c~~~--~-~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r--~~~~~~I~~~~--~~ 406 (640)
...... .+......|... . +|++|..|.++|++++++|.||+|.| +.|.| +++.++|++++ ..
T Consensus 288 ~~~~~~---------~l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F-~~g~R~~~~~~l~I~~L~~~~~ 357 (382)
T cd06377 288 LVQPEL---------ALIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWV-TGSSQVHSSRHFKVWSLRRDPV 357 (382)
T ss_pred hccccc---------ccCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEE-ccCeeecccceEEEEEeccccC
Confidence 211111 123445678654 5 89999999999999999999999999 45888 78999999998 43
Q ss_pred ---cEEEEEEEeCCCCCCc
Q 006567 407 ---GFRMIGYWSNYSGLSK 422 (640)
Q Consensus 407 ---~~~~vG~w~~~~~l~~ 422 (640)
.|++||+|++..++.|
T Consensus 358 G~~~W~kVG~W~~~~~~~~ 376 (382)
T cd06377 358 GQPTWTTVGSWQGGRKIVM 376 (382)
T ss_pred CCccceEEEEecCCCceec
Confidence 4599999998644433
No 41
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=1.7e-36 Score=308.27 Aligned_cols=304 Identities=18% Similarity=0.228 Sum_probs=237.8
Q ss_pred CCCChHHHHHHHHHhHhc-CcEEEE-cCCChH--HHHHHHHhhccCCceEEecccCCC-CCCC-CCCCcEEEecCCchHH
Q 006567 78 SNCSGFIGMVEALRFMET-DIVAII-GPQCST--VAHIVSYVSNELQVPLLSFGVTDP-TLSS-LQYPFFVRTTQSDSYQ 151 (640)
Q Consensus 78 ~~~~~~~a~~~a~~l~~~-~v~aii-Gp~~s~--~~~~v~~~~~~~~iP~is~~~~~~-~l~~-~~~~~~~r~~p~~~~~ 151 (640)
+..||.+...++|+++.+ +|.|+| ||.++. .+..++.++..++||+|++.+.++ .+++ ..+++|+|+.|++..+
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 456999999999999977 699755 999986 445677777789999999876654 4555 5789999999999999
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
++|+++++++|+|++|++||++++.+..+.+.+++.+...++++.....+.... ....+....+++++..++++||++|
T Consensus 123 ~~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-~~~~~~~~~l~~lk~~~arViVl~~ 201 (362)
T cd06378 123 AAVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDM-SDDDGDARTQRQLKKLESQVILLYC 201 (362)
T ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeecc-CCCcchHHHHHHHHhcCCCEEEEEC
Confidence 999999999999999999999888777777788887776655554333222221 1233477888999999999999999
Q ss_pred ChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCCCC
Q 006567 232 SPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGM 311 (640)
Q Consensus 232 ~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 311 (640)
+.+.+..+|++|+++||++++|+||+++......+. .......|++++.. ++|+.
T Consensus 202 s~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~-----~~~~~~~G~i~v~~------------~~w~~-------- 256 (362)
T cd06378 202 SKEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDL-----GPSEFPVGLISVSY------------DGWRY-------- 256 (362)
T ss_pred CHHHHHHHHHHHHHcCCcCCCeEEEecccccCCCcc-----ccccCCcceEeecc------------ccccc--------
Confidence 999999999999999999999999999876554221 11234567666553 22321
Q ss_pred CchhhhhhhHHHHHHHHHHHHhhcCCcccccCCccccccCCCCcccCc-cc-ccCchHHHHHHHHhCcccccccceEEcc
Q 006567 312 NSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGA-MS-IFDDGMLLLGNILQSNLVGLTGPLKFNS 389 (640)
Q Consensus 312 ~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~-~~-~~~~g~~l~~~l~~~~f~g~tG~v~Fd~ 389 (640)
...+..||||+++|+|++.+++++..+ .....+|.. .. +|.+|..|+++|++++|+|. +|+|++
T Consensus 257 -~~~a~~~DaV~vva~Al~~l~~~~~~~-----------~~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~ 322 (362)
T cd06378 257 -SLRARVRDGVAIIATGASAMLRQHGFI-----------PEAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTE 322 (362)
T ss_pred -cHHHHHHHHHHHHHHHHHHHHhccCCC-----------CCCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECC
Confidence 135678999999999999987654433 223446754 33 48899999999999999996 999999
Q ss_pred CCCcccccEEEEEEec-ccEEEEEEEeCCCCCCc
Q 006567 390 DRSLIHAAYDIINVIG-TGFRMIGYWSNYSGLSK 422 (640)
Q Consensus 390 ~g~r~~~~~~I~~~~~-~~~~~vG~w~~~~~l~~ 422 (640)
+|+|.++.|+|++++. .+|++||.|+. .+|.|
T Consensus 323 ~G~r~~~~ldIinl~~~~g~~kVG~W~~-~~L~~ 355 (362)
T cd06378 323 DGYLVNPKLVVISLNKERVWEEVGKWEN-GSLRL 355 (362)
T ss_pred CCeEccceEEEEEecCCCCceEEEEEcC-CeEEE
Confidence 9999999999999996 58999999994 34443
No 42
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=100.00 E-value=1e-35 Score=306.33 Aligned_cols=308 Identities=32% Similarity=0.534 Sum_probs=261.9
Q ss_pred EEEEEeecCCc-------------cchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc----
Q 006567 33 NVGALFTLDST-------------IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET---- 95 (640)
Q Consensus 33 ~IG~l~~~~~~-------------~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~---- 95 (640)
.||++||.+.. .|.....++.+|+++||+++++++|++|++++.|++|++..++.++++++.+
T Consensus 1 ~ig~lf~~~~~~~~~~~~c~~~~~~~~~~~~~~~~Av~~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~~~~ 80 (348)
T cd06350 1 IIGGLFPLHSGSESVSLKCGRFGKKGLQAAEAMLFAVEEINNDPDLLPNITLGYHIYDSCCSPAVALRAALDLLLSGEGT 80 (348)
T ss_pred CeEEEEeCcccccCCCcccceechHHHHHHHHHHHHHHHHcCCCccCCCCceeEEEEecCCcchHHHHHHHHHHhcCCCC
Confidence 48999999852 2456678999999999999988899999999999999999999999999975
Q ss_pred ----------CcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCC
Q 006567 96 ----------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGW 164 (640)
Q Consensus 96 ----------~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w 164 (640)
+|.+|+||.+|..+.++++++..++||+|+++++++.+++ ..|+++||+.|++..++.++++++++++|
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 8999999999999999999999999999999998888866 56899999999999999999999999999
Q ss_pred cEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 165 ~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
+++++++++++||....+.+++.+++.|++|.....++.. ....++..+++++++.++|+|++++...++..++++++
T Consensus 161 ~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~--~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~ 238 (348)
T cd06350 161 TWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPS--STEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAY 238 (348)
T ss_pred eEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCC--CcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHH
Confidence 9999999999999999999999999999999988888754 23679999999999999999999999999999999999
Q ss_pred HcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHH
Q 006567 245 YLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWL 324 (640)
Q Consensus 245 ~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~ 324 (640)
++|+ ... .|++++.+..... ......+..+|++++..+.+.....++|.+.+++ +++++|||+++
T Consensus 239 ~~g~-~~~-~~i~~~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----------~~~~~YDav~~ 303 (348)
T cd06350 239 KLGM-TGK-YWIISTDWDTSTC---LLLFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK----------YAYNVYDAVYA 303 (348)
T ss_pred HhCC-CCe-EEEEEccccCccc---cccCCcceeeeEEEEEEEeecCCcCCChHHHHHH----------HHHHHHhheeE
Confidence 9999 444 4455554443211 1122335678888888877765556666666653 66889999887
Q ss_pred HHHHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEe
Q 006567 325 LAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (640)
Q Consensus 325 ~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~ 404 (640)
.+.|+++|+| ...|.|.+++
T Consensus 304 -----------------------------------------------------------~v~f~~~gd~-~~~~~i~~~~ 323 (348)
T cd06350 304 -----------------------------------------------------------EVKFDENGDR-LASYDIINWQ 323 (348)
T ss_pred -----------------------------------------------------------EEEecCCCCc-ccceeEEEEE
Confidence 3789999996 5779998887
Q ss_pred c----ccEEEEEEEeCC
Q 006567 405 G----TGFRMIGYWSNY 417 (640)
Q Consensus 405 ~----~~~~~vG~w~~~ 417 (640)
. ..+++||.|++.
T Consensus 324 ~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 324 IFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EcCCcEEEEEEEEEcCC
Confidence 6 678999999873
No 43
>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=1.9e-36 Score=308.96 Aligned_cols=333 Identities=16% Similarity=0.143 Sum_probs=245.8
Q ss_pred CCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccC------C-CChHHHHHHHHHhHhcCc--EEEEcCCChHHHHH
Q 006567 41 DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSS------N-CSGFIGMVEALRFMETDI--VAIIGPQCSTVAHI 111 (640)
Q Consensus 41 ~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~------~-~~~~~a~~~a~~l~~~~v--~aiiGp~~s~~~~~ 111 (640)
+...|...+.|+++|++++|++. +.++.+...++ . .+.+.+.+++|+++++|+ .|||||.++..+..
T Consensus 7 ~~~~~~~~~~A~~~Av~~~N~~~----~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~gv~~~AIiGp~ss~~a~~ 82 (368)
T cd06383 7 TEDDNDVYKQIIDDALSYINRNI----GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADSAIVPHLVLDTTTCGDASE 82 (368)
T ss_pred cccchHHHHHHHHHHHHHHhcCC----CCceEEEEecccccccccCCcHHHHHHHHHHHHHccCCcEEEECCCcchhHHH
Confidence 34467889999999999999986 56666666655 4 467788888999999988 89999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHH-HHhh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND-KLAE 190 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~-~~~~ 190 (640)
++++|+.++||+|+++.. ..++..+|+++|+.|++..+.+|+++++++|+|++|++||+++.+.......+.+ ....
T Consensus 83 V~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~~ 160 (368)
T cd06383 83 IKSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTR 160 (368)
T ss_pred HHHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhc
Confidence 999999999999987443 2333578999999999999999999999999999999999776543223332222 2333
Q ss_pred cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCC
Q 006567 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (640)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~ 269 (640)
.++++. +. ...+++..+++++..+.+.||+.|+ ++.+..+|++|.++||++.+|+||++++.....+.
T Consensus 161 ~~~~v~-----~~----~~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl-- 229 (368)
T cd06383 161 HVITII-----NS----IIDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDD-- 229 (368)
T ss_pred CCEEEE-----ec----cchhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhh--
Confidence 344443 11 1356889999999998866766666 49999999999999999999999999876544333
Q ss_pred CChhhhhhccceEEEEEccCCchhHHHHHHHHhhhc--C-CCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCcc
Q 006567 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLT--G-GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (640)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~--~-~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (640)
+.......++.++++..+.....+++.++|.+.. + ........++++||||+++++|++++..+.....
T Consensus 230 --~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~------ 301 (368)
T cd06383 230 --LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPTLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDG------ 301 (368)
T ss_pred --hhhccccCcEEEeeccccchhhhccceeeccCCccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCC------
Confidence 2344456789999997666655677777663211 0 0112345689999999999999998632211110
Q ss_pred ccccCCCCcccCcc---ccc-CchHHHHHHHHhCcccccccceEEccCCCcccccEEE
Q 006567 347 LKTMEGGNLHLGAM---SIF-DDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDI 400 (640)
Q Consensus 347 ~~~~~~~~~~c~~~---~~~-~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I 400 (640)
|... ....|... .+| .+|..+.++|+.++|+|+||+|.||++|.|.++++.+
T Consensus 302 -~~~~-~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~l~~ 357 (368)
T cd06383 302 -STGT-SVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKTIGS 357 (368)
T ss_pred -CcCc-cccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeeeeee
Confidence 0000 12234433 256 7788999999999999999999999999987655443
No 44
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.1e-35 Score=300.49 Aligned_cols=305 Identities=21% Similarity=0.290 Sum_probs=261.6
Q ss_pred EEEEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
|||++.|++. ..|.....++++|+++||+++++ +|++|+++++|++++|..+.+++.+|+.+ +|.+|+||.+|..
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 6999999983 45788899999999999999998 69999999999999999999999999986 9999999999999
Q ss_pred HHHH-HHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHH
Q 006567 109 AHIV-SYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (640)
Q Consensus 109 ~~~v-~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~ 186 (640)
+.++ ++++.+.++|+|+++++++.+++ ..++++||+.|++..++.++++++.+++|+++++|+.+++||+.....+++
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 89999999999999888888876 457899999999999999999999999999999999999999999999999
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccC
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (640)
.+++.|++|+....+++. ..|+.+++.++++.++|+|++.+...++..+++++++.|+.. .|++++......
T Consensus 160 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~~~~- 231 (312)
T cd06346 160 AFEALGGTVTNVVAHEEG----KSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFD---KFLLTDGMKSDS- 231 (312)
T ss_pred HHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCC---ceEeeccccChH-
Confidence 999999999988888866 789999999999999999999999999999999999999843 466655432210
Q ss_pred CCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCcc
Q 006567 267 SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (640)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (640)
. .........+|+++..+..+. +..++|.++|+++| +..|+.+++..||+++++++|
T Consensus 232 ~--~~~~~~~~~~g~~~~~~~~~~-~~~~~f~~~~~~~~--g~~p~~~~~~~Yd~~~~l~~A------------------ 288 (312)
T cd06346 232 F--LPADGGYILAGSYGTSPGAGG-PGLEAFTSAYKAAY--GESPSAFADQSYDAAALLALA------------------ 288 (312)
T ss_pred H--HHhhhHHHhCCcEEccCCCCc-hhHHHHHHHHHHHh--CCCCCccchhhHHHHHHHHHH------------------
Confidence 0 111112356787776654443 77899999999998 456888999999999999866
Q ss_pred ccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEE
Q 006567 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDII 401 (640)
Q Consensus 347 ~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~ 401 (640)
|.|++|++.|+++|++.. .|+-|
T Consensus 289 -------------------------------~~g~~g~~~f~~~g~~~~-~~~~~ 311 (312)
T cd06346 289 -------------------------------YQGASGVVDFDENGDVAG-SYDEW 311 (312)
T ss_pred -------------------------------hCCCccceeeCCCCCccc-ceeee
Confidence 567899999999998754 66543
No 45
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.6e-35 Score=302.28 Aligned_cols=320 Identities=21% Similarity=0.270 Sum_probs=269.8
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||++.|++ +..|.....|+++|++++|+++++ +|++|+++++|++++|..+++.+++++.+ +|.+|+||.++..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi-~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 79 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGI-LGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEV 79 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCC-CCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHH
Confidence 589999998 566889999999999999999988 68999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC----CCCCcEEEecCCchHHHHHHHHHHHh-----cCCcEEEEEEEcCCCCcc
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSS----LQYPFFVRTTQSDSYQMTAVAEMVSY-----YGWNAVSVIFVDNEYGRN 179 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~----~~~~~~~r~~p~~~~~~~al~~ll~~-----~~w~~v~ii~~~~~~g~~ 179 (640)
+.++.+++..++||+|+++++++.+++ ..++++||+.|++..++.++++++.+ ++|++|++++.++.||..
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~ 159 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKG 159 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhH
Confidence 999999999999999998887777763 46899999999999999999998876 899999999999999999
Q ss_pred cHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 180 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
..+.+++.+++.|++|.....++.+ ..+++.++.++++.++++|++.+...+...+++++.+.|+.. . ++...
T Consensus 160 ~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~--~~~~~ 232 (344)
T cd06345 160 IDAGIKALLPEAGLEVVSVERFSPD----TTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPI-P--TIGIS 232 (344)
T ss_pred HHHHHHHHHHHcCCeEEEEEecCCC----CCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCC-c--eEEec
Confidence 9999999999999999987777765 678999999999999999999999999999999999999743 2 33332
Q ss_pred ccccccCCCCCChhhhhhccceEEEEEccC----CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhc
Q 006567 260 WLAYMLDSASLPSETLESMQGVLVLRQHIP----ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (640)
Q Consensus 260 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~ 335 (640)
.+...... ........++.+....+.+ .++..++|.++|++++ +..++.+++..||+++++++|++++..
T Consensus 233 ~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--g~~p~~~~~~~yda~~~l~~A~~~ag~- 306 (344)
T cd06345 233 VEGNSPAF---WKATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKF--GGPPNYMGASTYDSIYILAEAIERAGS- 306 (344)
T ss_pred CCcCCHHH---HHhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHh--CCCCcccchHHHHHHHHHHHHHHHhcC-
Confidence 22111000 0111234555555444333 4667899999999988 456888999999999999999998521
Q ss_pred CCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcc
Q 006567 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLI 394 (640)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~ 394 (640)
.++..+.++|++.+|+|++|+++||++|++.
T Consensus 307 ----------------------------~~~~~i~~al~~~~~~g~~G~i~f~~~g~~~ 337 (344)
T cd06345 307 ----------------------------TDGDALVEALEKTDFVGTAGRIQFYGDDSAF 337 (344)
T ss_pred ----------------------------CCHHHHHHHHHhCCCcCCceeEEECCCCCcC
Confidence 1378899999999999999999999999964
No 46
>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=2.5e-35 Score=302.96 Aligned_cols=328 Identities=16% Similarity=0.218 Sum_probs=274.3
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCC---CCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCC
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSIL---HGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l---~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~ 105 (640)
+||+++|++ +..|.....|+++|++++|+++|+. .|++|+++.+|++++|..+.+.+.+|+++ +|.+|+||.+
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 4557888999999999999987752 57999999999999999999999999986 9999999999
Q ss_pred hHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcC--CcEEEEEEEcCCCCcccHHH
Q 006567 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG--WNAVSVIFVDNEYGRNGVSA 183 (640)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~--w~~v~ii~~~~~~g~~~~~~ 183 (640)
+..+.++.+++...+||+|++++.++.+....++++||+.|++..++.++++++++++ |+++++++.++++|....+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999988877777655679999999999999999999999887 99999999999999999999
Q ss_pred HHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCcccc
Q 006567 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (640)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 263 (640)
+++.+++.|++|.....++.. .+++++++++++..++|+|++.+...++..+++++++.|+..+ ..+. +.+...
T Consensus 161 ~~~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~~~-~~~~~~ 234 (345)
T cd06338 161 AREKAEAAGLEVVYDETYPPG----TADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-ALYM-TVGPAF 234 (345)
T ss_pred HHHHHHHcCCEEEEEeccCCC----ccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EEEE-ecCCCc
Confidence 999999999999987777765 6789999999999999999999999999999999999998643 3222 221111
Q ss_pred ccCCCCCChhhhhhccceEEEEEccCC-------chhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcC
Q 006567 264 MLDSASLPSETLESMQGVLVLRQHIPE-------SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (640)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~ 336 (640)
.. ..........|++....+.+. .+..++|.++|+++| +..|+.++...||+++++++|++++...
T Consensus 235 ~~----~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~a~~~~~~a~~~ag~~- 307 (345)
T cd06338 235 PA----FVKALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKY--GKAPDYHAAGAYAAGQVLQEAVERAGSL- 307 (345)
T ss_pred HH----HHHHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHh--CCCCCcccHHHHHHHHHHHHHHHHhCCC-
Confidence 00 001122345777776655543 356899999999998 3457778899999999999999985211
Q ss_pred CcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEE
Q 006567 337 GKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIIN 402 (640)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~ 402 (640)
++..+.++|++++|.|++|++.|+++|++.. .+.+++
T Consensus 308 ----------------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~ 344 (345)
T cd06338 308 ----------------------------DPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQ 344 (345)
T ss_pred ----------------------------CHHHHHHHHHhCCCcccccCeeECCCCCcCC-Cceeee
Confidence 3789999999999999999999999998754 444543
No 47
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=9.9e-35 Score=298.13 Aligned_cols=334 Identities=15% Similarity=0.238 Sum_probs=271.3
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||++.|++ +..|.....++++|++++|+.+++ .|++|++++.|++++|..+.+++++|+++ +|.+|+||.++..
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 699999998 456889999999999999999998 58999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHH-HHHHHHhc-CCcEEEEEEEcC-CCCcccHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTA-VAEMVSYY-GWNAVSVIFVDN-EYGRNGVSALN 185 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~a-l~~ll~~~-~w~~v~ii~~~~-~~g~~~~~~~~ 185 (640)
+.++.++++..+||+|+++++.+.+.. .++++||+.+++..+... +..+++++ +|+++++||.++ .||....+.++
T Consensus 80 ~~a~~~~~~~~~ip~i~~~~~~~~~~~-~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~~~~~~~~ 158 (344)
T cd06348 80 AFAADPIAERAGVPVVGPSNTAKGIPE-IGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFSVSETEIFQ 158 (344)
T ss_pred HHhhhHHHHhCCCCEEeccCCCCCcCC-CCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHHHHHHHHHH
Confidence 999999999999999998776665543 458999998776655544 44567777 999999999754 49999999999
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCcccccc
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (640)
+.+++.|++++....++.+ ..++.+++.+++++++|+|++.+...++..+++++++.|+.. .++.........
T Consensus 159 ~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~ 231 (344)
T cd06348 159 KALRDQGLNLVTVQTFQTG----DTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNG---LIVGGNGFNTPN 231 (344)
T ss_pred HHHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC---ceeccccccCHH
Confidence 9999999999988888765 789999999999999999999999999999999999999854 345443321110
Q ss_pred CCCCCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccC
Q 006567 266 DSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (640)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 343 (640)
.........+|++...++.+ ..+..++|.++|++++ +..++.++...||+++++++|++++...+...+
T Consensus 232 ----~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~yda~~~~~~A~~~a~~~~~~~~--- 302 (344)
T cd06348 232 ----VFPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKY--GKAPPQFSAQAFDAVQVVAEALKRLNQKQKLAE--- 302 (344)
T ss_pred ----HHHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHH--CCCccHHHHHHHHHHHHHHHHHHHhcCCCcccc---
Confidence 01122346678877766554 3456899999999888 356678899999999999999999864322100
Q ss_pred CccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEE
Q 006567 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDI 400 (640)
Q Consensus 344 ~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I 400 (640)
|.. -..+..|.++|++.+|+|++|++.|+++|++....|.|
T Consensus 303 -------------~~~---~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 303 -------------LPL---PELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred -------------chh---hhHHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 000 01267899999999999999999999999988777654
No 48
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.5e-34 Score=293.79 Aligned_cols=324 Identities=20% Similarity=0.264 Sum_probs=270.4
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCC--CCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCCh
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSI--LHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCS 106 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~--l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s 106 (640)
+||++.|++ +..|.....|+++|++++|+.+|+ ++|++|+++++|++++|..+.+++++++++ +|.+|+||.++
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 80 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQS 80 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEecccch
Confidence 599999998 456788999999999999999963 479999999999999999999999999988 99999999999
Q ss_pred HHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc------CCcEEEEEEEcCCCCccc
Q 006567 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVDNEYGRNG 180 (640)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~------~w~~v~ii~~~~~~g~~~ 180 (640)
..+.+++++++..++|+|++.++++.+++..++++||+.|++..++.++++++.++ +|+++++++.+++||...
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 99999999999999999998887777776668999999999999999999998876 469999999999999999
Q ss_pred HHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCc
Q 006567 181 VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW 260 (640)
Q Consensus 181 ~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~ 260 (640)
.+.+++.+++.|++|.....++.. ..+++.++.++++.++|+|++.+...++..+++++++.|+..+ .++....+
T Consensus 161 ~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~ 235 (347)
T cd06340 161 AEAIKKFAKERGFEIVEDISYPAN----ARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEPK-AVYSVGGG 235 (347)
T ss_pred HHHHHHHHHHcCCEEEEeeccCCC----CcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCCc-EEEecCCC
Confidence 999999999999999988888765 7799999999999999999999999999999999999998642 22222221
Q ss_pred cccccCCCCCChhhhhhccceEEEEEccCC-chhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcc
Q 006567 261 LAYMLDSASLPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (640)
Q Consensus 261 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~ 339 (640)
.... . ......+..+|++...++.+. .+..++|.++|+++| +..++.++...||+++++++|++++...
T Consensus 236 ~~~~-~---~~~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~--~~~~~~~~~~~Y~a~~~l~~A~~~ag~~---- 305 (347)
T cd06340 236 AEDP-S---FVKALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARF--GVDLSGNSARAYTAVLVIADALERAGSA---- 305 (347)
T ss_pred cCcH-H---HHHHhhHhhheEEeccccCCCCChHHHHHHHHHHHHh--CCCCChHHHHHHHHHHHHHHHHHHhcCC----
Confidence 1110 0 001223456788877766554 677899999999998 3457889999999999999999986321
Q ss_pred cccCCccccccCCCCcccCcccccCchHHHH--HHHHhCccc---ccccceEEccCCCcccc
Q 006567 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLL--GNILQSNLV---GLTGPLKFNSDRSLIHA 396 (640)
Q Consensus 340 ~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~--~~l~~~~f~---g~tG~v~Fd~~g~r~~~ 396 (640)
++..+. .+|++..+. +.+|.++||++|+..+.
T Consensus 306 -------------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 306 -------------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred -------------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 367777 488777765 56889999999986543
No 49
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=100.00 E-value=3.7e-33 Score=286.03 Aligned_cols=336 Identities=16% Similarity=0.134 Sum_probs=270.5
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||++.|++ +..|....+|+++|+++||+++|++ |++|+++.+|++++|..+++++.+|+++ +|.+|+|+.+|..
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 4568889999999999999999995 8999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEcCCCCcccHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVSALNDK 187 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~-~~w~~v~ii~~~~~~g~~~~~~~~~~ 187 (640)
+.++.+++...++|++++..... ...++++||+.+.+..++..+++++.. .+++++++++.|++||....+.+++.
T Consensus 80 ~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~ 156 (348)
T cd06355 80 RKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQ 156 (348)
T ss_pred HHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHH
Confidence 99999999999999997643221 134589999999999999999998775 57999999999999999999999999
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (640)
+++.|++|+....++.+ ..|+.+++.++++.++|+|++.....++..+++++++.|+......++..........
T Consensus 157 ~~~~G~~vv~~~~~~~~----~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~- 231 (348)
T cd06355 157 LESLGGEVVGEEYLPLG----HTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELR- 231 (348)
T ss_pred HHHcCCeEEeeEEecCC----hhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHh-
Confidence 99999999988888766 8999999999999999999999898999999999999998754444554322111100
Q ss_pred CCCChhhhhhccceEEEEEc--cCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCc
Q 006567 268 ASLPSETLESMQGVLVLRQH--IPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (640)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (640)
........|++....+ ....+..++|.++|+++|+....++.++...||+++++++|++++...
T Consensus 232 ----~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~~~~~~a~~~Y~a~~~~~~Al~~ag~~---------- 297 (348)
T cd06355 232 ----GIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDRVTNDPMEAAYIGVYLWKQAVEKAGSF---------- 297 (348)
T ss_pred ----hcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC----------
Confidence 0111345666554332 234677899999999998422234567888999999999999986211
Q ss_pred cccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEe-cccEEE
Q 006567 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRM 410 (640)
Q Consensus 346 ~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~-~~~~~~ 410 (640)
+++.|.++|++.+|+++.|.++|+++++.....+.|.+++ ++.++.
T Consensus 298 -------------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~ 344 (348)
T cd06355 298 -------------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEI 344 (348)
T ss_pred -------------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEE
Confidence 3889999999999999999999998554344556666775 444443
No 50
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.5e-33 Score=287.59 Aligned_cols=320 Identities=16% Similarity=0.169 Sum_probs=264.1
Q ss_pred EEEEEeecC--CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHHH
Q 006567 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTVA 109 (640)
Q Consensus 33 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~~ 109 (640)
+||++.|++ +..|....+++++|+++||+.+|+ +|++|+++++|++++|..+...+.+|+.+ +|.+|+|+.+|..+
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi-~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~ 79 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGI-NGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDAT 79 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCC-CCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 489999998 556888899999999999999998 69999999999999999999999999976 99999999999999
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEcCC-CCcccHHHHHHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNE-YGRNGVSALNDK 187 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~-w~~v~ii~~~~~-~g~~~~~~~~~~ 187 (640)
.++.+++...++|+|++.+.++.++ ..++++||+.|++..+++++++++++.+ |+++++|+.++. ||+...+.+++.
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 9999999999999999877777676 4579999999999999999999998876 999999998775 999999999999
Q ss_pred Hhh-cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccC
Q 006567 188 LAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (640)
Q Consensus 188 ~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (640)
+++ .|.++.....+.. .+.++..++.++++.++++|++.+.......+++++++.+. ...+++++.+... +
T Consensus 159 ~~~~~g~~v~~~~~~~~----~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~~-~ 230 (332)
T cd06344 159 LLERGGGIVVTPCDLSS----PDFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG---RLTLLGGDSLYTP-D 230 (332)
T ss_pred HHHhcCCeeeeeccCCC----CCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---CceEEecccccCH-H
Confidence 998 5888775544443 25678889999999999999999988888889999888663 2344554433221 1
Q ss_pred CCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCcc
Q 006567 267 SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (640)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (640)
. . .......+|+++..++.+.++..++|.+.|++++ +..++.++...||+++++++|++++...
T Consensus 231 ~--~-~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~a~~~Yda~~~l~~A~~~ag~~----------- 294 (332)
T cd06344 231 T--L-LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLW--GGDVSWRTATAYDATKALIAALSQGPTR----------- 294 (332)
T ss_pred H--H-HhchhhhcCeEEEEecccccccchHHHHHHHHHh--cCCchHHHHhHHHHHHHHHHHHHhCCCh-----------
Confidence 0 0 1122456788888888777777899999999998 4567889999999999999999975211
Q ss_pred ccccCCCCcccCcccccCchHHHH-HHHHhCcccccccceEEccCCCcccc
Q 006567 347 LKTMEGGNLHLGAMSIFDDGMLLL-GNILQSNLVGLTGPLKFNSDRSLIHA 396 (640)
Q Consensus 347 ~~~~~~~~~~c~~~~~~~~g~~l~-~~l~~~~f~g~tG~v~Fd~~g~r~~~ 396 (640)
++..+. ..+++..|+|+.|+++||++|++...
T Consensus 295 ------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~ 327 (332)
T cd06344 295 ------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNGQ 327 (332)
T ss_pred ------------------hhhhhhhhhcccccccCCCceeEeCCCCcccCc
Confidence 234444 67778889999999999999997543
No 51
>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=2.6e-33 Score=286.20 Aligned_cols=312 Identities=25% Similarity=0.380 Sum_probs=248.3
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCC-CChHHHHHHHHHhH-hcCcEEEEcCCChHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFM-ETDIVAIIGPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~-~~~~~a~~~a~~l~-~~~v~aiiGp~~s~~~~ 110 (640)
+||++++... ...+.|+++|++++|.+++++++..+.+.+.+.+ +++..++.++|+++ .++|.||+||.++..+.
T Consensus 1 ~iG~i~~~~~---~~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~l~~~~~v~ai~G~~~s~~~~ 77 (328)
T cd06351 1 NIGAIFDRDA---RKEELAFRAAIDALNTENLNALPTKLSVEVVEVNTNDPFSLLRAVCDLLVSQGVAAIFGPTSSESAS 77 (328)
T ss_pred CeeeecCCCc---HHHHHHHHHHHHHhccCccccCCeeEEEEEEEeCCCChHHHHHHHHHHHhccCcEEEECCCCHHHHH
Confidence 4899999865 5679999999999999998877666666666554 79999999999999 77999999999999999
Q ss_pred HHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHh
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~ 189 (640)
++++++..++||+|++.+..+.+++ ..+++++|+.|++..+++++++++.+++|+++++||+++++ ...+++.++
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~----~~~l~~~~~ 153 (328)
T cd06351 78 AVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEG----LSRLQELLD 153 (328)
T ss_pred HHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchH----HHHHHHHHH
Confidence 9999999999999998877776665 56799999999999999999999999999999999988873 334444444
Q ss_pred hc---CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCc-eEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCcccccc
Q 006567 190 ER---RCRISYKSGIPPESGVNTGYVMDLLVKVALMES-RVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (640)
Q Consensus 190 ~~---g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~-~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (640)
+. +..+... .+... ..+++..++++++.++ ++|++++...++..++++|.++||++++|+||+++......
T Consensus 154 ~~~~~~~~v~~~-~~~~~----~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~ 228 (328)
T cd06351 154 ESGIKGIQVTVR-RLDLD----DDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDI 228 (328)
T ss_pred hhcccCceEEEE-EecCC----chhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCcccc
Confidence 33 3344433 34433 3379999999999998 55555555599999999999999999999999998765543
Q ss_pred CCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcC--CCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccC
Q 006567 266 DSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG--GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (640)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 343 (640)
+. ........|+++++...+..+..++|..+|..... +...+...++.+||+++++
T Consensus 229 d~----~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~------------------ 286 (328)
T cd06351 229 DL----EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEESPGVNLRAPIYDAALLYDAVLLL------------------ 286 (328)
T ss_pred ch----hhhccCCcceEEEEEeCCCchHHHHHHHhhhhccCCCCcCccchhhHhhhcEEEEE------------------
Confidence 32 24456778999999999999999999998843331 1122223334444443221
Q ss_pred CccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEe-cccEEEEEEEeC
Q 006567 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGYWSN 416 (640)
Q Consensus 344 ~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~-~~~~~~vG~w~~ 416 (640)
||.+.||++|+|.++.++|++++ +.++++||.|+.
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 899999999994
No 52
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=100.00 E-value=2.9e-33 Score=285.74 Aligned_cols=322 Identities=16% Similarity=0.143 Sum_probs=266.6
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||+++|++ +..|.....++++|++++|+++|+ .|++|+++++|++++|..+..++++|+++ +|.+|+||.++..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi-~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGI-LGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSAS 79 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHH
Confidence 599999998 446788999999999999999998 69999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~ 188 (640)
+.++.++++..++|+|++...... ...+++||+.|++..++.++++++...+|+++++|+.|+.||+.....+++.+
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 999999999999999986543221 23478999999999999999998776669999999999999999999999999
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCC
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (640)
++.|.+++....++++ ..|+++++.+++..++|+|++.+...+...+++++++.|+..... ++.+...... +.
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~-~~~~~~~~~~-~~- 229 (333)
T cd06331 157 EELGGEVVGEEYLPLG----TSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRI-PILSLTLDEN-EL- 229 (333)
T ss_pred HHcCCEEEEEEEecCC----cccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCC-eeEEcccchh-hh-
Confidence 9999999888888866 789999999999999999999999999999999999999863333 3333221111 11
Q ss_pred CCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCcc
Q 006567 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (640)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (640)
.........|++...++.+ ..+..++|.++|+++++....++.++...||+++++++|++++..
T Consensus 230 --~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~ag~------------ 295 (333)
T cd06331 230 --AAIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDAVINSPAEAAYEAVYLWAAAVEKAGS------------ 295 (333)
T ss_pred --hccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCcCCCchhHHHHHHHHHHHHHHHHcCC------------
Confidence 0111234677777766544 356789999999988832225788899999999999999997421
Q ss_pred ccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccc
Q 006567 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHA 396 (640)
Q Consensus 347 ~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~ 396 (640)
.++..|.++|++++|+|++|.+.|++++++...
T Consensus 296 -----------------~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~~~ 328 (333)
T cd06331 296 -----------------TDPEAVRAALEGVSFDAPQGPVRIDPDNHHTWL 328 (333)
T ss_pred -----------------CCHHHHHHHhhcCcccCCCCceEecCCCCcccc
Confidence 138899999999999999999999998876533
No 53
>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=5.4e-33 Score=284.58 Aligned_cols=321 Identities=18% Similarity=0.275 Sum_probs=268.2
Q ss_pred EEEEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||+++|++. ..|.....|+++|++++|+++|+ +|++|++++.|+++++..+.+.+++++++ +|.+|+||.++..
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 5999999983 45778899999999999999987 69999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcC-CCCcccHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDN-EYGRNGVSALND 186 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~~~-~~g~~~~~~~~~ 186 (640)
+..+.++++..+||+|++.+..+.+++.. +++||+.|++..++.++++++ ++++|+++++|+.++ +++....+.+++
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~~~~~~-~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~ 158 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPKVTQGK-DYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKE 158 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCCcccCC-CeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHH
Confidence 99999999999999999887776666532 489999999999999999986 567999999999875 899888899999
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccC
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (640)
.+++.|+++.....++.. ..++.+.+++++..++++|++.+...+...+++++++.|+. ..|++++.|.....
T Consensus 159 ~~~~~g~~v~~~~~~~~~----~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~---~~i~~~~~~~~~~~ 231 (334)
T cd06347 159 AFKKLGGEIVAEETFNAG----DTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIK---VPILGGDGWDSPKL 231 (334)
T ss_pred HHHHcCCEEEEEEEecCC----CCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCC---CcEEecccccCHHH
Confidence 999999999887777755 66899999999999999999999999999999999999873 35776665543210
Q ss_pred CCCCChhhhhhccceEEEEEccCC--chhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCC
Q 006567 267 SASLPSETLESMQGVLVLRQHIPE--SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (640)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 344 (640)
. ........|+....++.+. .+..++|.++|++++ +..++.++...||+++++++|++++...
T Consensus 232 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~Al~~ag~~--------- 296 (334)
T cd06347 232 E----EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKY--GKEPDAFAALGYDAYYLLADAIERAGST--------- 296 (334)
T ss_pred H----HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH--CCCcchhHHHHHHHHHHHHHHHHHhCCC---------
Confidence 0 1223567787777665553 567899999998887 3567888899999999999999874210
Q ss_pred ccccccCCCCcccCcccccCchHHHHHHHHhC-cccccccceEEccCCCccccc
Q 006567 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQS-NLVGLTGPLKFNSDRSLIHAA 397 (640)
Q Consensus 345 ~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~-~f~g~tG~v~Fd~~g~r~~~~ 397 (640)
++..+.+.|.+. .++|++|++.|+++|+..+..
T Consensus 297 --------------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~~ 330 (334)
T cd06347 297 --------------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVKSA 330 (334)
T ss_pred --------------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCCCc
Confidence 378888888765 699999999999999865443
No 54
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=9.6e-33 Score=283.60 Aligned_cols=338 Identities=22% Similarity=0.245 Sum_probs=276.2
Q ss_pred CeeEEEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHh-cCcEEEEcCC
Q 006567 29 PAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-TDIVAIIGPQ 104 (640)
Q Consensus 29 ~~~i~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~-~~v~aiiGp~ 104 (640)
.++|+||++.|++ +.+|.+...++++|+++||+.+|++ |.+|++++.|+.++|..+...+.+|+. ++|.+|+|+.
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 4579999999998 5678999999999999999999974 777999999999999999999999887 5999999999
Q ss_pred ChHHHHHHHHhhccCCceEEecccCCCCCCCCCC-CcEEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEcCCCCcccHH
Q 006567 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQY-PFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVS 182 (640)
Q Consensus 105 ~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~-~~~~r~~p~~~~~~~al~~ll~~-~~w~~v~ii~~~~~~g~~~~~ 182 (640)
+|..+.++.+++++.++|+|+++++++.+....+ +++||+.|.+..++.++++++.. .+.++++++++++.||++..+
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 9999999999999999999999998888766443 44999999999999999998765 455699999999999999999
Q ss_pred HHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccc
Q 006567 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (640)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~ 262 (640)
.+++.+++.|.++.....+.+. ..++..++.++++.++|+|++.+...+...+++++++.|+... ..+.......
T Consensus 167 ~~~~~l~~~G~~~~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~-~~~~~~~~~~ 241 (366)
T COG0683 167 AFKAALKALGGEVVVEEVYAPG----DTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK-LIGGDGAGTA 241 (366)
T ss_pred HHHHHHHhCCCeEEEEEeeCCC----CCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc-cccccccCch
Confidence 9999999999986555666665 4459999999999999999999999999999999999998653 2222221111
Q ss_pred cccCCCCCChhhhhhccc-eEE-EEEccC-CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcc
Q 006567 263 YMLDSASLPSETLESMQG-VLV-LRQHIP-ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (640)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g-~~~-~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~ 339 (640)
... ........+ ... .....+ ..+..+.|.++|+++++....++.++...||+++++++|++++.. .
T Consensus 242 ~~~------~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~y~a~~~~~~ai~~a~~-~--- 311 (366)
T COG0683 242 EFE------EIAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDPAAPSYFAAAAYDAVKLLAKAIEKAGK-S--- 311 (366)
T ss_pred hhh------hhcccCccccEEEEecccccccCcchHHHHHHHHHHhCCCCCcccchHHHHHHHHHHHHHHHHHhc-C---
Confidence 000 011112222 222 222333 345677899999999843456677999999999999999999753 1
Q ss_pred cccCCccccccCCCCcccCcccccCchHHHHHHHHhCc-ccccccceEEccCCCcccccEEEEEEecc
Q 006567 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNSDRSLIHAAYDIINVIGT 406 (640)
Q Consensus 340 ~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~-f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~ 406 (640)
. +++.+.++|++.. +.+.+|.+.||++|+|....+.|.+++..
T Consensus 312 -----------------------~-d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~ 355 (366)
T COG0683 312 -----------------------S-DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKG 355 (366)
T ss_pred -----------------------C-CHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEec
Confidence 1 2788999999887 79999999999999999999999888843
No 55
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=8.2e-33 Score=283.26 Aligned_cols=315 Identities=16% Similarity=0.177 Sum_probs=265.8
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~ 109 (640)
+||++.|++ +..|...+.++++|+++||+.+|+ .|++|+++++|++++|..+.+.+++|++++|.+|+||.++..+
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 456788999999999999999998 5899999999999999999999999999999999999999999
Q ss_pred HHH-------HHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEcCCCCccc
Q 006567 110 HIV-------SYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGRNG 180 (640)
Q Consensus 110 ~~v-------~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~-w~~v~ii~~~~~~g~~~ 180 (640)
.++ .+++..+++|+|++.++++.+++ ..++++||+.|++..++.++++++.+.+ |+++++++.++.||...
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~ 159 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDV 159 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHH
Confidence 888 78888999999998777777765 4578999999999999999999998876 99999999999999999
Q ss_pred HHHHHHHHhh--cCeEEEEeeccCCCCCCCh-hHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 181 VSALNDKLAE--RRCRISYKSGIPPESGVNT-GYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 181 ~~~~~~~~~~--~g~~v~~~~~~~~~~~~~~-~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
.+.+++.+++ .|++|.....++.. . +|+.+++.++++.++|+|++.....++..+++++++.|+.. .++.
T Consensus 160 ~~~~~~~~~~~~~G~~vv~~~~~~~~----~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~ 232 (342)
T cd06329 160 AAAFKAMLAAKRPDIQIVGEDLHPLG----KVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKL---PFYT 232 (342)
T ss_pred HHHHHHHHHhhcCCcEEeceeccCCC----CCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCc---eEEe
Confidence 9999999999 89999877777655 5 88999999999999999999988888999999999999853 2444
Q ss_pred eCccccccCCCCCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhc
Q 006567 258 TDWLAYMLDSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (640)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~ 335 (640)
....... ..........|.+...++.+ .++..++|.++|++++ +..++.++...||+++++++|+++...
T Consensus 233 ~~~~~~~-----~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~y~~~~~~~~a~~~ag~- 304 (342)
T cd06329 233 PYLDQPG-----NPAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKY--GRVPDYYEGQAYNGIQMLADAIEKAGS- 304 (342)
T ss_pred ccccchh-----HHHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHh--CCCCCchHHHHHHHHHHHHHHHHHhCC-
Confidence 3322111 11122345667776665443 3567899999999888 356778899999999999999997421
Q ss_pred CCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCC
Q 006567 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDR 391 (640)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g 391 (640)
.++..+.++|++++|+|..|+++|+..+
T Consensus 305 ----------------------------~~~~~v~~al~~~~~~~~~g~~~~~~~~ 332 (342)
T cd06329 305 ----------------------------TDPEAVAKALEGMEVDTPVGPVTMRASD 332 (342)
T ss_pred ----------------------------CCHHHHHHHHhCCccccCCCCeEEcccC
Confidence 0378999999999999999999998643
No 56
>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=2.1e-32 Score=280.86 Aligned_cols=341 Identities=10% Similarity=0.067 Sum_probs=268.3
Q ss_pred EEEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChH
Q 006567 32 VNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (640)
Q Consensus 32 i~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~ 107 (640)
|+||++.|++ +..|...++++++|+++||+++|++ |++|+++++|++++|..++.++.+|+++ +|.+|+||.+|.
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~-Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~ 79 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGIL-GRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSA 79 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCC-CceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchH
Confidence 6899999998 5568889999999999999999995 8999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~ 187 (640)
.+.++.+++.+.++|+|....... ....+|+||+.|++..++.++++++....-+++++++.|++||+.....+++.
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 999999999999999996421111 12357999999999999999999987543478999999999999999999999
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (640)
+++.|+++.....++.+ ..|+.+++.++++.++|+|++.....+...+++++++.|+..+ ++...........
T Consensus 157 ~~~~G~~vv~~~~~~~g----~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~~ 229 (374)
T TIGR03669 157 AKENGAEVVGEEFIPLS----VSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYEH 229 (374)
T ss_pred HHHcCCeEEeEEecCCC----cchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhhh
Confidence 99999999988888866 8899999999999999999998888889999999999998532 1211111110000
Q ss_pred CCCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCc
Q 006567 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (640)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (640)
. ........|++....+.+ ..+..++|.++|+++|+....++.++...||+++++++|++++.+.
T Consensus 230 --~-~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~p~~~~~a~~~Yda~~~l~~Ai~~AGs~---------- 296 (374)
T TIGR03669 230 --K-RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDAPYINQEAENNYFSVYMYKQAVEEAGTT---------- 296 (374)
T ss_pred --h-hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHhCCC----------
Confidence 0 001124556665555443 4577899999999998321223567888999999999999986321
Q ss_pred cccccCCCCcccCcccccCchHHHHHHHHh-CcccccccceEEccCCCcccccEEEEEEec-ccEEEEEEEe
Q 006567 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQ-SNLVGLTGPLKFNSDRSLIHAAYDIINVIG-TGFRMIGYWS 415 (640)
Q Consensus 346 ~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~-~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~-~~~~~vG~w~ 415 (640)
+++.++++|++ ..+.|++|+++||++++.....+.|.+++. +.+..+..|+
T Consensus 297 -------------------d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 297 -------------------DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred -------------------CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 48899999987 679999999999987764444555656653 2344444444
No 57
>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=6.4e-32 Score=279.38 Aligned_cols=342 Identities=15% Similarity=0.193 Sum_probs=279.5
Q ss_pred CeeEEEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCC
Q 006567 29 PAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQ 104 (640)
Q Consensus 29 ~~~i~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~ 104 (640)
+++|+||+++|++ +..|.....++++|++++|+.+|+ .|++|+++.+|+++++..+...+.+++.+ +|.+|+||.
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 456788999999999999999998 58999999999999999999999999975 999999999
Q ss_pred ChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHH-HHhcCCcEEEEEEEcCCCCcccHH
Q 006567 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEM-VSYYGWNAVSVIFVDNEYGRNGVS 182 (640)
Q Consensus 105 ~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~l-l~~~~w~~v~ii~~~~~~g~~~~~ 182 (640)
++..+.++.+++...+||+|++.+..+.+++ ..++++||+.|++..++.+++++ +++++|+++++++.++.||.+..+
T Consensus 83 ~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~~ 162 (362)
T cd06343 83 GTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYLK 162 (362)
T ss_pred CcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHHH
Confidence 9999999999999999999998776666766 36899999999999999999997 456799999999999999999999
Q ss_pred HHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccc
Q 006567 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (640)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~ 262 (640)
.+++.+++.|+++.....++.. ..++++++.++++.++++|++.+...++..+++++++.|+.. .++.++...
T Consensus 163 ~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~ 235 (362)
T cd06343 163 GLKDGLGDAGLEIVAETSYEVT----EPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKP---TFLLSSVSA 235 (362)
T ss_pred HHHHHHHHcCCeEEEEeeecCC----CccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCc---eEEEEeccc
Confidence 9999999999999988888765 789999999999999999999999999999999999999864 245544332
Q ss_pred cccCCCCCChhhhhhccceEEEEEcc-------CCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhc
Q 006567 263 YMLDSASLPSETLESMQGVLVLRQHI-------PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (640)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~ 335 (640)
..... .........+|++....+. ...+..++|.+.|+++++...+++.+....||++.++++|++++.
T Consensus 236 ~~~~~--~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~a~~~ag-- 311 (362)
T cd06343 236 SVASV--LKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGDPPDTYAVYGYAAAETLVKVLKQAG-- 311 (362)
T ss_pred ccHHH--HHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHhC--
Confidence 21100 0011123567776655432 235678999999998883222578899999999999999999862
Q ss_pred CCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcc---cc-cccceEEccCCCcccccEEEEEEecccE
Q 006567 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNL---VG-LTGPLKFNSDRSLIHAAYDIINVIGTGF 408 (640)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f---~g-~tG~v~Fd~~g~r~~~~~~I~~~~~~~~ 408 (640)
.. .+++.++++|+++++ .+ ..|+++|+++.++....+.|.++++++|
T Consensus 312 -~~-------------------------~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~ 362 (362)
T cd06343 312 -DD-------------------------LTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGRW 362 (362)
T ss_pred -CC-------------------------CCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCcC
Confidence 11 037899999999887 33 3458999887665666777777776654
No 58
>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=5.5e-32 Score=277.32 Aligned_cols=330 Identities=18% Similarity=0.220 Sum_probs=269.3
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||++.|++ +..|.....++++|++++|+++++ +|++|+++++|+++++..+.+.+.+|+++ +|.+|+|+.+|..
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 456889999999999999999998 69999999999999999999999999976 7999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcCCCCcccHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~~~~~g~~~~~~~~~~ 187 (640)
+.++.+++...++|+|++.+..+.+++ ..+|+||+.|++..+..++++++ ++++|+++++++.+++||....+.+++.
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 999999999999999998777666654 35899999999999999999985 6789999999999999999999999999
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (640)
+++.|+++.....+++. ..+++.++.+++.+++|+|++.+...++..+++++++.|+.. .++...........
T Consensus 159 ~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~~~ 231 (340)
T cd06349 159 AEKLGGQVVAHEEYVPG----EKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDI---PVVASSSVYSPKFI 231 (340)
T ss_pred HHHcCCEEEEEEEeCCC----CCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCC---cEEccCCcCCHHHH
Confidence 99999999987777765 678999999999999999999999999999999999999853 24443322111000
Q ss_pred CCCChhhhhhccceEEEEEccCC--chhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCc
Q 006567 268 ASLPSETLESMQGVLVLRQHIPE--SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (640)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (640)
........|++...++.+. .+..++|.++|++++ +..++.++...||++.++++|++++...
T Consensus 232 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~~~~~~~~a~~~ag~~---------- 295 (340)
T cd06349 232 ----ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKY--GAQPDAFAAQAYDAVGILAAAVRRAGTD---------- 295 (340)
T ss_pred ----HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH--CCCcchhhhhHHHHHHHHHHHHHHhCCC----------
Confidence 1122356788777665553 566899999998888 3557888999999999999999985211
Q ss_pred cccccCCCCcccCcccccCchHHHHHH-HHhCcccccccceEEccC-CCcccccEEEEEEeccc
Q 006567 346 RLKTMEGGNLHLGAMSIFDDGMLLLGN-ILQSNLVGLTGPLKFNSD-RSLIHAAYDIINVIGTG 407 (640)
Q Consensus 346 ~~~~~~~~~~~c~~~~~~~~g~~l~~~-l~~~~f~g~tG~v~Fd~~-g~r~~~~~~I~~~~~~~ 407 (640)
....+... +.+..+.+.+|.++|+++ +++ ...+.++.+++++
T Consensus 296 -------------------~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~-~~~~~~~~~~~g~ 339 (340)
T cd06349 296 -------------------RRAARDGFAKAEDVYSGVTGSTKFDPNTRRV-IKRFVPLVVRNGK 339 (340)
T ss_pred -------------------CHHHHHHHHHhccCcccceEeEEECCCCCCc-cCceEEEEEeCCc
Confidence 12222222 245568899999999997 554 4478887776654
No 59
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=100.00 E-value=8.6e-32 Score=276.95 Aligned_cols=319 Identities=15% Similarity=0.118 Sum_probs=257.3
Q ss_pred EEEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChH
Q 006567 32 VNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (640)
Q Consensus 32 i~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~ 107 (640)
|+||++.|++ +..|.....++++|+++||+.+|++ |++|+++++|++++|..++.++.+|+++ +|.+|+|+.+|.
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~-G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~ 79 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVL-GKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSA 79 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHH
Confidence 6899999998 4567788999999999999999995 8999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEcCCCCcccHHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVSALND 186 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~-~~w~~v~ii~~~~~~g~~~~~~~~~ 186 (640)
.+.++.+++...++|++.+.... .+...+++||+.+++..++.++++++.. .+.+++++++.|++||....+.+++
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 99999999999999999754211 1234589999999999999999998776 5999999999999999998899999
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccC
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (640)
.+++.|++++....++.+ ..|+..++.++++.++|+|++.....+...+++++++.|+......++..........
T Consensus 157 ~~~~~G~~vv~~~~~~~~----~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~ 232 (359)
T TIGR03407 157 YLKSLGGTVVGEDYTPLG----HTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIR 232 (359)
T ss_pred HHHHcCCEEEeeEEecCC----hHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHh
Confidence 999999999888888766 8999999999999999999988777788899999999998643333444321111110
Q ss_pred CCCCChhhhhhccceEEEEEc--cCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCC
Q 006567 267 SASLPSETLESMQGVLVLRQH--IPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (640)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 344 (640)
....+...|++....+ ....+..++|.++|+++++....+..++...||+++++++|++++...
T Consensus 233 -----~~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~A~~~ag~~--------- 298 (359)
T TIGR03407 233 -----GIGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDRVTNDPMEAAYLGVYLWKAAVEKAGSF--------- 298 (359)
T ss_pred -----hcChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 0112345676543222 234577899999999988321223445677899999999999986211
Q ss_pred ccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCC
Q 006567 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRS 392 (640)
Q Consensus 345 ~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~ 392 (640)
++..++++|++++|.++.|+++|+++++
T Consensus 299 --------------------~~~~i~~al~~~~~~~~~G~i~f~~~~~ 326 (359)
T TIGR03407 299 --------------------DVDAVRDAAIGIEFDAPEGKVKVDGKNH 326 (359)
T ss_pred --------------------CHHHHHHHhcCCcccCCCccEEEeCCCC
Confidence 3889999999999999999999998443
No 60
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=100.00 E-value=2.1e-32 Score=279.52 Aligned_cols=318 Identities=15% Similarity=0.153 Sum_probs=266.3
Q ss_pred EEEEEeecCCc----cchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChH
Q 006567 33 NVGALFTLDST----IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (640)
Q Consensus 33 ~IG~l~~~~~~----~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~ 107 (640)
+||+++|++.. .|.....|+++|++++| +|+ .|++|+++++|++++|..+.+++.+++++ +|.+|+||.++.
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN--ggi-~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~ 77 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG--GGV-LGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSA 77 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc--CCc-cCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHH
Confidence 58999999744 47788999999999999 777 59999999999999999999999999987 999999999999
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~ 186 (640)
.+.++.+++++.++|+|++++.++.+++ ..++|+||+.|++..++.++++++...+++++++++.++.+|+.....+++
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~ 157 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARK 157 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHH
Confidence 9999999999999999998888877776 347999999999999999999998877899999999999999999999999
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccC
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (640)
.+++.|++++....++.. .+++.+++.++++.++|+|++.+...++..+++++++.|+.. ...++........
T Consensus 158 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~-- 230 (334)
T cd06327 158 VVKANGGKVVGSVRHPLG----TSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK-GQKLAGLLLFLTD-- 230 (334)
T ss_pred HHHhcCCEEcCcccCCCC----CccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc-CCcEEEecccHHH--
Confidence 999999999888778765 789999999999999999999999999999999999999863 2233332211110
Q ss_pred CCCCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCC
Q 006567 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (640)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 344 (640)
. .....+..+|++...++.+ ..+..++|.++|++++ +..++.++...||+++++++|++++...
T Consensus 231 ~---~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~Y~~~~~~~~A~~~ag~~--------- 296 (334)
T cd06327 231 V---HSLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKY--GKMPSMVQAGAYSAVLHYLKAVEAAGTD--------- 296 (334)
T ss_pred H---HhhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHH--CcCCCcHHHHHHHHHHHHHHHHHHHCCC---------
Confidence 0 0111235678777776543 3667899999999998 3457888999999999999999987321
Q ss_pred ccccccCCCCcccCcccccCchHHHHHHHHhCc-ccccccceEEcc-CCCcc
Q 006567 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNS-DRSLI 394 (640)
Q Consensus 345 ~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~-f~g~tG~v~Fd~-~g~r~ 394 (640)
++..+.++|++.. ++++.|.++|+. +++..
T Consensus 297 --------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~ 328 (334)
T cd06327 297 --------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMV 328 (334)
T ss_pred --------------------ChHHHHHhccccceeccCCCCceeeccccchh
Confidence 3667999999875 688999999987 66643
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=5.7e-32 Score=278.05 Aligned_cols=322 Identities=19% Similarity=0.171 Sum_probs=264.3
Q ss_pred EEEEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||++.|++. ..|.....++++|++++|+++++ +|++|++++.|+++++..+.+++++++.+ +|.+|+||.++..
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 6999999984 45778899999999999999987 68999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCCCCcccHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEYGRNGVSALN 185 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~~~g~~~~~~~~ 185 (640)
+.++.++++..+||+|++.+.++.+.+ ..++++||+.|++..+..+++++++++ +|+++++++.++++|....+.++
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~ 159 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFK 159 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHH
Confidence 999999999999999998777777765 467999999999999999999998877 49999999999999999999999
Q ss_pred HHHhhcC--eEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCcccc
Q 006567 186 DKLAERR--CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (640)
Q Consensus 186 ~~~~~~g--~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 263 (640)
+.+++.| +.+.....++.. ..++..++.+++..++|+|++.+...+...+++++++.|+.. +..|+.+.....
T Consensus 160 ~~~~~~g~~~~~v~~~~~~~~----~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~ 234 (346)
T cd06330 160 AALKRLRPDVEVVSEQWPKLG----APDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAP 234 (346)
T ss_pred HHHHHhCCCCeecccccCCCC----CcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeeccchh
Confidence 9999885 455544434333 678999999999999999999988899999999999999864 567776654322
Q ss_pred ccCCCCCChhhhhhccceEEEEE--cc--CCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcc
Q 006567 264 MLDSASLPSETLESMQGVLVLRQ--HI--PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (640)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~--~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~ 339 (640)
. . ........+|++.... .. +..+..++|.++|++++ +..++.++...||+++++++|++++......
T Consensus 235 ~--~---~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~y~a~~~l~~a~~~a~~~~~~- 306 (346)
T cd06330 235 E--L---APLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKY--GDYPTYGAYGAYQAVMALAAAVEKAGATDGG- 306 (346)
T ss_pred h--h---hhhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHH--CCCCChHHHHHHHHHHHHHHHHHHhcCCCCC-
Confidence 1 1 0112234566654432 11 14677899999999988 3667788999999999999999987433110
Q ss_pred cccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCC
Q 006567 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRS 392 (640)
Q Consensus 340 ~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~ 392 (640)
.+ ...+.++|++.++.|+.|++.|+++.+
T Consensus 307 -----------------------~~-~~~v~~al~~~~~~~~~G~~~f~~~~~ 335 (346)
T cd06330 307 -----------------------AP-PEQIAAALEGLSFETPGGPITMRAADH 335 (346)
T ss_pred -----------------------Cc-HHHHHHHHcCCCccCCCCceeeecCCC
Confidence 11 257999999999999999999988543
No 62
>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=3.5e-32 Score=279.06 Aligned_cols=323 Identities=18% Similarity=0.203 Sum_probs=265.5
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCC-CC--cEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCC
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSIL-HG--TKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l-~g--~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~ 105 (640)
+||++.|++ +..|.....++++|++++|+++|++ +| ++|+++++|++++|..+.+.+.+++++ +|.+|+|+.+
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 589999998 4567889999999999999999985 45 589999999999999999999999987 9999999999
Q ss_pred hHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHH
Q 006567 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (640)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~ 185 (640)
+..+.. .+++...++|+|++.+.++.+....++++||+.|++..++.++++++++.+|+++++++.|+++|+...+.++
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 9999999999999888887776555689999999999999999999888999999999999999999999999
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChh-hHHHHHHHHHHcCCccCCeEEEEeCccccc
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMGNGYVWIATDWLAYM 264 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~-~~~~il~~a~~~gl~~~~~~~i~~~~~~~~ 264 (640)
+.+++.|+++.....++.+ ..|+..++.++++.++|+|++.+... ++..+++++++.|+... +.++........
T Consensus 160 ~~l~~~G~~vv~~~~~~~~----~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~ 234 (347)
T cd06336 160 AAWEAAGGKVVSEEPYDPG----TTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG-FLSCTGDKYDEL 234 (347)
T ss_pred HHHHHcCCEEeeecccCCC----CcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc-EEeccCCCchHH
Confidence 9999999999988778765 78999999999999999999998888 99999999999998642 222221111100
Q ss_pred cCCCCCChhhhhhccceEEEEEccC----CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCccc
Q 006567 265 LDSASLPSETLESMQGVLVLRQHIP----ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKIS 340 (640)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~ 340 (640)
..........|++...+..+ .++..++|.++|++++ +..++.++...||++.++++|++++...
T Consensus 235 -----~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~~~~~~~~Al~~ag~~----- 302 (347)
T cd06336 235 -----LVATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRY--GEPPNSEAAVSYDAVYILKAAMEAAGSV----- 302 (347)
T ss_pred -----HHHhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHH--CCCCcHHHHHHHHHHHHHHHHHHhcCCC-----
Confidence 00112245678877776544 4667899999999998 3457888999999999999999985211
Q ss_pred ccCCccccccCCCCcccCcccccCchHHHHHHH-H-------hCcccccccceEEccCCCccccc
Q 006567 341 FSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNI-L-------QSNLVGLTGPLKFNSDRSLIHAA 397 (640)
Q Consensus 341 ~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l-~-------~~~f~g~tG~v~Fd~~g~r~~~~ 397 (640)
+...+.+.+ + ...|.++.|.+.||++|++..+.
T Consensus 303 ------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 343 (347)
T cd06336 303 ------------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPW 343 (347)
T ss_pred ------------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccCc
Confidence 133343333 3 25688999999999999976543
No 63
>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=9.4e-32 Score=274.49 Aligned_cols=324 Identities=14% Similarity=0.186 Sum_probs=262.6
Q ss_pred EEEEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||+++|++. ..|.....++++|++++| +++ +|++|+++++|++++|..+++.+.+|+.+ +|.+|+||.++..
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 5999999983 457788999999999998 555 69999999999999999999999999976 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~ 187 (640)
+.++.+++...+||+|++++..+.+.+ ..++|+||+.|++..+..++++++...+|+++++++.++.+|+...+.+++.
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~ 157 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRT 157 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHH
Confidence 999999999999999998665555554 3479999999999999999999999999999999999999999888888777
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (640)
++ .++.....++.. .+|+.+++.++++.++|+|++.....+...+++++++.|+.. ...++........ +
T Consensus 158 ~~---~~v~~~~~~~~~----~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~-~- 227 (333)
T cd06359 158 FK---GEVVGEVYTKLG----QLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEE-D- 227 (333)
T ss_pred hC---ceeeeeecCCCC----CcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCH-H-
Confidence 64 345555555544 679999999999999999999888888999999999999853 3345544322211 0
Q ss_pred CCCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCc
Q 006567 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (640)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (640)
......+..+|++...++.+ .++..++|.++|++++ +..++.++...||+++++++|++++... .
T Consensus 228 --~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~A~~~ag~~---~------ 294 (333)
T cd06359 228 --TLPAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKY--GRLPTLYAAQAYDAAQLLDSAVRKVGGN---L------ 294 (333)
T ss_pred --HHHhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHHhcCC---C------
Confidence 01122345678777776655 4677899999999998 3567889999999999999999986211 0
Q ss_pred cccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEE
Q 006567 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDII 401 (640)
Q Consensus 346 ~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~ 401 (640)
.++..+.++|++..|.|++|.+.|+++|+. ...+.++
T Consensus 295 ------------------~~~~~v~~al~~~~~~~~~G~~~~~~~~~~-~~~~~~~ 331 (333)
T cd06359 295 ------------------SDKDALRAALRAADFKSVRGAFRFGTNHFP-IQDFYLR 331 (333)
T ss_pred ------------------CCHHHHHHHHhcCccccCccceEECCCCCc-ceeEEEE
Confidence 137899999999999999999999999874 3444443
No 64
>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=7.3e-32 Score=277.29 Aligned_cols=332 Identities=23% Similarity=0.330 Sum_probs=273.5
Q ss_pred eEEEEEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHh-cCcEEEEcCCCh
Q 006567 31 VVNVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-TDIVAIIGPQCS 106 (640)
Q Consensus 31 ~i~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~-~~v~aiiGp~~s 106 (640)
+|+||++.|++. ..|.....++++|++++|+.+|+ .|++|+++++|+++++..+.+.+.++++ ++|.+|+||.++
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 599999999984 44678899999999999999988 5999999999999999999999999998 799999999999
Q ss_pred HHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcCCCCcccHHHHH
Q 006567 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALN 185 (640)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~~~~~g~~~~~~~~ 185 (640)
..+.++.+.+...++|+|++.+..+ ...++++||+.|++..++.++++++ ++++.+++++|+.++++|....+.++
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 9999999999999999999653332 2456899999999999999999985 55899999999999999999999999
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCcccccc
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (640)
+.+++.|+++.....++.+ ..++..++.++++.++++|++.+...++..+++++++.|+..+.+....+..+....
T Consensus 157 ~~~~~~G~~vv~~~~~~~~----~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 232 (343)
T PF13458_consen 157 KALEAAGGKVVGEIRYPPG----DTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDASL 232 (343)
T ss_dssp HHHHHTTCEEEEEEEE-TT----SSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHHH
T ss_pred HHHhhcCceeccceecccc----cccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHHH
Confidence 9999999998877778866 789999999999999999999999999999999999999765434444332221111
Q ss_pred CCCCCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccC
Q 006567 266 DSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (640)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 343 (640)
........+|++...++.+ ..+..++|.++|++.++....++.++...||++.++++|++++. . .
T Consensus 233 -----~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~al~~~g---~-~---- 299 (343)
T PF13458_consen 233 -----QQLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEPPPSLYAAQGYDAARLLAQALERAG---S-L---- 299 (343)
T ss_dssp -----HHHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTGGTCHHHHHHHHHHHHHHHHHHHHT---S-H----
T ss_pred -----HHhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHHHhC---C-C----
Confidence 1112246788888887765 46678999999999984222488899999999999999999862 1 1
Q ss_pred CccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEe
Q 006567 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (640)
Q Consensus 344 ~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~ 404 (640)
++..+.++|++.+++|+.|++.|++.+......+.|.+++
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 4899999999999999999999987666577888888888
No 65
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=100.00 E-value=5.5e-31 Score=271.08 Aligned_cols=340 Identities=15% Similarity=0.146 Sum_probs=268.4
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHh-cCcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-TDIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~-~~v~aiiGp~~s~~ 108 (640)
+||++.|++ +..|.....|+++|+++||+++|+ .|++|+++++|++++|..++.++.+|++ ++|.+|+|+.++..
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 5899999999999999999999999997 48999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~ 188 (640)
+.++.+++...++|++.+.+... . ...+++|++.++...+..++++++.+.+-+++++|+.|++||++..+.+.+.+
T Consensus 80 ~~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g~~~~~~~~~~~ 156 (360)
T cd06357 80 RKAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYPYESNRIMRDLL 156 (360)
T ss_pred HHHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcchHHHHHHHHHHH
Confidence 99999999999999997654221 1 12257788888877778889998877666899999999999999999999999
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCC
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (640)
++.|+++.....++.+ ....|+..++.++++.++|+|++.+...++..++++++++|+... ...+.+...... .
T Consensus 157 ~~~G~~vv~~~~~~~~--~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~~~-~-- 230 (360)
T cd06357 157 EQRGGEVLGERYLPLG--ASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPA-RMPIASLTTSEA-E-- 230 (360)
T ss_pred HHcCCEEEEEEEecCC--CchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCcc-CceeEEeeccHH-H--
Confidence 9999998876555543 348899999999999999999999999999999999999998643 233333211110 0
Q ss_pred CCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCcc
Q 006567 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (640)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (640)
......+...|+++..++.+ ..+..++|.++|+++|+....++.++...||+++++++|++++...
T Consensus 231 -~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~yda~~~l~~Al~~ag~~----------- 298 (360)
T cd06357 231 -VAAMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGEDAPVSACAEAAYFQVHLFARALQRAGSD----------- 298 (360)
T ss_pred -HhhcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHcCCC-----------
Confidence 00112245778777765433 4677899999999998422235778899999999999999985211
Q ss_pred ccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEE-ecccEEEEE
Q 006567 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINV-IGTGFRMIG 412 (640)
Q Consensus 347 ~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~-~~~~~~~vG 412 (640)
++..++++|++.+|+|+.|.+.|+..++.......+.++ ++++|..+.
T Consensus 299 ------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 299 ------------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred ------------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 378899999999999999999999876533344455555 345555443
No 66
>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=4.3e-31 Score=270.66 Aligned_cols=325 Identities=17% Similarity=0.249 Sum_probs=271.2
Q ss_pred EEEEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||+++|++. ..|.....++++|++++| +++ +|++|+++++|+++++..+.+++.+++.+ +|.+|+|+.++..
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 345788999999999986 344 79999999999999999999999999874 9999999999888
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~ 187 (640)
+.++.+.+...++|+|++.+.++.+++ ..++++||+.|++..++..+++++.+.+|+++++++.++.+|++..+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~ 157 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEA 157 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 888899999999999998877777766 3478999999999999999999999899999999999989999999999999
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (640)
+++.|+++.....++.. ..|+++++.++++.++|+|++.+...++..+++++++.|+.. +..++.++......
T Consensus 158 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~-- 230 (336)
T cd06360 158 FTEAGGKIVKELWVPFG----TSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTDGT-- 230 (336)
T ss_pred HHHcCCEEEEEEecCCC----CcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccCHH--
Confidence 99999999877777655 789999999999999999999988899999999999999853 33455554332211
Q ss_pred CCCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCc
Q 006567 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (640)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (640)
......+..+|++...++.+ .++..++|.++|++++ +..++.++...||+++++++|++++....
T Consensus 231 --~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~--~~~~~~~~~~~yda~~~~~~A~~~a~~~~--------- 297 (336)
T cd06360 231 --TLGAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAY--PDTPSVYAVQGYDAGQALILALEAVGGDL--------- 297 (336)
T ss_pred --HHHhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHh--CCCccHHHHHHHHHHHHHHHHHHHhCCCC---------
Confidence 11223356778777666544 4677899999999998 35678899999999999999999863211
Q ss_pred cccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccE
Q 006567 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAY 398 (640)
Q Consensus 346 ~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~ 398 (640)
.++..+.++|++..|.|..|+++|+++|++....|
T Consensus 298 ------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~~ 332 (336)
T cd06360 298 ------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDNY 332 (336)
T ss_pred ------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccceE
Confidence 13778999999999999999999999998765543
No 67
>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=8.2e-31 Score=267.10 Aligned_cols=315 Identities=13% Similarity=0.138 Sum_probs=255.8
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhc-cCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNS-NSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~-~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~ 107 (640)
+||++.|++ +..|.....++++|++++|+ .+++ +|++|++++.|++++|..+..++.+|+++ +|.+|+||.+|.
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 45678899999999999965 4566 69999999999999999999999999998 999999999999
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCC-CCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSL-QYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~-~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~ 186 (640)
.+.++.+++++.++|+|++.++++.+... .++|+||+.+++..+...+++++... ++++++++.+++||++..+.+++
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 99999999999999999987777777763 35899999988888888888887666 89999999999999999999999
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChh-hHHHHHHHHHHcCCccCCeEEEEeCcccccc
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~-~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (640)
.+++.|++++....+++. ..|+..++.++++.++|+|++..... +....++++...|+... ...........
T Consensus 159 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~ 231 (333)
T cd06328 159 ALEKLGAAIVTEEYAPTD----TTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIE---ITLAGDILANL 231 (333)
T ss_pred HHHhCCCEEeeeeeCCCC----CcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCe---EEecccccCcc
Confidence 999999999988888866 78999999999999999998875444 56667777777665421 11211111111
Q ss_pred CCCCCChhhhhhccceEEEEEcc-CCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCC
Q 006567 266 DSASLPSETLESMQGVLVLRQHI-PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (640)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 344 (640)
. .........+......+. +.++..+.|.++|+++| +..++.+++..||++.++++|++++..
T Consensus 232 ~----~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--g~~p~~~~~~~y~a~~~l~~Ai~~ag~---------- 295 (333)
T cd06328 232 T----MYKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARF--GSPPDLFTAGGMSAAIAVVEALEETGD---------- 295 (333)
T ss_pred c----cccccccccceeeeecCCCCCCHHHHHHHHHHHHHh--CCCcchhhHHHHHHHHHHHHHHHHhCC----------
Confidence 0 011223345555544443 56777889999999998 456788899999999999999998631
Q ss_pred ccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCC
Q 006567 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDR 391 (640)
Q Consensus 345 ~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g 391 (640)
.++..+.++|++..|+++.|+++|+.++
T Consensus 296 -------------------~~~~~v~~aL~~~~~~~~~g~~~f~~~~ 323 (333)
T cd06328 296 -------------------TDTEALIAAMEGMSFETPKGTMTFRKED 323 (333)
T ss_pred -------------------CCHHHHHHHHhCCeeecCCCceEECccc
Confidence 1378999999999999999999999643
No 68
>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=2.4e-30 Score=265.47 Aligned_cols=319 Identities=18% Similarity=0.196 Sum_probs=257.1
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||++.|++ +..|.....|+++|++++|+++|+ .|++|+++++|++++|..+.+.+.+|+++ +|.+|+||.++..
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 466888999999999999999998 58999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC--CCCCcEEEecCCchHHHHHHHHHHH-hcCCcEEEEEEEcCCCCcccHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVS-YYGWNAVSVIFVDNEYGRNGVSALN 185 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~--~~~~~~~r~~p~~~~~~~al~~ll~-~~~w~~v~ii~~~~~~g~~~~~~~~ 185 (640)
+.++.++++..+||+|++.++.+.+++ ..++++||+.|++..++.++++++. +.+|++|+++|.+++||+.....++
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 999999999999999998777666654 3468999999999999999999865 5669999999999999999999999
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCcccccc
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (640)
+.+++.|+++.....+++. ..++++.+.++++.++++|++.+...+...+++++++.|+..+ ++..... ...
T Consensus 160 ~~~~~~G~~v~~~~~~~~~----~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~-~~~ 231 (347)
T cd06335 160 AALAARGLKPVAVEWFNWG----DKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVP---IISHWGL-SGG 231 (347)
T ss_pred HHHHHcCCeeEEEeeecCC----CccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCc---EecccCC-cCc
Confidence 9999999999988888765 7899999999999999999999999999999999999998532 2221111 110
Q ss_pred CCCCCChhhhhhccceEEEEEcc---CCchhHHHHHHHHhhhcCCCC----CCCchhhhhhhHHHHHHHHHHHHhhcCCc
Q 006567 266 DSASLPSETLESMQGVLVLRQHI---PESDRKKNFLSRWKNLTGGSL----GMNSYGLYAYDSVWLLAHAIESFFNQGGK 338 (640)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~----~~~~~~~~~yDav~~~a~Al~~~~~~~~~ 338 (640)
+. .....+...|++....+. +.++..++|.++|+++++... .++.++..+||+++++++|++++...
T Consensus 232 ~~---~~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aYd~~~~l~~A~~~ag~~--- 305 (347)
T cd06335 232 NF---IEGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPADIPAPVGAAHAYDAVHLLAAAIKQAGST--- 305 (347)
T ss_pred hh---hhccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCcccccCcchhHHHHHHHHHHHHHHHHHhcCC---
Confidence 10 011223456766554322 256778999999999984211 34566788999999999999986211
Q ss_pred ccccCCccccccCCCCcccCcccccCchHHHHHHHHhC--cccccccc--eEEccCCC
Q 006567 339 ISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQS--NLVGLTGP--LKFNSDRS 392 (640)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~--~f~g~tG~--v~Fd~~g~ 392 (640)
....+.++|+++ .+.|+.|. +.|++..+
T Consensus 306 --------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h 337 (347)
T cd06335 306 --------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSKEDH 337 (347)
T ss_pred --------------------------CHHHHHHHHHhccCCceeeecccCCCCChhhc
Confidence 246788899875 46777774 45766544
No 69
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=99.98 E-value=4.4e-30 Score=261.84 Aligned_cols=317 Identities=13% Similarity=0.110 Sum_probs=256.7
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||++.|++ +..|.....++++|+++||+.+|+ .|++|+++.+|++++|..+...+.+|+.+ +|.+|+|+.+|..
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 699999998 556889999999999999999998 59999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~ 188 (640)
+.++.+++++.++|+|....... ....+++||+.+++..++.++++++...+-+++++|+.|++||......+++.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~ 156 (334)
T cd06356 80 REAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIV 156 (334)
T ss_pred HHHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHH
Confidence 99999999999999997533221 122479999999999999999999877655899999999999999999999999
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCC
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (640)
++.|++++....++.+ ..|++.++.+++..++|+|++.....+...+++++++.|+ .. ...+............
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~-~~-~~~~~~~~~~~~~~~~ 230 (334)
T cd06356 157 EENGGEVVGEEFIPLD----VSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL-GN-IPMASSTLGAQGYEHK 230 (334)
T ss_pred HHcCCEEEeeeecCCC----chhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC-cc-CceeeeecccchhHHh
Confidence 9999999988888866 7899999999999999999998888888899999999998 21 1122211100000000
Q ss_pred CCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCC-CCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCc
Q 006567 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLG-MNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (640)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (640)
........|++....+.+ ..+..++|.++|+++++ ..+ ++.++...||+++++++|++++.+.
T Consensus 231 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-~~p~~~~~~~~~y~a~~~~~~A~~~ag~~---------- 296 (334)
T cd06356 231 ---RLKPPALKDMYATANYIEELDTPANKAFVERFRAKFP-DAPYINEEAENNYEAIYLYKEAVEKAGTT---------- 296 (334)
T ss_pred ---ccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcC-CCCCCCchhHHHHHHHHHHHHHHHHHCCC----------
Confidence 001234567766655433 35668999999999983 322 3678899999999999999986211
Q ss_pred cccccCCCCcccCcccccCchHHHHHHHHh-CcccccccceEEccCCC
Q 006567 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQ-SNLVGLTGPLKFNSDRS 392 (640)
Q Consensus 346 ~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~-~~f~g~tG~v~Fd~~g~ 392 (640)
++..|.++|++ ..++|+.|++.|+++++
T Consensus 297 -------------------~~~~v~~aL~~~~~~~~~~g~~~~~~~~h 325 (334)
T cd06356 297 -------------------DRDAVIEALESGLVCDGPEGKVCIDGKTH 325 (334)
T ss_pred -------------------CHHHHHHHHHhCCceeCCCceEEEecCCC
Confidence 37889999997 57899999999998554
No 70
>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=99.98 E-value=4.4e-30 Score=262.20 Aligned_cols=315 Identities=18% Similarity=0.192 Sum_probs=256.7
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||++.|++ +..|.....|+++|++++|+.+|+ .|++|+++++|++++|..++..+.+|+.+ +|.+|+|+.++..
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 346888899999999999999998 58999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcCCCCcccHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll-~~~~w~~v~ii~~~~~~g~~~~~~~~~~ 187 (640)
+.++.++++ .+||+|++.+... ....+++||+.+++..++.++++++ +..+|+++++++.++.||+...+.+++.
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~ 155 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEG---GECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRY 155 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCC---CCCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999 9999998643322 1235899999999988888888875 5579999999999999999999999999
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEe-CccccccC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT-DWLAYMLD 266 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~-~~~~~~~~ 266 (640)
+++.|++|+....++++ ..|+++++.++++.++|+|++.....+...+++++++.|+..+ ++.. ..+....
T Consensus 156 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~- 227 (333)
T cd06358 156 IAELGGEVVGEEYVPLG----TTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENM- 227 (333)
T ss_pred HHHcCCEEeeeeeecCC----hHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHH-
Confidence 99999999988778766 8899999999999999999998888888899999999998753 2221 1111110
Q ss_pred CCCCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCC-CCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccC
Q 006567 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGS-LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (640)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 343 (640)
. ........+|++....+.+ ..+..++|.++|+++|+.. ..++.++...||+++++++|+++...
T Consensus 228 ~---~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~~~~~~~~~~yda~~~~~~A~~~ag~--------- 295 (333)
T cd06358 228 L---LASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDAPPLNSLSESCYEAVHALAAAAERAGS--------- 295 (333)
T ss_pred H---HhcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHhCC---------
Confidence 0 0011134567666554433 5677999999999988421 23677888999999999999987421
Q ss_pred CccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCC
Q 006567 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRS 392 (640)
Q Consensus 344 ~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~ 392 (640)
.++..|.++|++.+|+|++|.+.|++++.
T Consensus 296 --------------------~~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 296 --------------------LDPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred --------------------CCHHHHHHHhccCeeeCCCcceEEccccc
Confidence 03789999999999999999999998854
No 71
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.98 E-value=3.1e-30 Score=263.68 Aligned_cols=331 Identities=14% Similarity=0.139 Sum_probs=262.5
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
|||++.|++ +..|.....|+++|+++||+.+|+ .|++|+++++|++++|..++..+.+|+.+ +|.+|+ +.+|..
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 566788999999999999999998 59999999999999999999999999988 787765 577888
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcC-----CcEEEEEEEcCCCCcccHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYG-----WNAVSVIFVDNEYGRNGVS 182 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~-----w~~v~ii~~~~~~g~~~~~ 182 (640)
+.++.+++.+.+||+|++++..+.+++ ..++|+||+.|++..++.++++++.+.+ .+++++|+.|+.||+...+
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~ 158 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIE 158 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHH
Confidence 889999999999999998766665653 5689999999999999999999987654 7999999999999999999
Q ss_pred HHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccc
Q 006567 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (640)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~ 262 (640)
.+++.+++.|++|+....++.+ ..|+.+++.++++.++|+|++.+...+...+++++++.|+.. .++.+....
T Consensus 159 ~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~ 231 (351)
T cd06334 159 ALKALAEKLGFEVVLEPVPPPG----PNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDD---KFIGNWWSG 231 (351)
T ss_pred HHHHHHHHcCCeeeeeccCCCC----cccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCc---eEEEeeccC
Confidence 9999999999999988888766 789999999999999999999999999999999999999842 344433211
Q ss_pred cccCCCCCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCC----CCCCchhhhhhhHHHHHHHHHHHHhhcC
Q 006567 263 YMLDSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGS----LGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (640)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~----~~~~~~~~~~yDav~~~a~Al~~~~~~~ 336 (640)
... .........+|++...++.+ +++..++|.+.|+++++.. ..++.++...||+++++++|++++.+..
T Consensus 232 ~~~----~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~~~~~~~~~~~gy~a~~~l~~Al~~ag~~~ 307 (351)
T cd06334 232 DEE----DVKPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGNDKEIGSVYYNRGVVNAMIMVEAIRRAQEKG 307 (351)
T ss_pred cHH----HHHHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHhc
Confidence 110 11122345678777766544 5678999999999988311 1346789999999999999999997654
Q ss_pred CcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCC
Q 006567 337 GKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRS 392 (640)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~ 392 (640)
..-.+. ..+...+-+.-.+.+++....|+.|+++|....+
T Consensus 308 ~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~ 347 (351)
T cd06334 308 GETTIA----------------GEEQLENLKLDAARLEELGAEGLGPPVSVSCDDH 347 (351)
T ss_pred CCCCCc----------------HHHHHHhhhhhhhhhhhcCcccccCCceeccccC
Confidence 321100 0000000123345666777889999999977543
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=99.97 E-value=1.2e-29 Score=259.59 Aligned_cols=320 Identities=18% Similarity=0.248 Sum_probs=260.7
Q ss_pred EEEEEeecCCc---cchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLDST---IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~~~---~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||+++|++.. .|.....++++|++++| +++ +|++|+++++|+.+++..+.+.+.+++.+ +|.+|||+.++..
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~ 77 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLG--GKL-GGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNV 77 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhC--CCc-CCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHH
Confidence 59999999844 56688999999999997 444 69999999999999999999999999987 9999999999888
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCC-CCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSL-QYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~-~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~ 187 (640)
..++.+.+...++|+|++++..+.+.+. .++++||+.|++..++..+++++...+|+++++++.++.++.+..+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~ 157 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRT 157 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHh
Confidence 8888899999999999987776666653 479999999999999999999999999999999999888998888888888
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (640)
++ ..+.....++.. ..++.++++++++.++|+|++......+..+++++++.|+.. ...++.+..+.....
T Consensus 158 ~~---~~~~~~~~~~~~----~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~- 228 (333)
T cd06332 158 FK---GEVVEEVYTPLG----QLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQDT- 228 (333)
T ss_pred hc---EEEeeEEecCCC----CcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCHHH-
Confidence 86 345545555544 567888999999999999999888788999999999999843 345665543322100
Q ss_pred CCCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCc
Q 006567 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (640)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (640)
.........|++...++.+ .++..++|.++|++++ +..++.++...||+++++++|++++...
T Consensus 229 ---~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~a~~~ag~~---------- 293 (333)
T cd06332 229 ---LPAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAY--GRVPSVYAAQGYDAAQLLDAALRAVGGD---------- 293 (333)
T ss_pred ---HHhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHHhcCC----------
Confidence 0122345678877776655 3567899999999988 3557888999999999999999986211
Q ss_pred cccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccc
Q 006567 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHA 396 (640)
Q Consensus 346 ~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~ 396 (640)
..++..+.++|++..|+|++|.+.|+++|+....
T Consensus 294 -----------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~~ 327 (333)
T cd06332 294 -----------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPIQD 327 (333)
T ss_pred -----------------CCCHHHHHHHHhcCceecCccceeECCCCCcccc
Confidence 1136789999999999999999999999885433
No 73
>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=99.97 E-value=1.8e-30 Score=265.87 Aligned_cols=371 Identities=21% Similarity=0.328 Sum_probs=293.5
Q ss_pred CCCeeEEEEEEeecCC-----ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc--CcEE
Q 006567 27 ARPAVVNVGALFTLDS-----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET--DIVA 99 (640)
Q Consensus 27 ~~~~~i~IG~l~~~~~-----~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~--~v~a 99 (640)
....+..|++++|+.. ..|+....|+++|++++|+.+.+|||++|.++..|++|++..+.++..+++.. ....
T Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~m 116 (865)
T KOG1055|consen 37 PSRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLM 116 (865)
T ss_pred CCCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchhe
Confidence 3445688888888852 33677899999999999999999999999999999999999999999999987 4557
Q ss_pred EEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCc
Q 006567 100 IIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGR 178 (640)
Q Consensus 100 iiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~ 178 (640)
++|+ |+.....++.-+..|+.-++++++++|.+++ +.||++||+.|++.......+.++++++|++++.++++.+-..
T Consensus 117 ll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f~ 195 (865)
T KOG1055|consen 117 LLGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVFS 195 (865)
T ss_pred eccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhhc
Confidence 7777 9999999999999999999999999999998 7899999999999999999999999999999999998887777
Q ss_pred ccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEe
Q 006567 179 NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (640)
Q Consensus 179 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 258 (640)
.-.+.+...+.+.+++++..+.+. .|....+++++...+|+|+-..+...++.++.+++..+|-+..|+|++.
T Consensus 196 ~~~~dl~~~~~~~~ieiv~~qsf~-------~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~ 268 (865)
T KOG1055|consen 196 STLNDLEARLKEAGIEIVFRQSFS-------SDPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLI 268 (865)
T ss_pred chHHHHHHhhhccccEEEEeeccc-------cCHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEE
Confidence 788888888989999998877554 3455678899999999999999999999999999999999999999887
Q ss_pred Cccc-----cccCC-CCCChhhhhhccceEEEEE--ccCCc------hhHHHHHHHHhhhcC---CCCCCCchhhhhhhH
Q 006567 259 DWLA-----YMLDS-ASLPSETLESMQGVLVLRQ--HIPES------DRKKNFLSRWKNLTG---GSLGMNSYGLYAYDS 321 (640)
Q Consensus 259 ~~~~-----~~~~~-~~~~~~~~~~~~g~~~~~~--~~~~~------~~~~~f~~~~~~~~~---~~~~~~~~~~~~yDa 321 (640)
.+.. ...+. .+..++...+.+|.+++.. .++.. -.-+.|...+.+... ..........++||+
T Consensus 269 g~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~~~~~~~~~~ayd~ 348 (865)
T KOG1055|consen 269 GWYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEETGGFQEAPLAYDA 348 (865)
T ss_pred EeeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccccccCcccCchHHHH
Confidence 5432 22222 2333455567788776643 22211 123455555543321 224456678899999
Q ss_pred HHHHHHHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEE
Q 006567 322 VWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDII 401 (640)
Q Consensus 322 v~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~ 401 (640)
+|++|+|++++.........+ ...+ +...-.-...|.++|.+++|+|++|.|.|.. |+|. ....|.
T Consensus 349 Iwa~ala~n~t~e~l~~~~~~---------l~~f---~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t~ie 414 (865)
T KOG1055|consen 349 IWALALALNKTMEGLGRSHVR---------LEDF---NYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTLIE 414 (865)
T ss_pred HHHHHHHHHHHHhcCCcccee---------cccc---chhhhHHHHHHHHHhhcccccccccceEecc-hhhH-HHHHHH
Confidence 999999999987654211000 0000 0111112678999999999999999999987 9974 777899
Q ss_pred EEecccEEEEEEEeCCCC
Q 006567 402 NVIGTGFRMIGYWSNYSG 419 (640)
Q Consensus 402 ~~~~~~~~~vG~w~~~~~ 419 (640)
|++++.++++|.|+...+
T Consensus 415 Q~qdg~y~k~g~Yds~~D 432 (865)
T KOG1055|consen 415 QFQDGKYKKIGYYDSTKD 432 (865)
T ss_pred HHhCCceEeecccccccc
Confidence 999999999999998653
No 74
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.97 E-value=2.6e-28 Score=237.74 Aligned_cols=352 Identities=15% Similarity=0.151 Sum_probs=242.1
Q ss_pred EEEEEEeecCCcc---chHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHh-cCcEEEEcCCChH
Q 006567 32 VNVGALFTLDSTI---GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-TDIVAIIGPQCST 107 (640)
Q Consensus 32 i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~-~~v~aiiGp~~s~ 107 (640)
|+||+|++++... +.....|..+|+++||++||++ |++|+.+++|.++|+....+.|.+|+. ++|.+|+|..+|.
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 7899999998544 4677899999999999999986 899999999999999999999999986 5999999999999
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHH-HHhcCCcEEEEEEEcCCCCcccHHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEM-VSYYGWNAVSVIFVDNEYGRNGVSALND 186 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~l-l~~~~w~~v~ii~~~~~~g~~~~~~~~~ 186 (640)
+-+++.++.++.+-+.+-+..- ..+ ...+++|-+.....++..-++++ +.++|.+++.+|.+|+.|+++.-..+++
T Consensus 80 sRKaVlPvvE~~~~LL~Yp~~Y-EG~--E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~r~ 156 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYPTQY-EGF--ECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRIIRD 156 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE-S-----------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCceEEecccc-ccc--cCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHHHH
Confidence 9999999999999999854211 111 33478999999999999999887 6678889999999999999999999999
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccC
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (640)
.+++.|.++..+..++.+ .+++..++.+|++.++|+|+-...++....|+++.++.|+... .+-|.+......-.
T Consensus 157 ~l~~~GgevvgE~Y~plg----~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~-~~Pi~S~~~~E~E~ 231 (363)
T PF13433_consen 157 LLEARGGEVVGERYLPLG----ATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPE-RIPIASLSTSEAEL 231 (363)
T ss_dssp HHHHTT-EEEEEEEE-S-----HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HHHH
T ss_pred HHHHcCCEEEEEEEecCC----chhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcc-cCeEEEEecCHHHH
Confidence 999999999999999977 8999999999999999999998888899999999999998743 45555432221100
Q ss_pred CCCCChhhhhhccceEEEEEccC--CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCC
Q 006567 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (640)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 344 (640)
.....+...|.+...++-. +++..++|+++|+++++.+..++.....+|.+|+++++|++++...
T Consensus 232 ----~~~g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~v~s~~~eaaY~~v~l~a~Av~~ags~--------- 298 (363)
T PF13433_consen 232 ----AAMGAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDRVTSDPMEAAYFQVHLWAQAVEKAGSD--------- 298 (363)
T ss_dssp ----TTS-HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----HHHHHHHHHHHHHHHHHHHHTS----------
T ss_pred ----hhcChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 0112246788888776543 5788999999999999655566777788999999999999997321
Q ss_pred ccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecccEEEEEEEeCCCCCCcCC
Q 006567 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLSKEP 424 (640)
Q Consensus 345 ~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~~~~~vG~w~~~~~l~~~~ 424 (640)
+...++++|.+.+|+.+.|.|++|++.+-. -....||.++..-
T Consensus 299 --------------------d~~~vr~al~g~~~~aP~G~v~id~~n~H~-----------~l~~rIg~~~~dG------ 341 (363)
T PF13433_consen 299 --------------------DPEAVREALAGQSFDAPQGRVRIDPDNHHT-----------WLPPRIGRVNADG------ 341 (363)
T ss_dssp ---------------------HHHHHHHHTT--EEETTEEEEE-TTTSBE-----------EB--EEEEE-TTS------
T ss_pred --------------------CHHHHHHHhcCCeecCCCcceEEcCCCCee-----------cccceEEEEcCCC------
Confidence 488999999999999999999999843311 1345677776532
Q ss_pred CcccccCCCCCCCccccceeEEeCCCCCCCCCcee
Q 006567 425 PETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWV 459 (640)
Q Consensus 425 ~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~ 459 (640)
.-.|+|....+..|.++.
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 135777777777777664
No 75
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.97 E-value=1.4e-28 Score=253.04 Aligned_cols=330 Identities=12% Similarity=0.083 Sum_probs=253.5
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCC--cEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCCh
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHG--TKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCS 106 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g--~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s 106 (640)
+||++.|++ +..|.....+++++++++|..+++ .| ++|+++++|++++|..++.++.+|+++ +|.+|+|+.+|
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i-~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s 79 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVV-GGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTP 79 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeE-CCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCc
Confidence 589999998 456778889999999999954434 45 589999999999999999999999987 99999999999
Q ss_pred HHHHHHHHhhccCCceEEecccCCCCC------C-CCCCCcEEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEcCCCCc
Q 006567 107 TVAHIVSYVSNELQVPLLSFGVTDPTL------S-SLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGR 178 (640)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~~~~~~l------~-~~~~~~~~r~~p~~~~~~~al~~ll~~~~-w~~v~ii~~~~~~g~ 178 (640)
..+.++++++.+.+||+|++.+..+.+ . ...++|+||+.+++..+..++++++++.+ ++++++++.++.||.
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~ 159 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGN 159 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhH
Confidence 999999999999999999864332111 1 12368899999999888899999888877 999999999999998
Q ss_pred ccHHHHH---HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEE
Q 006567 179 NGVSALN---DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (640)
Q Consensus 179 ~~~~~~~---~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~ 255 (640)
...+.+. +.+++.|+++.....++++ .+|+++++.+++++++|+|++.+...++..++++++++|+..+ +
T Consensus 160 ~~~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~---~ 232 (357)
T cd06337 160 AFADPVIGLPAALADAGYKLVDPGRFEPG----TDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPK---I 232 (357)
T ss_pred HHHHhhhcccHHHHhCCcEEecccccCCC----CCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCC---e
Confidence 7766554 5667789999988888876 7899999999999999999999999999999999999998543 2
Q ss_pred EE-eCccccccCCCCCChhhhhhccceEEEEEccCC--------chhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHH
Q 006567 256 IA-TDWLAYMLDSASLPSETLESMQGVLVLRQHIPE--------SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLA 326 (640)
Q Consensus 256 i~-~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--------~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a 326 (640)
+. ....... .. .....+..+|++....+.+. ++..++|.++|++++ +..+.....+.|+++++++
T Consensus 233 ~~~~~~~~~~-~~---~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~--g~~~~~~~~~~~~~~~~l~ 306 (357)
T cd06337 233 VTIAKALLFP-ED---VEALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAAT--GRQWTQPLGYAHALFEVGV 306 (357)
T ss_pred EEEeccccCH-HH---HHHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHh--CCCccCcchHHHHHHHHHH
Confidence 22 1111010 00 01112234565543332222 234789999999988 3445666778999999999
Q ss_pred HHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEecc
Q 006567 327 HAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGT 406 (640)
Q Consensus 327 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~~ 406 (640)
+|++++... .++..|+++|++++++++.|++.|+++ . ..+..|..+.++
T Consensus 307 ~Ai~~Ags~----------------------------~d~~~v~~aL~~~~~~~~~G~~~f~~~--~-~~~~~~~~~~~~ 355 (357)
T cd06337 307 KALVRADDP----------------------------DDPAAVADAIATLKLDTVVGPVDFGNS--P-IKNVAKTPLVGG 355 (357)
T ss_pred HHHHHcCCC----------------------------CCHHHHHHHHHcCCcccceeeeecCCC--C-CccccccccccC
Confidence 999985221 137789999999999999999999865 2 234555565554
Q ss_pred c
Q 006567 407 G 407 (640)
Q Consensus 407 ~ 407 (640)
.
T Consensus 356 ~ 356 (357)
T cd06337 356 Q 356 (357)
T ss_pred C
Confidence 3
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=99.96 E-value=2.8e-27 Score=242.42 Aligned_cols=319 Identities=14% Similarity=0.155 Sum_probs=253.7
Q ss_pred EEEEEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChH
Q 006567 32 VNVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (640)
Q Consensus 32 i~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~ 107 (640)
|+||++.|++. ..|.....++++|+++||+.+++ .|++|++...|+++++..+.+.+.+++++ +|.+|||+.++.
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi-~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~ 79 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGV-NGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTP 79 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCc-CCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCch
Confidence 68999999984 45778899999999999999987 69999999999999999999999999986 999999998887
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~ 187 (640)
.+.++.+++...++|+|++.+.++.++....+++||+.++....+..+++++.+++|+++++++.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~ 159 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKA 159 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHH
Confidence 77778899999999999876555444433457899999999999999999999999999999999888999999999999
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (640)
+++.|+++.....++.. ..++.+++.++++.++++|++.++...+..+++++++.|+.. ...+. .......
T Consensus 160 ~~~~G~~~~~~~~~~~~----~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~-~~~~~--~~~~~~~-- 230 (336)
T cd06326 160 LAARGLKPVATASYERN----TADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGA-QFYNL--SFVGADA-- 230 (336)
T ss_pred HHHcCCCeEEEEeecCC----cccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCC-cEEEE--eccCHHH--
Confidence 99999988766666654 568999999999999999999988888999999999999853 22222 2111110
Q ss_pred CCCChhhhhhccceEEEE--E--ccCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccC
Q 006567 268 ASLPSETLESMQGVLVLR--Q--HIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (640)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~--~--~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 343 (640)
.........+|++... + .....+..++|.+.|+++++ ..+++.+....||+++++++|++++.. .
T Consensus 231 --~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~-~~~~~~~~~~~y~~~~~~~~a~~~~g~---~----- 299 (336)
T cd06326 231 --LARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGP-GAPPSYVSLEGYIAAKVLVEALRRAGP---D----- 299 (336)
T ss_pred --HHHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCC-CCCCCeeeehhHHHHHHHHHHHHHcCC---C-----
Confidence 0112224556765432 2 22235678999999998872 346788889999999999999997521 1
Q ss_pred CccccccCCCCcccCcccccCchHHHHHHHHhCcc-cccccceEEccCC
Q 006567 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNL-VGLTGPLKFNSDR 391 (640)
Q Consensus 344 ~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f-~g~tG~v~Fd~~g 391 (640)
.+++.++++|++++. .+..|.++|++..
T Consensus 300 --------------------~~~~~v~~al~~~~~~~~~g~~~~~~~~~ 328 (336)
T cd06326 300 --------------------PTRESLLAALEAMGKFDLGGFRLDFSPGN 328 (336)
T ss_pred --------------------CCHHHHHHHHHhcCCCCCCCeEEecCccc
Confidence 138899999999875 4444589997633
No 77
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=99.96 E-value=3.8e-28 Score=247.33 Aligned_cols=302 Identities=15% Similarity=0.153 Sum_probs=239.8
Q ss_pred EEEEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHH
Q 006567 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (640)
Q Consensus 33 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~ 109 (640)
+||+++|++. ..|.....++++|++++| |++++++++|+.+ |..+...+.+++.++|.+|+||.++..+
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 5999999984 467888999999999999 6789999999999 9999999999998899999999999998
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHh
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~ 189 (640)
.++++++...+||+|+++.... ... .+++||+.+++..++.++++++.+.+++++++++.++.||....+.|++.++
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 8898999999999998754433 222 4789999999999999999998888999999999999999999999999999
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC---------------------CceEEEEecChh-hHHHHHHHHHHcC
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---------------------ESRVIVLHVSPS-LGFQVFSVAKYLG 247 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---------------------~~~vivl~~~~~-~~~~il~~a~~~g 247 (640)
+.|++|+....++.+ ..+++..+.+++.. ++|.|++.+.+. ++..+.++++..+
T Consensus 150 ~~G~~vv~~~~~~~~----~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~~~ 225 (336)
T cd06339 150 QLGGTVVAIESYDPS----PTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLFYY 225 (336)
T ss_pred HcCCceeeeEecCCC----HHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhhhc
Confidence 999999988888866 88999999999998 999999987776 6666777776654
Q ss_pred CccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCCCC-CchhhhhhhHHHHHH
Q 006567 248 MMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGM-NSYGLYAYDSVWLLA 326 (640)
Q Consensus 248 l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~yDav~~~a 326 (640)
....+-.+++++.+...... ....+..+|++...+.. ...++|.++|+++| +..| +.+++.+|||+.+++
T Consensus 226 ~~~~~~~~~g~~~~~~~~~~----~~~g~~~~g~~~~~~~~---~~~~~f~~~y~~~~--~~~p~~~~~a~~YDa~~l~~ 296 (336)
T cd06339 226 GVPGDVPLYGTSRWYSGTPA----PLRDPDLNGAWFADPPW---LLDANFELRYRAAY--GWPPLSRLAALGYDAYALAA 296 (336)
T ss_pred cCcCCCCEEEeccccCCCCC----cccCcccCCcEEeCCCc---ccCcchhhhHHHHh--cCCCCchHHHHHHhHHHHHH
Confidence 31123356777665432111 12224566766544311 12347889999888 4566 889999999999988
Q ss_pred HHHHHHhhcCCcccccCCccccccCCCCcccCcccccCchHHHHHHH-HhCcccccccceEEccCCCc
Q 006567 327 HAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNI-LQSNLVGLTGPLKFNSDRSL 393 (640)
Q Consensus 327 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l-~~~~f~g~tG~v~Fd~~g~r 393 (640)
.+++.... +. ++ +...|+|++|.++|+++|+.
T Consensus 297 ~~~~~~~~------------------------------~~-----al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 297 ALAQLGQG------------------------------DA-----ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred HHHHcccc------------------------------cc-----ccCCCCccccCcceEEECCCCeE
Confidence 77765310 01 33 33469999999999999973
No 78
>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=2.7e-27 Score=238.23 Aligned_cols=224 Identities=32% Similarity=0.533 Sum_probs=202.3
Q ss_pred EEEEEeecCC-----ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHh-----cCcEEEEc
Q 006567 33 NVGALFTLDS-----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-----TDIVAIIG 102 (640)
Q Consensus 33 ~IG~l~~~~~-----~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~-----~~v~aiiG 102 (640)
+||++++.+. ..+.....++..|++++|.. ++++++++.+.|+++++..+...+.++.+ +++.+|+|
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 23556788999999999988 57999999999999988888888888776 48999999
Q ss_pred CCChHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccH
Q 006567 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGV 181 (640)
Q Consensus 103 p~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~ 181 (640)
|.++..+.+++++++.++||+|++++..+.+++ ..+++++|+.|++..+++++++++++++|++++++|++++++....
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 999999999999999999999999888888876 5689999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCcc
Q 006567 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWL 261 (640)
Q Consensus 182 ~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~ 261 (640)
+.+++.+++.|+++.....++.. ..++...++++++.++++||+++...++..++++|++.||+ .+++||+++.+
T Consensus 158 ~~~~~~~~~~~~~v~~~~~~~~~----~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~~~~~ 232 (298)
T cd06269 158 ELLEEELEKNGICVAFVESIPDG----SEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWIITDLW 232 (298)
T ss_pred HHHHHHHHHCCeeEEEEEEcCCC----HHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEEEChh
Confidence 99999999889999988877755 58899999999999999999999999999999999999998 88999999877
Q ss_pred ccc
Q 006567 262 AYM 264 (640)
Q Consensus 262 ~~~ 264 (640)
...
T Consensus 233 ~~~ 235 (298)
T cd06269 233 LTS 235 (298)
T ss_pred hcc
Confidence 543
No 79
>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=99.96 E-value=2.5e-26 Score=222.82 Aligned_cols=323 Identities=16% Similarity=0.223 Sum_probs=244.7
Q ss_pred hHHHHHHHHHHHHHhccCCCCCCcEEEE----------EEccCCC--ChHHHHHHHHHhHhc--CcEEEEcCCChHHHHH
Q 006567 46 RVAKIAIEEAVKDVNSNSSILHGTKLNI----------TMQSSNC--SGFIGMVEALRFMET--DIVAIIGPQCSTVAHI 111 (640)
Q Consensus 46 ~~~~~a~~~Av~~iN~~~~~l~g~~i~~----------~~~D~~~--~~~~a~~~a~~l~~~--~v~aiiGp~~s~~~~~ 111 (640)
...+.|++.|++.+++.. ...|.++++ ++.+.+| +.-+++++..+|..+ .-.+++||.|..++.+
T Consensus 18 ~~v~~av~~a~~~~~~~~-~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~~ 96 (380)
T cd06369 18 KFVKEAVEEAIEIVAERL-AEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATFQ 96 (380)
T ss_pred HHHHHHHHHHHHHHHhhh-hccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehhh
Confidence 456899999999988755 335777766 5555555 446777777777765 6789999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHH------HhcCCcEEEEEEEcCCCCcc---cHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV------SYYGWNAVSVIFVDNEYGRN---GVS 182 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll------~~~~w~~v~ii~~~~~~g~~---~~~ 182 (640)
++.+...|++|+||.++.+ ++-...+++-|+.|+...++..+.++. ++++|++.. ||.++.-.++ .+.
T Consensus 97 ~~~~~~~~~~P~ISaGsfg--lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i~ 173 (380)
T cd06369 97 MVDDEFNLSLPIISAGSFG--LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWYIN 173 (380)
T ss_pred hhhhhhcCCCceEeccccc--cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeEhH
Confidence 9999999999999966644 443445689999999999999999999 489998555 9976643333 355
Q ss_pred HHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccc
Q 006567 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (640)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~ 262 (640)
++....+..+..+....... ..+++..++++.+ ...||||+++++++.++++.+ ++..++|++|..+...
T Consensus 174 al~a~~~~f~~~~~~~~~l~-----~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDlF~ 243 (380)
T cd06369 174 ALEAGVAYFSSALKFKELLR-----TEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDLFN 243 (380)
T ss_pred hhhhhhhhhhhcccceeeec-----CchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEeccc
Confidence 66665555554444333322 2467888888765 568999999999999999886 4445799999998765
Q ss_pred cccCCCCCChhhhhhccceEEEEEccCCchhHHHHHHHHhhhcCCCCCCC-chhhhhhhHHHHHHHHHHHHhhcCCcccc
Q 006567 263 YMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMN-SYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (640)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~yDav~~~a~Al~~~~~~~~~~~~ 341 (640)
..... +....+++++++.+++..|+.+.++++ ..+ +.... .+++..||||+++|+||+++++.+++.
T Consensus 244 ~sy~~---d~~a~~amqsVLvIT~~~p~~~~~~~~-----~~f--n~~l~~~~aa~fyDaVLLYa~AL~EtL~~G~~~-- 311 (380)
T cd06369 244 DVYYE---NTTSPPYMRNVLVLTLPPRNSTNNSSF-----TTD--NSLLKDDYVAAYHDGVLLFGHVLKKFLESQEGV-- 311 (380)
T ss_pred chhcc---CcchHHHHhceEEEecCCCCCcccccC-----CCC--CcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCC--
Confidence 43311 234556789999999888766554441 111 22332 789999999999999999999887642
Q ss_pred cCCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEec--ccEEEEEEEeCCC
Q 006567 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIG--TGFRMIGYWSNYS 418 (640)
Q Consensus 342 ~~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~~--~~~~~vG~w~~~~ 418 (640)
.+..+.+.|+|.+|+|++|.|.+|++||| ..+|.++.+.. ++++.||+|+...
T Consensus 312 -----------------------~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~t~~ 366 (380)
T cd06369 312 -----------------------QTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFDTST 366 (380)
T ss_pred -----------------------CcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEECCC
Confidence 24889999999999999999999999997 79999998763 7899999999743
No 80
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=99.95 E-value=2e-26 Score=233.00 Aligned_cols=297 Identities=13% Similarity=0.103 Sum_probs=227.1
Q ss_pred chHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHHHHhhccCCceEE
Q 006567 45 GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLL 124 (640)
Q Consensus 45 g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~i 124 (640)
+.....|+++|+|+||+.+|++ |++|+++..|. ++|..++..+.+|++++|.+|+|+.+|..+.++.+++.+.++|+|
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 3567999999999999999996 89999999985 689999999999998899999999999999999999999999999
Q ss_pred ecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCC
Q 006567 125 SFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPP 203 (640)
Q Consensus 125 s~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~ 203 (640)
+++++++.++. ..++|+||+.|++..+++++++++...+.+++++|+.|++||....+.+++.+++.|++|+..+.++.
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 99888888876 45789999999999999999999887899999999999999999999999999999999998887775
Q ss_pred CCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEE
Q 006567 204 ESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLV 283 (640)
Q Consensus 204 ~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~ 283 (640)
......+++.......+.+++|+|++.....+....+... .++. .. .....|+..
T Consensus 168 ~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~----------~~~~-~~--------------~~g~~G~~~ 222 (347)
T TIGR03863 168 SGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYA----------TWLP-RP--------------VAGSAGLVP 222 (347)
T ss_pred CCchhhhhcccCceeecCCCCCEEEEecchhhHhhhcccc----------cccc-cc--------------cccccCccc
Confidence 4222233444222223347899999875443322111100 0000 00 001112221
Q ss_pred EEE-ccCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccCCccccccCCCCcccCcccc
Q 006567 284 LRQ-HIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSI 362 (640)
Q Consensus 284 ~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~ 362 (640)
... ...+.+..++|.++|+++| +..|+..++..||++++++.|++++.+.
T Consensus 223 ~~~~~~~~~~~~~~f~~~f~~~~--g~~p~~~~a~aY~av~~~a~Ai~~AGs~--------------------------- 273 (347)
T TIGR03863 223 TAWHRAWERWGATQLQSRFEKLA--GRPMTELDYAAWLAVRAVGEAVTRTRSA--------------------------- 273 (347)
T ss_pred cccCCcccchhHHHHHHHHHHHh--CCCCChHHHHHHHHHHHHHHHHHHhcCC---------------------------
Confidence 111 1123456789999999998 4667888999999999999999997322
Q ss_pred cCchHHHHHHHHhCcc--ccccc-ceEEcc-CCCcccccEEE
Q 006567 363 FDDGMLLLGNILQSNL--VGLTG-PLKFNS-DRSLIHAAYDI 400 (640)
Q Consensus 363 ~~~g~~l~~~l~~~~f--~g~tG-~v~Fd~-~g~r~~~~~~I 400 (640)
++..++++|+++.+ .+..| +++|.+ |++.. ....+
T Consensus 274 --d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~-~~~~~ 312 (347)
T TIGR03863 274 --DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLR-QPVLL 312 (347)
T ss_pred --CHHHHHHHHcCCCceecccCCCcceeeCCCcccc-cceEe
Confidence 48999999999877 46777 699986 66644 33344
No 81
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=99.95 E-value=4.6e-26 Score=229.27 Aligned_cols=280 Identities=26% Similarity=0.383 Sum_probs=232.3
Q ss_pred EEEEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||+++|++. ..|.....++++|++++|+++++ +|+++++++.|+++++..+...+.+++++ +|.+||||.++..
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~-~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~ 79 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGI-PGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGV 79 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCC-CCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHH
Confidence 5999999984 56788899999999999999876 69999999999999999999999999998 9999999999988
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~ 187 (640)
+.++..++...+||+|++....+.+.+ ..+++++++.|+...++.++++++.+++|+++++++.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~ 159 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAA 159 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHH
Confidence 888999999999999998776665554 4578999999999999999999999999999999999888898899999999
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (640)
+++.|+++.....++.. ..++...++++++.++++|+++++...+..+++++++.|+. .++.|++.+.+......
T Consensus 160 ~~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~ 234 (299)
T cd04509 160 FKKKGGTVVGEEYYPLG----TTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLSDVLL 234 (299)
T ss_pred HHHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccCHHHH
Confidence 99999998766666544 46788899999988899999998889999999999999998 78899998765432211
Q ss_pred CCCChhhhhhccceEEEEEccCCch--hHHHHH---HHHhhhcCCCCCCCchhhhhhhHHHH
Q 006567 268 ASLPSETLESMQGVLVLRQHIPESD--RKKNFL---SRWKNLTGGSLGMNSYGLYAYDSVWL 324 (640)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~~~--~~~~f~---~~~~~~~~~~~~~~~~~~~~yDav~~ 324 (640)
....+...|.++..+..+..+ ..+.|. ..++..+ ...++.+++.+||++++
T Consensus 235 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~yda~~~ 290 (299)
T cd04509 235 ----EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKY--EDQPDYFAALAYDAVLL 290 (299)
T ss_pred ----HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHh--CCCCChhhhhhcceeee
Confidence 123356778888777655432 233333 3344443 56788899999999988
No 82
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.95 E-value=1.9e-25 Score=229.06 Aligned_cols=308 Identities=12% Similarity=0.062 Sum_probs=243.1
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||+++|++ +..|.....++++|++++|+.+++ .|++|++++.|+++++..+.+.+.+++++ +|.+|+|+.++..
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 699999997 456889999999999999999998 68999999999999999999999999988 9999999998877
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC-CCcccHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALNDK 187 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~-~g~~~~~~~~~~ 187 (640)
...+ +.+...++|+|++.+..+.+.. .++.|++.+++..++.++++++...+.+++++++.++. +|......+++.
T Consensus 80 ~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~ 156 (341)
T cd06341 80 GSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARS 156 (341)
T ss_pred hhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHH
Confidence 6666 8888999999987665554443 46788999999999999999999889999999987665 999999999999
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (640)
+++.|+++.....++.. ..++...+.++++.++|+|++..+..++..+++++++.|+..+. .... ......
T Consensus 157 ~~~~G~~v~~~~~~~~~----~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~-~~~~-~~~~~~--- 227 (341)
T cd06341 157 LAAAGVSVAGIVVITAT----APDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPKV-VLSG-TCYDPA--- 227 (341)
T ss_pred HHHcCCccccccccCCC----CCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCCE-EEec-CCCCHH---
Confidence 99999988776656544 67899999999999999999998888999999999999986542 2111 111100
Q ss_pred CCCChhhhhhccceEEEEEccC---CchhHHHHHHHHhhhcC-CCCCCCchhhhhhhHHHHHHHHHHHHhhcCCcccccC
Q 006567 268 ASLPSETLESMQGVLVLRQHIP---ESDRKKNFLSRWKNLTG-GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (640)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~f~~~~~~~~~-~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 343 (640)
......+..+|++....+.| ..+..+.|.+.+++... .+..++.++..+||+++++++|++++...
T Consensus 228 --~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~yda~~~~~~a~~~ag~~-------- 297 (341)
T cd06341 228 --LLAAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQLDPPEQGFALIGYIAADLFLRGLSGAGGC-------- 297 (341)
T ss_pred --HHHhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHHHHhcCCC--------
Confidence 00122346788887766554 45667777765554321 13468889999999999999999986221
Q ss_pred CccccccCCCCcccCcccccCchHH-HHHHHHhCccccccc
Q 006567 344 DSRLKTMEGGNLHLGAMSIFDDGML-LLGNILQSNLVGLTG 383 (640)
Q Consensus 344 ~~~~~~~~~~~~~c~~~~~~~~g~~-l~~~l~~~~f~g~tG 383 (640)
.+++. ++++|++++.....|
T Consensus 298 --------------------~~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 298 --------------------PTRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred --------------------CChHHHHHHHhhcCCCCCCCC
Confidence 02666 999999987554444
No 83
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.94 E-value=5.1e-25 Score=222.94 Aligned_cols=279 Identities=19% Similarity=0.293 Sum_probs=223.5
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~ 108 (640)
+||+++|++ +..|.....|+++|++++|+ +++ +|++|++++.|+++++..+.+.+.+++.+ +|.+|||+.++..
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 45577889999999999999 877 69999999999999999999999999975 9999999988877
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~ 188 (640)
+..+.+.+...++|+|++....+... ...+++||+.|++...+..+++++.+.+|+++++++.++.++....+.+++.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~ 157 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALA 157 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHH
Confidence 77788889999999999766543332 34578999999999999999999999999999999988889988889999999
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCC
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (640)
++.|+++.....++.. ..++...+.+++..++++|++.++...+..+++++++.|+..+ +++++..... +
T Consensus 158 ~~~G~~v~~~~~~~~~----~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~~~~-~-- 227 (312)
T cd06333 158 PKYGIEVVADERYGRT----DTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP---IYQTHGVASP-D-- 227 (312)
T ss_pred HHcCCEEEEEEeeCCC----CcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---EEeecCcCcH-H--
Confidence 9999998876666654 4578888999988889999999887778889999999987643 2333222111 0
Q ss_pred CCChhhhhhccceEEEEE------ccC----CchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHH
Q 006567 269 SLPSETLESMQGVLVLRQ------HIP----ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLA 326 (640)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~------~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a 326 (640)
......+..+|++.... ..| ..+..++|.++|++++ +...+..+++..||++++++
T Consensus 228 -~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~-g~~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 228 -FLRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKY-GAGSVSTFGGHAYDALLLLA 293 (312)
T ss_pred -HHHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHh-CCCCCCchhHHHHHHHHHHH
Confidence 01122345677665432 122 2356899999999988 23337889999999999999
No 84
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=99.93 E-value=7.5e-24 Score=213.05 Aligned_cols=280 Identities=25% Similarity=0.341 Sum_probs=231.3
Q ss_pred EEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHH
Q 006567 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (640)
Q Consensus 33 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~ 109 (640)
+||+++|.+ +..+.....++++|++++|+.+++ +|++++++++|+++++..+.+.+.++++++|.+|+||.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~-~g~~v~~~~~d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGI-LGRKIELVVEDTQGDPEAAAAAARELVDDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCCHHHHHHHHHHHHhCCceEEEcCCcchhH
Confidence 589999997 456788999999999999999887 6999999999999999999999999999999999999998888
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEcCCCCcccHHHHHHHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGRNGVSALNDKL 188 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~-w~~v~ii~~~~~~g~~~~~~~~~~~ 188 (640)
..+.+.+...+||+|++.+..+.+.+..++++|++.|+...+++++++++...+ |+++++++.++.++....+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 888999999999999987766555433568999999999999999999998887 9999999998889999999999999
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCccccccCCC
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (640)
++.|+++.....++.. ..++.+.+.+++..++++|++.++...+..+++++++.|+ +..|++.+.+......
T Consensus 160 ~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~~~~~- 231 (298)
T cd06268 160 KKLGGEVVAEETYPPG----ATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---KVPIVGGDGAAAPALL- 231 (298)
T ss_pred HHcCCEEEEEeccCCC----CccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---CCcEEecCccCCHHHH-
Confidence 9999988776666544 4678889999998889999999888899999999999987 4467776644322111
Q ss_pred CCChhhhhhccceEEEEEccCC--chhHHHHH-HHHhhhcCCCCCCCchhhhhhhHHHHHH
Q 006567 269 SLPSETLESMQGVLVLRQHIPE--SDRKKNFL-SRWKNLTGGSLGMNSYGLYAYDSVWLLA 326 (640)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~-~~~~~~~~~~~~~~~~~~~~yDav~~~a 326 (640)
........|++...++.+. .+..+.|. +.|++.+ +..++.++...||++++++
T Consensus 232 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 232 ---ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKY--GRPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred ---HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHh--CCCcccchHHHHHHHHHHc
Confidence 1223456788887776543 23344554 6777776 5778899999999999998
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=99.62 E-value=1e-13 Score=136.42 Aligned_cols=215 Identities=20% Similarity=0.317 Sum_probs=171.4
Q ss_pred EEEEEeecC--CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHH
Q 006567 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~ 110 (640)
+||+++|.+ .........+++.+++++ |..+++.++|+++++....+.+.++..+++.+++++.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI--------GRGLEVILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh--------CCceEEEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHH
Confidence 589999987 455667778888888886 4567888889999988888888888888999999998887666
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC-CCCcccHHHHHHHHh
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKLA 189 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~-~~g~~~~~~~~~~~~ 189 (640)
.+...+...++|+|++....+... .+++++++.|+....++++++++.+++|+++++++.+. ..+....+.+++.++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 578888899999999766554433 46789999999999999999999999999999999776 667777889999999
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC-CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCcc
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM-ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWL 261 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~-~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~ 261 (640)
+.|+++......... ...++....+.+++. ++++|++.++ ..+..+++++++.|+...++.|++.+.+
T Consensus 151 ~~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~ 219 (269)
T cd01391 151 KAGIEVVAIEYGDLD---TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGS 219 (269)
T ss_pred hcCcEEEeccccCCC---ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEecccc
Confidence 888766544333322 225677777777776 6888888777 8889999999999987456777776654
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=99.41 E-value=2.1e-11 Score=129.73 Aligned_cols=308 Identities=14% Similarity=0.167 Sum_probs=166.1
Q ss_pred eEEEEEEeecCCcc---chHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChH
Q 006567 31 VVNVGALFTLDSTI---GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST 107 (640)
Q Consensus 31 ~i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~ 107 (640)
+-+|++++|+++.. |..++.||..|. +.. .+.+.++.++|+..++. ......++.+|+.+||||....
T Consensus 219 ~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~----~~~~~~l~~~Dt~~~~~--~~~~~~a~~~ga~~ViGPL~k~ 289 (536)
T PF04348_consen 219 PQRIAVLLPLSGRLARAGQAIRDGFLAAY---YAD----ADSRPELRFYDTNADSA--DALYQQAVADGADFVIGPLLKS 289 (536)
T ss_dssp ---EEEEE--SSTTHHHHHHHHHHHHHHH----------TT--S-EEEEETTTS-H--HHHHHHHHHTT--EEE---SHH
T ss_pred ccCEEEEeCCCCchhHHHHHHHHHHHHhh---ccc----ccCCCceEEecCCCCCH--HHHHHHHHHcCCCEEEcCCCHH
Confidence 46899999998544 556677777777 111 13455777889876633 3345566778999999999998
Q ss_pred HHHHHHHhhc--cCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHH
Q 006567 108 VAHIVSYVSN--ELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (640)
Q Consensus 108 ~~~~v~~~~~--~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~ 185 (640)
....++..-. ...||++.....+.. . .-+.++.+.-+.++.++.+++.+..-|+++..||+.++++|....+.|.
T Consensus 290 ~V~~l~~~~~~~~~~vp~LaLN~~~~~-~--~~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~aF~ 366 (536)
T PF04348_consen 290 NVEALAQLPQLQAQPVPVLALNQPDNS-Q--APPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEAFN 366 (536)
T ss_dssp HHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHHHH
T ss_pred HHHHHHhcCcccccCCceeeccCCCcc-c--CccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHHHH
Confidence 8887776544 248999987655433 1 1245666666778889999999999999999999999999999999999
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeCcccccc
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (640)
+.....|..+.....+.. ..++...++.-...+.|.|++.+++.+++.|--...-. ....--+|-.+......
T Consensus 367 ~~W~~~gg~~~~~~~~~~-----~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~-~a~~lPvyatS~~~~g~- 439 (536)
T PF04348_consen 367 QQWQALGGQVAEVSYYGS-----PADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH-FAGDLPVYATSRSYSGS- 439 (536)
T ss_dssp HHHHHHHSS--EEEEESS-----TTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT--T-TT-EEEE-GGG--HH-
T ss_pred HHHHHcCCCceeeEecCC-----HHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc-cCCCCCEEEeccccCCC-
Confidence 999998877765555542 45777777765556899999999999988876655432 11111233332221111
Q ss_pred CCCCCChhhhhhccceEEEEEc---cCCchhHHHHHHHHhhhcCCCCCCCchhhhhhhHHHHHHHHHHHHhhcCCccccc
Q 006567 266 DSASLPSETLESMQGVLVLRQH---IPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (640)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~---~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 342 (640)
.+........|+...... .+..+..+.+...|.... ....-..+++|||..++.+ +..
T Consensus 440 ----~~~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~~---~~~~RL~AlG~DA~~L~~~-l~~----------- 500 (536)
T PF04348_consen 440 ----PNPSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNAS---NSLQRLYALGIDAYRLAPR-LPQ----------- 500 (536)
T ss_dssp ----T-HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT----HHHHHHHHHHHHHHHHHHT-HHH-----------
T ss_pred ----CCcchhhhhcCCEEeccccccCCCchHHHHHHhhccCCc---cHHHHHHHHHHHHHHHHHH-HHH-----------
Confidence 123445678898887652 233344444444443211 1112234677777555432 221
Q ss_pred CCccccccCCCCcccCcccccCchHHHHHHHHhCcccccccceEEccCCCcccccEEEEEEe
Q 006567 343 NDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (640)
Q Consensus 343 ~~~~~~~~~~~~~~c~~~~~~~~g~~l~~~l~~~~f~g~tG~v~Fd~~g~r~~~~~~I~~~~ 404 (640)
++.+....+.|.||.+++|++|. +.....-.+++
T Consensus 501 ---------------------------l~~~~~~~~~G~TG~L~~~~~g~-i~R~l~wa~f~ 534 (536)
T PF04348_consen 501 ---------------------------LRQFPGYRLDGLTGQLSLDEDGR-IERQLSWAQFR 534 (536)
T ss_dssp ---------------------------HHHSTT--EEETTEEEEE-TT-B-EEEE-EEEEEE
T ss_pred ---------------------------HhhCCCCcccCCceeEEECCCCe-EEEeecceeec
Confidence 12223346899999999999986 55555544444
No 87
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.32 E-value=1e-11 Score=121.30 Aligned_cols=102 Identities=24% Similarity=0.315 Sum_probs=88.0
Q ss_pred CCCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhC-CCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEE
Q 006567 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (640)
Q Consensus 463 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~ 541 (640)
+.++|+|++. .+++||.+.+..++++.||++||++++++++ |.++++++.+ -+|...+..|.+|++|+++
T Consensus 36 ~~g~l~vg~~--~~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~ 106 (259)
T PRK11917 36 SKGQLIVGVK--NDVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVA-------VNAKTRGPLLDNGSVDAVI 106 (259)
T ss_pred hCCEEEEEEC--CCCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEE-------cChhhHHHHHHCCCccEEE
Confidence 3578999998 4689999875447899999999999999995 7655566665 3477788999999999999
Q ss_pred eeeeeeccccceEEeCccccccceEEEEecCC
Q 006567 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 542 ~~~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
+++++|++|.+.++||.||+.++.++++++.+
T Consensus 107 ~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~ 138 (259)
T PRK11917 107 ATFTITPERKRIYNFSEPYYQDAIGLLVLKEK 138 (259)
T ss_pred ecccCChhhhheeeeccCceeeceEEEEECCC
Confidence 99999999999999999999999999999876
No 88
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.27 E-value=9.2e-12 Score=122.18 Aligned_cols=98 Identities=21% Similarity=0.362 Sum_probs=87.0
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEee
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~ 543 (640)
.++|+|++. +.|+||.+.++ ++++.|+++||++++++++|.+++|. + ..|+.++.++..|++|+++++
T Consensus 25 ~~~l~v~~~--~~~pPf~~~~~-~g~~~G~~vdl~~~ia~~lg~~~~~~--~-------~~~~~~~~~l~~g~~Di~~~~ 92 (260)
T PRK15010 25 PETVRIGTD--TTYAPFSSKDA-KGDFVGFDIDLGNEMCKRMQVKCTWV--A-------SDFDALIPSLKAKKIDAIISS 92 (260)
T ss_pred CCeEEEEec--CCcCCceeECC-CCCEEeeeHHHHHHHHHHhCCceEEE--e-------CCHHHHHHHHHCCCCCEEEec
Confidence 478999886 36899999765 78999999999999999999995554 4 349999999999999999889
Q ss_pred eeeeccccceEEeCccccccceEEEEecCC
Q 006567 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 544 ~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
+++|++|++.++||.||+.++..+++++..
T Consensus 93 ~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~ 122 (260)
T PRK15010 93 LSITDKRQQEIAFSDKLYAADSRLIAAKGS 122 (260)
T ss_pred CcCCHHHHhhcccccceEeccEEEEEECCC
Confidence 999999999999999999999999998876
No 89
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.27 E-value=8.2e-12 Score=122.46 Aligned_cols=98 Identities=20% Similarity=0.314 Sum_probs=86.8
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEee
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~ 543 (640)
..+|++++. +.|+||.+.++ ++++.|+++|+++++++++|.+++|... .|++++.++.+|++|+++++
T Consensus 25 ~~~l~v~~~--~~~~P~~~~~~-~g~~~G~~vdi~~~ia~~lg~~i~~~~~---------pw~~~~~~l~~g~~D~~~~~ 92 (259)
T PRK15437 25 PQNIRIGTD--PTYAPFESKNS-QGELVGFDIDLAKELCKRINTQCTFVEN---------PLDALIPSLKAKKIDAIMSS 92 (259)
T ss_pred CCeEEEEeC--CCCCCcceeCC-CCCEEeeeHHHHHHHHHHcCCceEEEeC---------CHHHHHHHHHCCCCCEEEec
Confidence 467999885 35889988765 7899999999999999999999655543 39999999999999999999
Q ss_pred eeeeccccceEEeCccccccceEEEEecCC
Q 006567 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 544 ~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
+++|++|++.++||.|++.++..+++++..
T Consensus 93 ~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~ 122 (259)
T PRK15437 93 LSITEKRQQEIAFTDKLYAADSRLVVAKNS 122 (259)
T ss_pred CCCCHHHhhhccccchhhcCceEEEEECCC
Confidence 999999999999999999999999998876
No 90
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.27 E-value=1.6e-11 Score=122.47 Aligned_cols=100 Identities=18% Similarity=0.193 Sum_probs=85.1
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHH----hCCC-CccEEEEEcCCCCCCCCHhhHHHHHHcCccc
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVN----LLPY-AVPYQFVAFGDGHKNPSYTQLVDSITTGVFD 538 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~----~l~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D 538 (640)
.+.|+|++. +.|+||.+.++ ++++.||++||++.|++ ++|. .+++++++ .+|..++..|.+|++|
T Consensus 39 ~g~L~Vg~~--~~~pP~~f~~~-~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~-------~~~~~~i~~L~~G~~D 108 (302)
T PRK10797 39 NGVIVVGHR--ESSVPFSYYDN-QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIP-------ITSQNRIPLLQNGTFD 108 (302)
T ss_pred CCeEEEEEc--CCCCCcceECC-CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEE-------cChHhHHHHHHCCCcc
Confidence 467999987 46899998764 68899999998877765 6653 24477777 3488899999999999
Q ss_pred EEEeeeeeeccccceEEeCccccccceEEEEecCC
Q 006567 539 AVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 539 ~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
++++++++|++|.+.++||.||+.++.++++++..
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 91
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.25 E-value=1.4e-11 Score=119.90 Aligned_cols=107 Identities=26% Similarity=0.380 Sum_probs=89.2
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEee
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~ 543 (640)
.++|+|++. .+|+||.+.+ ++++.|+.+|+++++++++|.+++| .+ ..|.+++..|.+|++|+++++
T Consensus 24 ~~~l~v~~~--~~~~P~~~~~--~g~~~G~~vdl~~~ia~~lg~~~~~--~~-------~~~~~~~~~l~~G~vDi~~~~ 90 (247)
T PRK09495 24 DKKLVVATD--TAFVPFEFKQ--GDKYVGFDIDLWAAIAKELKLDYTL--KP-------MDFSGIIPALQTKNVDLALAG 90 (247)
T ss_pred CCeEEEEeC--CCCCCeeecC--CCceEEEeHHHHHHHHHHhCCceEE--Ee-------CCHHHHHHHHhCCCcCEEEec
Confidence 467999976 3688998864 6789999999999999999998555 44 349999999999999999888
Q ss_pred eeeeccccceEEeCccccccceEEEEecCCCCcCcceecc
Q 006567 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLR 583 (640)
Q Consensus 544 ~~~t~~R~~~vdfs~p~~~~~~~il~~~~~~~~~~~~~l~ 583 (640)
++.|++|++.++||.||+.++..+++++.......+..|+
T Consensus 91 ~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~~~~~~~~dL~ 130 (247)
T PRK09495 91 ITITDERKKAIDFSDGYYKSGLLVMVKANNNDIKSVKDLD 130 (247)
T ss_pred CccCHHHHhhccccchheecceEEEEECCCCCCCChHHhC
Confidence 9999999999999999999999999987664344444443
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=99.21 E-value=2.6e-11 Score=116.18 Aligned_cols=94 Identities=27% Similarity=0.470 Sum_probs=84.6
Q ss_pred EEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeee
Q 006567 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (640)
Q Consensus 467 l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~ 546 (640)
|||++.. .|+||.+.++ +++..|+.+|+++++++++|++++|...+ |.+++.+|.+|++|+++++++.
T Consensus 1 l~V~~~~--~~~P~~~~~~-~~~~~G~~~dl~~~i~~~~g~~~~~~~~~---------~~~~~~~l~~g~~D~~~~~~~~ 68 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDE-DGEPSGIDVDLLRAIAKRLGIKIEFVPMP---------WSRLLEMLENGKADIIIGGLSI 68 (225)
T ss_dssp EEEEEES--EBTTTBEEET-TSEEESHHHHHHHHHHHHHTCEEEEEEEE---------GGGHHHHHHTTSSSEEESSEB-
T ss_pred CEEEEcC--CCCCeEEECC-CCCEEEEhHHHHHHHHhhcccccceeecc---------cccccccccccccccccccccc
Confidence 6888863 6889999886 89999999999999999999996666554 9999999999999999999999
Q ss_pred eccccceEEeCccccccceEEEEecC
Q 006567 547 VTNRTKIVDFSQPYAASGLVVVVPFR 572 (640)
Q Consensus 547 t~~R~~~vdfs~p~~~~~~~il~~~~ 572 (640)
|++|.+.++||.|++..+.++++++.
T Consensus 69 ~~~r~~~~~~s~p~~~~~~~~~~~~~ 94 (225)
T PF00497_consen 69 TPERAKKFDFSDPYYSSPYVLVVRKG 94 (225)
T ss_dssp BHHHHTTEEEESESEEEEEEEEEETT
T ss_pred cccccccccccccccchhheeeeccc
Confidence 99999999999999999999999965
No 93
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.19 E-value=5.6e-11 Score=115.49 Aligned_cols=98 Identities=22% Similarity=0.341 Sum_probs=84.9
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEee
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~ 543 (640)
.++|+|++. ..|+||.+.+. ++++.|+++|+++.|++++|++++|.. ..|..++..+.+|++|+++++
T Consensus 20 ~~~l~v~~~--~~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~---------~~~~~~~~~l~~g~~D~~~~~ 87 (243)
T PRK15007 20 AETIRFATE--ASYPPFESIDA-NNQIVGFDVDLAQALCKEIDATCTFSN---------QAFDSLIPSLKFRRVEAVMAG 87 (243)
T ss_pred CCcEEEEeC--CCCCCceeeCC-CCCEEeeeHHHHHHHHHHhCCcEEEEe---------CCHHHHhHHHhCCCcCEEEEc
Confidence 467999996 36889998764 789999999999999999999955543 349999999999999999888
Q ss_pred eeeeccccceEEeCccccccceEEEEecCC
Q 006567 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 544 ~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
++.+++|++.++||.||+..+..++.++..
T Consensus 88 ~~~~~~r~~~~~fs~p~~~~~~~~v~~~~~ 117 (243)
T PRK15007 88 MDITPEREKQVLFTTPYYDNSALFVGQQGK 117 (243)
T ss_pred CccCHHHhcccceecCccccceEEEEeCCC
Confidence 999999999999999999998887776553
No 94
>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=99.18 E-value=1.8e-11 Score=88.30 Aligned_cols=47 Identities=26% Similarity=0.659 Sum_probs=39.3
Q ss_pred CCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCC-----CCCCHhhHHHHHHc
Q 006567 486 GSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGH-----KNPSYTQLVDSITT 534 (640)
Q Consensus 486 ~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~-----~~~~~~~~~~~l~~ 534 (640)
++.+++|||+||+++|++.|||+ |++..++|++ +|++|+|||++|.+
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 47899999999999999999999 7777777765 77999999999975
No 95
>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=99.14 E-value=7.6e-11 Score=116.61 Aligned_cols=98 Identities=23% Similarity=0.309 Sum_probs=85.6
Q ss_pred CCCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCC-ccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEE
Q 006567 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYA-VPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (640)
Q Consensus 463 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~ 541 (640)
..++|+|++. +|+||.+.++ ++++.|+.+||++++++++|.+ ++|.. ..|++++..+.+|++|+++
T Consensus 31 ~~~~l~v~~~---~~pP~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~~---------~~w~~~~~~l~~G~~Di~~ 97 (275)
T TIGR02995 31 EQGFARIAIA---NEPPFTYVGA-DGKVSGAAPDVARAIFKRLGIADVNASI---------TEYGALIPGLQAGRFDAIA 97 (275)
T ss_pred hCCcEEEEcc---CCCCceeECC-CCceecchHHHHHHHHHHhCCCceeecc---------CCHHHHHHHHHCCCcCEEe
Confidence 3467999985 5789988754 7889999999999999999986 34444 3499999999999999998
Q ss_pred eeeeeeccccceEEeCccccccceEEEEecCC
Q 006567 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 542 ~~~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
.++++|++|++.++||.||+.++.++++++.+
T Consensus 98 ~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~ 129 (275)
T TIGR02995 98 AGLFIKPERCKQVAFTQPILCDAEALLVKKGN 129 (275)
T ss_pred ecccCCHHHHhccccccceeecceeEEEECCC
Confidence 88999999999999999999999999998876
No 96
>PRK11260 cystine transporter subunit; Provisional
Probab=99.11 E-value=1.8e-10 Score=113.40 Aligned_cols=99 Identities=23% Similarity=0.393 Sum_probs=86.4
Q ss_pred CCCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEe
Q 006567 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (640)
Q Consensus 463 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~ 542 (640)
..++|+|++. ..|+||.+.++ ++++.|+.+|+++.|++++|.+++| ++ ..|.+++.+|.+|++|++++
T Consensus 39 ~~~~l~v~~~--~~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~e~--~~-------~~~~~~~~~l~~G~~D~~~~ 106 (266)
T PRK11260 39 ERGTLLVGLE--GTYPPFSFQGE-DGKLTGFEVEFAEALAKHLGVKASL--KP-------TKWDGMLASLDSKRIDVVIN 106 (266)
T ss_pred cCCeEEEEeC--CCcCCceEECC-CCCEEEehHHHHHHHHHHHCCeEEE--Ee-------CCHHHHHHHHhcCCCCEEEe
Confidence 4578999986 36889988764 7889999999999999999999544 44 34999999999999999988
Q ss_pred eeeeeccccceEEeCccccccceEEEEecCC
Q 006567 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 543 ~~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
+++.+++|.+.++||.||+..+..+++++.+
T Consensus 107 ~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~ 137 (266)
T PRK11260 107 QVTISDERKKKYDFSTPYTVSGIQALVKKGN 137 (266)
T ss_pred ccccCHHHHhccccCCceeecceEEEEEcCC
Confidence 8999999999999999999999999998754
No 97
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.10 E-value=2.3e-10 Score=111.78 Aligned_cols=97 Identities=29% Similarity=0.464 Sum_probs=86.3
Q ss_pred CeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeee
Q 006567 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (640)
Q Consensus 465 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~ 544 (640)
++|+|++. ..|+||.+.++ +++++|+++|+++.+++++|++ +++++ .+|..++.++.+|++|++++++
T Consensus 24 ~~l~v~~~--~~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~--~~~~~-------~~~~~~~~~l~~G~~D~~~~~~ 91 (250)
T TIGR01096 24 GSVRIGTE--TGYPPFESKDA-NGKLVGFDVDLAKALCKRMKAK--CKFVE-------QNFDGLIPSLKAKKVDAIMATM 91 (250)
T ss_pred CeEEEEEC--CCCCCceEECC-CCCEEeehHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhCCCcCEEEecC
Confidence 78999985 46889988765 7899999999999999999988 45555 4599999999999999998888
Q ss_pred eeeccccceEEeCccccccceEEEEecCC
Q 006567 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 545 ~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
+.+++|.+.+.||.|++..+..+++++..
T Consensus 92 ~~~~~r~~~~~~s~p~~~~~~~~~~~~~~ 120 (250)
T TIGR01096 92 SITPKRQKQIDFSDPYYATGQGFVVKKGS 120 (250)
T ss_pred ccCHHHhhccccccchhcCCeEEEEECCC
Confidence 99999999999999999999999998866
No 98
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.07 E-value=1.9e-10 Score=111.66 Aligned_cols=88 Identities=17% Similarity=0.221 Sum_probs=74.0
Q ss_pred eEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHH---HHHHcCcccEEEe
Q 006567 466 LLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLV---DSITTGVFDAVVG 542 (640)
Q Consensus 466 ~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~---~~l~~~~~D~~~~ 542 (640)
+|+|++. +.|+||.+.+ + .||++||+++|++++|++++|. + ..|++++ ..|.+|++|+++
T Consensus 1 ~l~vg~~--~~~pPf~~~~---~--~Gfdvdl~~~ia~~lg~~~~~~--~-------~~~~~~~~~~~~L~~g~~Dii~- 63 (246)
T TIGR03870 1 TLRVCAA--TKEAPYSTKD---G--SGFENKIAAALAAAMGRKVVFV--W-------LAKPAIYLVRDGLDKKLCDVVL- 63 (246)
T ss_pred CeEEEeC--CCCCCCccCC---C--CcchHHHHHHHHHHhCCCeEEE--E-------eccchhhHHHHHHhcCCccEEE-
Confidence 3788887 5799999963 2 6999999999999999995554 4 3488876 689999999997
Q ss_pred eeeeeccccceEEeCccccccceEEEEecCC
Q 006567 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 543 ~~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
++++|++| ++||.||+.++.++++++.+
T Consensus 64 ~~~~t~~r---~~fS~PY~~~~~~~v~~k~~ 91 (246)
T TIGR03870 64 GLDTGDPR---VLTTKPYYRSSYVFLTRKDR 91 (246)
T ss_pred eCCCChHH---HhcccCcEEeeeEEEEeCCC
Confidence 58888887 67999999999999998775
No 99
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=98.96 E-value=1.6e-09 Score=115.43 Aligned_cols=98 Identities=19% Similarity=0.250 Sum_probs=81.7
Q ss_pred CCCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEe
Q 006567 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (640)
Q Consensus 463 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~ 542 (640)
+.++|+|++.. .|+.+... ++...||++||++++++++|++++ ++.. .+|++++..|.+|++|++++
T Consensus 41 ~~g~LrVg~~~----~P~~~~~~-~~~~~G~~~DLl~~ia~~LGv~~e--~v~~------~~~~~ll~aL~~G~iDi~~~ 107 (482)
T PRK10859 41 ERGELRVGTIN----SPLTYYIG-NDGPTGFEYELAKRFADYLGVKLE--IKVR------DNISQLFDALDKGKADLAAA 107 (482)
T ss_pred hCCEEEEEEec----CCCeeEec-CCCcccHHHHHHHHHHHHhCCcEE--EEec------CCHHHHHHHHhCCCCCEEec
Confidence 35789999974 24444433 334599999999999999999954 4432 56999999999999999989
Q ss_pred eeeeeccccceEEeCccccccceEEEEecCC
Q 006567 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 543 ~~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
++++|++|.+.++||.||+..+.++++++..
T Consensus 108 ~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~ 138 (482)
T PRK10859 108 GLTYTPERLKQFRFGPPYYSVSQQLVYRKGQ 138 (482)
T ss_pred cCcCChhhhccCcccCCceeeeEEEEEeCCC
Confidence 9999999999999999999999999998765
No 100
>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=104.05 Aligned_cols=96 Identities=14% Similarity=0.135 Sum_probs=80.3
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhC-CCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEe
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~ 542 (640)
.++|++++. +|+||.+.+. ++...|+..|+++++++++ +++++|...+ |.+++.++ +++.|+++.
T Consensus 17 ~~~l~~~~~---~~pPf~~~~~-~~~~~G~~~~i~~~i~~~~~~~~~~~~~~p---------w~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFSG-PSKGRGVFDVILQEIRRALPQYEHRFVRVS---------FARSLKEL-QGKGGVCTV 82 (268)
T ss_pred cceeEEEec---ccCCeeEeCC-CCCCCChHHHHHHHHHHHcCCCceeEEECC---------HHHHHHHH-hcCCCeEEe
Confidence 468898875 6889988753 6788999999999999998 8886666544 99999999 788888877
Q ss_pred eeeeeccccceEEeCccccc-cceEEEEecCC
Q 006567 543 DITIVTNRTKIVDFSQPYAA-SGLVVVVPFRK 573 (640)
Q Consensus 543 ~~~~t~~R~~~vdfs~p~~~-~~~~il~~~~~ 573 (640)
++++|+||++.++||.||+. ....+++++..
T Consensus 83 ~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~ 114 (268)
T TIGR02285 83 NLLRTPEREKFLIFSDPTLRALPVGLVLRKEL 114 (268)
T ss_pred eccCCcchhhceeecCCccccCCceEEEccch
Confidence 89999999999999999985 57888888754
No 101
>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=98.86 E-value=1.8e-07 Score=91.87 Aligned_cols=205 Identities=12% Similarity=0.076 Sum_probs=139.2
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
+||+++|.+ .........+++.+.++. |+ ++.+.+...++....+.+.+++.+++.++|+.........
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 444456677777776662 44 4556677777777777788888889998888665544433
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~~~~~~~ 189 (640)
....+...++|+|.+....+. ..+++++.+.....+..+++++...+-++++++..+.. ++....+.+++.++
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 567778899999987555432 14556777888889999999999889999999986543 55566788888888
Q ss_pred hcC-eEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 190 ERR-CRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 190 ~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
+.| ..+....... .+..+....+.++.+.+ +++|+... ...+..+++++++.|+..+..+-+.
T Consensus 146 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~~-~~~a~~~~~~~~~~g~~i~~~i~i~ 211 (264)
T cd01537 146 EAGPIEIVLVQEGD----WDAEKGYQAAEELLTAHPDPTAIFAAN-DDMALGALRALREAGLRVPDDISVI 211 (264)
T ss_pred HcCCcChhhhccCC----CCHHHHHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHhCCCCCCCeEEE
Confidence 777 3332222222 23556667777777766 45555443 3456678899999887533334333
No 102
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=98.82 E-value=1e-08 Score=123.08 Aligned_cols=97 Identities=11% Similarity=0.116 Sum_probs=85.1
Q ss_pred CeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeee
Q 006567 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (640)
Q Consensus 465 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~ 544 (640)
++|+|++. +.|+||.+.++ +|++.||.+|+++.|++++|++ |++++. ..|..++..|.+|++|++ +++
T Consensus 302 ~~l~v~~~--~~~pP~~~~d~-~g~~~G~~~Dll~~i~~~~g~~--~~~v~~------~~~~~~~~~l~~g~~D~i-~~~ 369 (1197)
T PRK09959 302 PDLKVLEN--PYSPPYSMTDE-NGSVRGVMGDILNIITLQTGLN--FSPITV------SHNIHAGTQLNPGGWDII-PGA 369 (1197)
T ss_pred CceEEEcC--CCCCCeeEECC-CCcEeeehHHHHHHHHHHHCCe--EEEEec------CCHHHHHHHHHCCCceEe-ecc
Confidence 56898876 57899999875 7999999999999999999988 666664 568889999999999987 567
Q ss_pred eeeccccceEEeCccccccceEEEEecCC
Q 006567 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 545 ~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
+.|++|.+.++||.||+.++.++++++..
T Consensus 370 ~~t~~r~~~~~fs~py~~~~~~~v~~~~~ 398 (1197)
T PRK09959 370 IYSEDRENNVLFAEAFITTPYVFVMQKAP 398 (1197)
T ss_pred cCCccccccceeccccccCCEEEEEecCC
Confidence 78999999999999999999999998754
No 103
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=98.80 E-value=1.2e-08 Score=122.41 Aligned_cols=101 Identities=14% Similarity=0.178 Sum_probs=85.6
Q ss_pred CCCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEe
Q 006567 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (640)
Q Consensus 463 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~ 542 (640)
+.++|+|++.. +|+|+.+..+.+|++.||.+|+++.|++++|++ +++++. .+|.+++..|.+|++|++++
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 35689999973 455544443248999999999999999999999 666663 47999999999999999989
Q ss_pred eeeeeccccceEEeCccccccceEEEEecCC
Q 006567 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 543 ~~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
.++.|++|.+.++||.||+.+...+++++..
T Consensus 124 ~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~ 154 (1197)
T PRK09959 124 HLVASPPLNDDIAATKPLIITFPALVTTLHD 154 (1197)
T ss_pred ccccccccccchhcCCCccCCCceEEEeCCC
Confidence 9999999999999999999999999887754
No 104
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=98.76 E-value=2.6e-08 Score=98.69 Aligned_cols=118 Identities=24% Similarity=0.280 Sum_probs=93.8
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEee
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~ 543 (640)
.+.+++++... ..+||.+.+.+.+++.||++|+++.++++++......+.+ ..|.+++..|..|++|++++.
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 46688888742 4468989876336999999999999999998753234433 459999999999999999999
Q ss_pred eeeeccccceEEeCccccccceEEEEecCCCC-cCcceeccccchhH
Q 006567 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLN-TGAWAFLRPFSPLM 589 (640)
Q Consensus 544 ~~~t~~R~~~vdfs~p~~~~~~~il~~~~~~~-~~~~~~l~pf~~~v 589 (640)
+++|++|.+.++||.||+..+..+++++.... ......|+.-...+
T Consensus 105 ~~~t~er~~~~~fs~py~~~~~~~~~~~~~~~~~~~~~DL~gk~v~v 151 (275)
T COG0834 105 MTITPERKKKVDFSDPYYYSGQVLLVKKDSDIGIKSLEDLKGKKVGV 151 (275)
T ss_pred cccCHHHhccccccccccccCeEEEEECCCCcCcCCHHHhCCCEEEE
Confidence 99999999999999999999999999887733 34455555543333
No 105
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=98.76 E-value=1.5e-06 Score=85.57 Aligned_cols=205 Identities=11% Similarity=0.085 Sum_probs=134.2
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCC-hHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQC-STVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~-s~~~~ 110 (640)
+||++.|.. .........+++.+.++. |+ ++.+.++..++....+.+.+++.+++.++|+... .....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~--------g~--~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL--------GV--ELIVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc--------Cc--eEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 589999874 444456677777777762 44 4455666667777777787888888998876433 33323
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC--CCCcccHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~--~~g~~~~~~~~~ 186 (640)
.....+...++|+|......+. ...+..+.+.+...+..+++++.+. +-+++++++... .++....+.|++
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 3445566789999986543321 1334556777788888889887776 889999998644 366677888999
Q ss_pred HHhhcC-eEEEEeeccCCCCCCChhHHHHHHHHHhcCCceE-EEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 187 KLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 187 ~~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-ivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
.+++.+ .++....... .+..+..+.+.++.+.+++. ++++++...+..+++++++.|+. .+...++
T Consensus 146 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~-~~i~ivg 213 (267)
T cd01536 146 ALKEYPDIEIVAVQDGN----WDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK-GDVKIVG 213 (267)
T ss_pred HHHhCCCcEEEEEecCC----CcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC-CCceEEe
Confidence 998884 6654332222 22445566777776554433 33334446677799999999875 4444444
No 106
>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=98.73 E-value=1.4e-06 Score=86.26 Aligned_cols=200 Identities=14% Similarity=0.041 Sum_probs=133.3
Q ss_pred EEEEEeecCC-ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCCh-HHHH
Q 006567 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAH 110 (640)
Q Consensus 33 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s-~~~~ 110 (640)
|||+++|... .+-.....+++.+.++. +. .|+.+++.+.|+..++....+...+++.+++.+||..... ....
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 6899998642 22223455555555442 11 2677888899998888888888888888899988874433 3233
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEc--CCCCcccHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD--NEYGRNGVSALND 186 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~--~~~g~~~~~~~~~ 186 (640)
.....+...++|+|......+ . +.+.++.++....+..+++++... +-++++++..+ ...+....+.+++
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 344556678999998653321 1 345678888889999999987766 88899999743 2344556778899
Q ss_pred HHhhcC-eEEEEeeccCCCCCCChhHHHHHHHHHhcCCc--eEEEEecChhhHHHHHHHHHHcCCc
Q 006567 187 KLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMES--RVIVLHVSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 187 ~~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~--~vivl~~~~~~~~~il~~a~~~gl~ 249 (640)
.+++.+ +.+......+ .+..+..+.+.++.+.++ ++|+...+. +..+++++++.|+.
T Consensus 150 a~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~~d~--A~g~~~al~~~g~~ 209 (272)
T cd06300 150 VLKEYPGIKIVGEVYGD----WDQAVAQKAVADFLASNPDVDGIWTQGGD--AVGAVQAFEQAGRD 209 (272)
T ss_pred HHHHCCCcEEEeecCCC----CCHHHHHHHHHHHHHhCCCcCEEEecCCC--cHHHHHHHHHcCCC
Confidence 998887 7665322111 234556667777766554 444444333 88899999999974
No 107
>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=98.72 E-value=2.8e-08 Score=95.78 Aligned_cols=89 Identities=19% Similarity=0.262 Sum_probs=72.4
Q ss_pred EEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeee
Q 006567 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (640)
Q Consensus 467 l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~ 546 (640)
|+|++. +.|+||.+. +..|+++||++++++++|.+++++..++ .|..++..+.+|++|++++
T Consensus 2 l~v~~~--~~~~P~~~~-----~~~G~~~el~~~i~~~~g~~i~~~~~~~-------~~~~~~~~l~~g~~Di~~~---- 63 (232)
T TIGR03871 2 LRVCAD--PNNLPFSNE-----KGEGFENKIAQLLADDLGLPLEYTWFPQ-------RRGFVRNTLNAGRCDVVIG---- 63 (232)
T ss_pred eEEEeC--CCCCCccCC-----CCCchHHHHHHHHHHHcCCceEEEecCc-------chhhHHHHHhcCCccEEEe----
Confidence 788876 468888763 2469999999999999999966665442 2444677899999999865
Q ss_pred eccccceEEeCccccccceEEEEecCC
Q 006567 547 VTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 547 t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
+++|.+.++||.||+..+.++++++.+
T Consensus 64 ~~~r~~~~~fs~py~~~~~~lv~~~~~ 90 (232)
T TIGR03871 64 VPAGYEMVLTTRPYYRSTYVFVTRKDS 90 (232)
T ss_pred ccCccccccccCCcEeeeEEEEEeCCC
Confidence 578999999999999999999998874
No 108
>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=98.68 E-value=1.3e-06 Score=85.63 Aligned_cols=205 Identities=10% Similarity=0.021 Sum_probs=133.4
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
+||++.|.. ..+......+++.+.++. |+++. +.+...++......+..++.+++.+++....+.....
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~ 70 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA--------GYSVL--LCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL 70 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH
Confidence 478999985 333445556666665551 44444 4566677777778888888889998887555444444
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~~~~~~~ 189 (640)
...+...++|+|......+. +.+..+.++....++.+++++...|.+++++++.+.. ++....+.+++.++
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 66678899999987554321 2345556677788888889888889999999986543 56666778888888
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
+.+..+.....+... .+..+....+.++...+ .++|+.. +...+..+++++++.|+..++.+.+.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~~~~i~i~ 210 (264)
T cd06267 144 EAGIPLDEELIVEGD--FSEESGYEAARELLASGERPTAIFAA-NDLMAIGALRALRELGLRVPEDVSVV 210 (264)
T ss_pred HcCCCCCcceEEecc--cchhhHHHHHHHHHhcCCCCcEEEEc-CcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 877433221111111 12455666777776665 5555543 44566778888899887543334333
No 109
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.66 E-value=2.5e-06 Score=86.03 Aligned_cols=254 Identities=9% Similarity=0.074 Sum_probs=156.6
Q ss_pred eeEEEEEEeecCC---ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCCh
Q 006567 30 AVVNVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS 106 (640)
Q Consensus 30 ~~i~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s 106 (640)
.+=+|+.++|++. ..+...+.||..|.. -+... ++-..++.++|+...+..++ .......|+..|+||.-.
T Consensus 256 ~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~~---~~~~~~~~i~dT~~~~l~~i--~aqaqq~G~~~VVGPLlK 329 (604)
T COG3107 256 SPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APATQ---TAQVAELKIYDTSAQPLDAI--LAQAQQDGADFVVGPLLK 329 (604)
T ss_pred CchheeEEeccCChhHHHHHHHHHHHHHhcc-CcccC---CccccceeeccCCcccHHHH--HHHHHhcCCcEEeccccc
Confidence 3568999999984 345666777776665 12211 22336788889888775543 223345699999999998
Q ss_pred HHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHH
Q 006567 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (640)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~ 186 (640)
...+.+..--. ..||++....++.. +..+.+....-+.+++++..++.+-.-|.+...++...+++|+...+.|.+
T Consensus 330 ~nVe~L~~~~q-~~i~vLALN~~~n~---r~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~AF~~ 405 (604)
T COG3107 330 PNVEALLASNQ-QPIPVLALNQPENS---RNPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLGDRVANAFNQ 405 (604)
T ss_pred hhHHHHHhCcC-CCCceeeecCCccc---cCcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHHHHHHHHHHH
Confidence 88876655333 67888875443321 123455555666677789999999999999999999999999999999999
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHH-----------------------HHHhcCC-ceEEEEecChhhHHHHHHH
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLL-----------------------VKVALME-SRVIVLHVSPSLGFQVFSV 242 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l-----------------------~~l~~~~-~~vivl~~~~~~~~~il~~ 242 (640)
..++.|...+....+.. ..+++..+ ..+.+.. .|.|++...+.+++.|--.
T Consensus 406 ~Wq~~gg~~v~~~~fg~-----~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~IKP~ 480 (604)
T COG3107 406 EWQKLGGGTVLQQKFGS-----TSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELALIKPM 480 (604)
T ss_pred HHHHhcCCchhHhhcCc-----HHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhHHhhH
Confidence 99888763222222211 11111111 1122333 7889999888888877555
Q ss_pred HHHcCCccCCeEEEEeCccccccCCCCCChhhhhhccceEEEEE---ccCCchhHHHHHHHHhh
Q 006567 243 AKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQ---HIPESDRKKNFLSRWKN 303 (640)
Q Consensus 243 a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~---~~~~~~~~~~f~~~~~~ 303 (640)
..-.+.....-.+..+... .. .-.++....++|+..... ..+..+.+++....|..
T Consensus 481 ia~~~~~~~~p~yaSSr~~-~g----T~~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~ 539 (604)
T COG3107 481 IAMANGSDSPPLYASSRSS-QG----TNGPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPN 539 (604)
T ss_pred HHhhcCCCCcceeeecccc-cc----CCCccHHHhccCccccCCchhcCCCchHHHHHHHhcCC
Confidence 5443333222233333221 11 112345556777654432 23556667777776653
No 110
>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=98.56 E-value=1.7e-07 Score=88.73 Aligned_cols=95 Identities=29% Similarity=0.504 Sum_probs=83.0
Q ss_pred EEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeee
Q 006567 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (640)
Q Consensus 467 l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~ 546 (640)
|+|++. +.++||.+.++ ++++.|+..|+++.+++++|++ +++.+ ..|.+++.+|.+|++|++++....
T Consensus 1 l~i~~~--~~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~~ 68 (218)
T cd00134 1 LTVGTA--GTYPPFSFRDA-NGELTGFDVDLAKAIAKELGVK--VKFVE-------VDWDGLITALKSGKVDLIAAGMTI 68 (218)
T ss_pred CEEecC--CCCCCeeEECC-CCCEEeeeHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhcCCcCEEeecCcC
Confidence 467776 46789988754 8999999999999999999987 55555 339999999999999999888888
Q ss_pred eccccceEEeCccccccceEEEEecCC
Q 006567 547 VTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 547 t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
+.+|.+.+.|+.|+...+..+++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (218)
T cd00134 69 TPERAKQVDFSDPYYKSGQVILVKKGS 95 (218)
T ss_pred CHHHHhhccCcccceeccEEEEEECCC
Confidence 999999999999999999999998876
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=98.56 E-value=1.7e-05 Score=78.44 Aligned_cols=206 Identities=9% Similarity=0.046 Sum_probs=127.0
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEE-EcCCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAI-IGPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~ai-iGp~~s~~~~ 110 (640)
+||++.|.. ..+-.....+++.+.++ .|+++.+...+...++..-.+....++.++|.+| +.|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKK--------LGVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHH--------hCCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH
Confidence 589999853 33223445566666555 2677777666666677666667777888888874 5555444333
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC--CCCcccHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~--~~g~~~~~~~~~ 186 (640)
.....+...++|+|...... .... ...+.+.....++.+++++... +.++++++.... .......+.+.+
T Consensus 73 ~~~~~~~~~~iPvV~~~~~~---~~~~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 73 PAVERAKKKGIPVVNVNDKL---IPNA---TAFVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHHHCCCeEEEECCCC---CCcc---ceEEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 44456677899999764322 1111 1234667777788889987766 889999987532 233445678889
Q ss_pred HHhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-ChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV-SPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 187 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~-~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
.+++. |+.+....... ....+....++++.+..++.-.+++ +...+..+++++++.|+. .+...++
T Consensus 147 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~-~di~vig 214 (275)
T cd06320 147 AIKKASGIEVVASQPAD----WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ-GKVLVVG 214 (275)
T ss_pred HHhhCCCcEEEEecCCC----ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC-CCeEEEe
Confidence 99988 88765322111 1234455566666554444434444 444555788888998875 3433343
No 112
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=98.55 E-value=7e-06 Score=81.54 Aligned_cols=201 Identities=15% Similarity=0.113 Sum_probs=129.6
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
+||++.+.....-.....+++ +++++.+..+ |.++++.+.|+..++......+.++.++++.+||+..++. ....
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~---~~~~~~g~~~-g~~v~l~~~~~~~~~~~~~~~~~~l~~~~vd~iI~~~~~~-~~~~ 75 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFK---DGLKEAGYKE-GKNVKIDYQNAQGDQSNLPTIARKFVADKPDLIVAIATPA-AQAA 75 (281)
T ss_pred CeEEecCCCCcchHHHHHHHH---HHHHHhCccC-CceEEEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCcHH-HHHH
Confidence 589999865433223334444 4555555543 7899999999988888888888888888999999865432 2222
Q ss_pred HHhhccCCceEEecccCCCCCCC----CCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC-CCCcccHHHHH
Q 006567 113 SYVSNELQVPLLSFGVTDPTLSS----LQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALN 185 (640)
Q Consensus 113 ~~~~~~~~iP~is~~~~~~~l~~----~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~-~~g~~~~~~~~ 185 (640)
.....++|+|.++...+.... ...+....+...+...+..+++++... +.+++++++.+. .++....+.++
T Consensus 76 --~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 --ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred --HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 255679999987543321110 011111223334555567788887765 999999998543 35666678899
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCC
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl 248 (640)
+.+++.|+.+.... . . ...++...++++.+. +++|++..+ ..+..+++++++.|+
T Consensus 154 ~~~~~~g~~~~~~~-~-~----~~~~~~~~~~~~~~~-~dai~~~~d-~~a~~~~~~~~~~~~ 208 (281)
T cd06325 154 KAAAKLGIEVVEAT-V-S----SSNDVQQAAQSLAGK-VDAIYVPTD-NTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHhCCCEEEEEe-c-C----CHHHHHHHHHHhccc-CCEEEEcCc-hhHHhHHHHHHHHHH
Confidence 99988898766432 1 1 245666777777653 576665544 456677888887764
No 113
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=98.42 E-value=8.6e-07 Score=83.76 Aligned_cols=96 Identities=31% Similarity=0.513 Sum_probs=83.1
Q ss_pred eEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeee
Q 006567 466 LLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDIT 545 (640)
Q Consensus 466 ~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~ 545 (640)
+|+|++. +.++||.+.++ ++.+.|+.+|+++.+.+++|++ +++.+ ..|..++..+.+|++|++++...
T Consensus 1 ~l~v~~~--~~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 1 TLRVGTN--GDYPPFSFADE-DGELTGFDVDLAKAIAKELGLK--VEFVE-------VSFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred CEEEEec--CCCCCcEEECC-CCCcccchHHHHHHHHHHhCCe--EEEEe-------ccHHHHHHHHHCCcccEEecccc
Confidence 4788886 46889888764 7889999999999999999988 55554 35999999999999999998877
Q ss_pred eeccccceEEeCccccccceEEEEecCC
Q 006567 546 IVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 546 ~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
.+.+|.+.+.|+.|++..+..++++++.
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (219)
T smart00062 69 ITPERAKQVDFSDPYYKSGQVILVRKDS 96 (219)
T ss_pred CCHHHHhheeeccceeeceeEEEEecCC
Confidence 7899999999999999999999998765
No 114
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.38 E-value=0.00014 Score=72.86 Aligned_cols=210 Identities=8% Similarity=0.068 Sum_probs=122.2
Q ss_pred CCeeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcE-EEEcCCC
Q 006567 28 RPAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIV-AIIGPQC 105 (640)
Q Consensus 28 ~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~-aiiGp~~ 105 (640)
....-.||+++|.. ..+-.....+++.+.++. |+++ .+.++..++.........+..+++. +|++|..
T Consensus 23 ~~~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~--------G~~~--~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~ 92 (295)
T PRK10653 23 AMAKDTIALVVSTLNNPFFVSLKDGAQKEADKL--------GYNL--VVLDSQNNPAKELANVQDLTVRGTKILLINPTD 92 (295)
T ss_pred cccCCeEEEEecCCCChHHHHHHHHHHHHHHHc--------CCeE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCC
Confidence 33455899999853 333345566666666662 4444 3456666776666667777777776 4556655
Q ss_pred hHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc-CCc-EEEEEEEcC--CCCcccH
Q 006567 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GWN-AVSVIFVDN--EYGRNGV 181 (640)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~-~w~-~v~ii~~~~--~~g~~~~ 181 (640)
+.........+...++|+|.+....+ + ...+..+.+.....++.+++++... +.+ ++.++..+. .......
T Consensus 93 ~~~~~~~l~~~~~~~ipvV~~~~~~~---~--~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~ 167 (295)
T PRK10653 93 SDAVGNAVKMANQANIPVITLDRGAT---K--GEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERG 167 (295)
T ss_pred hHHHHHHHHHHHHCCCCEEEEccCCC---C--CceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHH
Confidence 44443445666778999998753221 1 1223455666666678888876654 543 566555322 2334567
Q ss_pred HHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe-cChhhHHHHHHHHHHcCCccCCeEEEEe
Q 006567 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-VSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (640)
Q Consensus 182 ~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-~~~~~~~~il~~a~~~gl~~~~~~~i~~ 258 (640)
+.+++.+++.|+.+..... .. .+..+....+.++.+..++.-.++ .+...+..+++++++.|+ .+...++.
T Consensus 168 ~gf~~al~~~g~~~~~~~~--~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~--~dv~vig~ 239 (295)
T PRK10653 168 EGFKQAVAAHKFNVLASQP--AD--FDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK--SDVMVVGF 239 (295)
T ss_pred HHHHHHHhhCCCEEEEecC--CC--CCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC--CceEEEEe
Confidence 7899999998877642211 11 123334455556655444433333 344445568999999987 24444443
No 115
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.35 E-value=0.00024 Score=68.32 Aligned_cols=204 Identities=15% Similarity=0.142 Sum_probs=131.2
Q ss_pred CCeeEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCc-EEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCCh
Q 006567 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGT-KLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS 106 (640)
Q Consensus 28 ~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~-~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s 106 (640)
..+.++||+....+...-.....+++-|+.+. |+ .+++.+...++++..+...+.++..++.++|++-.++
T Consensus 27 ~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~--------G~~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~i~tp 98 (322)
T COG2984 27 AADQITVAITQFVEHPALDAAREGVKEALKDA--------GYKNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVAIATP 98 (322)
T ss_pred cccceeEEEEEeecchhHHHHHHHHHHHHHhc--------CccCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEecCCH
Confidence 34567788888775433345566676666664 33 6777788888999999999999998888888774444
Q ss_pred HHHHHHHHhhccCCceEEecccCCCC---CCC-CCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEc-CCCCcc
Q 006567 107 TVAHIVSYVSNELQVPLLSFGVTDPT---LSS-LQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD-NEYGRN 179 (640)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~~~~~~---l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~-~~~g~~ 179 (640)
.+.++..-.. ++|+|-.+.+++. +.. ..-|.---+.-+|..-...-.++++.. +.++++++|.. .+....
T Consensus 99 -~Aq~~~s~~~--~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~~ 175 (322)
T COG2984 99 -AAQALVSATK--TIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSVS 175 (322)
T ss_pred -HHHHHHHhcC--CCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccHH
Confidence 4444444333 4999966565543 221 011111223344554456666676663 89999999964 446677
Q ss_pred cHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhh---HHHHHHHHHHcCCc
Q 006567 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL---GFQVFSVAKYLGMM 249 (640)
Q Consensus 180 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~---~~~il~~a~~~gl~ 249 (640)
..+.+++.++..|++|.... ++ +..|....++.+. .++|+|+..++.-. ...++..|.+.+.+
T Consensus 176 l~eelk~~A~~~Gl~vve~~-v~-----~~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~~~kiP 241 (322)
T COG2984 176 LVEELKKEARKAGLEVVEAA-VT-----SVNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAKIP 241 (322)
T ss_pred HHHHHHHHHHHCCCEEEEEe-cC-----cccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhCCC
Confidence 88899999999999987543 22 1334555555544 56899998876543 34567777766543
No 116
>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=98.30 E-value=4.9e-05 Score=74.70 Aligned_cols=198 Identities=12% Similarity=0.102 Sum_probs=120.0
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||+++|.. ..+-.....+++.+.++ .|+.+.+ .++..++....+...++..+++.+||....+.....
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 22223344455554444 1455544 455566666666777777888988886333222223
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc---CCCCcccHHHHHHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD---NEYGRNGVSALNDKL 188 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~---~~~g~~~~~~~~~~~ 188 (640)
....+...++|+|......+ ...++ ........+..++++|...|.++++++..+ .+++....+.+++.+
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 45667788999987643321 12233 245667888889998888899999999743 234556678888999
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCC
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~ 252 (640)
++.|+.+........ +..+....+.++.+. .+++|+. ++...+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~ 204 (266)
T cd06282 144 RAAGLAPLPPVEIPF----NTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPD 204 (266)
T ss_pred HHcCCCCCccccCCC----cHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCC
Confidence 888875433222221 223334445544333 3555555 5556677899999999875433
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=98.29 E-value=0.00014 Score=71.50 Aligned_cols=203 Identities=11% Similarity=0.096 Sum_probs=121.7
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEE-EEcCCChHHHHH
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVA-IIGPQCSTVAHI 111 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~a-iiGp~~s~~~~~ 111 (640)
||+++|.. ..+-.....+++.+.++. |+.+ .+.++..++....+...+++.+++.+ |+++..+.....
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~ 71 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKEL--------GYEL--TVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVP 71 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHc--------CceE--EecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHH
Confidence 78888853 333345566666666652 4444 44566667776667777777778887 555555443333
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEc--CCCCcccHHHHHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD--NEYGRNGVSALNDK 187 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~--~~~g~~~~~~~~~~ 187 (640)
....+...++|+|.+....+. ...+-.+.......+..+++++... +-+++++++.+ ...+....+.+++.
T Consensus 72 ~l~~l~~~~ipvv~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~ 146 (268)
T cd06323 72 AVKAANEAGIPVFTIDREANG-----GEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEV 146 (268)
T ss_pred HHHHHHHCCCcEEEEccCCCC-----CceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHH
Confidence 444456779999987543221 1223345566666778888887766 78999999753 33455667888888
Q ss_pred Hhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEe
Q 006567 188 LAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (640)
Q Consensus 188 ~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 258 (640)
+++. |+.+....... .+..+....+.++.+.. +++ +++.+...+..+++++++.|+ .+...++.
T Consensus 147 l~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~--~di~iig~ 213 (268)
T cd06323 147 VDKYPGLKVVASQPAD----FDRAKGLNVMENILQAHPDIKG-VFAQNDEMALGAIEALKAAGK--DDVKVVGF 213 (268)
T ss_pred HHhCCCcEEEecccCC----CCHHHHHHHHHHHHHHCCCcCE-EEEcCCchHHHHHHHHHHcCC--CCcEEEEe
Confidence 8884 77654221111 12233334555554433 344 333444455568889999887 34444443
No 118
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=98.19 E-value=0.00014 Score=71.50 Aligned_cols=200 Identities=16% Similarity=0.125 Sum_probs=121.3
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEE--cCCChHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII--GPQCSTVA 109 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aii--Gp~~s~~~ 109 (640)
.||++.|.. ...-.....+++.++++. |+.+. +.++..++.........+.+++|.+++ ++..+
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~--- 67 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH--------GYTLL--VASSGYDLDREYAQARKLLERGVDGLALIGLDHS--- 67 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEE--EecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC---
Confidence 489999863 333334455565555552 44444 467777777777777778887776655 33222
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC---CCCcccHHHHHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSALND 186 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~---~~g~~~~~~~~~ 186 (640)
......+...++|+|......+ ....++ +.......++.+++++...|.++++++.... ..+......|.+
T Consensus 68 ~~~~~~l~~~~iPvv~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~ 141 (268)
T cd06273 68 PALLDLLARRGVPYVATWNYSP---DSPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRA 141 (268)
T ss_pred HHHHHHHHhCCCCEEEEcCCCC---CCCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHH
Confidence 2334456778999998643322 112232 4467788888899988878999999997432 234566788999
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeE
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~ 254 (640)
.+++.++.+.....+... .+..+....+.++.+. .+++|+. ++...+..+++++++.|+..++.+
T Consensus 142 ~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~i 208 (268)
T cd06273 142 ALAEAGLELPELWQVEAP--YSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPEDL 208 (268)
T ss_pred HHHHcCCCCCHHHeeeCC--CcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCce
Confidence 998887554321111111 1123344555565543 3666654 455567778889999887644433
No 119
>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=98.19 E-value=0.00032 Score=69.43 Aligned_cols=206 Identities=8% Similarity=0.099 Sum_probs=119.5
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEE-EcCCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAI-IGPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~ai-iGp~~s~~~~ 110 (640)
+||++.|.. ..+-.....+++.+.++ .|+++ .+.++..++........+++.+++.++ ++|..+....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~--------~g~~~--~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKA--------LGYDA--VELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAV 70 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHh--------cCCeE--EEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhH
Confidence 488898864 22222334444444443 14444 455666777766667777777888876 4565554444
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc------CCcEEEEEEEc--CCCCcccHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVD--NEYGRNGVS 182 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~------~w~~v~ii~~~--~~~g~~~~~ 182 (640)
.....+...++|+|.+.... .+ ..++..+.++....+..+++++.+. +-++++++... ...+....+
T Consensus 71 ~~l~~~~~~~ipvV~~~~~~---~~--~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~ 145 (277)
T cd06319 71 TLLKLAAQAKIPVVIADIGA---EG--GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTK 145 (277)
T ss_pred HHHHHHHHCCCCEEEEecCC---CC--CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHH
Confidence 55566778899999764321 11 1223445566666666777765443 66899998743 234566778
Q ss_pred HHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe-cChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-VSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
.+++.+++.|+.+.... .... .+..+....++++.+..++...++ .+...+.-+++++++.|+. .+...++
T Consensus 146 gf~~~l~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~-~di~vvg 217 (277)
T cd06319 146 GFKEAMKEAGCDLAGIR-QQKD--FSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT-GKVLLIC 217 (277)
T ss_pred HHHHHHHhcCCceEeec-cCCC--CCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC-CCEEEEE
Confidence 89999999887654221 1111 123344455666655445433333 3444456789999999985 3433343
No 120
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.18 E-value=0.00085 Score=68.68 Aligned_cols=201 Identities=10% Similarity=-0.027 Sum_probs=114.7
Q ss_pred CeeEEEEEEeecCC-ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCCh
Q 006567 29 PAVVNVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCS 106 (640)
Q Consensus 29 ~~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s 106 (640)
..+-+||++.|... ..-.....+++-+.++. |+++.+...+...+...-.+....++++++.+||- |...
T Consensus 44 r~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~--------G~~l~i~~~~~~~~~~~q~~~i~~l~~~~vdgIIl~~~~~ 115 (343)
T PRK10936 44 KKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL--------GVDLKVLEAGGYYNLAKQQQQLEQCVAWGADAILLGAVTP 115 (343)
T ss_pred CCCeEEEEEecCCCchHHHHHHHHHHHHHHHh--------CCEEEEEcCCCCCCHHHHHHHHHHHHHhCCCEEEEeCCCh
Confidence 34789999999742 22223445565555542 55555443222234444445566677778886663 4443
Q ss_pred HHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc-----CCcEEEEEEEcC--CCCcc
Q 006567 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-----GWNAVSVIFVDN--EYGRN 179 (640)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~-----~w~~v~ii~~~~--~~g~~ 179 (640)
....... .+...++|+|.+..... .+ .....+.......++..++++... |-.+++++..+. .....
T Consensus 116 ~~~~~~l-~~~~~giPvV~~~~~~~--~~---~~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 116 DGLNPDL-ELQAANIPVIALVNGID--SP---QVTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred HHhHHHH-HHHHCCCCEEEecCCCC--Cc---cceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 3322222 45678999997532211 11 112345667777788888876654 478999887432 22234
Q ss_pred cHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCc
Q 006567 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 180 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~ 249 (640)
..+.+++.+++.|+++.... .. . .+...-...++++.+. ++++|+ ++...+..+++++++.|+.
T Consensus 190 R~~Gf~~~l~~~~i~~~~~~-~~-~--~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~~ 255 (343)
T PRK10936 190 VEQGFRAAIAGSDVRIVDIA-YG-D--NDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNLT 255 (343)
T ss_pred HHHHHHHHHhcCCCEEEEee-cC-C--CcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCCC
Confidence 56778888888888765421 11 1 1222333445554432 467765 3445667788999998874
No 121
>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=98.17 E-value=0.00045 Score=68.17 Aligned_cols=207 Identities=12% Similarity=0.038 Sum_probs=126.5
Q ss_pred EEEEEeecC--CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHH
Q 006567 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVA 109 (640)
Q Consensus 33 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~ 109 (640)
|||++.|.. ..+-.....+++.+.++. |+.+.+...+. .++.........++.+++.+++. |......
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 588999864 333345567777777762 55555443333 36666666777777888887776 3333323
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEc--CCCCcccHHHHHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVD--NEYGRNGVSALND 186 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~-~~w~~v~ii~~~--~~~g~~~~~~~~~ 186 (640)
......+...++|+|......+... ..+.+..+.......++.+++++.+ .|-++++++..+ ...+....+.+++
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 3334445677999998753322111 1134566778888899999999888 899999988743 2334556778888
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
.+++.++.+.. +... .+..+....++++.+.. +++|+.. +...+.-+++++++.|+. .+...++
T Consensus 150 ~~~~~~~~~~~---~~~~--~~~~~~~~~~~~~l~~~~~~~aI~~~-~d~~a~g~~~al~~~g~~-~di~vvg 215 (271)
T cd06312 150 GLGGAGITEEV---IETG--ADPTEVASRIAAYLRANPDVDAVLTL-GAPSAAPAAKALKQAGLK-GKVKLGG 215 (271)
T ss_pred HHHhcCceeeE---eecC--CCHHHHHHHHHHHHHhCCCccEEEEe-CCccchHHHHHHHhcCCC-CCeEEEE
Confidence 88887765432 1111 12334445555554433 4544443 345566788888898876 3433333
No 122
>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=98.17 E-value=0.00026 Score=69.98 Aligned_cols=208 Identities=13% Similarity=0.080 Sum_probs=119.7
Q ss_pred EEEEEeecC--CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHH
Q 006567 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVA 109 (640)
Q Consensus 33 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~ 109 (640)
.||+++|.. ..+......+++.+.++. |+.+ .++++..++....+....++.+++.+|+. +..+...
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~--------g~~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED--------GVEV--IVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAY 70 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc--------CCEE--EEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCcccc
Confidence 378899863 444455667777776662 4444 44566677777777777778888887754 4433333
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCcEEEe-cCCchHHHHHHHHHHHhc--CCcEEEEEEEcCCC--CcccHHHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRT-TQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEY--GRNGVSAL 184 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~-~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~~~--g~~~~~~~ 184 (640)
......+...++|+|......+ ....+++... .+.....+..+++.+.+. +-++++++..+..+ +....+.+
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 3344556778999997643221 1122333222 344556677777766554 67899999754333 33445788
Q ss_pred HHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC---CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 185 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
++.+++.|..+......... .+..+....+.++.+. .+++|+. ++...+..+++++++.|+. .+...++
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~-~dv~v~g 219 (275)
T cd06317 148 EDELAEVCPGVEVLDTQPAD--WDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA-GGIVIVG 219 (275)
T ss_pred HHHHHhhCCCCEEEeccCCC--CCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc-CCcEEEE
Confidence 88888876433322212111 1122333344444332 3566664 4445577899999999986 3434443
No 123
>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=98.15 E-value=0.0008 Score=66.38 Aligned_cols=208 Identities=11% Similarity=0.004 Sum_probs=119.0
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
|||++.|.- ..+-.....+++.+.++ .|+++.+...+...++....+....++.+++.++|- +.......
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE--------LGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH--------cCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhH
Confidence 689999863 22222334444444443 256666554433456766666777778888887775 33323223
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCC--CCcccHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALND 186 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~~--~g~~~~~~~~~ 186 (640)
.....+...++|+|......+ + . ..+-.+.+.....+..+++++... |.++++++..... ......+.+++
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~---~-~-~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLN---S-D-IAVSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCC---C-C-cceEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 333444568999998643211 1 0 112234556666778888877666 8999999864332 22345678888
Q ss_pred HHhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceE-EEEecChhhHHHHHHHHHHcCCccCCeEEEEe
Q 006567 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (640)
Q Consensus 187 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-ivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 258 (640)
.+++. |+.+... .... .+..+....+.++.+.+.+. .|++.+...+..+++++++.|+. ++...++.
T Consensus 148 a~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~ 216 (273)
T cd06310 148 GLKEYPGIEIVAT--QYSD--SDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGF 216 (273)
T ss_pred HHHhCCCcEEEec--ccCC--cCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEe
Confidence 88888 7765431 1111 12233344555554443333 33344456677899999999985 44444543
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=98.13 E-value=0.00053 Score=67.63 Aligned_cols=209 Identities=13% Similarity=0.110 Sum_probs=121.9
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEE-cCCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aii-Gp~~s~~~~ 110 (640)
+||+++|.. ..+-.....+++.+.++. .|+.+ .+.++..++..-.+....+++.++.++| .|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-------~~~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 71 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL-------GGVEL--QFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATA 71 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc-------CCcEE--EEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhH
Confidence 589999863 222223344444444441 24444 4456666777766777777788888775 455544344
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC--CCCcccHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~--~~g~~~~~~~~~ 186 (640)
.+...+...++|+|......+.. ...+..+..+....+..++++|... +-++++++.... .......+.|++
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 45556788899999864322111 1234456677778888888876654 456999887532 233455678888
Q ss_pred HHhhcC-eEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 187 KLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 187 ~~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
.+++.| +.+... .... .+.......++++.+. .+++| ++.+...+..+++.+++.|+...+...++.+
T Consensus 148 ~l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d 218 (272)
T cd06301 148 VLAKYPDIKVVEE--QTAN--WSRAEAMDLMENWLSSGGKIDAV-VANNDEMALGAIMALKAAGKSDKDVPVAGID 218 (272)
T ss_pred HHHHCCCcEEEec--CCCC--ccHHHHHHHHHHHHHhCCCCCEE-EECCCchHHHHHHHHHHcCCCCCCcEEEeeC
Confidence 888877 433321 1111 1222333445554433 34544 3444556668899999999863355555543
No 125
>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=98.08 E-value=0.00067 Score=66.93 Aligned_cols=208 Identities=11% Similarity=-0.007 Sum_probs=122.0
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcC-CChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGP-QCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp-~~s~~~~ 110 (640)
+||++.|.. ..+-.....+++.+.++. |+++. +.++..++....+....++.+++.++|.. ..+....
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 488888853 333334556666666552 45544 45677777776677777888889988773 3333333
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh--cCCcEEEEEEEc-CCCCcccHHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWNAVSVIFVD-NEYGRNGVSALNDK 187 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~--~~w~~v~ii~~~-~~~g~~~~~~~~~~ 187 (640)
.+...+...++|+|.+....+. +.+..+.++....++.+++++.. .+.++++++... ..........+++.
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 4445567789999986443221 22234566778888888887766 588999998743 12233345577777
Q ss_pred HhhcC-eEEEEeeccCCCCCCChhHHHHHHHHHhcCCceE---EEEecChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 188 LAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMESRV---IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 188 ~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v---ivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
+++.+ +.+......... .+..+....++++....++. .+++.+...+..+++++++.|+.. +...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~-di~iig~d 217 (273)
T cd06305 145 LKAYPGIKEVAELGDVSN--NTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRTD-EIKIYGVD 217 (273)
T ss_pred HHHCCCcEEecccccccc--cchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCCC-CceEEEec
Confidence 77776 544322111111 12233445555555444433 233334445677888999998753 44444443
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=98.06 E-value=0.00035 Score=68.33 Aligned_cols=202 Identities=10% Similarity=0.080 Sum_probs=133.5
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEE-cCCChHHHHH
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHI 111 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aii-Gp~~s~~~~~ 111 (640)
||++.|.. ..+-.....+++.+.++. |..+.+. .+...++..-.+.+.+++.+++.+|| .|..+.....
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 78888876 334456788888888885 4555555 68888888888888899999998766 5666665566
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc-CC-cEEEEEEEcCC--CCcccHHHHHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GW-NAVSVIFVDNE--YGRNGVSALNDK 187 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~-~w-~~v~ii~~~~~--~g~~~~~~~~~~ 187 (640)
...-+...+||+|++... +. ...+....+.++....+..+++++... +- .+++++..... ......+.+.+.
T Consensus 72 ~l~~~~~~gIpvv~~d~~-~~---~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~ 147 (257)
T PF13407_consen 72 FLEKAKAAGIPVVTVDSD-EA---PDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDA 147 (257)
T ss_dssp HHHHHHHTTSEEEEESST-HH---TTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHH
T ss_pred HHHHHhhcCceEEEEecc-cc---ccccceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHH
Confidence 667788889999986544 00 112444566778888899999986653 32 67777754322 233456778888
Q ss_pred Hhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccC
Q 006567 188 LAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (640)
Q Consensus 188 ~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~ 251 (640)
+++. ++++...... .. .+.+.....+.++...++-..|+.++...+..+++++++.|+.+.
T Consensus 148 l~~~~~~~~~~~~~~-~~--~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPGVEIVDEYEY-TD--WDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTTEEEEEEEEE-CT--TSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTTT
T ss_pred Hhhcceeeeeeeeec-cC--CCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCccc
Confidence 8873 5666543222 11 235566666666665554233345666777778999999998543
No 127
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=98.05 E-value=4.5e-06 Score=80.58 Aligned_cols=108 Identities=14% Similarity=0.130 Sum_probs=91.0
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEee
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~ 543 (640)
.+.|||++... |..+... ++...|++.++.+.+++.||.+ .++.+. .+-+.++.+|.+|++|+++++
T Consensus 22 rGvLrV~tins----p~sy~~~-~~~p~G~eYelak~Fa~yLgV~--Lki~~~------~n~dqLf~aL~ng~~DL~Aag 88 (473)
T COG4623 22 RGVLRVSTINS----PLSYFED-KGGPTGLEYELAKAFADYLGVK--LKIIPA------DNIDQLFDALDNGNADLAAAG 88 (473)
T ss_pred cCeEEEEeecC----ccceecc-CCCccchhHHHHHHHHHHhCCe--EEEEec------CCHHHHHHHHhCCCcceeccc
Confidence 46799999864 4444332 5667799999999999999988 666664 568999999999999999999
Q ss_pred eeeeccccceEEeCccccccceEEEEecCCCCcCcceeccc
Q 006567 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRP 584 (640)
Q Consensus 544 ~~~t~~R~~~vdfs~p~~~~~~~il~~~~~~~~~~~~~l~p 584 (640)
+...++|.+.+.....|+.....+++|+++..+..+..|.-
T Consensus 89 l~~~~~~l~~~~~gP~y~svs~qlVyRkG~~Rp~~l~~L~g 129 (473)
T COG4623 89 LLYNSERLKNFQPGPTYYSVSQQLVYRKGQYRPRSLGQLKG 129 (473)
T ss_pred ccCChhHhcccCCCCceecccHHHHhhcCCCCCCCHHHccC
Confidence 99999999999888899999999999999977777766654
No 128
>PRK09701 D-allose transporter subunit; Provisional
Probab=98.04 E-value=0.0047 Score=62.28 Aligned_cols=211 Identities=11% Similarity=0.040 Sum_probs=117.9
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHH-
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVA- 109 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~- 109 (640)
+||++.|.. ..+-.....+++.+.++ .|+++.+...+...+...-.+....++.+++.+||- +..+...
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~--------~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKT--------LGVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLV 97 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHH--------cCCeEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 899999864 22223344555544443 256666554344455555555666777778876664 3333322
Q ss_pred HHHHHhhccCCceEEecccCCCC--CCCCCCCcEEEecCCchHHHHHHHHHHHh-cCC--cEEEEEEEcC--CCCcccHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPT--LSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGW--NAVSVIFVDN--EYGRNGVS 182 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~--l~~~~~~~~~r~~p~~~~~~~al~~ll~~-~~w--~~v~ii~~~~--~~g~~~~~ 182 (640)
..+.. +...+||++.+....+. +..........+.......+...++++.. .+- ++++++.... .......+
T Consensus 98 ~~l~~-~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~ 176 (311)
T PRK09701 98 MPVAR-AWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRN 176 (311)
T ss_pred HHHHH-HHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHH
Confidence 22333 35679999987543221 11001112334667778888888887655 454 7898885432 23445567
Q ss_pred HHHHHHhhcC-eEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEe
Q 006567 183 ALNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (640)
Q Consensus 183 ~~~~~~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 258 (640)
.+++.+++.+ +.+..... .. .+..+....++++.+. .+++ |++.+...+..+++++++.|.. .+...++.
T Consensus 177 Gf~~al~~~~~~~~~~~~~--~~--~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~-~dv~vvg~ 249 (311)
T PRK09701 177 GATEAFKKASQIKLVASQP--AD--WDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT-GKVLVVGT 249 (311)
T ss_pred HHHHHHHhCCCcEEEEecC--CC--CCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC-CCEEEEEe
Confidence 8888888877 66533211 11 1122334455555443 3454 3344555677889999998875 34334443
No 129
>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=98.02 E-value=0.00061 Score=67.09 Aligned_cols=206 Identities=13% Similarity=0.094 Sum_probs=120.5
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhH-hcCcEEEEcCCChHHHHH
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFM-ETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~-~~~v~aiiGp~~s~~~~~ 111 (640)
||+++|.. ..+......+++.+.++ .|+.+.+...+...+ .....+.+.+ ..++.++|..........
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~~--~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRD--------TGYQLVIEPCDSGSP--DLAERVRALLQRSRVDGVILTPPLSDNPE 71 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHh--------CCCeEEEEeCCCCch--HHHHHHHHHHHHCCCCEEEEeCCCCCccH
Confidence 78999874 44555667777777764 267776665553322 2334455544 568888877433322233
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCC--CcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEY--GRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~--g~~~~~~~~~~~~ 189 (640)
....+...++|+|.+....+. ..+++ +..+....++.+++++...|.++++++..+..+ .....+.|++.++
T Consensus 72 ~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 145 (270)
T cd01545 72 LLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALA 145 (270)
T ss_pred HHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHH
Confidence 445567789999987543321 12222 345667777888888888899999999754433 2334677888888
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhc--CCceEEEEecChhhHHHHHHHHHHcCCccCC-eEEEEe
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIAT 258 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~vivl~~~~~~~~~il~~a~~~gl~~~~-~~~i~~ 258 (640)
+.|+.+......... .+..+....+.++.+ ..+++|+ +++...+..+++++++.|...+. ...++.
T Consensus 146 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~~i~vig~ 214 (270)
T cd01545 146 EAGLPLDPELVAQGD--FTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPDDLSVVGF 214 (270)
T ss_pred HcCCCCChhhEEeCC--CChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEEE
Confidence 877654210001111 111222234444443 3456655 44556777899999999875433 344443
No 130
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=97.96 E-value=0.0013 Score=64.93 Aligned_cols=208 Identities=10% Similarity=0.031 Sum_probs=119.2
Q ss_pred EEEEEeec-CCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
.||++.|. +..+-.....+++.+.++ . |+++. +.++..+...-.+....++.+++.+||- |.......
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~----~----g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 70 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEK----R----GFDLK--FADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWD 70 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHh----c----CCEEE--EeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccch
Confidence 48899985 322222334444444444 1 45444 4555556655556677777778886654 44433323
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCC--CCcccHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALND 186 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~~--~g~~~~~~~~~ 186 (640)
.....+...++|+|......+.. ....++.++.+.....+..++++|... +-++++++..+.. ......+.+++
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 34455667899999875432111 112356677888888899999987776 8889999975422 22344677888
Q ss_pred HHhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcCC---ceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALME---SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 187 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~---~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
.+++. +..+... .... .+..+....++++.+.+ +++| ++.+...+..+++++++.|+..++-+-+.
T Consensus 149 ~l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~aI-~~~~d~~a~g~~~a~~~~g~~ip~di~ii 218 (273)
T cd06309 149 VIKKYPNMKIVAS--QTGD--FTRAKGKEVMEALLKAHGDDIDAV-YAHNDEMALGAIQAIKAAGKKPGKDIKIV 218 (273)
T ss_pred HHHHCCCCEEeec--cCCc--ccHHHHHHHHHHHHHhCCCCccEE-EECCcHHHHHHHHHHHHcCCCCCCCeEEE
Confidence 88876 3444321 1111 12333444555555433 4443 33344455568899999998654444333
No 131
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=97.91 E-value=0.0011 Score=65.22 Aligned_cols=206 Identities=10% Similarity=0.043 Sum_probs=120.4
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||+++|.. ..+-.....+++-+.++. |+.+.+.. +..++..-.+....++..++++++-..+.. ...
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~--~~~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~ 69 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY--------KYNIILSN--SDNDKEKELKVLNNLLAKQVDGIIFMGGKI-SEE 69 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc--------CCeEEEEe--CCCCHHHHHHHHHHHHHhcCCEEEEeCCCC-cHH
Confidence 378898863 222233445555554442 55555443 344555555556667777888777321211 123
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC---CCCcccHHHHHHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSALNDKL 188 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~---~~g~~~~~~~~~~~ 188 (640)
+...+...++|+|.+....+ ....+ .+.+.....++.++++|...|-++++++..+. ..+....+.|++.+
T Consensus 70 ~~~~l~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~gf~~~~ 143 (268)
T cd06298 70 HREEFKRSPTPVVLAGSVDE---DNELP---SVNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSINGDERLAGYKEAL 143 (268)
T ss_pred HHHHHhcCCCCEEEEccccC---CCCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccchhHHHHHHHHHH
Confidence 44455667999998754321 11122 34567777788888888888999999997433 35667778899999
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC-ceEEEEecChhhHHHHHHHHHHcCCccCC-eEEEEe
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIAT 258 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~vivl~~~~~~~~~il~~a~~~gl~~~~-~~~i~~ 258 (640)
++.|+.+.....+... .+.......++++.+.. +++|+. .+...+..+++++++.|+.-++ ..+++.
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~vvg~ 212 (268)
T cd06298 144 SEANIEFDESLIFEGD--YTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDFEIIGF 212 (268)
T ss_pred HHcCCCCCHHHeEeCC--CChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEee
Confidence 8888654221111111 11223334555665544 566665 4445577899999999986443 344443
No 132
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.88 E-value=0.0012 Score=64.73 Aligned_cols=201 Identities=11% Similarity=0.055 Sum_probs=116.9
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||+++|.. ..+-.....+++.+.++. |+++. +.++..++..-.+....+.++++.+++...+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA--------GYTVF--LANSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPD 70 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc--------CCeEE--EecCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHH
Confidence 378999863 333345566776666652 45553 3455556655555666777778888876444332223
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~~~~~ 189 (640)
....+...++|+|......+ +.... .+.++....+..+++++...|-++++++..+. .......+.|.+.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVA---GAPFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCC---CCCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 44556778999998643222 11112 24556667788888888878889999886432 244556788888888
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCC
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~ 252 (640)
+.|..+.....+... .+.......++++... .+++|+. .+...+..+++++++.|+..++
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~p~ 206 (268)
T cd06289 145 EAGLPFDSELVVEGP--PSRQGGAEAVAQLLDLPPRPTAIVC-FNDLVAFGAMSGLRRAGLTPGR 206 (268)
T ss_pred HcCCCCCchhEEecC--cchhhHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCc
Confidence 877432211111111 1122333444554433 3455443 3444566788999998876443
No 133
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=97.87 E-value=0.0016 Score=63.92 Aligned_cols=196 Identities=11% Similarity=0.009 Sum_probs=114.0
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
||++.|.. ..+-.....+++.|.++ .|+.+ .+.|+..++.........+..++|.+++......... .
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 78888864 22223445555555555 24555 3556666766555556666677888777632221111 2
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CCCCcccHHHHHHHHhh
Q 006567 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLAE 190 (640)
Q Consensus 113 ~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~--~~~g~~~~~~~~~~~~~ 190 (640)
.... ..++|+|......+ . +....+..+....++.+++++...|.++++++..+ +..+....+.|++.+++
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 34999997632211 1 12233556677778888998888899999999753 33455667888899988
Q ss_pred cCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCcc
Q 006567 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMG 250 (640)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~ 250 (640)
.++.+......... .+..+....+.++.+. .+++|+.. +...+..+++++++.|+..
T Consensus 144 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~ 202 (267)
T cd06284 144 AGLPADEELIQEGD--FSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLRV 202 (267)
T ss_pred cCCCCCcceEEeCC--CChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCC
Confidence 87543211111111 1123334455555433 34555554 4455677889999988753
No 134
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=97.83 E-value=0.0047 Score=61.22 Aligned_cols=211 Identities=8% Similarity=0.003 Sum_probs=112.9
Q ss_pred EEEEEeecC--CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCC--CChHHHHHHHHHhHhcCcEEEEcCCChH-
Q 006567 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN--CSGFIGMVEALRFMETDIVAIIGPQCST- 107 (640)
Q Consensus 33 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~--~~~~~a~~~a~~l~~~~v~aiiGp~~s~- 107 (640)
|||+++|.. ...-.....+++.+ ..+ .|+.+.+...++. .++..-.+....++.++|.+||-...+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~---~~~-----~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~ 72 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTAR---LEE-----LNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLR 72 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHH---HHH-----cCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchh
Confidence 589999863 11111222333322 222 2566665544432 2444444555567777888777533222
Q ss_pred HHHHHHHhhccCCceEEeccc-CCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh--cCCcEEEEEEEc-CCCCcccHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGV-TDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWNAVSVIFVD-NEYGRNGVSA 183 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~-~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~--~~w~~v~ii~~~-~~~g~~~~~~ 183 (640)
....+.. +...++|.|.... ..+............+.+.....+..+++.|.. .+.++++++... ........+.
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 2233334 3345667665422 222100000122344566777777888887776 788999999643 2233445678
Q ss_pred HHHHHhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEe
Q 006567 184 LNDKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (640)
Q Consensus 184 ~~~~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 258 (640)
|++.+++. ++.+... +... .+..+....+.++.+.. +++| ++++...+.-+++++++.|+. .+...++-
T Consensus 152 f~~al~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~nd~~A~g~l~al~~~G~~-~dv~vvg~ 223 (280)
T cd06303 152 FIDCVHARNNWTLTSE--FYTD--ATRQKAYQATSDILSNNPDVDFI-YACSTDIALGASDALKELGRE-DDILINGW 223 (280)
T ss_pred HHHHHHhCCCceEEEe--ecCC--CCHHHHHHHHHHHHHhCCCCcEE-EECCcHHHHHHHHHHHHcCCC-CCcEEEec
Confidence 88888887 6654322 1211 22333344555554443 4444 345556677899999999985 44444443
No 135
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.73 E-value=0.01 Score=58.28 Aligned_cols=194 Identities=13% Similarity=0.134 Sum_probs=112.7
Q ss_pred EEEEeecCC-ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHHH
Q 006567 34 VGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHI 111 (640)
Q Consensus 34 IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~~ 111 (640)
||+++|... .+-.....+++.+.++ .|+.+ .+.++..++....+....++++++.+++- |..+.....
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 1112334444444443 24544 34555566666666677777888887765 444333233
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC-CCCcccHHHHHHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDKL 188 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~-~~g~~~~~~~~~~~ 188 (640)
....+...++|+|.+....+ ....+..+.+.....+...++++... |-+++++++..+ .......+.+++.+
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 33445678999998743211 11223446677777778888887664 788999987432 22344567888888
Q ss_pred hhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCC
Q 006567 189 AER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 189 ~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl 248 (640)
++. |+.+... ... .+.......+.++... ++++| ++.+...+..+++++++.|+
T Consensus 147 ~~~~~~~~~~~---~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 147 ADYPNIKIVAV---QPG--ITRAEALTAAQNILQANPDLDGI-FAFGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HhCCCcEEEEe---cCC--CChHHHHHHHHHHHHhCCCCCEE-EEcCCcHHHHHHHHHHHCCC
Confidence 888 7765321 111 1123333445555433 34543 33444566678899999887
No 136
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.70 E-value=0.0095 Score=59.78 Aligned_cols=208 Identities=8% Similarity=0.045 Sum_probs=111.5
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEE-cCCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aii-Gp~~s~~~~ 110 (640)
+||++.|.. ..+-.....+++.+.++.+ .|++ +.+.+...++..-......++.+++.+|+ .|..+....
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~------~g~~--~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~ 72 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENG------GKVE--FTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQ 72 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhC------CCee--EEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHH
Confidence 589999864 2222344555555555541 1444 44556666776655666677888888655 454444334
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCc---------EE--EEEEEcC--C
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWN---------AV--SVIFVDN--E 175 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~---------~v--~ii~~~~--~ 175 (640)
.....+...++|+|.+....+...-.....+..+.++....++.++++|... +-+ ++ +++..+. .
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 4445567789999986543211100111223445667777777777776543 221 23 4444332 2
Q ss_pred CCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC---CceEEEEecChhhHHHHHHHHHHcCCccC
Q 006567 176 YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (640)
Q Consensus 176 ~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivl~~~~~~~~~il~~a~~~gl~~~ 251 (640)
......+.+++.+++.+..+......... .+.......+.++... .+++|+. .+...+..+++++++.|...+
T Consensus 153 ~~~~R~~gf~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~L~~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p 228 (303)
T cd01539 153 DAIARTKYSIETLNDAGIKTEELASDTAN--WDRAQAKDKMDALLLKYGDKIEAVIA-NNDAMALGAIEALQKYGYNKG 228 (303)
T ss_pred hhhhhhhhHHHHHHhcCCCeEEEEeecCC--CCHHHHHHHHHHHHHhcCCCccEEEE-CCchHHHHHHHHHHHcCCCcC
Confidence 22344667888888887654322111111 1223333445554432 2455444 444555678888888887654
No 137
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.69 E-value=0.003 Score=62.01 Aligned_cols=204 Identities=10% Similarity=0.071 Sum_probs=117.0
Q ss_pred EEEEEeecC--CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHH
Q 006567 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~ 110 (640)
.||+++|.. ..+-.....+++.+.++ .|+.+.+ +++..++..-......+...++.++|........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~- 69 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAARE--------HGYLLLV--VNTGGDDELEAEAVEALLDHRVDGIIYATMYHRE- 69 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-
Confidence 389999874 33333455666666555 2455543 3444444444455556777788877764332111
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKL 188 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~~~~~~ 188 (640)
+.......++|+|......+. .. +..+.++....++.+++++...|.++++++..+.. ......+.|.+.+
T Consensus 70 -~~~~~~~~~ipvv~~~~~~~~---~~---~~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 70 -VTLPPELLSVPTVLLNCYDAD---GA---LPSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred -hHHHHHhcCCCEEEEecccCC---CC---CCeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 112234568999976433221 11 23456777888899999888789999999975432 3345577888888
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
++.++.+.....+... .+..+....++++.+.+ +++|+. .+...+..+++++++.|+.-++-+.+.
T Consensus 143 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~v~ 210 (269)
T cd06288 143 AEAGIPFDPDLVVHGD--WSADDGYEAAAALLDLDDRPTAIFC-GNDRMAMGAYQALLERGLRIPQDVSVV 210 (269)
T ss_pred HHcCCCCCHHHeEeCC--CChHHHHHHHHHHHhCCCCCCEEEE-eCcHHHHHHHHHHHHcCCCCcccceEE
Confidence 8887543211111111 11233344455554443 566544 455666678899999987644444444
No 138
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=97.69 E-value=0.004 Score=61.20 Aligned_cols=205 Identities=7% Similarity=0.003 Sum_probs=114.2
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||++.|.. ...-.....+++.+.++ .|+++.+ .++..++..-.+....+..+++.+|+-.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYR--------QGYNLIL--CNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYDQPL 70 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHH--------cCCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 378999864 33333455666666554 2455543 445556655555666677777775553222212222
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CCCCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~--~~~g~~~~~~~~~~~~ 189 (640)
+..+....++|+|......+ +..+++ +.......++.+++++...|-++++++... +.......+.|++.++
T Consensus 71 ~~~l~~~~~ipvV~i~~~~~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (269)
T cd06275 71 LAMLERYRHIPMVVMDWGPE---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMA 144 (269)
T ss_pred HHHHHhcCCCCEEEEecccC---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHH
Confidence 23333446999997643321 112222 345666677888888888899999998743 2233445678888888
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
+.|+.+......... .+.......++++.+.. +++|+ +++...+..+++++++.|..-++-+-+
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vp~di~v 210 (269)
T cd06275 145 EAGLPVNPGWIVEGD--FECEGGYEAMQRLLAQPKRPTAVF-CGNDLMAMGALCAAQEAGLRVPQDLSI 210 (269)
T ss_pred HcCCCCCHHHhccCC--CChHHHHHHHHHHHcCCCCCcEEE-ECChHHHHHHHHHHHHcCCCCCcceEE
Confidence 877654311111111 12233444555655443 44433 344555667888889888754433333
No 139
>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=97.69 E-value=0.0088 Score=58.82 Aligned_cols=207 Identities=9% Similarity=0.058 Sum_probs=116.9
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
+||++.|.. ..+-.....+++.+.++ .. |+++. +.++..++..-.+....++.+++.+|+- |.......
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~---~~----g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASN---YP----DVELI--IADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHh---cC----CcEEE--EEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 588999853 22222333444333333 11 45554 3455556655556666677777776653 33322222
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCC--CCcccHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALND 186 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~~--~g~~~~~~~~~ 186 (640)
.....+...++|+|.+....+ +. .....+..+....+..+++++... |-++++++..... ......+.+++
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 333344568999998653221 11 223346677788888888887764 8899999974332 22345678888
Q ss_pred HHhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 187 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
.+++. |+.+.... ... .+.......++++.+. ++++| ++.+...+..+++++++.|+. .+...++.+
T Consensus 147 ~l~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d 216 (270)
T cd06308 147 ALSKYPKIKIVAQQ--DGD--WLKEKAEEKMEELLQANPDIDLV-YAHNDPMALGAYLAAKRAGRE-KEIKFIGID 216 (270)
T ss_pred HHHHCCCCEEEEec--CCC--ccHHHHHHHHHHHHHhCCCCcEE-EeCCcHHHHHHHHHHHHcCCC-CCcEEEEec
Confidence 88888 77654321 111 1122223344444332 35644 444556667889999999987 555555544
No 140
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.69 E-value=0.012 Score=58.06 Aligned_cols=202 Identities=10% Similarity=0.022 Sum_probs=113.9
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHHH
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHI 111 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~~ 111 (640)
||++.|.. ..+-.....+++.+.++..... .|+ .+.+.+...++..-......++.+++.+|+- |........
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~---~g~--~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~ 76 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAY---PDV--EFILVTASNDTEQQNAQQDLLINRKIDALVILPFESAPLTQ 76 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhC---CCe--EEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHH
Confidence 78888753 3333345666666666654322 234 4555566656654444455577777776653 444333223
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC-CCCcccHHHHHHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDKL 188 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~-~~g~~~~~~~~~~~ 188 (640)
....+...+||+|.+....+ +.. .....+.+.....+..+++++... +.++++++.... .......+.+++.+
T Consensus 77 ~i~~~~~~gIpvV~~d~~~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~l 152 (274)
T cd06311 77 PVAKAKKAGIFVVVVDRGLS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAAI 152 (274)
T ss_pred HHHHHHHCCCeEEEEcCCCC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHHH
Confidence 33445678999998643221 110 112235666677788888877665 788999987433 22334467888888
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCc
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~ 249 (640)
++.++++... .... .+.......+.++... +.++|+.. +...+..+++++++.|+.
T Consensus 153 ~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~ 210 (274)
T cd06311 153 AKYPIKILDR--QYAN--WNRDDAFSVMQDLLTKFPKIDAVWAH-DDDMAVGVLAAIKQAGRT 210 (274)
T ss_pred hhCCcEEEec--cCCC--CcHHHHHHHHHHHHHhCCCcCEEEEC-CCcHHHHHHHHHHHcCCC
Confidence 8888665432 1111 1223333445454433 35554443 344566788888888875
No 141
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.68 E-value=0.014 Score=59.29 Aligned_cols=208 Identities=11% Similarity=0.033 Sum_probs=107.5
Q ss_pred CCeeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCC
Q 006567 28 RPAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQC 105 (640)
Q Consensus 28 ~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~ 105 (640)
..++..||++.|.. ..+-.....+++.+.++ .+ +..+ ++.++..++....+....+..++|.++|- +..
T Consensus 21 ~~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~---~g----~~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~ 91 (330)
T PRK15395 21 AAADTRIGVTIYKYDDNFMSVVRKAIEKDAKA---AP----DVQL--LMNDSQNDQSKQNDQIDVLLAKGVKALAINLVD 91 (330)
T ss_pred hcCCceEEEEEecCcchHHHHHHHHHHHHHHh---cC----CeEE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEeccC
Confidence 45668999999853 22222334444444443 22 2333 33455555554445555667778886664 333
Q ss_pred hHHHHHHHHhhccCCceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhc------------CCcEEEEEEE
Q 006567 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYY------------GWNAVSVIFV 172 (640)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~------------~w~~v~ii~~ 172 (640)
+.........+...++|+|.+....+ ... ...+....+.......++.+++++.++ +-.++++|..
T Consensus 92 ~~~~~~~l~~l~~~giPvV~vd~~~~-~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g 170 (330)
T PRK15395 92 PAAAPTVIEKARGQDVPVVFFNKEPS-RKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKG 170 (330)
T ss_pred HHHHHHHHHHHHHCCCcEEEEcCCcc-ccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEec
Confidence 33233333456678999998754321 110 011112334566666666655544332 3233444543
Q ss_pred cC--CCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC----CceEEEEecChhhHHHHHHHHHHc
Q 006567 173 DN--EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM----ESRVIVLHVSPSLGFQVFSVAKYL 246 (640)
Q Consensus 173 ~~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~----~~~vivl~~~~~~~~~il~~a~~~ 246 (640)
.. .......+.+++.+++.|+.+.... +... ..+...-...++++.+. .+++|+ +++...+.-+++++++.
T Consensus 171 ~~~~~~~~~R~~G~~~al~~~g~~~~~~~-~~~~-~~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~A~gvl~al~~~ 247 (330)
T PRK15395 171 EPGHPDAEARTTYVIKELNDKGIKTEQLQ-LDTA-MWDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAMAMGAVEALKAH 247 (330)
T ss_pred CCCCchHHHHHHHHHHHHHhcCCCeeeee-cccC-CcCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchHHHHHHHHHHhc
Confidence 22 2233456788888888887654321 1111 01222333455555433 244444 44556667899999998
Q ss_pred CC
Q 006567 247 GM 248 (640)
Q Consensus 247 gl 248 (640)
|+
T Consensus 248 Gl 249 (330)
T PRK15395 248 NK 249 (330)
T ss_pred CC
Confidence 87
No 142
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=97.67 E-value=0.0051 Score=60.33 Aligned_cols=201 Identities=10% Similarity=0.058 Sum_probs=113.4
Q ss_pred EEEEeecCC-ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 34 VGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 34 IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
||++.|... ..-.....+++.+.++. |+++.+ .+...++..-.+....++.+++.+|+--...... ..
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-~~ 70 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAA--------GYQLLL--GNTGYSPEREEELLRTLLSRRPAGLILTGLEHTE-RT 70 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHc--------CCEEEE--ecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCCH-HH
Confidence 789998642 22233445555555542 455544 3344444444455666677778877642222112 23
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHHHHHhh
Q 006567 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLAE 190 (640)
Q Consensus 113 ~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~~~~~~ 190 (640)
...+...++|+|......+ . +....+.......+..+++++...|-++++++..+. .......+.+++.+++
T Consensus 71 ~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~ 144 (268)
T cd01575 71 RQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALRA 144 (268)
T ss_pred HHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHHH
Confidence 3345567999997633211 1 111234556677788888888888999999997543 2344556788888888
Q ss_pred cCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeE
Q 006567 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (640)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~ 254 (640)
.|............ .+.......+.++.+. .+++|+. ++...+..+++++++.|..-++.+
T Consensus 145 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~di 207 (268)
T cd01575 145 AGLDPPLVVTTPEP--SSFALGRELLAELLARWPDLDAVFC-SNDDLALGALFECQRRGISVPEDI 207 (268)
T ss_pred cCCCCCceeEeccC--CCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCCcce
Confidence 77532211111111 1223344555665443 3565554 444556678999999887544433
No 143
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=97.65 E-value=0.0025 Score=63.01 Aligned_cols=203 Identities=9% Similarity=0.035 Sum_probs=124.4
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||+++|.- ...-.....+++.+.++ .|+.+-+ .++..++..- +....+.+++|+++|=.........
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~--------~Gy~l~l--~~t~~~~~~e-~~i~~l~~~~vDGiI~~s~~~~~~~ 71 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEARE--------HGYQLLL--CNTGDDEEKE-EYIELLLQRRVDGIILASSENDDEE 71 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHH--------TTCEEEE--EEETTTHHHH-HHHHHHHHTTSSEEEEESSSCTCHH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHH--------cCCEEEE--ecCCCchHHH-HHHHHHHhcCCCEEEEecccCChHH
Confidence 699999985 33223344555544444 2565544 4455555554 5666667777876665433333355
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcE-EEEEEEcCC--CCcccHHHHHHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNA-VSVIFVDNE--YGRNGVSALNDKL 188 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~-v~ii~~~~~--~g~~~~~~~~~~~ 188 (640)
+..+... ++|+|......... ...+++ ...+..-+..+.++|.+.|.++ ++++..+.. ......+.+++++
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 99999754332111 122332 3456666778888899999999 999987543 3445667889999
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceE-EEEecChhhHHHHHHHHHHcC-CccCCeE
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLG-MMGNGYV 254 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-ivl~~~~~~~~~il~~a~~~g-l~~~~~~ 254 (640)
++.|+.+......... .+..+-...++++.+.++++ .|++++...+.-+++++++.| +..+.-+
T Consensus 146 ~~~Gl~~~~~~i~~~~--~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~gr~~ip~di 211 (279)
T PF00532_consen 146 KEAGLPIDEEWIFEGD--FDYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERGRLKIPEDI 211 (279)
T ss_dssp HHTTSCEEEEEEEESS--SSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT-TCTTTEE
T ss_pred HHcCCCCCcccccccC--CCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcCCcccChhh
Confidence 9999865544332222 23445556677777766651 334455566778899999999 6655444
No 144
>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=97.64 E-value=0.011 Score=58.10 Aligned_cols=204 Identities=11% Similarity=-0.009 Sum_probs=116.7
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
+||+++|.. ..+-.....+++.+.++. |+++.+...+...+...-.+....++++++.+||- |.......
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 322234455666666543 45554432222223444445666677778886664 33332222
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCC-----cEEEEEEEcC--CCCcccHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGW-----NAVSVIFVDN--EYGRNGVSA 183 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w-----~~v~ii~~~~--~~g~~~~~~ 183 (640)
.+ ..+...++|+|....... +. .....+.......++.++++|.+.+- ++++++.... .......+.
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 445678999997643211 11 12234567777788888898777665 8999997532 234455678
Q ss_pred HHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
+++.+++.++++.... ... .+.......++++.+. ++++|+. ....+..+++.+++.|+. .+...++
T Consensus 147 ~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~p-~di~vig 215 (268)
T cd06306 147 FRDALAGSAIEISAIK--YGD--TGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGLT-DQIKIVS 215 (268)
T ss_pred HHHHHhhcCcEEeeec--cCC--ccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCCC-CCeEEEe
Confidence 8888988888765321 111 1233344455555433 4566653 356677788999999873 3333343
No 145
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.64 E-value=0.016 Score=58.82 Aligned_cols=202 Identities=7% Similarity=-0.029 Sum_probs=115.4
Q ss_pred CeeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCC-h
Q 006567 29 PAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQC-S 106 (640)
Q Consensus 29 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~-s 106 (640)
.+..+||++.|.. ..+-.....+++.+.++. |+.+.+ .++..++..-.+....++++++.++|-... .
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 3579999999864 333334455555555442 455544 455556665556666777778887664322 2
Q ss_pred HHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC---CCCcccHHH
Q 006567 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSA 183 (640)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~---~~g~~~~~~ 183 (640)
.........+...++|+|...... .+. .....+.++....++.++++|...+.++++++.... .......+.
T Consensus 93 ~~~~~~l~~~~~~~iPvV~id~~~---~~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~~R~~g 167 (330)
T PRK10355 93 QVLSNVIKEAKQEGIKVLAYDRMI---NNA--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNAKLFRAG 167 (330)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCC---CCC--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccHHHHHHH
Confidence 222233455567789999864322 111 112356778888899999988877888877655322 122344567
Q ss_pred HHHHHhhc---C-eEEEEeeccCCCCCCChhHHHHHHHHHhc---CCceEEEEecChhhHHHHHHHHHHcCCc
Q 006567 184 LNDKLAER---R-CRISYKSGIPPESGVNTGYVMDLLVKVAL---MESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 184 ~~~~~~~~---g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~---~~~~vivl~~~~~~~~~il~~a~~~gl~ 249 (640)
+++.+++. | +.+....... . .+..+-...++++.. ..+++ |++.+...+..+++++++.|+.
T Consensus 168 f~~~l~~~~~~~~i~~~~~~~~~-~--~~~~~~~~~~~~lL~~~~~~~~a-I~~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 168 QMKVLKPYIDSGKIKVVGDQWVD-G--WLPENALKIMENALTANNNKIDA-VVASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHhhhccCCCeEEecccCCC-C--CCHHHHHHHHHHHHHhCCCCccE-EEECCCchHHHHHHHHHHCCCC
Confidence 77777653 4 4432111111 1 112233445555432 23554 4444556667789999999875
No 146
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=97.63 E-value=0.014 Score=58.01 Aligned_cols=214 Identities=8% Similarity=0.025 Sum_probs=116.1
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
+||+++|.. ..+-.....+++.+.++ .|+++. ++++. ++..-.+....++..++.+||- +..+....
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 588888853 22333445666666665 255554 44444 5555455566677778876664 33333344
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHH----hcCC--cEEEEEE-Ec--CCCCcccH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVS----YYGW--NAVSVIF-VD--NEYGRNGV 181 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~----~~~w--~~v~ii~-~~--~~~g~~~~ 181 (640)
.....+...+||+|..............+.+-.+..+....+..+++++. ..|+ ++++++. .. ........
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 45566778999999864332111000011222344555655566555443 4577 6888875 22 23455667
Q ss_pred HHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceE-EEEecChhhHHHHHHHHHHcCCccCCeEEEEe
Q 006567 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (640)
Q Consensus 182 ~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~v-ivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 258 (640)
+.+++.+++.|+............ .+.......++++.... .+. .|++.+...+.-+++++++.|+...+...++.
T Consensus 150 ~G~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig~ 228 (289)
T cd01540 150 DGALEALKAPGFPEANIFQAPQKT-TDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVGI 228 (289)
T ss_pred HHHHHHHhcCCCCcceEecccccC-cchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEec
Confidence 888999988776432111111110 11222233445554433 343 45556666677888999999987434444443
No 147
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.61 E-value=0.023 Score=57.63 Aligned_cols=206 Identities=11% Similarity=0.112 Sum_probs=126.2
Q ss_pred eeEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEE-cCCChHH
Q 006567 30 AVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTV 108 (640)
Q Consensus 30 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aii-Gp~~s~~ 108 (640)
...+||++.+... ..+..++..++++.-+.- |....+...|...++..-...+.+++.+++.+|+ .|.++..
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 3388999998753 234444444444433332 2345666777778888778888888888997555 5888888
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh-cC-CcEEEEEEEc--CCCCcccHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YG-WNAVSVIFVD--NEYGRNGVSAL 184 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~-~~-w~~v~ii~~~--~~~g~~~~~~~ 184 (640)
......-+...+||+|++....+.- ......+.......++..++++.+ ++ .-++.++... .....+....+
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 8888888899999999875443321 122333344566666666776543 32 2446666633 33444567788
Q ss_pred HHHHhhcC--eEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChh-hHHHHHHHHHHcCCcc
Q 006567 185 NDKLAERR--CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMG 250 (640)
Q Consensus 185 ~~~~~~~g--~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~-~~~~il~~a~~~gl~~ 250 (640)
++.+++.+ ..+.... ..+ .+...-......+....+++-.+++..+ .+.-..+++++.|..+
T Consensus 181 ~~~l~~~~~~~~v~~~~--~~~--~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~ 245 (322)
T COG1879 181 RDALKEHPPDIEVVDVQ--TGD--WDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG 245 (322)
T ss_pred HHHHHhCCCcEEEeecc--CCc--ccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC
Confidence 88888876 3443322 211 2244445566666667777666665443 3445566777777754
No 148
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=97.60 E-value=0.0063 Score=59.70 Aligned_cols=202 Identities=12% Similarity=0.100 Sum_probs=112.9
Q ss_pred EEEEeecC-----CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHh-cCcEEEEcCCChH
Q 006567 34 VGALFTLD-----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-TDIVAIIGPQCST 107 (640)
Q Consensus 34 IG~l~~~~-----~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~-~~v~aiiGp~~s~ 107 (640)
||+++|.. ..+-.....+++.+.++ .|+.+.+...+.. ....+.+.+++. +++.++|...+..
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 78999863 22223344455444443 2566666554433 222344555554 4687777533222
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~ 185 (640)
.... ...+...++|+|.+....+ +..+++ +.+.....+..+++++...|.++++++.... ..+....+.|+
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 3445678999998643222 112333 3456777778888888888999999987432 23345577888
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
+.+++.|..+.....+... .+.......++++.+. .+++|+.. +...+..+++++++.|+..++-+-+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i~i 213 (268)
T cd06271 144 RALAEAGLPLDPALIVSGD--MTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDVSV 213 (268)
T ss_pred HHHHHhCCCCCCceEEeCC--CChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCcceeE
Confidence 8998887653211111111 1223344455555443 25555554 4456667889999998765443333
No 149
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=97.60 E-value=0.0075 Score=61.34 Aligned_cols=201 Identities=9% Similarity=0.028 Sum_probs=116.0
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc--CCCh
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG--PQCS 106 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG--p~~s 106 (640)
.+-.||+++|.. ..+-.....+++.+.++ .|+.+.+. ++..++..-.+....+..+++.++|- +...
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~--------~g~~~~i~--~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~~~ 127 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATM--------YKYNIILS--NSDEDPEKEVQVLNTLLSKQVDGIIFMGGTIT 127 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 356899999853 32222344455444443 25555443 33334444344455566677776663 2212
Q ss_pred HHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--C-CCcccHHH
Q 006567 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--E-YGRNGVSA 183 (640)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~-~g~~~~~~ 183 (640)
..+...+...++|+|......+ ...++ .+.+.....+..++++|...|.++++++.... . .+....+.
T Consensus 128 ---~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~G 198 (329)
T TIGR01481 128 ---EKLREEFSRSPVPVVLAGTVDK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEG 198 (329)
T ss_pred ---hHHHHHHHhcCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHH
Confidence 2233445567999997643221 11122 34556666677788888888999999996432 2 23566788
Q ss_pred HHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCC
Q 006567 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (640)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~ 252 (640)
|++.+++.|+.+......... .+..+....++++.+.++++|+.. +...+..+++++++.|+.-++
T Consensus 199 f~~~l~~~g~~~~~~~~~~~~--~~~~~~~~~~~~ll~~~p~ai~~~-~d~~A~g~~~al~~~g~~vP~ 264 (329)
T TIGR01481 199 YKEALNKAGIQFGEDLVCEGK--YSYDAGYKAFAELKGSLPTAVFVA-SDEMAAGILNAAMDAGIKVPE 264 (329)
T ss_pred HHHHHHHcCCCCCcceEEecC--CChHHHHHHHHHHhCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCC
Confidence 899999888754321111111 112333455666665667766654 445677899999999986443
No 150
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.58 E-value=0.016 Score=56.94 Aligned_cols=206 Identities=11% Similarity=0.026 Sum_probs=116.4
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEE-cCCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aii-Gp~~s~~~~ 110 (640)
+||+++|.. ..+-.+...+++.+.++++ ..+.+.+.++..++..-......+..+++.++| .|.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKLN--------PGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHhC--------CCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH
Confidence 489999864 2222345566666666542 223445555556665544555566677776554 343333223
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC-CCCcccHHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDK 187 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~-~~g~~~~~~~~~~ 187 (640)
.....+...++|+|......+ + . ...+.......++.+++++... |.++++++.... .......+.+++.
T Consensus 73 ~~i~~~~~~~ipvv~~~~~~~---~-~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~~~R~~g~~~~ 145 (271)
T cd06321 73 PAVKRAQAAGIVVVAVDVAAE---G-A---DATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAVLDRVAGCKAA 145 (271)
T ss_pred HHHHHHHHCCCeEEEecCCCC---C-c---cceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchHHHHHHHHHHH
Confidence 333444567999998754322 1 1 1235667777888888887776 999999997542 2233445678888
Q ss_pred Hhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 188 LAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 188 ~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
+++. +++..... .... .+...-...++++.+. .+++|+. .+...+..+++++++.|+ .+...++.+
T Consensus 146 ~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~--~di~v~g~d 214 (271)
T cd06321 146 LAKYPGIKLLSDD-QNGK--GSRDGGLRVMQGLLTRFPKLDGVFA-INDPTAIGADLAAKQAGR--NDIKITSVD 214 (271)
T ss_pred HHhCCCcEEEeee-cCCC--CChhhHHHHHHHHHHhCCCCCEEEE-CCchhHHHHHHHHHHcCC--CCcEEEEec
Confidence 8877 56432111 1111 1122223345555443 3565444 344566678899999987 345555543
No 151
>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=97.58 E-value=0.011 Score=57.80 Aligned_cols=204 Identities=10% Similarity=0.043 Sum_probs=116.3
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||++.|.. ..+-.....+++.+.++. |+.+. +.+...++..-......++..++.+|+-.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~ 70 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAH--------GYQVL--VCNSDNDPEKEKEYLESLLAYQVDGLIVNPTGNNKEL 70 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCcCEEEEeCCCCChHH
Confidence 378899864 223334566666666652 45553 3444445554455566677777776664222212222
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC-C--CcccHHHHHHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-Y--GRNGVSALNDKL 188 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~-~--g~~~~~~~~~~~ 188 (640)
+ ..+...++|+|.+....+ ... +..+.......++.+++++...|-++++++..... . .....+.+++.+
T Consensus 71 l-~~~~~~~ipvV~~~~~~~---~~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 71 Y-QRLAKNGKPVVLVDRKIP---ELG---VDTVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred H-HHHhcCCCCEEEEcCCCC---CCC---CCEEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3 445667999998754322 111 22334566777888899888889999999974332 1 124567888888
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
++.|+........... .+..+....++++.+.. +++|+.. +...+..+++++++.|+..++-+-+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di~v 210 (267)
T cd06283 144 AEHGIGVNEELIEIDD--EDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDVGL 210 (267)
T ss_pred HHcCCCCCcceeEecc--cchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEE
Confidence 8877432211111111 12344556666765543 4554444 4455667889999999864433333
No 152
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=97.58 E-value=0.0081 Score=58.60 Aligned_cols=199 Identities=14% Similarity=0.072 Sum_probs=119.6
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
||+++|.- ...-.....+++.+.++ .|+++.+ .++..++..-.+...++..+++.+++....... ..+
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 33334556677666655 2566544 344556666566677777888888876333222 234
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc-C--CCCcccHHHHHHHHh
Q 006567 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-N--EYGRNGVSALNDKLA 189 (640)
Q Consensus 113 ~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~-~--~~g~~~~~~~~~~~~ 189 (640)
...+...++|+|......+ .. ..+.++....+..+++++.+.+.++++++... . ..+....+.+++.++
T Consensus 71 ~~~~~~~~ipvv~~~~~~~-----~~---~~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~ 142 (259)
T cd01542 71 REAIKKLNVPVVVVGQDYP-----GI---SSVVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVGILRKQGYLDALK 142 (259)
T ss_pred HHHHhcCCCCEEEEeccCC-----CC---CEEEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhHHHHHHHHHHHHH
Confidence 4555667899998743221 11 23456677788889998888889999988632 2 223455678888888
Q ss_pred hcCe-EEEEeeccCCCCCCChhHHHHHHHHHhcCC-ceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 190 ERRC-RISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 190 ~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
+.|. .+... .-. .+.......+.++.+.. +++|+.. +...+..+++.+++.|+.-++-+.+.
T Consensus 143 ~~~~~~~~~~-~~~----~~~~~~~~~~~~~l~~~~~~~i~~~-~d~~a~g~~~~l~~~g~~vp~di~v~ 206 (259)
T cd01542 143 EHGICPPNIV-ETD----FSYESAYEAAQELLEPQPPDAIVCA-TDTIALGAMKYLQELGRRIPEDISVA 206 (259)
T ss_pred HcCCChHHee-ecc----CchhhHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8876 21110 011 11223344455554444 5555444 45567788899999888654445444
No 153
>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=97.57 E-value=0.016 Score=56.79 Aligned_cols=201 Identities=11% Similarity=0.063 Sum_probs=113.1
Q ss_pred EEEEEeecCC-ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
.||+++|... ..-.....+++.+.++. |+.+.+...+. .++..-.+....+.++++.+++- +......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~-~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~- 70 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA--------GYAVTLSMLAE-ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD- 70 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC--------CCeEEEEeCCC-CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-
Confidence 3789998642 22234455555555552 56665553322 23334444455566777887763 3222222
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKL 188 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~~~~~~ 188 (640)
.+.. ....++|+|......+ +.+..+.......++.+++++...|-++++++..+.. ......+.|++.+
T Consensus 71 ~~~~-~~~~~ipvv~~~~~~~-------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l 142 (264)
T cd01574 71 AALA-AAPADVPVVFVDGSPS-------PRVSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAAL 142 (264)
T ss_pred HHHH-HHhcCCCEEEEeccCC-------CCCCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHH
Confidence 3333 3467899998754321 1123355667778888899888889999999865432 2234556788888
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC-ceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
++.|+.+..... .. .+.......+.++.... +++|+. ++...+..+++++++.|...++-+-+
T Consensus 143 ~~~~~~~~~~~~--~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~g~~~~~~~~g~~ip~~i~i 206 (264)
T cd01574 143 EAAGIAPPPVLE--GD--WSAESGYRAGRELLREGDPTAVFA-ANDQMALGVLRALHELGLRVPDDVSV 206 (264)
T ss_pred HHCCCCcceeee--cC--CCHHHHHHHHHHHHhCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCccceEE
Confidence 877766542211 11 11233344455554433 555444 45566778889999888654433333
No 154
>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=97.56 E-value=0.013 Score=57.68 Aligned_cols=205 Identities=9% Similarity=0.010 Sum_probs=115.1
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||++.|.. ..+-.....+++-+.++ .|+++.+. ++..++..-.+....+...++.++|--.+......
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 478999863 33323444555544443 25666444 33345544444555566667887775332212222
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~~~~~~~ 189 (640)
+..+. ..++|+|......+. .. ...+.+.....+..+++.|...|-++++++..+.. ......+.|++.++
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~~---~~---~~~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVPG---AK---VPKVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHH-hcCCCEEEECCCCCC---CC---CCEEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 33333 347999986543221 11 12355778888888999888889999999974332 23345678889998
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
+.|..+.....+... .+.......+.++.+. .+++|+. ++...+..+++++++.|..-++-+-|.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~vp~di~i~ 210 (269)
T cd06293 144 EAHIPEVPEYVCFGD--YTREFGRAAAAQLLARGDPPTAIFA-ASDEIAIGLLEVLRERGLSIPGDMSLV 210 (269)
T ss_pred HcCCCCChheEEecC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEE
Confidence 887643211111111 1123334455555433 3565444 455556678899999887644444443
No 155
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=97.55 E-value=0.0077 Score=59.43 Aligned_cols=204 Identities=11% Similarity=0.062 Sum_probs=109.2
Q ss_pred eEEEEEEeecCC----ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhH-hcCcEEEEc-CC
Q 006567 31 VVNVGALFTLDS----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFM-ETDIVAIIG-PQ 104 (640)
Q Consensus 31 ~i~IG~l~~~~~----~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~-~~~v~aiiG-p~ 104 (640)
+=.||++.|... .........+..++++.-+. .|+++.+...+.. . ...+.+.+ .+++.+||- +.
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~----~g~~~~v~~~~~~--~---~~~~~~~l~~~~~dgiii~~~ 73 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAE----RGYDLLLSFVSSP--D---RDWLARYLASGRADGVILIGQ 73 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHH----cCCEEEEEeCCch--h---HHHHHHHHHhCCCCEEEEeCC
Confidence 346899999631 11122223222233332222 2566666544322 1 12333444 457776653 22
Q ss_pred ChHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHH
Q 006567 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVS 182 (640)
Q Consensus 105 ~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~ 182 (640)
... . .....+...+||+|.+....+. . .+..+.+.....+..+++++...|.++++++..+. ..+....+
T Consensus 74 ~~~-~-~~~~~~~~~~ipvV~~~~~~~~---~---~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~r~~ 145 (275)
T cd06295 74 HDQ-D-PLPERLAETGLPFVVWGRPLPG---Q---PYCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEERLE 145 (275)
T ss_pred CCC-h-HHHHHHHhCCCCEEEECCccCC---C---CCCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHHHHH
Confidence 212 1 2234556789999986543221 1 22335667778888889988888999999987533 23345567
Q ss_pred HHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeE
Q 006567 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (640)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~ 254 (640)
.|++.+++.|+.+......... .+.......+.++... .+++|+.. +...+..+++++++.|+..+.-+
T Consensus 146 gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~~ip~~i 216 (275)
T cd06295 146 GYREALAEAGLPLDPRLVAPGD--FTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGRRVPEDV 216 (275)
T ss_pred HHHHHHHHcCCCCChhhEEecc--CCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCCCCccce
Confidence 8888888877543211111111 1122333445554443 34655554 34556678888898887533333
No 156
>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=97.54 E-value=0.014 Score=57.28 Aligned_cols=199 Identities=13% Similarity=0.007 Sum_probs=114.4
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||+++|.. ..+-.....+++.+.++. |+++.+.. +..++..-......++++++.+||--.+......
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 378999863 333334556666666552 45555433 3344444445555667778877665332211111
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~~~~~~~ 189 (640)
...+...++|+|.+....+ ...+. .+..+....++.+++++...|.++++++..+.. ......+.|++.++
T Consensus 71 -~~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 71 -LIELAAQVPPLVLINRHIP---GLADR---CIWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred -HHHHhhCCCCEEEEeccCC---CCCCC---eEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3444667999998643322 11122 245677778888999888889999999875322 22344667888888
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccC
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~ 251 (640)
+.|+.+.....+... .+..+....++++.+.+ +++|+ +++...+..+++++++.|+.-+
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip 204 (268)
T cd06270 144 EAGIALDESLIIEGD--FTEEGGYAAMQELLARGAPFTAVF-CANDEMAAGAISALREHGISVP 204 (268)
T ss_pred HcCCCCCcceEEECC--CCHHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCC
Confidence 887653211111111 12334455566665443 45444 3444566778899999887544
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=97.53 E-value=0.026 Score=56.31 Aligned_cols=212 Identities=11% Similarity=0.020 Sum_probs=114.4
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~~ 111 (640)
|||++.|... ..+...+..++++.-+.. |+++.+. .++..++..-.+....++.+++.+||- |........
T Consensus 1 ~i~~i~~~~~---~~~~~~~~~gi~~~a~~~----g~~~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~ 72 (294)
T cd06316 1 KAAIVMHTSG---SDWSNAQVRGAKDEFAKL----GIEVVAT-TDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAA 72 (294)
T ss_pred CeEEEecCCC---ChHHHHHHHHHHHHHHHc----CCEEEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhH
Confidence 6888887532 123333444443332222 5555432 345556665566666777777876554 433322233
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCC--CCcccHHHHHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALNDK 187 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~~--~g~~~~~~~~~~ 187 (640)
....+...+||+|.+....+..... -.++..+..+....++.++++|... +-++++++..+.+ ......+.+.+.
T Consensus 73 ~i~~~~~~~iPvV~~~~~~~~~~~~-~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~ 151 (294)
T cd06316 73 AYKKVAEAGIKLVFMDNVPSGLEHG-KDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKET 151 (294)
T ss_pred HHHHHHHcCCcEEEecCCCcccccC-cceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHH
Confidence 3455667899999765433222110 1223345566677778888887765 7889999975432 233446777888
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
+++.+..+....... . .+.......++++... .+++|+. .+...+..+++++++.|+ .+...++.+
T Consensus 152 l~~~~~~~~~~~~~~-~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~--~di~vvg~d 219 (294)
T cd06316 152 IKKNYPDITIVAEKG-I--DGPSKAEDIANAMLTQNPDLKGIYA-VWDVPAEGVIAALRAAGR--DDIKVTTVD 219 (294)
T ss_pred HHHhCCCcEEEeecC-C--cchhHHHHHHHHHHHhCCCeeEEEe-CCCchhHHHHHHHHHcCC--CCceEEEeC
Confidence 876553222111111 1 1112223344554433 3455444 445567789999999987 344444433
No 158
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.53 E-value=0.018 Score=57.86 Aligned_cols=208 Identities=15% Similarity=0.084 Sum_probs=117.9
Q ss_pred EEEEeecC-C-ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc--CcEEEEc-CCChHH
Q 006567 34 VGALFTLD-S-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET--DIVAIIG-PQCSTV 108 (640)
Q Consensus 34 IG~l~~~~-~-~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~--~v~aiiG-p~~s~~ 108 (640)
||+++|.. . .+-.....+++.+.++ .|+.+.+. ++..+...-......++++ +|.+||= |... .
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~--------~g~~v~~~--~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~-~ 70 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADD--------LGIELEVL--YAERDRFLMLQQARTILQRPDKPDALIFTNEKS-V 70 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHh--------cCCeEEEE--eCCCCHHHHHHHHHHHHHhccCCCEEEEcCCcc-c
Confidence 78888864 2 2223344555555544 25555544 4445665556667778888 8887664 3322 2
Q ss_pred HHHHHHhhccCCceEEecccCCCCCC-----C--CCC-CcEEEecCCchHHHHHHHHHHHhcCCcE--------EEEEEE
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLS-----S--LQY-PFFVRTTQSDSYQMTAVAEMVSYYGWNA--------VSVIFV 172 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~-----~--~~~-~~~~r~~p~~~~~~~al~~ll~~~~w~~--------v~ii~~ 172 (640)
.......+...++|+|.+....+... . ..+ .++-...+.....++.+++.|...+.++ ++++..
T Consensus 71 ~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~ 150 (305)
T cd06324 71 APELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISG 150 (305)
T ss_pred hHHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeC
Confidence 33334556678999998754322110 0 011 2234566788888888889877766653 666653
Q ss_pred cC--CCCcccHHHHHHHHhhcC-eEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcC
Q 006567 173 DN--EYGRNGVSALNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLG 247 (640)
Q Consensus 173 ~~--~~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~g 247 (640)
.. .......+.|++.+++.| ..+... +... .+.......++++.+. ..++|+ +.+...+..+++++++.|
T Consensus 151 ~~~~~~~~~R~~Gf~~~~~~~g~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g 225 (305)
T cd06324 151 DPTTPAAILREAGLRRALAEHPDVRLRQV--VYAG--WSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAG 225 (305)
T ss_pred CCCChHHHHHHHHHHHHHHHCCCceEeee--ecCC--CCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcC
Confidence 22 223445678888888876 333221 1111 1233334455555443 355544 445566678999999999
Q ss_pred CccCC-eEEEE
Q 006567 248 MMGNG-YVWIA 257 (640)
Q Consensus 248 l~~~~-~~~i~ 257 (640)
+.-++ ...++
T Consensus 226 ~~vp~di~vig 236 (305)
T cd06324 226 RKPGRDVLFGG 236 (305)
T ss_pred CCcCCCEEEEe
Confidence 86443 34444
No 159
>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=97.52 E-value=0.018 Score=56.39 Aligned_cols=206 Identities=10% Similarity=0.041 Sum_probs=114.1
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
.||+++|... ......+...+++.-+. .|+.+.+. ++..++..-.+....++.+++.+|+-.........+
T Consensus 1 ~igvi~~~~~---~~~~~~~~~~~~~~~~~----~g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~ 71 (264)
T cd06274 1 TIGLIIPDLE---NRSFARIAKRLEALARE----RGYQLLIA--CSDDDPETERETVETLIARQVDALIVAGSLPPDDPY 71 (264)
T ss_pred CEEEEecccc---CchHHHHHHHHHHHHHH----CCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHHH
Confidence 3789998642 12233333333333222 25555444 344455554555666777788876643322222223
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHHHHHhh
Q 006567 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLAE 190 (640)
Q Consensus 113 ~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~~~~~~ 190 (640)
. .+...++|+|.+....+ +...++ +.......+..+++++...|-++++++.... .......+.+++.+++
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 45668899998644322 112222 4456666678888887778999999987542 2344567788888888
Q ss_pred cCeEEEEeeccCCCCCCChhHHHHHHHHHhcC---CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
.|+.+.....+... .+.......+.++.+. .+++|+.. +...+.-+++++++.|+..++-+-+.
T Consensus 145 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~ip~dv~v~ 211 (264)
T cd06274 145 AGLPVQPDWIYAEG--YSPESGYQLMAELLARLGRLPRALFTT-SYTLLEGVLRFLRERPGLAPSDLRIA 211 (264)
T ss_pred cCCCCCcceeecCC--CChHHHHHHHHHHHccCCCCCcEEEEc-ChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 87543221111111 1223334445555443 35655544 45566778899999887644444443
No 160
>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=97.52 E-value=0.011 Score=57.80 Aligned_cols=190 Identities=10% Similarity=0.029 Sum_probs=107.9
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
||++.|.. ..+-.....+++.+.++ .|+++.+...+. +. ...+...+++.+++.+++--.+..... .
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~--~~-~~~~~i~~~~~~~vdgiii~~~~~~~~-~ 69 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQA--------RGYQPLLINTDD--DE-DLDAALRQLLQYRVDGVIVTSGTLSSE-L 69 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHH--------CCCeEEEEcCCC--CH-HHHHHHHHHHHcCCCEEEEecCCCCHH-H
Confidence 78888864 22222334444333333 256666655443 22 223445566677887766532222222 3
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHHHHHhh
Q 006567 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLAE 190 (640)
Q Consensus 113 ~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~~~~~~ 190 (640)
...+...++|+|.+....+ + ..+..+.++....++.+++++...|-++++++..+. .......+.|.+.+++
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 4556667999998744322 1 122346677888889999988888999999997543 2344566788888888
Q ss_pred cCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHc
Q 006567 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYL 246 (640)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~ 246 (640)
.+..+.... ... .+..+....+.++.+. .+++|+.. +...+..+++.+++.
T Consensus 144 ~~~~~~~~~-~~~---~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~ 196 (266)
T cd06278 144 AGVPVVVEE-AGD---YSYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQE 196 (266)
T ss_pred cCCChhhhc-cCC---CCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHh
Confidence 877642211 111 1123334445555443 34554444 344556677777765
No 161
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.50 E-value=0.023 Score=56.50 Aligned_cols=199 Identities=8% Similarity=0.024 Sum_probs=111.3
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
.||+++|.. ..+-.....+++.+.++. |+.+. +.++..++..-.+...+++.+++.+|+- |..+....
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 489999864 222233445555555442 44444 4455566666566677778888886664 43333333
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc------CCcEEEEEEEcC--CCCcccHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVDN--EYGRNGVS 182 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~------~w~~v~ii~~~~--~~g~~~~~ 182 (640)
.....+...++|+|......+. .... ..+..+....++.+++.|... |-.+++++..+. .......+
T Consensus 71 ~~l~~l~~~~ipvV~~~~~~~~---~~~~--~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 71 SAVEKAADAGIPVIAYDRLILN---SNVD--YYVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHHHCCCCEEEECCCCCC---CCcc--eEEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 3444566689999987543321 1112 223456666677777765555 888999887532 22334566
Q ss_pred HHHHHHhhcC----eEEEEeeccCCCCCCChhHHHHHHHHHhcCC---ceEEEEecChhhHHHHHHHHHHcCCcc
Q 006567 183 ALNDKLAERR----CRISYKSGIPPESGVNTGYVMDLLVKVALME---SRVIVLHVSPSLGFQVFSVAKYLGMMG 250 (640)
Q Consensus 183 ~~~~~~~~~g----~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~---~~vivl~~~~~~~~~il~~a~~~gl~~ 250 (640)
.|++.+++.+ +.+... ..... .+...-...+.++.+.. +++|+. .+...+..+++++++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~~~I~~-~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGE-VATPD--WDPETAQKRMENALTANYNKVDGVLA-ANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEec-cccCC--CCHHHHHHHHHHHHHhCCCCccEEEe-CCcHHHHHHHHHHHHcCCCC
Confidence 7788888876 443322 11111 11223334455554432 344433 34456667889999988764
No 162
>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=97.48 E-value=0.012 Score=57.61 Aligned_cols=202 Identities=14% Similarity=0.097 Sum_probs=115.0
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEE-cCCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aii-Gp~~s~~~~ 110 (640)
.||+++|.. ...-.....++..+.++ .|+++. +..+..++..-.+....+..+++.+|+ .+.... ..
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~--------~~~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~-~~ 69 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAE--------RGYSTF--VANTGDNPDAQRRAIEMLLDRRVDGLILGDARSD-DH 69 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCC-hH
Confidence 379999963 22223344555555444 245553 334444555544555566777887655 333322 22
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKL 188 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~~~~ 188 (640)
. ...+...++|+|.+....+ .+++ +.......+..++++|...|-++++++..+. .......+.|.+.+
T Consensus 70 ~-~~~~~~~~iPvv~~~~~~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 140 (265)
T cd06285 70 F-LDELTRRGVPFVLVLRHAG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAAL 140 (265)
T ss_pred H-HHHHHHcCCCEEEEccCCC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHH
Confidence 3 3445667999998653221 1222 3556677788888888888999999997532 23445577888888
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccC-CeEEEE
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGN-GYVWIA 257 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~-~~~~i~ 257 (640)
++.|+.+......... .+.......++++.+.+ +++|+ +.+...+..+++.+++.|+.-+ +...++
T Consensus 141 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~~p~di~iig 209 (265)
T cd06285 141 AEAGIEVPPERIVYSG--FDIEGGEAAAEKLLRSDSPPTAIF-AVNDFAAIGVMGAARDRGLRVPDDVALVG 209 (265)
T ss_pred HHcCCCCChhhEEeCC--CCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 8888654321111111 12233334555554433 45444 4455566789999999987533 333444
No 163
>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=97.44 E-value=0.01 Score=58.34 Aligned_cols=199 Identities=11% Similarity=0.027 Sum_probs=113.4
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||+++|.. ...-.....+++.+.++. |+.+. +.++..++....+....+..++|.++|--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA--------GYSLL--IANSLNDPERELEILRSFEQRRMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHH
Confidence 389999863 333334556666665552 45543 4455556655555556666777877764222222234
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~~~~~ 189 (640)
+...+...++|+|......+ . ..+ .+.......+..+++.+...|.++++++.... ..+....+.+.+.++
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 45566678999998654322 1 112 23445555567777777777999999886432 223345678888898
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCC
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~ 252 (640)
+.|+.+.....+... . .......+.++.+. .+++|+. .+...+..+++++++.|+.-++
T Consensus 144 ~~~~~~~~~~~~~~~--~-~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~ 204 (269)
T cd06281 144 AAGLPPDPALVRLST--P-AASGFDATRALLALPDRPTAIIA-GGTQVLVGVLRALREAGLRIPR 204 (269)
T ss_pred HcCCCCCHHHeecCc--H-HHHHHHHHHHHHcCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCCc
Confidence 888654211111111 1 22223445554432 3576653 3455566788999998876443
No 164
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.44 E-value=0.029 Score=57.03 Aligned_cols=203 Identities=11% Similarity=0.021 Sum_probs=114.1
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChH
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~ 107 (640)
.+-.||+++|.. ...-.....+++.+.++ .|+.+.+. .+..++..-.+....+..+++.+||- +....
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~--------~g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 129 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQ--------RGYQLLIA--CSDDQPDNEMRCAEHLLQRQVDALIVSTSLPP 129 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCC
Confidence 356899999853 22222334455544443 25666543 33334444344455566677887664 22222
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~ 185 (640)
....+ ..+...++|+|......+ ...++ .+.+.....+..++++|...|-++++++.... ..+....+.|.
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 334457999997643221 11222 23456677778888888888999999997533 23445667889
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeE
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~ 254 (640)
+.+++.|+.+.... ... .+..+-...++++.+. .+++|+.. +...+..+++++++.|+.-++-+
T Consensus 203 ~al~~~g~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~vP~di 268 (328)
T PRK11303 203 QALKDDPREVHYLY--ANS--FEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGELPSDL 268 (328)
T ss_pred HHHHHcCCCceEEE--eCC--CChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCce
Confidence 99998887543211 111 1122333455555443 35655554 44556678899899887544433
No 165
>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=97.41 E-value=0.013 Score=57.41 Aligned_cols=204 Identities=12% Similarity=0.041 Sum_probs=112.7
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||+++|.. ..+-.....+++.+.++. |+.+.+. ++..++..-......++..++.+||--........
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 4444433 44445544445555667778886664222222222
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~~~~~ 189 (640)
...+...++|+|......+ ...++++ .......+..+++++...|-++++++.... .......+.|++.++
T Consensus 71 -~~~l~~~~ipvV~~~~~~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 71 -LEDLLKRGIPVVFVDREIT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred -HHHHHhCCCCEEEEecccC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 3445567999997654322 1222332 334444556666777777899999986432 233344578888888
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
+.|+.+......... ....+....+.++.+.++++|+. ++...+..+++++++.|+.-++-+.+
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~av~~-~~d~~a~gv~~al~~~g~~vp~dv~v 207 (265)
T cd06299 144 SLGLEVNEDLVVLGG--YSQESGYAGATKLLDQGATAIIA-GDSMMTIGAIRAIHDAGLVIGEDISL 207 (265)
T ss_pred HCCCCCChHhEEecC--cchHHHHHHHHHHHcCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCcceeE
Confidence 877533211111111 11223344555655545776554 44556778888999988754333333
No 166
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.41 E-value=0.017 Score=59.15 Aligned_cols=207 Identities=8% Similarity=0.030 Sum_probs=113.9
Q ss_pred eEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHH
Q 006567 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (640)
Q Consensus 31 ~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~ 109 (640)
.-.||+++|.. ...-.....+++.+.++. |+++. +.++..++..-.+....+..+++.+||--......
T Consensus 59 ~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~ 128 (341)
T PRK10703 59 TKSIGLLATSSEAPYFAEIIEAVEKNCYQK--------GYTLI--LCNAWNNLEKQRAYLSMLAQKRVDGLLVMCSEYPE 128 (341)
T ss_pred CCeEEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCH
Confidence 45899999874 222233445555555442 44443 33444555554555566667777766532111112
Q ss_pred HHHHHhhcc-CCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CCCCcccHHHHHH
Q 006567 110 HIVSYVSNE-LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALND 186 (640)
Q Consensus 110 ~~v~~~~~~-~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~--~~~g~~~~~~~~~ 186 (640)
..+ ..+.. .++|+|.+....+ +..+.. ...+.....+..+++.|...|-+++++|... ........+.|.+
T Consensus 129 ~~~-~~l~~~~~iPvV~~d~~~~---~~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 202 (341)
T PRK10703 129 PLL-AMLEEYRHIPMVVMDWGEA---KADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFMK 202 (341)
T ss_pred HHH-HHHHhcCCCCEEEEecccC---CcCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHHH
Confidence 223 33344 6999998643221 111112 2344445567788888777799999998642 3344455678888
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
.+++.|+.+......... .+..+....++++.+. .+++|+. ++...+..+++++++.|..-++-+.+
T Consensus 203 ~l~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~g~~ip~dv~v 271 (341)
T PRK10703 203 AMEEANIKVPEEWIVQGD--FEPESGYEAMQQILSQKHRPTAVFC-GGDIMAMGAICAADEMGLRVPQDISV 271 (341)
T ss_pred HHHHcCCCCChHHeEeCC--CCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 998888764321111111 1223344455555443 3565554 44555667889999988754443433
No 167
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.39 E-value=0.023 Score=58.18 Aligned_cols=202 Identities=6% Similarity=-0.003 Sum_probs=113.3
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHH
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~ 108 (640)
..-.||+++|.. ..+-.....+++.+.++ . |+.+-+ .++..++..-......+..+++.+||--.....
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 346899999863 32223344455544443 2 444433 344445544445555666777776664222222
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALND 186 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~~~~ 186 (640)
.......+...++|+|...... ....++ .+.......+..++++|.+.|.++++++..+.. ......+.|.+
T Consensus 133 ~~~~~~~l~~~~iPvV~~~~~~---~~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~ 206 (342)
T PRK10014 133 SDDLREMAEEKGIPVVFASRAS---YLDDVD---TVRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCA 206 (342)
T ss_pred cHHHHHHHhhcCCCEEEEecCC---CCCCCC---EEEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHHH
Confidence 2334455667799999764321 111222 245667777888888888889999999864322 22345678888
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCcc
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMG 250 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~ 250 (640)
.+++.|+.+.....+... .+.......++++.+.+ +++|+ +.+...+..+++++++.|+.-
T Consensus 207 al~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~v 269 (342)
T PRK10014 207 TLLKFGLPFHSEWVLECT--SSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQS 269 (342)
T ss_pred HHHHcCCCCCcceEecCC--CChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCC
Confidence 998888654321111111 11223334455554443 45554 445566667888888888754
No 168
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.38 E-value=0.091 Score=53.41 Aligned_cols=200 Identities=11% Similarity=-0.022 Sum_probs=105.7
Q ss_pred EEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHH
Q 006567 32 VNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVA 109 (640)
Q Consensus 32 i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~ 109 (640)
.+|+++.... ..+-.....+++.+.++. |+++.+. ..+..++..-.+....++.++|.+|+- |..+...
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 3788887654 333234455665555542 5666542 223345554456677788888887665 4454544
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecC-CchHHHHHHHHHHHh-c--CCcEEEEEEEcCC--CCcccHHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ-SDSYQMTAVAEMVSY-Y--GWNAVSVIFVDNE--YGRNGVSA 183 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p-~~~~~~~al~~ll~~-~--~w~~v~ii~~~~~--~g~~~~~~ 183 (640)
......+...+||+|++....+. +. . .+-+.. ++...++.+++++.+ . +-.+++++..... ......+.
T Consensus 95 ~~~l~~a~~~gIpVV~~d~~~~~--~~--~-~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 95 CPALKRAMQRGVKVLTWDSDTKP--EC--R-SYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCC--cc--c-eEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 55566677889999987543221 11 1 122222 234566666666554 2 3468888864322 11223355
Q ss_pred HHHHHhhc--CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChh-hHHHHHHHHHHcCCc
Q 006567 184 LNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMM 249 (640)
Q Consensus 184 ~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~-~~~~il~~a~~~gl~ 249 (640)
+.+.+.+. ++++.... +. . .+...-...++.+....+++=.++|... .+.-.++++++.|+.
T Consensus 170 ~~~~l~~~~p~~~vv~~~-~~-~--~d~~~a~~~~~~lL~~~pdi~aI~~~~~~~~~Ga~~Al~~~g~~ 234 (336)
T PRK15408 170 AKAKIAKEHPGWEIVTTQ-FG-Y--NDATKSLQTAEGILKAYPDLDAIIAPDANALPAAAQAAENLKRD 234 (336)
T ss_pred HHHHHHhhCCCCEEEeec-CC-C--CcHHHHHHHHHHHHHHCCCCcEEEECCCccHHHHHHHHHhCCCC
Confidence 66666432 55554322 11 1 2233334455565555554433333333 333577888887763
No 169
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.38 E-value=0.014 Score=57.24 Aligned_cols=205 Identities=13% Similarity=0.053 Sum_probs=115.5
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHHH
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHI 111 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~~ 111 (640)
||++.|.. ..+-.....+++.+.++ .|+++.+ .++..++..-.+....++++++.+|+- +..... .
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~- 69 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAA--------AGYDVVL--SESGRRTSPERQWVERLSARRTDGVILVTPELTS-A- 69 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHH--------cCCeEEE--ecCCCchHHHHHHHHHHHHcCCCEEEEecCCCCh-H-
Confidence 78888863 33334455566555554 2555544 344444443344555667778887653 333222 2
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~~~~~ 189 (640)
....+...++|+|.+...... ...++ .+.+.....++.+++.+...|.++++++.... .......+.|++.++
T Consensus 70 ~~~~~~~~~ipvV~i~~~~~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (270)
T cd06296 70 QRAALRRTGIPFVVVDPAGDP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAALA 144 (270)
T ss_pred HHHHHhcCCCCEEEEecccCC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHHH
Confidence 245556789999987543211 11222 35667777788888888888999999986432 233455678888888
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccC-CeEEEEe
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGN-GYVWIAT 258 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~-~~~~i~~ 258 (640)
+.++.+......... .+.......+.++.+. .+++|+ +.+...+..+++++++.|+.-+ +...++.
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~~i~v~~~ 213 (270)
T cd06296 145 EAGIPVDPALVREGD--FSTESGFRAAAELLALPERPTAIF-AGNDLMALGVYEAARERGLRIPEDLSVVGF 213 (270)
T ss_pred HcCCCCChHHheeCC--CCHHHHHHHHHHHHhCCCCCcEEE-EcCcHHHHHHHHHHHHhCCCCCCceEEEEE
Confidence 777644211111111 1123333445555443 344444 3455566788999999987543 3444443
No 170
>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=97.37 E-value=0.078 Score=52.11 Aligned_cols=203 Identities=10% Similarity=0.082 Sum_probs=108.7
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHH-HH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTV-AH 110 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~-~~ 110 (640)
+||++......+-.....+++.+.++ .|+.+.+.. ++..++..-.+....++.++|.++|- |..... ..
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 47777654433222334444444444 245555432 23335554455566677778886663 444332 23
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC--CCCcccHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~--~~g~~~~~~~~~ 186 (640)
.+..+ .. ++|+|......+. . +.+..+.......++.+++++.+. +-.++.++.... .......+.+++
T Consensus 72 ~l~~~-~~-~ipvV~~~~~~~~--~---~~~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~ 144 (271)
T cd06314 72 ALNKA-AA-GIKLITTDSDAPD--S---GRYVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKD 144 (271)
T ss_pred HHHHH-hc-CCCEEEecCCCCc--c---ceeEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHH
Confidence 34444 45 9999986432211 1 112234566677778888877653 344666665432 234456678899
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
.+++.|+.+.... .. . .+..+....++++.+.. +++|+.. +...+..+++++++.|+. .+...++
T Consensus 145 ~~~~~~~~~~~~~-~~-~--~~~~~~~~~~~~~l~~~~~~~~i~~~-~d~~a~~~~~al~~~g~~-~di~vig 211 (271)
T cd06314 145 AIKDSKIEIVDTR-GD-E--EDFAKAKSNAEDALNAHPDLKCMFGL-YAYNGPAIAEAVKAAGKL-GKVKIVG 211 (271)
T ss_pred HHhcCCcEEEEEe-cC-c--cCHHHHHHHHHHHHHhCCCccEEEec-CCccHHHHHHHHHHcCCC-CceEEEE
Confidence 9988888764321 11 1 12333444555554433 4555443 334455678888888876 3444444
No 171
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.34 E-value=0.035 Score=56.33 Aligned_cols=203 Identities=10% Similarity=0.037 Sum_probs=126.1
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHH
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~ 108 (640)
.+-.||+++|.- ...-.....+++.+.++ .|+.+-+. .+..++..-......+.+++|++||--. ...
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~--------~gy~~~l~--~~~~~~~~e~~~~~~l~~~~vdGiIi~~-~~~ 125 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAARE--------AGYSLLLA--NTDDDPEKEREYLETLLQKRVDGLILLG-ERP 125 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEE--CCCCCHHHHHHHHHHHHHcCCCEEEEec-CCC
Confidence 467899999953 22223445555555544 25555444 3444665555556666777888776533 223
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CCCCcccHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALND 186 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~--~~~g~~~~~~~~~ 186 (640)
.......+...++|+|......+ + +.+-.+..++..-++.++++|.+.|.++++++... ...+....+.+.+
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 33345566667999997654333 2 22234466788888999999999999999999865 3455677889999
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC---ceEEEEecChhhHHHHHHHHHHcCCccCC
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME---SRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~---~~vivl~~~~~~~~~il~~a~~~gl~~~~ 252 (640)
.+++.|+... ...+.... .+..+-...+.++.... +++|+ +++...+.-+++++++.|+..++
T Consensus 200 al~~~~~~~~-~~~i~~~~-~~~~~g~~~~~~ll~~~~~~ptAif-~~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 200 ALREAGLPIN-PEWIVEGD-FSEESGYEAAERLLARGEPRPTAIF-CANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHHCCCCCC-cceEEecC-CChHHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCC
Confidence 9999998751 11111110 12344444555555433 55544 44556788899999999886554
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=97.33 E-value=0.025 Score=55.31 Aligned_cols=199 Identities=10% Similarity=0.016 Sum_probs=108.3
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||+++|.. ..+-.....+++.+.++ .|+.+.+ .++..++..-......+.++++.+++--.+......
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 378899863 22222334444433332 2555544 334455544444455666777876663222211222
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CCCCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~--~~~g~~~~~~~~~~~~ 189 (640)
+..+ . .++|+|......+ +...+ .+.......++.+++.|...|.++++++..+ ........+.+++.+.
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 2233 2 4899998754322 11112 2445677777888888877799999998643 2333455677888888
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCC
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~ 252 (640)
+.++.+.....+... .+.......++++.+.+ +++|+ +++...+..+++.+++.|+.-++
T Consensus 143 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~ip~ 204 (265)
T cd06290 143 EAGLEVQPDLIVQGD--FEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRVPE 204 (265)
T ss_pred HcCCCCCHHHEEecC--CCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCc
Confidence 777653211111111 11222334555555433 46554 44556677788999998875443
No 173
>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=97.32 E-value=0.057 Score=53.89 Aligned_cols=196 Identities=11% Similarity=-0.009 Sum_probs=107.3
Q ss_pred EEEEEeecCC-ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHH-H
Q 006567 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTV-A 109 (640)
Q Consensus 33 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~-~ 109 (640)
+||+++|... ..-.....+++.+.++ .|+.+.+...+...+...-.+....++++++.+||- |..... .
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 5899998632 1112223344433333 256665544333335444455666677788887764 332222 2
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc-C----CcEEEEEEEcC--CCCcccHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-G----WNAVSVIFVDN--EYGRNGVS 182 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~-~----w~~v~ii~~~~--~~g~~~~~ 182 (640)
..+..+ . .++|+|.+..... .. ..+..+.......++.++++|... . -.+++++.... .......+
T Consensus 73 ~~l~~~-~-~~iPvV~~~~~~~--~~---~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~ 145 (295)
T TIGR02955 73 HDLAQL-T-KSIPVFALVNQID--SN---QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQ 145 (295)
T ss_pred HHHHHH-h-cCCCEEEEecCCC--cc---ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHH
Confidence 333333 3 4899987532211 11 123345566677777777876652 1 34699987533 33455677
Q ss_pred HHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCc
Q 006567 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~ 249 (640)
.+++.+++.|+.+... .... .+...-...++++.+. .+++| +++...+..+++++++.|+.
T Consensus 146 Gf~~al~~~g~~~~~~--~~~~--~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~~ 208 (295)
T TIGR02955 146 GFRAALEGSDVEISAI--LWAD--NDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHMT 208 (295)
T ss_pred HHHHHHhcCCcEEEEE--ecCC--CcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCcc
Confidence 8999998888776532 1111 1233334455555433 35653 45555577888998888763
No 174
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.31 E-value=0.039 Score=55.98 Aligned_cols=206 Identities=8% Similarity=0.038 Sum_probs=112.2
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCC-h
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQC-S 106 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~-s 106 (640)
..-.||+++|.. ...-.....+++.+.++ .|+.+.+ .++..++..-.+....+.+++|.++|- |.. +
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 346899999863 22223445555555554 2555544 344445544444555566777776553 222 2
Q ss_pred HHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CCCCcccHHHH
Q 006567 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSAL 184 (640)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~--~~~g~~~~~~~ 184 (640)
.... ..+....++|+|....... ...+. ........-+..++++|...|-+++++|... ........+.|
T Consensus 125 ~~~~--~~l~~~~~iPvV~i~~~~~---~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf 196 (327)
T PRK10423 125 QPSR--EIMQRYPSVPTVMMDWAPF---DGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEGY 196 (327)
T ss_pred hhhH--HHHHhcCCCCEEEECCccC---CCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHHH
Confidence 2111 1112224899998643211 11111 2334445557888888888899999998643 22344567788
Q ss_pred HHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 185 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
++.+++.|+.+.....+... .+.......++++.+. .+++|+. ++...+..+++++++.|+.-+.-+-+
T Consensus 197 ~~al~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~~l~~~g~~vP~dvsv 267 (327)
T PRK10423 197 RAAMKRAGLNIPDGYEVTGD--FEFNGGFDAMQQLLALPLRPQAVFT-GNDAMAVGVYQALYQAGLSVPQDIAV 267 (327)
T ss_pred HHHHHHcCCCCCcceEEeCC--CChHHHHHHHHHHhcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 99999888654221111111 1122233445555443 3455444 45566678999999998765443333
No 175
>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=97.29 E-value=0.081 Score=52.10 Aligned_cols=209 Identities=12% Similarity=0.013 Sum_probs=109.7
Q ss_pred EEEEEeecCC-ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
+||++.|... .+-.....+++.+.++.+.. ...+...... ..++..-.+....+.. ++.+++- +.......
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 5899988642 22233445555555553221 2233333222 2344433344444555 7776653 43333222
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc-C--CcEEEEEEEcCC--CCcccHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-G--WNAVSVIFVDNE--YGRNGVSALN 185 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~-~--w~~v~ii~~~~~--~g~~~~~~~~ 185 (640)
.....+...++|+|.+....+. .. ....+.......+...+++|.+. + -++++++..... ......+.|.
T Consensus 74 ~~i~~~~~~~ipvV~~~~~~~~--~~---~~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 74 AAVARLAAAGVPVVTLVSDLPG--SP---RAGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHHHCCCcEEEEeCCCCC--Cc---eeeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 3334555679999976432211 11 12234556666677777776654 4 469998875332 2344567888
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhc--CCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEEe
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 258 (640)
+.+++.+..+......... .+..+....++++.+ ..+++|+...+. +..+++++++.|+. .+...++.
T Consensus 149 ~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~-~di~Ivg~ 218 (275)
T cd06307 149 SVLREEFPGLRVLETLEGL--DDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA-GKVVFVGH 218 (275)
T ss_pred HHHHhhCCCcEEEeeccCC--CChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC-CCcEEEEe
Confidence 8888776544332222211 122333445555543 246676666543 36889999999975 34444443
No 176
>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=97.28 E-value=0.022 Score=56.03 Aligned_cols=205 Identities=15% Similarity=0.121 Sum_probs=115.6
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChH---H
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST---V 108 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~---~ 108 (640)
||+++|.. ..+-.....+++.+.++ . |+.+. +.++..++..-.+....++.++|.++|- |..+. .
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~ 71 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSE----K----GYSLL--LASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPNP 71 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHH----c----CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEeccccccccc
Confidence 78888853 22222334444433333 2 45553 4455566666666777788888887763 33221 1
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC-CCCcccHHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDK 187 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~-~~g~~~~~~~~~~ 187 (640)
.......+...++|+|......+. . .+..+.......+..+++++...|.++++++...+ ..+....+.+++.
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~~~~---~---~~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~ 145 (273)
T cd01541 72 NIDLYLKLEKLGIPYVFINASYEE---L---NFPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKA 145 (273)
T ss_pred cHHHHHHHHHCCCCEEEEecCCCC---C---CCCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHH
Confidence 112223346679999987543221 1 12235667777788888988888999999886432 2233445678888
Q ss_pred HhhcCeEEEEee--ccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 188 LAERRCRISYKS--GIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 188 ~~~~g~~v~~~~--~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
+++.|..+.... ..... .........++++.+. .+++| ++.+...+.-+++++++.|+..++-+-+.
T Consensus 146 l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~av-~~~~d~~a~g~~~al~~~g~~~p~dv~vv 216 (273)
T cd01541 146 YREHGIPFNPSNVITYTTE--EKEEKLFEKIKEILKRPERPTAI-VCYNDEIALRVIDLLKELGLKIPEDISVV 216 (273)
T ss_pred HHHcCCCCChHHEEecccc--chhhHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 887776422110 11111 1112344555555543 34554 34455566678999999998655444443
No 177
>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=97.28 E-value=0.093 Score=51.84 Aligned_cols=200 Identities=12% Similarity=0.028 Sum_probs=110.7
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
+||++.|.. ..+-.....+++.+.++ .|+.+. +.++..++..-.+....++.+++.+||- +..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~--------~g~~v~--~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKA--------LGYELI--STDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHH--------cCCEEE--EEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH
Confidence 589999864 22222344455555554 145443 4455556655555666677778876654 33333222
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh-cCCc--EEEEEEEc--CCCCcccHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWN--AVSVIFVD--NEYGRNGVSALN 185 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~-~~w~--~v~ii~~~--~~~g~~~~~~~~ 185 (640)
.....+...++|+|.+....+ +. .+.+..+.......++.++++|-+ .|-+ +++++..+ ...+....+.|+
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~---~~-~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 146 (282)
T cd06318 71 PAVAAAKAAGVPVVVVDSSIN---LE-AGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFL 146 (282)
T ss_pred HHHHHHHHCCCCEEEecCCCC---CC-cCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHH
Confidence 333455678999998754221 10 022344666777788888887755 6754 88888643 234556677888
Q ss_pred HHHhhcCeE------EEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCc
Q 006567 186 DKLAERRCR------ISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 186 ~~~~~~g~~------v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~ 249 (640)
+.+++.|+. .......... .+..+....+.++... .+++|+. .+...+..+++++++.|+.
T Consensus 147 ~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~ 215 (282)
T cd06318 147 LGVSEAQLRKYGKTNFTIVAQGYGD--WTREGGLKAMEDLLVAHPDINVVYS-ENDDMALGAMRVLAEAGKT 215 (282)
T ss_pred HHHhhCcccccccCCeEEEecCCCC--CCHHHHHHHHHHHHHhCCCcCEEEE-CCcchHHHHHHHHHHcCCC
Confidence 888887642 1111101111 1122333444454333 3454444 3445566788999999975
No 178
>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=97.27 E-value=0.038 Score=54.34 Aligned_cols=206 Identities=14% Similarity=0.078 Sum_probs=115.8
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCC-hH--H
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQC-ST--V 108 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~-s~--~ 108 (640)
||+++|.. ..+-.....+++.+.++ .|+.+.+ .++..++..-.+....+..+++.++|- |.. .. .
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 78999864 32323445555555555 2566543 344445555455666777778876653 222 11 1
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALND 186 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~~ 186 (640)
.......+...++|+|......+. ...++ .+.......+..+++.|...|.++++++.... .......+.|++
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 122233446679999987543321 01122 34567778888888988888999999886432 233445678888
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
.+++.|+.......+... .+.......++++...++++|+ +++...+..+++++++.|+.-++-+-+.
T Consensus 147 ~~~~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~di~ii 214 (273)
T cd06292 147 ALEEAGLEPPEALVARGM--FSVEGGQAAAVELLGSGPTAIV-AASDLMALGAIRAARRRGLRVPEDVSVV 214 (273)
T ss_pred HHHHcCCCCChhheEeCC--CCHHHHHHHHHHHhcCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 888887532111111111 1122334445555444466555 4445566678899999887544434333
No 179
>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=97.26 E-value=0.033 Score=54.36 Aligned_cols=198 Identities=11% Similarity=0.002 Sum_probs=114.3
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||+++|.. ..+-.....+++.+.++. |+.+.+. ++..++..-.+....+...++.++|-..+......
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~--------g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH--------GYKVVLL--QTNYDKEKELEYLELLKTKQVDGLILCSRENDWEV 70 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc--------CCEEEEE--eCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCHHH
Confidence 378899863 334345566776666652 5656543 44445554445556666777876664222212233
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CCCCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~--~~~g~~~~~~~~~~~~ 189 (640)
+..+.. .+ |++......+ ...+ .+.++....+..+++.|...|-++++++..+ +.......+.|++.++
T Consensus 71 ~~~~~~-~~-pvv~~~~~~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~ 141 (260)
T cd06286 71 IEPYTK-YG-PIVLCEEYDS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALE 141 (260)
T ss_pred HHHHhc-CC-CEEEEecccC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHHH
Confidence 444433 34 8886532211 1122 3566777788888898888899999999753 2344455778888898
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCC
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~ 252 (640)
+.|+.+.....+... .+..+-...++++.+. .+++|+ +++...+..+++++++.|+.-++
T Consensus 142 ~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~ip~ 203 (260)
T cd06286 142 EYGLTPDEEWIFEGC--FTIEDGERIGHQLLKMKDRPDAIF-TGSDEVAAGIITEAKKQGIRVPE 203 (260)
T ss_pred HcCCCCChHheEeCC--CCHHHHHHHHHHHHcCCCCCCEEE-EcchHHHHHHHHHHHHcCCCCCc
Confidence 888654211111111 1223334455555543 356444 55556677899999999875433
No 180
>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=97.22 E-value=0.11 Score=50.98 Aligned_cols=178 Identities=10% Similarity=0.043 Sum_probs=106.4
Q ss_pred CcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecC
Q 006567 68 GTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ 146 (640)
Q Consensus 68 g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p 146 (640)
|+++.+ .++..++..-.+....++.+++.+||= |..+.........+...+||+|.+....+ +...+....+.+
T Consensus 29 G~~~~~--~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~---~~~~~~~~~v~~ 103 (272)
T cd06313 29 GVDVTW--YGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIA---PLQINVHSFLAP 103 (272)
T ss_pred CCEEEE--ecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCC---CCCCceEEEECC
Confidence 555554 455557766667777788888876654 44433333333445567999998754322 111122344567
Q ss_pred CchHHHHHHHHHHHhc--CCcEEEEEEEcCC--CCcccHHHHHHHHhhcC-eEEEEeeccCCCCCCChhHHHHHHHHHhc
Q 006567 147 SDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVAL 221 (640)
Q Consensus 147 ~~~~~~~al~~ll~~~--~w~~v~ii~~~~~--~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~ 221 (640)
.....+..++++|... +.++++++..+.. ......+.|++.+++.+ +++... .... .+.......++++.+
T Consensus 104 d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~ 179 (272)
T cd06313 104 DNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPAN--WDVSKAARIWETWLT 179 (272)
T ss_pred CcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCC--CCHHHHHHHHHHHHH
Confidence 7888889999987766 8899999975432 23346778888888775 554321 1111 223334455556554
Q ss_pred CC--ceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 222 ME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 222 ~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
.+ +++|+ +.+...+..+++++++.|+ .+...++
T Consensus 180 ~~~~~~ai~-~~nd~~a~g~~~al~~~g~--~di~vvg 214 (272)
T cd06313 180 KYPQLDGAF-CHNDSMALAAYQIMKAAGR--TKIVIGG 214 (272)
T ss_pred hCCCCCEEE-ECCCcHHHHHHHHHHHcCC--CceEEEe
Confidence 33 44433 3445566678899999987 3444444
No 181
>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=97.21 E-value=0.049 Score=55.29 Aligned_cols=205 Identities=9% Similarity=0.018 Sum_probs=114.0
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChH
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~ 107 (640)
..-.||+++|.. ...-.....+++-+.++ .|+.+.+.. +..++..-.+....+..+++.++|- |....
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i~~--~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 128 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE--------AGYQLLIAC--SDDNPDQEKVVIENLLARQVDALIVASCMPP 128 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEEEEe--CCCCHHHHHHHHHHHHHcCCCEEEEeCCCCC
Confidence 356899999853 22222334444444433 256665443 3334544444455566777876653 33321
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALN 185 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~~~ 185 (640)
....+ ..+...++|+|......+ +..++ .+.+....-+..++++|...|.++++++..... ......+.|+
T Consensus 129 ~~~~~-~~l~~~~iPvV~~~~~~~---~~~~~---~V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 129 EDAYY-QKLQNEGLPVVALDRSLD---DEHFC---SVISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred ChHHH-HHHHhcCCCEEEEccccC---CCCCC---EEEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 22223 334567999997653322 11122 244566666777778888889999999974332 3345667888
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC---CceEEEEecChhhHHHHHHHHHHcCCccC-CeEEEE
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGN-GYVWIA 257 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivl~~~~~~~~~il~~a~~~gl~~~-~~~~i~ 257 (640)
+.+++.|+...... ... .+..+-...+.++.+. .+++|+.. +...+..+++++++.| .-+ +...++
T Consensus 202 ~al~~~~~~~~~~~--~~~--~~~~~~~~~~~~ll~~~~~~~~Ai~~~-~D~~A~g~~~al~~~g-~vP~dvsvig 271 (327)
T TIGR02417 202 QALKQATLEVEWVY--GGN--YSRESGYQMFAKLCARLGRLPQALFTT-SYTLLEGVLDYMLERP-LLDSQLHLAT 271 (327)
T ss_pred HHHHHcCCChHhEE--eCC--CChHHHHHHHHHHHhcCCCCCcEEEEc-CcHHHHHHHHHHHHcC-CCCCcceEEE
Confidence 89988886432111 111 1122333455555443 25665554 4455678899999988 544 334444
No 182
>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=97.20 E-value=0.033 Score=54.64 Aligned_cols=205 Identities=11% Similarity=0.089 Sum_probs=110.2
Q ss_pred EEEEEeecC------CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCC
Q 006567 33 NVGALFTLD------STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (640)
Q Consensus 33 ~IG~l~~~~------~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~ 105 (640)
.||+++|.. ..+-.....+++.+.++ .|+++.+. +... +..-.+...+++.. ++.+||-...
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 378899852 22223344555555554 25565543 3222 22333445555543 5776554222
Q ss_pred hHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHH
Q 006567 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSA 183 (640)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~ 183 (640)
... ......+...++|+|.+....+ . ...+..+.......++.+++.+...|.++++++..... ......+.
T Consensus 70 ~~~-~~~~~~~~~~~ipvV~~~~~~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g 143 (270)
T cd06294 70 RED-DPIIDYLKEEKFPFVVIGKPED---D--KENITYVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQG 143 (270)
T ss_pred cCC-cHHHHHHHhcCCCEEEECCCCC---C--CCCCCeEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHH
Confidence 111 2233445677999998753221 1 01122244566777788888887779999999974332 23345678
Q ss_pred HHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCC-eEEEE
Q 006567 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIA 257 (640)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~-~~~i~ 257 (640)
|++.+++.|+........... .+.......+.++.+.+ +++|+. .+...+..+++++++.|+..++ ...++
T Consensus 144 f~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv~vig 217 (270)
T cd06294 144 YKQALEDHGIPDRNEVIISLD--FSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDLSIIG 217 (270)
T ss_pred HHHHHHHcCCCCCcceEEecC--CchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 888898887532111111111 11233444555554443 555444 4556777889999999885433 33444
No 183
>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=97.20 E-value=0.11 Score=51.85 Aligned_cols=208 Identities=7% Similarity=-0.042 Sum_probs=112.8
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
+||++.|.. ..+-.....+++.+.++ .|+++.+. .++..++....+....++.+++.+||- +.......
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 478888753 22223345555555554 24555432 233345655556666677777886664 33333223
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc-CC-cEEEEEEEcCC--CCcccHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GW-NAVSVIFVDNE--YGRNGVSALND 186 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~-~w-~~v~ii~~~~~--~g~~~~~~~~~ 186 (640)
.....+...++|+|.+....+. .. .......+.....++.++++|.+. +- ++++++..+.. ......+.|++
T Consensus 72 ~~~~~~~~~~iPvV~v~~~~~~-~~---~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 72 PVLKKAREAGIKVVTHDSDVQP-DN---RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHHHCCCeEEEEcCCCCC-Cc---ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 3444556789999986532211 00 112334567777778888876665 43 69998875332 23345578888
Q ss_pred HHhhcCe-EEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 187 KLAERRC-RISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 187 ~~~~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
.+++.|. .+.....+... .+...-...++++.+. .+++|+. .+...+..+++++++.|+. .+...++
T Consensus 148 ~l~~~g~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~~~g~~-~dv~vvG 217 (298)
T cd06302 148 YQKEKYYPMLELVDRQYGD--DDADKSYQTAQELLKAYPDLKGIIG-PTSVGIPGAARAVEEAGLK-GKVAVTG 217 (298)
T ss_pred HHhhcCCCCeEEeCcccCC--CCHHHHHHHHHHHHHhCCCceEEEE-CCCcchhHHHHHHHhcCCC-CCEEEEE
Confidence 8888762 12211111111 1222333445554433 3444433 4456677889999999986 3444444
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=97.17 E-value=0.031 Score=54.58 Aligned_cols=197 Identities=15% Similarity=0.104 Sum_probs=108.4
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
.||++.|.. ..+-.....+++.+.++ .|+.+.+...+ +.. .....+..+++.+++-.........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~---~~~---~~~~~l~~~~vdgii~~~~~~~~~~ 66 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISK--------NGYNMNVSITP---SLA---EAEDLFKENRFDGVIIFGESASDVE 66 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHH--------cCCEEEEEecc---cHH---HHHHHHHHcCcCEEEEeCCCCChHH
Confidence 378999864 22223344555544443 25566555433 222 2233455667776653222222222
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHHHHHHHh
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~~~~~~~ 189 (640)
...+...++|+|......+ ..++ .+.......+..+++++...|.++++++..... ........+++.++
T Consensus 67 -~~~~~~~~ipvV~~~~~~~----~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 67 -YLYKIKLAIPVVSYGVDYD----LKYP---IVNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred -HHHHHHcCCCEEEEcccCC----CCCC---EEEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 2344568899997643322 1122 245567777888889888889999999974332 33344678888888
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeE
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~ 254 (640)
+.|+.+......... .+.......+.++.+.+ +++ |++++...+..+++++++.|+.-++-+
T Consensus 139 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp~dv 202 (261)
T cd06272 139 ENGISISDSHIDVDG--LSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIPEDI 202 (261)
T ss_pred HcCCCCCHHHeeeCC--CCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCCCce
Confidence 887533211111111 11233344555555443 444 444455567788899999987644333
No 185
>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=97.16 E-value=0.036 Score=55.30 Aligned_cols=185 Identities=12% Similarity=0.116 Sum_probs=104.5
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
+||++...+...-....+||+-++.+.. +.. ..+++.+.+...++......+.++..+++++|+-- ++..+..+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g----~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~-gt~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELG----YDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAI-GTPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT------C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEE-SHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcC----Ccc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEe-CcHHHHHH
Confidence 5788888765433455677776666542 222 45778888888999888887877777777777652 34445555
Q ss_pred HHhhccCCceEEecccCCCCCCC----CCC--CcEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCCC-CcccHHH
Q 006567 113 SYVSNELQVPLLSFGVTDPTLSS----LQY--PFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEY-GRNGVSA 183 (640)
Q Consensus 113 ~~~~~~~~iP~is~~~~~~~l~~----~~~--~~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~~~-g~~~~~~ 183 (640)
....... +|+|-.+..+|.... ... .++.-+. ........+++++++ +-++++++|++++- +....+.
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 999866555553222 122 2443333 333445566666654 57899999976543 3455678
Q ss_pred HHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh
Q 006567 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (640)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~ 233 (640)
+++.+++.|+++.... ++ +..++...+..+.. +.+++++..+.
T Consensus 152 ~~~~a~~~g~~l~~~~-v~-----~~~~~~~~~~~l~~-~~da~~~~~~~ 194 (294)
T PF04392_consen 152 LRKAAKKLGIELVEIP-VP-----SSEDLEQALEALAE-KVDALYLLPDN 194 (294)
T ss_dssp HHHHHHHTT-EEEEEE-ES-----SGGGHHHHHHHHCT-T-SEEEE-S-H
T ss_pred HHHHHHHcCCEEEEEe-cC-----cHhHHHHHHHHhhc-cCCEEEEECCc
Confidence 8888888898876432 22 25677788887754 57788776554
No 186
>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=97.15 E-value=0.057 Score=52.95 Aligned_cols=198 Identities=13% Similarity=0.053 Sum_probs=106.2
Q ss_pred EEEEEeecC----CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHH
Q 006567 33 NVGALFTLD----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~----~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~ 108 (640)
.||+++|.. ..+-.....+++-+.++ .|+++.+...|.. ...-......+.+.++.+|+.......
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 22223344455444443 2667766655533 222222233355668887775222221
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHHHHH
Q 006567 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALND 186 (640)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~~~~ 186 (640)
.....+...++|+|......+ +....+ +..+....++.+++++.+.|.++++++..... ......+.|.+
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 124445667999998643322 111222 34456666677778877789999999975433 23345678888
Q ss_pred HHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCCccC
Q 006567 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (640)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl~~~ 251 (640)
.+++.|+.+......... ..........++++. ..+++| ++++...+..+++++++.|+..+
T Consensus 143 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~-~~~~ai-~~~~d~~a~g~~~a~~~~g~~~p 204 (268)
T cd06277 143 ALLDHGIPFNEDYDITEK-EEDEEDIGKFIDELK-PLPTAF-FCSNDGVAFLLIKVLKEMGIRVP 204 (268)
T ss_pred HHHHcCCCCCcceEEEcc-hhHHHHHHHHHhcCC-CCCCEE-EECCcHHHHHHHHHHHHcCCCCC
Confidence 888887654321111100 011223333333322 235544 44445556778888888887533
No 187
>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=97.14 E-value=0.053 Score=52.97 Aligned_cols=199 Identities=11% Similarity=0.095 Sum_probs=112.0
Q ss_pred EEEEEeecCC-ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
.||+++|... ..-.....+++.+.++ .|+++.+. +...++..-......+..+++.++|= |......
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~--~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~- 69 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYR--------AGLRVILC--NTDEDPEKEAMYLELMEEERVTGVIFAPTRATLR- 69 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCch-
Confidence 3889998752 2223445666666555 25666543 33445544334445566666665543 3322211
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC-CCCcccHHHHHHHHh
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKLA 189 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~-~~g~~~~~~~~~~~~ 189 (640)
... ....++|+|......+ ...+++ +..+....+..+++.|...|-++++++.... .........+++.++
T Consensus 70 -~~~-~~~~~iPvV~~~~~~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~ 141 (263)
T cd06280 70 -RLA-ELRLSFPVVLIDRAGP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMR 141 (263)
T ss_pred -HHH-HHhcCCCEEEECCCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 122 2456899998654322 122333 3456777788888888888999999987532 223345678888888
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEE
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i 256 (640)
+.|+..... ..... .......++++... .+++| ++.+...+..+++.+++.|+..++-+.+
T Consensus 142 ~~~~~~~~~-~~~~~----~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~di~i 204 (263)
T cd06280 142 RHGLAPDAR-FVAPT----AEAAEAALAAWLAAPERPEAL-VASNGLLLLGALRAVRAAGLRIPQDLAL 204 (263)
T ss_pred HcCCCCChh-hcccC----HHHHHHHHHHHhcCCCCCcEE-EECCcHHHHHHHHHHHHcCCCCCCcEEE
Confidence 887654221 11111 23333344554433 34554 4455566778999999999765443333
No 188
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=97.14 E-value=0.068 Score=52.40 Aligned_cols=196 Identities=12% Similarity=0.009 Sum_probs=101.7
Q ss_pred EEEEEeecC----CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHH
Q 006567 33 NVGALFTLD----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~----~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~ 108 (640)
|||++.|.. ...-.....+++.+.++ . |+.+.+.. .. ++..-.+....+.+.+|.+||--... .
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~----~----gy~~~i~~--~~-~~~~~~~~i~~l~~~~vdgiI~~~~~-~ 68 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE----L----GIEYKYVE--SK-SDADYEPNLEQLADAGYDLIVGVGFL-L 68 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH----c----CCeEEEEe--cC-CHHHHHHHHHHHHhCCCCEEEEcCcc-h
Confidence 589999862 22222334444444444 2 55555442 22 33333344555667788887753222 1
Q ss_pred HHHHHHhhccC-CceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEcCCCCccc-HHHHH
Q 006567 109 AHIVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNG-VSALN 185 (640)
Q Consensus 109 ~~~v~~~~~~~-~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~-~~w~~v~ii~~~~~~g~~~-~~~~~ 185 (640)
........... ++|++......+.. +.+-++......-+..++.++.. .|.++++++..+....... .+.++
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 22344455554 89999764322110 11223333444444444556654 3889999997432211222 35788
Q ss_pred HHHhhcC---eEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcC
Q 006567 186 DKLAERR---CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (640)
Q Consensus 186 ~~~~~~g---~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g 247 (640)
+.+++.| ..+......... ..+..+-...++++.+.++++|+.. +...+..+++++++.|
T Consensus 144 ~~~~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ll~~~pdaI~~~-nd~~A~gv~~al~~~g 206 (265)
T cd06354 144 AGVKYVNPGVPDIEVLVQYAGS-FNDPAKGKEIAQAMYDQGADVIFAA-AGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHhccCCCceEEEEEcCc-ccCHHHHHHHHHHHHHCCCcEEEEC-CCCCchHHHHHHHhcC
Confidence 8888877 544322111111 0112233445566655567765444 5566668889999877
No 189
>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=97.10 E-value=0.072 Score=52.07 Aligned_cols=194 Identities=13% Similarity=0.035 Sum_probs=108.6
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~ 110 (640)
.||++.|.. ..+-.....+++.+.++ .|+++.+ .++..++..-.+....+...++.++|- +.... .
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~-~- 68 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYK--------KGYKLIL--CNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG-I- 68 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHH--------CCCeEEE--ecCCccHHHHHHHHHHHHHcCCCEEEEecCCcC-H-
Confidence 378888853 33323444555444444 2455543 344445544444455566667776653 33222 1
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC---CCCcccHHHHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSALNDK 187 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~---~~g~~~~~~~~~~ 187 (640)
..+...++|+|......+ ..++ .+.+.....++.++++|...|.++++++.... .......+.|++.
T Consensus 69 ---~~~~~~gipvv~~~~~~~----~~~~---~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~ 138 (265)
T cd06291 69 ---EEYENIDLPIVSFDRYLS----ENIP---IVSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDV 138 (265)
T ss_pred ---HHHhcCCCCEEEEeCCCC----CCCC---eEeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHH
Confidence 233567999998754432 1122 24556667778888888888999999986432 2344556788899
Q ss_pred HhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCC
Q 006567 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (640)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~ 252 (640)
+++.|+.+.... .... .+..+....+.++.+.. +++|+. ++...+..+++++++.|+.-++
T Consensus 139 l~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~al~~~g~~vp~ 201 (265)
T cd06291 139 LKENGLEVRIIE-IQEN--FDDAEKKEEIKELLEEYPDIDGIFA-SNDLTAILVLKEAQQRGIRVPE 201 (265)
T ss_pred HHHcCCCCChhe-eecc--ccchHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCc
Confidence 988876542211 1111 11222334455554433 454444 3445677888999998875333
No 190
>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=97.07 E-value=0.059 Score=52.95 Aligned_cols=200 Identities=9% Similarity=-0.018 Sum_probs=110.4
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHH-hHhcCcEEEEcCCChHHHHH
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALR-FMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~-l~~~~v~aiiGp~~s~~~~~ 111 (640)
||++.|.. ..+-.....+++.+.++ .|+.+.+...+. + ....+...+ +...+|.+|+--..... ..
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~--------~gy~~~~~~~~~--~-~~~~~~~~~~l~~~~vdgvi~~~~~~~-~~ 69 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLE--------QRYDLALFPLLS--L-ARLKRYLESTTLAYLTDGLLLASYDLT-ER 69 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHH--------CCCEEEEEeCCC--c-HHHHHHHHHHHHhcCCCEEEEecCccC-hH
Confidence 78899864 32323444555555554 256666654442 2 122233333 44556775554222212 23
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--C------CCcccHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--E------YGRNGVSA 183 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~------~g~~~~~~ 183 (640)
....+...++|+|......+ ..++ +.++....+..+++.|.+. .++++++.... . .+....+.
T Consensus 70 ~~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~g 140 (269)
T cd06297 70 LAERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRAG 140 (269)
T ss_pred HHHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHHH
Confidence 33445667999998754221 1222 3467777788888877766 79999886432 2 34455788
Q ss_pred HHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
|++.+++.|+.+.....+... .+..+....+.++.+.+ +++|+.. +...+..+++++++.|..-++-+-+.
T Consensus 141 f~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vP~di~vv 213 (269)
T cd06297 141 FQQALKDAGRPFSPDLLAITD--HSEEGGRLAMRHLLEKASPPLAVFAS-ADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHcCCCCChhhEEeCC--CChhhHHHHHHHHHcCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999998888754321111111 12333445566655433 4544444 44567788999999987655444443
No 191
>PRK09526 lacI lac repressor; Reviewed
Probab=97.06 E-value=0.13 Score=52.54 Aligned_cols=201 Identities=11% Similarity=0.069 Sum_probs=111.7
Q ss_pred eEEEEEEeecCC-ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc--CCChH
Q 006567 31 VVNVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG--PQCST 107 (640)
Q Consensus 31 ~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG--p~~s~ 107 (640)
+-.||+++|... ..-.....+++.+.++ .|+.+.+...+.. ++..-.+....+..++++++|- |..+.
T Consensus 63 ~~~Igvv~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~i~~~~~~-~~~~~~~~l~~l~~~~vdGiii~~~~~~~ 133 (342)
T PRK09526 63 SLTIGLATTSLALHAPSQIAAAIKSRADQ--------LGYSVVISMVERS-GVEACQAAVNELLAQRVSGVIINVPLEDA 133 (342)
T ss_pred CceEEEEeCCCCcccHHHHHHHHHHHHHH--------CCCEEEEEeCCCC-hHHHHHHHHHHHHhcCCCEEEEecCCCcc
Confidence 457999998632 2222344555554443 2566665433321 2223234455666777876663 43332
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~ 185 (640)
....+. ....++|+|..... + +... -.+.+.....+..++++|...|.++++++.... .......+.|+
T Consensus 134 ~~~~~~--~~~~~iPvV~~d~~-~---~~~~---~~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf~ 204 (342)
T PRK09526 134 DAEKIV--ADCADVPCLFLDVS-P---QSPV---NSVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAGWL 204 (342)
T ss_pred hHHHHH--hhcCCCCEEEEecc-C---CCCC---CEEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHHHH
Confidence 222221 12358999976431 1 1111 234556677778888888888999999997432 22334567888
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeE
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~ 254 (640)
+.+++.|+.+..... .. .+..+-...+.++... .+++|+ +++...+..+++++++.|+.-++-+
T Consensus 205 ~al~~~gi~~~~~~~--~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vP~di 270 (342)
T PRK09526 205 EYLTDYQLQPIAVRE--GD--WSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLRVPGQI 270 (342)
T ss_pred HHHHHcCCCcceEEe--CC--CchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCce
Confidence 999888875432111 11 1122223344555433 355544 4455667789999999998654433
No 192
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.04 E-value=0.068 Score=54.67 Aligned_cols=204 Identities=11% Similarity=0.054 Sum_probs=109.5
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHH
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~ 108 (640)
.+-.||+++|.- ..+-.....+++.+.++ .|+.+ .+.++..++..-.+....++.+++.++|--.....
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~--------~g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~ 127 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYH--------TGNFL--LIGNGYHNEQKERQAIEQLIRHRCAALVVHAKMIP 127 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHH--------cCCEE--EEEeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 356799999852 22222334444444443 14444 33344445544444555666777776664221111
Q ss_pred HHHHHHhhccCCce-EEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHH
Q 006567 109 AHIVSYVSNELQVP-LLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (640)
Q Consensus 109 ~~~v~~~~~~~~iP-~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~ 185 (640)
...+..+.. ++| +|......+ +...++ +.+....-+..+++.|...|.+++++|.... .......+.|+
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 122333333 677 665432211 111122 4556666677778888888999999997433 23345677889
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCccCCeE
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~~~~~~ 254 (640)
+.+++.|+.+......... .+...-...++++.+.+ +++|+ +.+...+..+++++++.|+.-++-+
T Consensus 200 ~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~G~~vP~di 267 (343)
T PRK10727 200 DALAESGIPANDRLVTFGE--PDESGGEQAMTELLGRGRNFTAVA-CYNDSMAAGAMGVLNDNGIDVPGEI 267 (343)
T ss_pred HHHHHCCCCCChhhEEeCC--CChhHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcce
Confidence 9999888754221111111 11222233455554433 45554 4455667789999999998644433
No 193
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=96.99 E-value=0.093 Score=51.23 Aligned_cols=199 Identities=10% Similarity=-0.029 Sum_probs=104.1
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
|||+++|... ....+...+..++++.-+.. |+.+.+ .++. ++....+....+...++.+||-.... ....+
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~~----gy~~~~--~~~~-~~~~~~~~~~~l~~~~vdgiii~~~~-~~~~~ 71 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKEL----GVEVKY--VESV-EDADYEPNLRQLAAQGYDLIFGVGFG-FMDAV 71 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHhc----CceEEE--EecC-CHHHHHHHHHHHHHcCCCEEEECCcc-hhHHH
Confidence 6899998521 11234444444454443332 455444 3333 44444445555666678866542222 12334
Q ss_pred HHhhcc-CCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhc-CCcEEEEEEEcC-CCCcccHHHHHHHHh
Q 006567 113 SYVSNE-LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GWNAVSVIFVDN-EYGRNGVSALNDKLA 189 (640)
Q Consensus 113 ~~~~~~-~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~-~w~~v~ii~~~~-~~g~~~~~~~~~~~~ 189 (640)
...... .++|++......+. +.. +-.+......-++.++.++... |-++++++..+. .......+.|.+.++
T Consensus 72 ~~~~~~~~~ipvv~~~~~~~~--~~~---~~~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~ 146 (260)
T cd06304 72 EKVAKEYPDVKFAIIDGVVDA--PPN---VASYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAK 146 (260)
T ss_pred HHHHHHCCCCEEEEecCccCC--CCC---eeeeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHH
Confidence 344443 37898876432211 011 1123334444445555566554 889999997532 223344668888888
Q ss_pred hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcC
Q 006567 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (640)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g 247 (640)
+.|............ ..+...-...++++.+.++++| ++.+...+..+++++++.|
T Consensus 147 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 147 SVNPDITVLVIYTGS-FFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HhCCCcEEEEEEecC-ccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 887643322111111 0112233445666655567765 5555566777889999887
No 194
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.95 E-value=0.056 Score=52.92 Aligned_cols=203 Identities=12% Similarity=0.057 Sum_probs=111.0
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
+||++.|.+..+-.+...+++-+.++. + |+.+-+. .. +. .+....+...+|.++|-...+.. .
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 489999965444344455555555542 2 4554432 21 11 23334455567887774322221 2
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC-CCcccHHHHHHHHhhc
Q 006567 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALNDKLAER 191 (640)
Q Consensus 113 ~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~-~g~~~~~~~~~~~~~~ 191 (640)
...+...++|+|.+....+. +.+-.+.......+..+++++...|.++++++..... ......+.+++.+++.
T Consensus 64 ~~~l~~~~~PvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~ 137 (265)
T cd01543 64 AEALQKLGIPVVDVSGSREK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPGARWSDEREEAFRQLVAEA 137 (265)
T ss_pred HHHHhhCCCCEEEEeCccCC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCCCHHHHHHHHHHHHHHHHc
Confidence 23445679999987543221 1223456777788888888888889999998864322 2234456888889888
Q ss_pred CeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccC-CeEEEEeC
Q 006567 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGN-GYVWIATD 259 (640)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~-~~~~i~~~ 259 (640)
|+.+............+..+....++++.+. .+++ |++++...+..+++++++.|+.-+ +...++-+
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 8765211111000001112233445555433 3454 444455667778889998887533 34444433
No 195
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.93 E-value=0.086 Score=52.20 Aligned_cols=194 Identities=14% Similarity=0.083 Sum_probs=108.3
Q ss_pred EEEEeecC------CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChH
Q 006567 34 VGALFTLD------STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST 107 (640)
Q Consensus 34 IG~l~~~~------~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~ 107 (640)
||+++|.. ...-.....+++.+.++ .|+++.+...+. . .+....+...++.+++--....
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~~~~~~~---~---~~~~~~~~~~~~dgiii~~~~~ 67 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDA--------AGVNLLLLPASS---E---DSDSALVVSALVDGFIVYGVPR 67 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHH--------CCCEEEEecCcc---H---HHHHHHHHhcCCCEEEEeCCCC
Confidence 78999862 22223344455444444 256665543322 1 1233445566787777532222
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC-------------
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN------------- 174 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~------------- 174 (640)
.. .....+...++|+|......+ +..-.+.......+..++++|...|-++++++..+.
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 233445678999998643321 112235667778888889998888999999996432
Q ss_pred ------CCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHc
Q 006567 175 ------EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYL 246 (640)
Q Consensus 175 ------~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~ 246 (640)
.......+.+++.+++.|+.......+... ..+.......++++...+ +++|+ +++...+..+++++++.
T Consensus 140 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~gv~~al~~~ 217 (283)
T cd06279 140 LASATFSVARERLEGYLEALEEAGIDISDVPIWEIP-ENDRASGEEAARELLDASPRPTAIL-CMSDVLALGALQVAREL 217 (283)
T ss_pred ccccccccHHHHHHHHHHHHHHcCCCCChheEEecC-CCchHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHc
Confidence 112344677888888877543211111111 012234455566665443 44433 44556667889999999
Q ss_pred CCccC
Q 006567 247 GMMGN 251 (640)
Q Consensus 247 gl~~~ 251 (640)
|+..+
T Consensus 218 g~~ip 222 (283)
T cd06279 218 GLRVP 222 (283)
T ss_pred CCCCC
Confidence 88544
No 196
>PRK09492 treR trehalose repressor; Provisional
Probab=96.87 E-value=0.16 Score=51.13 Aligned_cols=191 Identities=13% Similarity=0.017 Sum_probs=109.1
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCC-ChH
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQ-CST 107 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~-~s~ 107 (640)
..-.||+++|.. ...-.....++. +.+++. |+.+ .+.++..++....+....+..++|.++|-.. ...
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 345799999853 222223333333 344432 4554 3445555655544555556666888777522 222
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc-C--CCCcccHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-N--EYGRNGVSAL 184 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~-~--~~g~~~~~~~ 184 (640)
.. ......++|++......+ .+-.+.++...-+..++++|...|.++++++... . ..+....+.|
T Consensus 131 ~~----~~l~~~~~pvv~i~~~~~--------~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf 198 (315)
T PRK09492 131 TE----EMLAPWQDKLVLLARDAK--------GFSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAY 198 (315)
T ss_pred cH----HHHHhcCCCEEEEeccCC--------CCcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHH
Confidence 22 222344667776532111 1223455666677778888888899999999632 1 2345667889
Q ss_pred HHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCC
Q 006567 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 185 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl 248 (640)
++.+++.|+.+... ... .+...-...++++.+.++++|+... ...+..+++++++.|+
T Consensus 199 ~~al~~~g~~~~~~--~~~---~~~~~~~~~~~~~l~~~~~ai~~~~-D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 199 LAFCKQHKLTPVAA--LGG---LSMQSGYELVAKVLTPETTALVCAT-DTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHHcCCCceee--cCC---CCchHHHHHHHHHhhcCCCEEEEcC-cHHHHHHHHHHHHcCC
Confidence 99999998765321 111 1122223345555445677776554 4666788999999987
No 197
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.79 E-value=0.22 Score=50.63 Aligned_cols=206 Identities=8% Similarity=0.006 Sum_probs=113.1
Q ss_pred eEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHH
Q 006567 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (640)
Q Consensus 31 ~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~ 109 (640)
+-.||+++|.- ..+-.....+++.+.++ .|+++.+ .+...++..-......+..+++.++|-.......
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~~ 132 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDA--------HGYQTML--AHYGYKPEMEQERLESMLSWNIDGLILTERTHTP 132 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHH--------CCCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCCH
Confidence 45799999853 22222344455544443 2565544 3344444443344555666778776642221112
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC-CCCcccHHHHHHHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKL 188 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~-~~g~~~~~~~~~~~ 188 (640)
.....+...++|+|....... +. .. ..+.+....-+..++++|...|.++++++.... .........|++.+
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 223345667999997532111 11 11 135567777778888888888999999996432 22234567888899
Q ss_pred hhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
++.|+.... ..+... .+...-...++++.+. .+++|+. ++...+.-+++++++.|+.-++-+-+.
T Consensus 206 ~~~g~~~~~-~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nD~~A~g~~~al~~~g~~vP~disvi 272 (331)
T PRK14987 206 LDAGLVPYS-VMVEQS--SSYSSGIELIRQARREYPQLDGVFC-TNDDLAVGAAFECQRLGLKVPDDMAIA 272 (331)
T ss_pred HHcCCCccc-eeecCC--CChhhHHHHHHHHHhcCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCccEEE
Confidence 888863111 111111 1112223345555443 3565554 455667778899999998755444433
No 198
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.78 E-value=0.21 Score=51.13 Aligned_cols=204 Identities=8% Similarity=-0.045 Sum_probs=109.3
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHH
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~ 108 (640)
.+-.||+++|.. ..+-.....+++.+.++. |+.+- +.++..++..-......+..+++.++|-......
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 345799999863 222233445555544442 44443 3344444444344455556667776553211111
Q ss_pred HHHHHHhhccCCce-EEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--CCCcccHHHHH
Q 006567 109 AHIVSYVSNELQVP-LLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (640)
Q Consensus 109 ~~~v~~~~~~~~iP-~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~--~~g~~~~~~~~ 185 (640)
...+..+.. ++| ++......+. ..++ .+......-+..++++|...|-+++++|.... .......+.|+
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 122333333 355 6654332211 1122 24456666677777888888999999996433 23455678899
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeE
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~ 254 (640)
+.+++.|+.+......... .+...-...++++.+. .+++|+. .+...+..+++++++.|+.-++-+
T Consensus 200 ~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~A~g~~~al~~~G~~vP~di 267 (346)
T PRK10401 200 SALKEQGIIPPESWIGTGT--PDMQGGEAAMVELLGRNLQLTAVFA-YNDNMAAGALTALKDNGIAIPLHL 267 (346)
T ss_pred HHHHHcCCCCChhheecCC--CChHHHHHHHHHHHcCCCCCcEEEE-CCcHHHHHHHHHHHHcCCCCCCce
Confidence 9999888753221111111 1122223445555433 3565554 455666789999999998654433
No 199
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.54 E-value=0.33 Score=48.68 Aligned_cols=207 Identities=10% Similarity=0.001 Sum_probs=113.1
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChH
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~ 107 (640)
.+-.||++.|.. ..+-.....+++.+.++. |+.+.+ .+...+...-.+....+...++++||- +....
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 446899999963 333344556666666552 455543 334444444444555566677776663 22211
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC--CCcccHHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALN 185 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~--~g~~~~~~~~ 185 (640)
. ..... ......|++......+. ..++ .+.......+..++++|.+.|-++++++..... ......+.|+
T Consensus 104 ~-~~~~~-~~~~~~pvv~~~~~~~~---~~~~---~V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~ 175 (309)
T PRK11041 104 F-DASKE-EQRNLPPMVMANEFAPE---LELP---TVHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYV 175 (309)
T ss_pred h-HHHHH-HHhcCCCEEEEccccCC---CCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHH
Confidence 1 11111 12223467754332221 1122 245567777788888888889999999974322 2334577888
Q ss_pred HHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCccCCeEEEE
Q 006567 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (640)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~~~~~~~i~ 257 (640)
+.+++.|+.+.....+... .+.......+.++.+. .+++|+. ++...+..+++++++.|+.-++-+.+.
T Consensus 176 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vv 246 (309)
T PRK11041 176 QALRRCGITVDPQYIARGD--FTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSII 246 (309)
T ss_pred HHHHHcCCCCCHHHeEeCC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 8898888754321111111 1233344556666543 3566664 455556678888999887544334443
No 200
>PF00060 Lig_chan: Ligand-gated ion channel; InterPro: IPR001320 The ability of synapses to modify their synaptic strength in response to activity is a fundamental property of the nervous system and may be an essential component of learning and memory. There are three classes of ionotropic glutamate receptor, namely NMDA (N-methyl-D-aspartate), AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazole-4-propionic acid) and kainate receptors. They are believed to play critical roles in synaptic plasticity. At many synapses in the brain, transient activation of NMDA receptors leads to a persistent modification in the strength of synaptic transmission mediated by AMPA receptors and kainate receptors can act as the induction trigger for long-term changes in synaptic transmission [].; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 3FAT_A 3KFM_A 3KEI_A 3EN3_A 3EPE_B 3FAS_A 2F34_A 3C34_B 3S2V_A 3GBB_B ....
Probab=96.51 E-value=0.00092 Score=59.06 Aligned_cols=51 Identities=22% Similarity=0.462 Sum_probs=34.2
Q ss_pred chhHHHHHHHHHHHHHHHHHhhhcccCCCCCC-------CccccchhhhHhHhhhhhh
Q 006567 586 SPLMWTVTACFFVVVGIVVWILEHRINDEFRG-------PPKRQVITILWFSLSTLFF 636 (640)
Q Consensus 586 ~~~vw~~i~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~w~~~~~~~~ 636 (640)
+++||++++++++++++++|+++|..+.+++. +...++.+++|+++++++-
T Consensus 1 s~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 58 (148)
T PF00060_consen 1 SWSVWLLILLSILLVSLVLWLFERFSPYEWRKNQSSPPRRWRFSLSNSFWYTFGTLLQ 58 (148)
T ss_dssp -HHHHHHHHHHHHHHHTTGGGT------------------HHHHHHHHHHHCCCCCHH
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccccccCcccHHHHHHHHHHhhcc
Confidence 57999999999999999999999988887765 2334588999999988774
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=96.46 E-value=0.62 Score=46.60 Aligned_cols=171 Identities=8% Similarity=-0.023 Sum_probs=96.0
Q ss_pred CcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecC
Q 006567 68 GTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ 146 (640)
Q Consensus 68 g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p 146 (640)
|+++. +.++..++..-.+....++.++|.+|+- |............+...++|+|.+....+ . ......+..
T Consensus 28 g~~v~--~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~~~---~--~~~~~~V~~ 100 (302)
T TIGR02634 28 GAKVF--VQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRLIN---D--ADIDFYLSF 100 (302)
T ss_pred CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCcCC---C--CCccEEEec
Confidence 45554 4455566665556666777777775554 33333333444556678999998643321 1 112234556
Q ss_pred CchHHHHHHHHHHHhcCCc-EEEEEEEcCC--CCcccHHHHHHHHhhc----CeEEEEeeccCCCCCCChhHHHHHHHHH
Q 006567 147 SDSYQMTAVAEMVSYYGWN-AVSVIFVDNE--YGRNGVSALNDKLAER----RCRISYKSGIPPESGVNTGYVMDLLVKV 219 (640)
Q Consensus 147 ~~~~~~~al~~ll~~~~w~-~v~ii~~~~~--~g~~~~~~~~~~~~~~----g~~v~~~~~~~~~~~~~~~~~~~~l~~l 219 (640)
+....++.++++|...+-+ +++++..+.. ......+.+++.+++. ++.+....... . ....+....++++
T Consensus 101 d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~~~~~~l 177 (302)
T TIGR02634 101 DNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVLQPAIDSGDIKIVGDQWVD-G--WLPENALRIMENA 177 (302)
T ss_pred CHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHHhhhccCCCeEEecCcCCC-C--CCHHHHHHHHHHH
Confidence 7788888889987776655 6877764322 2223345667777653 34432211111 1 1233344556665
Q ss_pred hcC---CceEEEEecChhhHHHHHHHHHHcCCc
Q 006567 220 ALM---ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 220 ~~~---~~~vivl~~~~~~~~~il~~a~~~gl~ 249 (640)
... .+++|+. ++...+.-+++++++.|+.
T Consensus 178 l~~~~~~~~aI~~-~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 178 LTANDNKVDAVVA-SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred HHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 432 3555444 4445566788999998874
No 202
>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=96.35 E-value=0.0099 Score=57.89 Aligned_cols=92 Identities=13% Similarity=0.086 Sum_probs=66.5
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEee
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~ 543 (640)
.++|+|++. +.++| ..+.+...++.+.+++++|.+ +++... .+|+.++..+.+|++|+++.+
T Consensus 31 ~~~l~vg~~--~~~~~--------~~~~~~~~~l~~~l~~~~g~~--v~~~~~------~~~~~~~~~l~~g~~Di~~~~ 92 (254)
T TIGR01098 31 PKELNFGIL--PGENA--------SNLTRRWEPLADYLEKKLGIK--VQLFVA------TDYSAVIEAMRFGRVDIAWFG 92 (254)
T ss_pred CCceEEEEC--CCCCH--------HHHHHHHHHHHHHHHHHhCCc--EEEEeC------CCHHHHHHHHHcCCccEEEEC
Confidence 357999997 33433 234455678999999999988 454442 469999999999999999866
Q ss_pred eeeec---cccceEEeCcccccc------ceEEEEecCC
Q 006567 544 ITIVT---NRTKIVDFSQPYAAS------GLVVVVPFRK 573 (640)
Q Consensus 544 ~~~t~---~R~~~vdfs~p~~~~------~~~il~~~~~ 573 (640)
..... +|.+..+|+.|+... ...+++++..
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~ 131 (254)
T TIGR01098 93 PSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADS 131 (254)
T ss_pred cHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCC
Confidence 54433 577778899886643 2577777755
No 203
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=96.34 E-value=0.61 Score=46.84 Aligned_cols=191 Identities=12% Similarity=0.009 Sum_probs=105.7
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChH
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~ 107 (640)
.+-.||+++|.- ...-.....++.-+.++ .|+.+-+ .++..++....+....+...++.++|- |....
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i--~~~~~~~~~~~~~~~~l~~~~vdGvIi~~~~~~ 127 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGMLPVFYT--------AGYDPII--MESQFSPQLTNEHLSVLQKRNVDGVILFGFTGC 127 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHHHHHHHH--------CCCeEEE--ecCCCChHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 345799999852 22212223333333332 2555443 344445544333444455667776663 32211
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc-C--CCCcccHHHH
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-N--EYGRNGVSAL 184 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~-~--~~g~~~~~~~ 184 (640)
... .....++|++......+ .. -.+.+....-+..++++|...|.++++++... . ..+....+.|
T Consensus 128 ~~~----~l~~~~~p~V~i~~~~~-----~~---~~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf 195 (311)
T TIGR02405 128 DEE----ILESWNHKAVVIARDTG-----GF---SSVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAY 195 (311)
T ss_pred CHH----HHHhcCCCEEEEecCCC-----Cc---cEEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHH
Confidence 111 22345778886543211 11 23456777777888888888899999999632 2 2345567889
Q ss_pred HHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCC
Q 006567 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 185 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl 248 (640)
++.+++.|+.... .... .+..+....++++...++++|+ +++...+..+++++++.|+
T Consensus 196 ~~a~~~~gi~~~~---~~~~--~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 196 LAYCESANLEPIY---QTGQ--LSHESGYVLTDKVLKPETTALV-CATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHcCCCcee---eeCC--CCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHHHHHHHHHcCC
Confidence 9999999875321 1111 1122333445554444566654 5556677788999999886
No 204
>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=96.22 E-value=0.38 Score=47.14 Aligned_cols=193 Identities=8% Similarity=0.009 Sum_probs=102.5
Q ss_pred EEEEEeecCCc--cchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEE-cCCChHHH
Q 006567 33 NVGALFTLDST--IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVA 109 (640)
Q Consensus 33 ~IG~l~~~~~~--~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aii-Gp~~s~~~ 109 (640)
+||++.+.+.. .+......+..++++.-++. |+.+.+...+ .+. ....+++.++| .+..+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~----g~~~~~~~~~--~~~--------~~~~~~vdgii~~~~~~~-- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQEL----GIELTKFFRD--DDL--------LEILEDVDGIIAIGKFSQ-- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHc----CCEEEEEecc--chh--------HHhccCcCEEEEecCCCH--
Confidence 58999985421 22223333333444433332 5666554332 111 12345566554 222222
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCC-------CCcccHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-------YGRNGVS 182 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~-------~g~~~~~ 182 (640)
.....+...++|+|...... .+..++ .+.......+..+++.+.+.|.++++++..... ......+
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 22334455689999864321 122223 355677777888888888889999999975432 2344567
Q ss_pred HHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC----CceEEEEecChhhHHHHHHHHHHcCCccCC
Q 006567 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM----ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (640)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~----~~~vivl~~~~~~~~~il~~a~~~gl~~~~ 252 (640)
.+++.+++.|.. .....+... .+.......++++.+. .+++ |++++...+..+++++++.|+.-++
T Consensus 138 gf~~~~~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~ 207 (270)
T cd01544 138 AFREYMKEKGLY-DPELIYIGD--FTVESGYQLMKEALKSLGDNLPTA-FFIASDPMAIGALRALQEAGIKVPE 207 (270)
T ss_pred HHHHHHHHcCCC-ChheEeeCC--CCHHHHHHHHHHHHhccCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCC
Confidence 788888887731 100011101 1122223344444332 2454 4445666778889999999986443
No 205
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=95.94 E-value=2 Score=42.80 Aligned_cols=198 Identities=7% Similarity=-0.019 Sum_probs=97.2
Q ss_pred EEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEc-CCChHHHHH
Q 006567 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHI 111 (640)
Q Consensus 34 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiG-p~~s~~~~~ 111 (640)
||++.|.. ..+-.....+++.+.++. |+..-+...+...++..-.+....++++++.+|+- |..+.....
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~i~~~~~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~ 72 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKEL--------GSVYIIYTGPTGTTAEGQIEVVNSLIAQKVDAIAISANDPDALVP 72 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHh--------CCeeEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHH
Confidence 57777753 222223445555555543 32111112234456655556677777777776554 443333333
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecC-CchHHHHHHHHHH-Hhc-CCcEEEEEEEcCCC--CcccHHHHHH
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ-SDSYQMTAVAEMV-SYY-GWNAVSVIFVDNEY--GRNGVSALND 186 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p-~~~~~~~al~~ll-~~~-~w~~v~ii~~~~~~--g~~~~~~~~~ 186 (640)
....+...+||+|.+....+. + .....+.. .....++..++.+ +++ +-.+++++..+... .....+.+++
T Consensus 73 ~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~~ 147 (302)
T TIGR02637 73 ALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMKK 147 (302)
T ss_pred HHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHHH
Confidence 444566689999986533211 1 12233333 2333344444443 332 22689888754321 1123466667
Q ss_pred HHhhcC---eEEEEeeccCCCCCCChhHHHHHHHHHhcCC--ceEEEEecChhhHHHHHHHHHHcCCc
Q 006567 187 KLAERR---CRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 187 ~~~~~g---~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~vivl~~~~~~~~~il~~a~~~gl~ 249 (640)
.+++.| +++.... ... .+...-...++++.+.+ +++|+. .....+..+++++++.|+.
T Consensus 148 ~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~L~~~~~~~ai~~-~~d~~a~ga~~al~~~g~~ 210 (302)
T TIGR02637 148 ELKDPKYPKVKLVATV--YGD--DDAQKSYQEAQGLLKSYPNLKGIIA-PTTVGIKAAAQAVSDAKLI 210 (302)
T ss_pred HHhhccCCCCEEEeee--cCC--chHHHHHHHHHHHHHhCCCccEEEe-CCCchHHHHHHHHHhcCCC
Confidence 666543 3332111 111 12333444555555444 444444 3455566778888888864
No 206
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=95.80 E-value=2.2 Score=42.03 Aligned_cols=204 Identities=10% Similarity=0.034 Sum_probs=101.8
Q ss_pred EEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCC-hH-HH
Q 006567 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQC-ST-VA 109 (640)
Q Consensus 33 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~-s~-~~ 109 (640)
+||++.|.. ..+-.....+++.+.++. |+.+- +.++..++..-.+....+..+++.+||-... .. ..
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~--------gy~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI--------GWNLR--ILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc--------CcEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 588888863 222223344444444432 44443 3445555555455566666777776664322 22 12
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCC-cEEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCC-CCcccHHHHH
Q 006567 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYP-FFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE-YGRNGVSALN 185 (640)
Q Consensus 110 ~~v~~~~~~~~iP~is~~~~~~~l~~~~~~-~~~r~~p~~~~~~~al~~ll~~~--~w~~v~ii~~~~~-~g~~~~~~~~ 185 (640)
..+ ..+...++|+|........ .....+ .+-.+.......++.++++|... |-++++++..... ......++++
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 223 3345679999986432111 110011 13445677777778888887766 8899998863321 1110123444
Q ss_pred HHHhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcC---CceEEEEecChhhHHHHHHHHHHcCCccC
Q 006567 186 DKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (640)
Q Consensus 186 ~~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vivl~~~~~~~~~il~~a~~~gl~~~ 251 (640)
..++.. +..+......... .........++++.+. .+++ |++++...+.-+++.+++.|+..+
T Consensus 150 ~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~a-i~~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 150 EIIEACKGCTVLSIEDVPIS--RTATRMPALTARLLQRYGDKWTH-SLAINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHHhCCCCEEEEecccCcc--hhhhhhHHHHHHHHHhcCcccce-ecccchhhhHHhHHHHHHhcccCC
Confidence 444332 2332111111111 1111111344444432 2454 445555667788899999987643
No 207
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=95.73 E-value=0.61 Score=45.40 Aligned_cols=196 Identities=13% Similarity=0.025 Sum_probs=99.2
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
|||++++-. .....+-.+...+++++.+.. |.++. +.+...++........+++++++.+|++.. .....++
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~~----gv~~~--~~e~~~~~~~~~~~i~~~~~~g~dlIi~~g-~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKAL----GVEVT--YVENVPEGADAERVLRELAAQGYDLIFGTS-FGFMDAA 72 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHhc----CCeEE--EEecCCchHhHHHHHHHHHHcCCCEEEECc-hhhhHHH
Confidence 578888743 111233444444555554432 44444 344444566667778888888999999833 3334444
Q ss_pred HHhhccC-CceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC-CCCcccHHHHHHHHhh
Q 006567 113 SYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKLAE 190 (640)
Q Consensus 113 ~~~~~~~-~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~-~~g~~~~~~~~~~~~~ 190 (640)
..++..+ ++.++......+ - ++...+.++... ...++-.++.++.+ -.+|++|...+ +........|.+-++.
T Consensus 73 ~~vA~~~p~~~F~~~d~~~~-~-~Nv~~~~~~~~e-~~ylaG~~Aa~~t~--t~kVG~I~g~~~~~~~~~~~gF~~G~~~ 147 (258)
T cd06353 73 LKVAKEYPDVKFEHCSGYKT-A-PNVGSYFARIYE-GRYLAGVVAGKMTK--TNKVGYVAAFPIPEVVRGINAFALGARS 147 (258)
T ss_pred HHHHHHCCCCEEEECCCCCC-C-CCeeeEechhhH-HHHHHHHHHHHhhc--CCcEEEEcCcccHHHHHHHHHHHHHHHH
Confidence 5555443 444444322111 0 111122233221 12333444444443 35899886432 2222334556555543
Q ss_pred c--CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcC
Q 006567 191 R--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (640)
Q Consensus 191 ~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g 247 (640)
. ++++.... .... .+...-......+.+.++|+|+-.+ ....++++|++.|
T Consensus 148 ~~p~~~v~~~~-~g~~--~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~~~aa~~~g 200 (258)
T cd06353 148 VNPDATVKVIW-TGSW--FDPAKEKEAALALIDQGADVIYQHT---DSPGVIQAAEEKG 200 (258)
T ss_pred HCCCcEEEEEE-ecCC--CCcHHHHHHHHHHHHCCCcEEEecC---CChHHHHHHHHhC
Confidence 3 34443221 1111 1233345666677788999877776 2245788888865
No 208
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=94.83 E-value=3.8 Score=41.60 Aligned_cols=206 Identities=14% Similarity=-0.014 Sum_probs=96.7
Q ss_pred CCeeEEEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEcc--CCCChHHHHHHHHHhHhcCcEEEEc
Q 006567 28 RPAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQS--SNCSGFIGMVEALRFMETDIVAIIG 102 (640)
Q Consensus 28 ~~~~i~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D--~~~~~~~a~~~a~~l~~~~v~aiiG 102 (640)
.....+++++.+-. ..+.+....+.+.+-++. |.+++....+ ...+.....+...++.+++..+|++
T Consensus 32 ~~~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~a~~g~~lI~~ 103 (345)
T COG1744 32 AGKKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKEL--------GLKVETYYWEYVQSDSEADYERALRALAEDGYDLIFG 103 (345)
T ss_pred cccceEEEEEecCCCCccchhHHHHHHHHHHHHHh--------CCceEeeeeeecCCcchhHHHHHHHHHHhcCCCEEEE
Confidence 33455555555542 223344455555444443 3344443222 2223445555666677788888887
Q ss_pred CCChHHHHHHHHhhccC-CceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEE-cCCCCccc
Q 006567 103 PQCSTVAHIVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFV-DNEYGRNG 180 (640)
Q Consensus 103 p~~s~~~~~v~~~~~~~-~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~-~~~~g~~~ 180 (640)
..... ..++..++.++ ++.++-..+....-. +...+.||..-.....+.+-+.+.+. .++..+.. +-+--...
T Consensus 104 ~gf~~-~d~~~~va~~~Pd~~F~iid~~~~~~~-Nv~s~~f~~~egayL~G~~AA~~sk~---~~vG~vgg~~~p~v~~f 178 (345)
T COG1744 104 TGFAF-SDALEKVAAEYPDVKFVIIDGVVKKED-NVASYVFREYEGAYLAGVAAAKMSKS---GKVGFVGGMDIPEVNRF 178 (345)
T ss_pred eccch-hhHHHHHHHHCCCCEEEEecCccCCCC-ceEEEEeccccHHHHHHHHHHHhhcC---CceeEEecccchhhHHH
Confidence 55443 33344444444 444443222111110 22345566653333322332333332 34555542 33333344
Q ss_pred HHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCC
Q 006567 181 VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 181 ~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl 248 (640)
...|..-++..+-.+.....+-... .+...-......+.+.++|+|+-.+.+..... +.+|++.|.
T Consensus 179 ~~gF~~Gak~~np~i~v~v~~~gsf-~D~~k~k~~a~~li~~GaDVI~~~ag~~~~gv-~~~A~~~~~ 244 (345)
T COG1744 179 INGFLAGAKSVNPDIKVKVVYVGSF-SDPAKGKEAANALIDQGADVIYPAAGGTGVGV-FQAAKELGA 244 (345)
T ss_pred HHHHHHHHHhhCCCccEEEEEecCc-cChHHHHHHHHHHHhcCCCEEEecCCCCcchH-HHHHHHhCC
Confidence 5566655554432222222111111 22333455788888999999998876554433 336777663
No 209
>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=94.42 E-value=0.42 Score=45.59 Aligned_cols=91 Identities=9% Similarity=0.088 Sum_probs=71.6
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCC-----CCChhHHHHHHHHHhcCCceE
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-----GVNTGYVMDLLVKVALMESRV 226 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~-----~~~~~~~~~~l~~l~~~~~~v 226 (640)
+.|+.+.++++|.+|++++. +|-.+.-+.+.+.+++.|++|.....+.... ..+...+.+.++++...++|+
T Consensus 108 ~~A~~~AL~alg~~RIalvT---PY~~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDA 184 (239)
T TIGR02990 108 SSAAVDGLAALGVRRISLLT---PYTPETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADA 184 (239)
T ss_pred HHHHHHHHHHcCCCEEEEEC---CCcHHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCE
Confidence 58999999999999999996 4666688899999999999987654444321 124556666777776788999
Q ss_pred EEEecChhhHHHHHHHHHH
Q 006567 227 IVLHVSPSLGFQVFSVAKY 245 (640)
Q Consensus 227 ivl~~~~~~~~~il~~a~~ 245 (640)
|++.|..=....++.++++
T Consensus 185 ifisCTnLrt~~vi~~lE~ 203 (239)
T TIGR02990 185 LFLSCTALRAATCAQRIEQ 203 (239)
T ss_pred EEEeCCCchhHHHHHHHHH
Confidence 9999998888888888864
No 210
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=94.38 E-value=0.045 Score=54.17 Aligned_cols=51 Identities=16% Similarity=0.173 Sum_probs=45.9
Q ss_pred CCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCcc--ccccceEEEEecCC
Q 006567 523 PSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQP--YAASGLVVVVPFRK 573 (640)
Q Consensus 523 ~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p--~~~~~~~il~~~~~ 573 (640)
.+|.+++..|.+|++|+++++..++.+|.+.++|+.| |....+.+++++..
T Consensus 51 ~~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~ 103 (287)
T PRK00489 51 LRPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDS 103 (287)
T ss_pred ECcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCC
Confidence 4599999999999999999999999999999999987 77788888888765
No 211
>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=94.29 E-value=4.1 Score=39.87 Aligned_cols=154 Identities=11% Similarity=0.025 Sum_probs=86.7
Q ss_pred HhcCcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEE
Q 006567 93 METDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFV 172 (640)
Q Consensus 93 ~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~ 172 (640)
...+|.++|-.........+. .+...++|+|........ ...+++ +.......+..+++.|...|.+++++|..
T Consensus 53 ~~~~vdgiIi~~~~~~~~~~~-~l~~~~iPvV~i~~~~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~~ 126 (269)
T cd06287 53 DALDIDGAILVEPMADDPQVA-RLRQRGIPVVSIGRPPGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIVG 126 (269)
T ss_pred hccCcCeEEEecCCCCCHHHH-HHHHcCCCEEEeCCCCCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEeC
Confidence 345777655321111112233 344569999986432210 111222 34566666788888888889999999964
Q ss_pred cC--CCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCC
Q 006567 173 DN--EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 173 ~~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl 248 (640)
.. .........|++.+++.|+..... ..... .+..+-...++++.+. .+++|+ +++...+..+++++++.|+
T Consensus 127 ~~~~~~~~~R~~gf~~a~~~~g~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~gvl~al~~~gl 202 (269)
T cd06287 127 SARRNSYLEAEAAYRAFAAEHGMPPVVL-RVDEA--GGEEAGYAACAQLLAQHPDLDALC-VPVDAFAVGAVRAATELGR 202 (269)
T ss_pred CcccccHHHHHHHHHHHHHHcCCCccee-EecCC--CChHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCC
Confidence 32 233445678888888888653211 11111 1223333455555443 355554 4456677789999999998
Q ss_pred ccCCeEEE
Q 006567 249 MGNGYVWI 256 (640)
Q Consensus 249 ~~~~~~~i 256 (640)
.-+.-+-+
T Consensus 203 ~vP~dvsv 210 (269)
T cd06287 203 AVPDQLRV 210 (269)
T ss_pred CCCCceEE
Confidence 75543433
No 212
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=94.28 E-value=5.4 Score=38.76 Aligned_cols=207 Identities=11% Similarity=0.087 Sum_probs=110.7
Q ss_pred cCCCeeEEEEEEeecC--CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcE-EEEc
Q 006567 26 SARPAVVNVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIV-AIIG 102 (640)
Q Consensus 26 ~~~~~~i~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~-aiiG 102 (640)
+...++..||+..|.- +++- .-+.++.-+.+.+ |.+.. +.+-..+...-.....+++++|+. .||+
T Consensus 20 aa~~~d~~IGis~~d~~~eRW~-~D~~~~~~~~e~~--------g~k~~--~q~A~~~~~~Q~~qien~i~qg~~vlvi~ 88 (341)
T COG4213 20 AAAAKDGVIGISMPDLRSERWI-KDRDAFVKKAEAL--------GAKVD--VQSADGDEEKQLAQIENMINQGVKVLVIG 88 (341)
T ss_pred hhhccCCeEEEEcCChhHhhhh-hhhHHHHHHHHhc--------cchhh--hhhhccChhHHHHHHHHHHhcCCCEEEEE
Confidence 4455678999999874 3331 2345555555543 33322 333445555556778889999886 5668
Q ss_pred CCChHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEe--cCCchHHHHHHHHHHHhcC---CcEEEEEE-E-cCC
Q 006567 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRT--TQSDSYQMTAVAEMVSYYG---WNAVSVIF-V-DNE 175 (640)
Q Consensus 103 p~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~--~p~~~~~~~al~~ll~~~~---w~~v~ii~-~-~~~ 175 (640)
|..+.....+...+...+||+|++ +....+..+.+...+ .--...|++++.+-++... =..+.++- + +|.
T Consensus 89 a~d~~~l~~~i~~A~~~gikViaY---DRlI~n~dvd~YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~Dn 165 (341)
T COG4213 89 AIDGGVLSNAVEKAKSEGIKVIAY---DRLINNADVDFYVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDN 165 (341)
T ss_pred eccchhHHHHHHHHHHcCCeEEEe---ecccccCCccEEEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCc
Confidence 999998888889999999999986 333333333332222 1233455666665555432 22333443 2 222
Q ss_pred ---CCccc-HHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhc---CCceEEEEecChhhHHHHHHHHHHcCC
Q 006567 176 ---YGRNG-VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL---MESRVIVLHVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 176 ---~g~~~-~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~---~~~~vivl~~~~~~~~~il~~a~~~gl 248 (640)
+...+ ...++..+..-.+.+......+.- ....-...+..+.. .+.+.|+-.-+ ..+.-++.+++..|+
T Consensus 166 NA~lf~~G~m~VLkp~idsGkik~~Ge~~~d~W---~ps~Aq~~men~lta~~~~vdaVvA~nD-gtagGaI~aL~a~Gl 241 (341)
T COG4213 166 NAKLFFAGAMKVLKPLIDSGKIKVVGEQWTDGW---LPSNAQQIMENLLTANYNDIDAVVAPND-GTAGGAIAALKAQGL 241 (341)
T ss_pred chHHHHhcHHHHHHHHhhCCceEEeeecccccc---CHHHHHHHHHHHHhcccCceeEEEcCCC-chhHHHHHHHHhccc
Confidence 11122 223333333333555444433321 12223333333332 34555554444 445567788888888
Q ss_pred cc
Q 006567 249 MG 250 (640)
Q Consensus 249 ~~ 250 (640)
.+
T Consensus 242 ~g 243 (341)
T COG4213 242 AG 243 (341)
T ss_pred CC
Confidence 63
No 213
>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=92.62 E-value=8 Score=37.19 Aligned_cols=144 Identities=7% Similarity=-0.018 Sum_probs=82.1
Q ss_pred HHHhHhcCcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh--cCCcE
Q 006567 89 ALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWNA 166 (640)
Q Consensus 89 a~~l~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~--~~w~~ 166 (640)
..+.++.+|.++|=-............+...++|++......+. ...++ .........+..+++.+.+ .|.++
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 33344556665553111111121344555578999976532211 11222 2445667777888888777 89999
Q ss_pred EEEEEEcC-CCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHH
Q 006567 167 VSVIFVDN-EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKY 245 (640)
Q Consensus 167 v~ii~~~~-~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~ 245 (640)
+++|.... ..+....+.+++.+++.|+.... .. . ... ... ...+ .|++.+...+.-+++++++
T Consensus 120 Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~---~~-~----~~~------~~~-~~~~-ai~~~~d~~A~g~~~~l~~ 183 (247)
T cd06276 120 LILVFPNKTAIPKEIKRGFERFCKDYNIETEI---IN-D----YEN------REI-EKGD-LYIILSDTDLVFLIKKARE 183 (247)
T ss_pred EEEEecCccHhHHHHHHHHHHHHHHcCCCccc---cc-c----cch------hhc-cCCc-EEEEeCHHHHHHHHHHHHH
Confidence 99997533 34455677888899888875431 11 1 000 000 1234 4555566777789999999
Q ss_pred cCCccCCe
Q 006567 246 LGMMGNGY 253 (640)
Q Consensus 246 ~gl~~~~~ 253 (640)
.|+.-++-
T Consensus 184 ~g~~iP~d 191 (247)
T cd06276 184 SGLLLGKD 191 (247)
T ss_pred cCCcCCce
Confidence 99865543
No 214
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=92.28 E-value=9.6 Score=38.43 Aligned_cols=145 Identities=9% Similarity=0.044 Sum_probs=80.2
Q ss_pred cCcEEEEc-CCChHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc
Q 006567 95 TDIVAIIG-PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD 173 (640)
Q Consensus 95 ~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~ 173 (640)
++|+++|- |..+. .....+...++|+|......+ ...++ .+.......+..++++|...|.++++++...
T Consensus 113 ~~vDgiI~~~~~~~---~~~~~l~~~~~pvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~ 183 (327)
T PRK10339 113 KNVTGILIVGKPTP---ALRAAASALTDNICFIDFHEP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGE 183 (327)
T ss_pred ccCCEEEEeCCCCH---HHHHHHHhcCCCEEEEeCCCC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCc
Confidence 46665553 22222 223444566899987643221 11222 2555667777888888888899999999643
Q ss_pred C--CCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHHHHHHcCCc
Q 006567 174 N--EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 174 ~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~~a~~~gl~ 249 (640)
. .........+.+.++..|+ +.....+... .+..+....++++.+. .+++ |++++...+..+++++++.|+.
T Consensus 184 ~~~~~~~~R~~gf~~~~~~~g~-~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~D~~A~g~~~al~~~g~~ 259 (327)
T PRK10339 184 DEPGKADIREVAFAEYGRLKQV-VREEDIWRGG--FSSSSGYELAKQMLAREDYPKA-LFVASDSIAIGVLRAIHERGLN 259 (327)
T ss_pred cccchhhHHHHHHHHHHHHcCC-CChhheeecC--cChhHHHHHHHHHHhCCCCCCE-EEECCcHHHHHHHHHHHHcCCC
Confidence 2 2333445677777777775 1110111111 1122333445555443 3454 4444556677899999999976
Q ss_pred cCC
Q 006567 250 GNG 252 (640)
Q Consensus 250 ~~~ 252 (640)
-++
T Consensus 260 vP~ 262 (327)
T PRK10339 260 IPQ 262 (327)
T ss_pred CCC
Confidence 443
No 215
>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=90.80 E-value=3.5 Score=40.11 Aligned_cols=86 Identities=15% Similarity=0.036 Sum_probs=66.2
Q ss_pred EEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHHH
Q 006567 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (640)
Q Consensus 33 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~v 112 (640)
+||.+.+.....-.....||...++..| |+.++...+..+-.|+..+.+.+..++++|+.+|++.... ..+
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~------p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~~~---~g~ 192 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVN------PDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHTDS---PGV 192 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHC------CCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecCCC---hHH
Confidence 7999988765444566789999998888 5667777776677799999999999999999988886522 345
Q ss_pred HHhhccCCceEEecc
Q 006567 113 SYVSNELQVPLLSFG 127 (640)
Q Consensus 113 ~~~~~~~~iP~is~~ 127 (640)
...+.+.++..|.+.
T Consensus 193 ~~aa~~~g~~~IG~d 207 (258)
T cd06353 193 IQAAEEKGVYAIGYV 207 (258)
T ss_pred HHHHHHhCCEEEeec
Confidence 566667889999764
No 216
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=90.36 E-value=17 Score=34.75 Aligned_cols=207 Identities=10% Similarity=0.049 Sum_probs=111.1
Q ss_pred eEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCC--CChHHHHHHHHHhHhc-CcEEEEcC-CCh
Q 006567 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN--CSGFIGMVEALRFMET-DIVAIIGP-QCS 106 (640)
Q Consensus 31 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~--~~~~~a~~~a~~l~~~-~v~aiiGp-~~s 106 (640)
..+||++.+-.+ .+....+|++..+++--.. .|.-+++-+. ..-.........|..+ .+-|||-. .-+
T Consensus 2 ~~kIGivTgtvS-q~ed~~r~Ae~l~~~Yg~~-------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vp 73 (275)
T PF12683_consen 2 DYKIGIVTGTVS-QSEDEYRGAEELIKKYGDV-------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVP 73 (275)
T ss_dssp -EEEEEEE--TT-T-HHHHHHHHHHHHHHHHH-------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS-
T ss_pred ceEEEEEeCCcc-cChHHHHHHHHHHHHhCcc-------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCc
Confidence 579999988643 2345566777666654322 5666666333 3455666667666666 66666642 223
Q ss_pred HHHHHHHHhh-ccCCceEEecccC-CCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCccc----
Q 006567 107 TVAHIVSYVS-NELQVPLLSFGVT-DPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG---- 180 (640)
Q Consensus 107 ~~~~~v~~~~-~~~~iP~is~~~~-~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~---- 180 (640)
+.+.++..+= .+-+|..|+-... +|..-...-. +-+.+.....+..++...+++|-+++.-+.....-+...
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 4444444432 3557878763222 1111111112 444577788899999999999999998886544433333
Q ss_pred HHHHHHHHhhcCeEEEEeeccCCCCCCChhH-----HHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcC
Q 006567 181 VSALNDKLAERRCRISYKSGIPPESGVNTGY-----VMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (640)
Q Consensus 181 ~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~-----~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g 247 (640)
.+.+++.+++.|++.+....-.|........ ....-+.+++.+.++-+.+++......+++++.+.|
T Consensus 152 r~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g 223 (275)
T PF12683_consen 152 RDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYG 223 (275)
T ss_dssp HHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcC
Confidence 3456677788999988766544442111111 123334555679999999999999999999998876
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=88.96 E-value=1.4 Score=39.05 Aligned_cols=93 Identities=11% Similarity=0.121 Sum_probs=59.2
Q ss_pred HHHHHhcCCcEEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHH-HHhcCCceEEEEecC
Q 006567 156 AEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLV-KVALMESRVIVLHVS 232 (640)
Q Consensus 156 ~~ll~~~~w~~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~-~l~~~~~~vivl~~~ 232 (640)
+++|.+.|.++++++... ..+.....+.|++.+++.|+........... ...+...... .+++..+++|+. ++
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~pdaii~-~~ 76 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDD---DSEDAREAQLLWLRRLRPDAIIC-SN 76 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESS---SHHHHHHHHHHHHHTCSSSEEEE-SS
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCC---cchhHHHHHHHHHhcCCCcEEEE-cC
Confidence 467888899999999832 3344556778899999999876543332222 2333332222 233335665554 67
Q ss_pred hhhHHHHHHHHHHcCCccCC
Q 006567 233 PSLGFQVFSVAKYLGMMGNG 252 (640)
Q Consensus 233 ~~~~~~il~~a~~~gl~~~~ 252 (640)
...+..+++++++.|+.-++
T Consensus 77 ~~~a~~~~~~l~~~g~~vP~ 96 (160)
T PF13377_consen 77 DRLALGVLRALRELGIRVPQ 96 (160)
T ss_dssp HHHHHHHHHHHHHTTSCTTT
T ss_pred HHHHHHHHHHHHHcCCcccc
Confidence 77888999999999986443
No 218
>TIGR00035 asp_race aspartate racemase.
Probab=88.61 E-value=5.1 Score=38.11 Aligned_cols=44 Identities=14% Similarity=0.144 Sum_probs=25.3
Q ss_pred ChHHHHHHHHH-hHhcCcEEEEcCCChHHHHHHHHhhccCCceEEe
Q 006567 81 SGFIGMVEALR-FMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLS 125 (640)
Q Consensus 81 ~~~~a~~~a~~-l~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is 125 (640)
++...+..+.+ |.+.|+.+|+=|-++.... +..+-+..++|+|+
T Consensus 59 ~~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~ 103 (229)
T TIGR00035 59 RPRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLIS 103 (229)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEec
Confidence 34444444444 4345898888655554332 44555566888886
No 219
>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=88.54 E-value=1.2 Score=44.30 Aligned_cols=67 Identities=13% Similarity=0.124 Sum_probs=45.7
Q ss_pred HHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeee---eeeccccceEEe--------Cccccccc
Q 006567 496 DVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI---TIVTNRTKIVDF--------SQPYAASG 564 (640)
Q Consensus 496 dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~---~~t~~R~~~vdf--------s~p~~~~~ 564 (640)
.+.+.+++++|.+ +++... .+|..++..+.+|++|+++.+. ....+|.+...| +.||.
T Consensus 48 ~l~~~l~~~~g~~--v~~~~~------~~~~~~~~al~~g~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~--- 116 (288)
T TIGR03431 48 PLADYLSKKLGVK--VKLFFA------TDYAGVIEGMRFGKVDIAWYGPSSYAEAYQKANAEAFAIEVNADGSTGYY--- 116 (288)
T ss_pred HHHHHHHHHhCCc--EEEEeC------CCHHHHHHHHHcCCccEEEEChHHHHHHHHhcCCeEEEEeccCCCCCceE---
Confidence 3678999999988 554432 5699999999999999998653 222366665444 44443
Q ss_pred eEEEEecCC
Q 006567 565 LVVVVPFRK 573 (640)
Q Consensus 565 ~~il~~~~~ 573 (640)
..+++++..
T Consensus 117 ~~lvv~~ds 125 (288)
T TIGR03431 117 SVLIVKKDS 125 (288)
T ss_pred EEEEEeCCC
Confidence 466666654
No 220
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=87.35 E-value=23 Score=32.38 Aligned_cols=90 Identities=18% Similarity=0.122 Sum_probs=64.4
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCC-----CChhHHHHHHHHHhcCCceEE
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESG-----VNTGYVMDLLVKVALMESRVI 227 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-----~~~~~~~~~l~~l~~~~~~vi 227 (640)
.|+++-|+.++.+++.++. +|-.+.-+...+.++.+|+.|..........+ .+....-+..+++...++|.|
T Consensus 107 ~Avv~aL~al~a~ri~vlT---PY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Dai 183 (238)
T COG3473 107 TAVVEALNALGAQRISVLT---PYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAI 183 (238)
T ss_pred HHHHHHHHhhCcceEEEec---cchhhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeE
Confidence 6788889999999999997 45555677778888999999876554333211 123344456677777899999
Q ss_pred EEecChhhHHHHHHHHHH
Q 006567 228 VLHVSPSLGFQVFSVAKY 245 (640)
Q Consensus 228 vl~~~~~~~~~il~~a~~ 245 (640)
++.|..-....++....+
T Consensus 184 FiSCTnlRt~eii~~lE~ 201 (238)
T COG3473 184 FISCTNLRTFEIIEKLER 201 (238)
T ss_pred EEEeeccccHHHHHHHHH
Confidence 999887777777766654
No 221
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=87.26 E-value=6.6 Score=40.09 Aligned_cols=92 Identities=11% Similarity=-0.020 Sum_probs=71.0
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe-
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH- 230 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~- 230 (640)
.+.+.+.++.++++++.|+.+..-.....++.+.+.+++.|+.+..-..+.++ .+.+....-+..+++.++|.||-+
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~--P~~~~v~~~~~~~~~~~~D~iIalG 94 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPE--PTIETVEAGAEVAREFGPDTIIALG 94 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 36677788889999999998766555667899999999999777655556665 667888889999999999999987
Q ss_pred -cChhhHHHHHHHHHH
Q 006567 231 -VSPSLGFQVFSVAKY 245 (640)
Q Consensus 231 -~~~~~~~~il~~a~~ 245 (640)
++.-|+...+.....
T Consensus 95 GGS~~D~AK~i~~~~~ 110 (377)
T COG1454 95 GGSVIDAAKAIALLAE 110 (377)
T ss_pred CccHHHHHHHHHHHhh
Confidence 455566655554444
No 222
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=86.98 E-value=6.1 Score=40.93 Aligned_cols=88 Identities=16% Similarity=0.110 Sum_probs=63.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe--
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-- 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-- 230 (640)
..+.+.++.+|.+++.++++.........+.+.+.+++.|+.+..-..+.++ .+.++.....+..++.++|.||-.
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~n--p~~~~v~~~~~~~~~~~~D~IiaiGG 97 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPN--PTTENVAAGLKLLKENNCDSVISLGG 97 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 5577788999999999887543333446788999999888876543344444 567788899999999999999965
Q ss_pred cChhhHHHHHHH
Q 006567 231 VSPSLGFQVFSV 242 (640)
Q Consensus 231 ~~~~~~~~il~~ 242 (640)
++.-|+...+..
T Consensus 98 GS~iD~AK~ia~ 109 (383)
T PRK09860 98 GSPHDCAKGIAL 109 (383)
T ss_pred chHHHHHHHHHH
Confidence 355555555443
No 223
>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=86.94 E-value=35 Score=34.06 Aligned_cols=200 Identities=12% Similarity=0.014 Sum_probs=99.7
Q ss_pred EEEEEEeecC---CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCC-ChHHHHHHHHHhHhcCcEEEEcCCChH
Q 006567 32 VNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC-SGFIGMVEALRFMETDIVAIIGPQCST 107 (640)
Q Consensus 32 i~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~-~~~~a~~~a~~l~~~~v~aiiGp~~s~ 107 (640)
.++++++|-. ..+......|++.+.++. ++.++ ...+... ++........++.+++...|++....
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~-------~~i~~--~~~e~~~~~~~~~~~~~~~~~~~g~dlIi~~g~~- 71 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKEL-------DGIEI--IYVENVPETDADYEEAIRQLADQGYDLIIGHGFE- 71 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHC-------TTEEE--EEEES-S-TCHHHHHHHHHHHHTT-SEEEEESGG-
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHc-------CCceE--EEEecCCccHHHHHHHHHHHHHcCCCEEEEccHH-
Confidence 4677777764 233334455555555542 24444 4444433 34555666777778888888884433
Q ss_pred HHHHHHHhhccC-CceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEE---E-cCCCCcccHH
Q 006567 108 VAHIVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIF---V-DNEYGRNGVS 182 (640)
Q Consensus 108 ~~~~v~~~~~~~-~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~---~-~~~~g~~~~~ 182 (640)
...++..++..+ ++-++...+....-.++...+.||..- ...++-.++.++.+- .++.++. . +.+.-.....
T Consensus 72 ~~~~~~~vA~~yPd~~F~~~d~~~~~~~~Nv~~~~f~~~e-~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~~~~~~ 148 (306)
T PF02608_consen 72 YSDALQEVAKEYPDTKFIIIDGYIDAPEPNVISITFREEE-ASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPVNRFIN 148 (306)
T ss_dssp GHHHHHHHHTC-TTSEEEEESS---ST-TTEEEEEE-HHH-HHHHHHHHHHHHHSS--TEEEEEEEEES--SCTTHHHHH
T ss_pred HHHHHHHHHHHCCCCEEEEEecCcCCCCCcEEEEEccccc-hhHHHHHHHHHHhcc--CcccccccccCCCcHhHHHHHH
Confidence 344556666655 555554333222110111123333332 233344444555443 4777776 3 3333334555
Q ss_pred HHHHHHhhc--CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHHHcCC
Q 006567 183 ALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 183 ~~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~gl 248 (640)
.|..-++.. ++++.....-.. .+...-....+.+...++|+|.-.+.. ....++++|++.|.
T Consensus 149 gF~~Ga~~~np~i~v~~~~~gs~---~D~~~~~~~a~~li~~GaDvI~~~ag~-~~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 149 GFIAGAKYVNPDIKVNVSYTGSF---NDPAKAKEAAEALIDQGADVIFPVAGG-SGQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHHHHTTTT-EEEEEE-SSS---S-HHHHHHHHHHHHHTT-SEEEEE-CC-CHHHHHHHHHHHTH
T ss_pred HHHHHHHHhCcCceEEEEEcCCc---CchHHHHHHHHHHhhcCCeEEEECCCC-CchHHHHHHHHcCC
Confidence 666666544 344443322111 234455666677778999999986553 34557888888764
No 224
>cd08192 Fe-ADH7 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. NAD-dependent iron-containing alcohol dehydrogenase-like. Proteins in this family are NAD-dependent alcohol dehydrogenases which are involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. They catalyze the oxidation of beta-hydroxy CoA ester to beta-oxo CoA ester, which then be subject to CoA-dependent thiolysis to yield acetyl-CoA and 6-C8-SPC-CoA. The major laundry surfactant in worldwide use is commercial linear alkylbenzenesulfonate (LAS) which contains 20 congeners of linear alkanes (C10 to C13). LAS is fully biodegradable in oxic environments. Degradation involves microbial communities. Parvibaculum lavamentivorans DS-1T is a representative member of many heterotrophic, LAS-degrading communities, in which it catalyzes the first steps of LAS degradation. Strain DS-1T is a small heterotrophic bacterium able to omega-oxygenate the comm
Probab=85.37 E-value=8.6 Score=39.69 Aligned_cols=89 Identities=9% Similarity=-0.032 Sum_probs=63.8
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe--
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-- 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-- 230 (640)
+.+.++++.++.+++.++++.........+.+.+.+++.|+++..-..+.++ .+.+.....+...++.++|.||-.
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 90 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPN--PTEAAVEAGLAAYRAGGCDGVIAFGG 90 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5567788888999998887544333346788999999888876543334444 567788899999999999999865
Q ss_pred cChhhHHHHHHHH
Q 006567 231 VSPSLGFQVFSVA 243 (640)
Q Consensus 231 ~~~~~~~~il~~a 243 (640)
++.-|+..++...
T Consensus 91 GSviD~aK~ia~~ 103 (370)
T cd08192 91 GSALDLAKAVALM 103 (370)
T ss_pred chHHHHHHHHHHH
Confidence 4555666555443
No 225
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=84.86 E-value=8.4 Score=40.08 Aligned_cols=87 Identities=9% Similarity=-0.049 Sum_probs=61.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV- 231 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~- 231 (640)
+.+.+.++.+|.+++.++.+..-......+.+.+.+++.|+.+..-..+.++ .......+.++..++.++|.||-.+
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--P~~~~v~~~~~~~r~~~~D~IiavGG 115 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGE--PCITDVCAAVAQLRESGCDGVIAFGG 115 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 5567788889988888776443333456788999999999876544334444 5567788999999999999999874
Q ss_pred -ChhhHHHHHH
Q 006567 232 -SPSLGFQVFS 241 (640)
Q Consensus 232 -~~~~~~~il~ 241 (640)
+.-|+...+.
T Consensus 116 GS~iD~AKaia 126 (395)
T PRK15454 116 GSVLDAAKAVA 126 (395)
T ss_pred hHHHHHHHHHH
Confidence 3344444443
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=84.13 E-value=11 Score=39.08 Aligned_cols=90 Identities=12% Similarity=0.053 Sum_probs=63.7
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe-
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH- 230 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~- 230 (640)
.+.+.+.++.++-+++.++++.........+.+.+.+++.|+.+..-..+.++ .+.+.....++.+++.++|.||-.
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 91 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPD--PTIENVEAGLALYRENGCDAILAVG 91 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35567778888889998887544333345788899998888876543344444 557778899999999999999965
Q ss_pred -cChhhHHHHHHHH
Q 006567 231 -VSPSLGFQVFSVA 243 (640)
Q Consensus 231 -~~~~~~~~il~~a 243 (640)
++.-|+..++...
T Consensus 92 GGS~~D~aK~ia~~ 105 (374)
T cd08189 92 GGSVIDCAKAIAAR 105 (374)
T ss_pred CccHHHHHHHHHHH
Confidence 4555666555443
No 227
>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=84.13 E-value=9.3 Score=39.53 Aligned_cols=88 Identities=10% Similarity=0.031 Sum_probs=62.8
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe--
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-- 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-- 230 (640)
+.+.++++.++.+++.++++.........+.+.+.+++.|+.+..-..+.++ .+.+.....++.+++.++|.||-.
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 92 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEAD--PPEAVVEAAVEAARAAGADGVIGFGG 92 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5567778888889998887554333346788989998888876543334444 567788899999999999999877
Q ss_pred cChhhHHHHHHH
Q 006567 231 VSPSLGFQVFSV 242 (640)
Q Consensus 231 ~~~~~~~~il~~ 242 (640)
++.-|+..++..
T Consensus 93 Gs~iD~aK~ia~ 104 (376)
T cd08193 93 GSSMDVAKLVAV 104 (376)
T ss_pred chHHHHHHHHHH
Confidence 444555555544
No 228
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=83.78 E-value=9.8 Score=39.91 Aligned_cols=88 Identities=13% Similarity=-0.039 Sum_probs=62.5
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
.+.+.++++.++.+++.++++.........+.+.+.+++.|+.+..-..+.++ .+.+.....++..++.++|.||-.+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 88 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVE--PTDESFKDAIAFAKKGQFDAFVAVG 88 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35567788889999999888655444445788899998888876543334444 4577788888999999999998774
Q ss_pred --ChhhHHHHHH
Q 006567 232 --SPSLGFQVFS 241 (640)
Q Consensus 232 --~~~~~~~il~ 241 (640)
+.-|+...+.
T Consensus 89 GGSviD~AKaia 100 (414)
T cd08190 89 GGSVIDTAKAAN 100 (414)
T ss_pred CccHHHHHHHHH
Confidence 4445554443
No 229
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=83.35 E-value=11 Score=39.09 Aligned_cols=88 Identities=13% Similarity=0.110 Sum_probs=61.9
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
.+.+.+.++.++.+++.++++....-....+.+.+.+++.|+.+..-..+.++ .+.+.....++.+++.++|.||-.+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 95 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPN--PTIEVVKEGVEVFKASGADYLIAIG 95 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35677788889999998887544333346788999999888876543334433 4567788888999999999988653
Q ss_pred --ChhhHHHHHH
Q 006567 232 --SPSLGFQVFS 241 (640)
Q Consensus 232 --~~~~~~~il~ 241 (640)
+.-|+..++.
T Consensus 96 GGS~iD~aK~ia 107 (382)
T PRK10624 96 GGSPQDTCKAIG 107 (382)
T ss_pred ChHHHHHHHHHH
Confidence 4455554443
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=83.30 E-value=11 Score=38.95 Aligned_cols=90 Identities=10% Similarity=0.035 Sum_probs=63.8
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe-
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH- 230 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~- 230 (640)
.+.+.++++.++.+++.++++.........+.+.+.+++.|+++..-..+..+ .+.++....++.+++.++|.||-.
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IiaiG 88 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPN--PTLSNVDAAVAAYREEGCDGVIAVG 88 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35677778888889999888654433356778899998888776533334444 567788999999999999998866
Q ss_pred -cChhhHHHHHHHH
Q 006567 231 -VSPSLGFQVFSVA 243 (640)
Q Consensus 231 -~~~~~~~~il~~a 243 (640)
++.-|+..++...
T Consensus 89 GGs~~D~AK~va~~ 102 (370)
T cd08551 89 GGSVLDTAKAIALL 102 (370)
T ss_pred CchHHHHHHHHHHH
Confidence 3455666555443
No 231
>PRK10200 putative racemase; Provisional
Probab=83.14 E-value=14 Score=35.10 Aligned_cols=44 Identities=11% Similarity=0.002 Sum_probs=28.5
Q ss_pred ChHHHHHHHHHhHh-cCcEEEEcCCChHHHHHHHHhhccCCceEEe
Q 006567 81 SGFIGMVEALRFME-TDIVAIIGPQCSTVAHIVSYVSNELQVPLLS 125 (640)
Q Consensus 81 ~~~~a~~~a~~l~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is 125 (640)
+|.......++.+. .|+.+|+=|-++..+. ...+-+..++|+|+
T Consensus 59 ~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~ 103 (230)
T PRK10200 59 KTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLH 103 (230)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEee
Confidence 56666655555554 4898888765555444 45556667888886
No 232
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=82.74 E-value=12 Score=38.56 Aligned_cols=87 Identities=13% Similarity=0.011 Sum_probs=62.4
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV- 231 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~- 231 (640)
+.+.++++.++.+++.++++...+.....+.+.+.+++.|+.+..-..+.++ .+.....+.+..+++.++|.||-.+
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSE--PTDESVEEGVKLAKEGGCDVIIALGG 89 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5566777778889999888554443346788999999888876544345544 5677888999999999999999764
Q ss_pred -ChhhHHHHHH
Q 006567 232 -SPSLGFQVFS 241 (640)
Q Consensus 232 -~~~~~~~il~ 241 (640)
+.-|+..++.
T Consensus 90 GS~~D~AKaia 100 (375)
T cd08194 90 GSPIDTAKAIA 100 (375)
T ss_pred chHHHHHHHHH
Confidence 4455555543
No 233
>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=81.49 E-value=29 Score=31.27 Aligned_cols=100 Identities=10% Similarity=0.025 Sum_probs=61.3
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhc--CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceE
Q 006567 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV 226 (640)
Q Consensus 149 ~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 226 (640)
.+....+.+.+...++ ++.++.++++ .++.+.+.+++. |+.++.... .. .+..+...+++.|.++++|+
T Consensus 34 ~dl~~~l~~~~~~~~~-~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~~--g~--f~~~~~~~i~~~I~~~~pdi 104 (172)
T PF03808_consen 34 SDLFPDLLRRAEQRGK-RIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYHH--GY--FDEEEEEAIINRINASGPDI 104 (172)
T ss_pred HHHHHHHHHHHHHcCC-eEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEecC--CC--CChhhHHHHHHHHHHcCCCE
Confidence 3345666666655555 7777765554 455566666555 666665432 21 13667888999999999999
Q ss_pred EEEecChhhHHHHHHHHHHcCCccCCeEEEEeCc
Q 006567 227 IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW 260 (640)
Q Consensus 227 ivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~ 260 (640)
|++.........++.+.+.. +. .. +|+...+
T Consensus 105 v~vglG~PkQE~~~~~~~~~-l~-~~-v~i~vG~ 135 (172)
T PF03808_consen 105 VFVGLGAPKQERWIARHRQR-LP-AG-VIIGVGG 135 (172)
T ss_pred EEEECCCCHHHHHHHHHHHH-CC-CC-EEEEECc
Confidence 99986555555555444432 11 22 6776653
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=80.94 E-value=14 Score=38.20 Aligned_cols=88 Identities=11% Similarity=0.068 Sum_probs=61.5
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
.+.+.+.++.++.+++.++++....-....+.+.+.+++.|+.+..-..+.++ .+.+......+.+++.++|.||-.+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiaiG 94 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPN--PTITVVKAGVAAFKASGADYLIAIG 94 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35566778888989998888544333336788899998888876543334433 5577888888999999999999764
Q ss_pred --ChhhHHHHHH
Q 006567 232 --SPSLGFQVFS 241 (640)
Q Consensus 232 --~~~~~~~il~ 241 (640)
+.-|+...+.
T Consensus 95 GGSviD~aKaia 106 (379)
T TIGR02638 95 GGSPIDTAKAIG 106 (379)
T ss_pred ChHHHHHHHHHH
Confidence 4445554443
No 235
>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=79.97 E-value=8.5 Score=38.50 Aligned_cols=88 Identities=16% Similarity=0.052 Sum_probs=62.1
Q ss_pred EEEEEe---ecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHH
Q 006567 33 NVGALF---TLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (640)
Q Consensus 33 ~IG~l~---~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~ 109 (640)
++|.+- ......-.....|+...++.+| |+.++...+..+-.||..+.+.+..++.+|+++|+.. .....
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------PDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFPV-AGGSG 200 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTT------TT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEEE--CCCH
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhC------cCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEEC-CCCCc
Confidence 556555 6554444577899999999999 6788888888887899999999999999999998872 23344
Q ss_pred HHHHHhhccCCce--EEecc
Q 006567 110 HIVSYVSNELQVP--LLSFG 127 (640)
Q Consensus 110 ~~v~~~~~~~~iP--~is~~ 127 (640)
..+...+.+.+.. .|...
T Consensus 201 ~gv~~aa~e~g~~~~~IG~d 220 (306)
T PF02608_consen 201 QGVIQAAKEAGVYGYVIGVD 220 (306)
T ss_dssp HHHHHHHHHHTHETEEEEEE
T ss_pred hHHHHHHHHcCCceEEEEec
Confidence 5566777777877 77643
No 236
>cd08188 Fe-ADH4 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=78.40 E-value=22 Score=36.72 Aligned_cols=87 Identities=15% Similarity=0.010 Sum_probs=60.3
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
.+.+.++++.++.+++.++++.........+.+.+.+++.|+.+..-..+.++ .+..+....+..+++.++|.||-.+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 93 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPN--PRDEEVMAGAELYLENGCDVIIAVG 93 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35667778888889999887544333335778889898888776533333333 4567788888889999999999763
Q ss_pred --ChhhHHHHH
Q 006567 232 --SPSLGFQVF 240 (640)
Q Consensus 232 --~~~~~~~il 240 (640)
+.-|+...+
T Consensus 94 GGsviD~AK~i 104 (377)
T cd08188 94 GGSPIDCAKGI 104 (377)
T ss_pred CchHHHHHHHH
Confidence 445555444
No 237
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=78.34 E-value=72 Score=31.35 Aligned_cols=160 Identities=15% Similarity=0.126 Sum_probs=91.5
Q ss_pred eEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHH
Q 006567 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (640)
Q Consensus 31 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~ 110 (640)
.=.|+.||..++. ..+-+|+.|+.++- |..+-+.--+.+-.-.+.++...+.+++-+++|.--..+ -.
T Consensus 44 gk~laliFeK~ST---RTR~SFeva~~qlG-------g~~~~l~~~~~Qlgr~Esi~DTArVLsr~~D~I~~R~~~--~~ 111 (310)
T COG0078 44 GKNLALIFEKTST---RTRVSFEVAATQLG-------GHAIYLGPGDSQLGRGESIKDTARVLSRMVDAIMIRGFS--HE 111 (310)
T ss_pred CceEEEEecCCCc---hhhhhHHHHHHHcC-------CCeEEeCCCccccCCCCcHHHHHHHHHhhhheEEEeccc--HH
Confidence 4568999998753 35788888888853 333333333333222222333334555556666643333 33
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHH---HhcC---CcEEEEEEEcCCCCcccHHHH
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV---SYYG---WNAVSVIFVDNEYGRNGVSAL 184 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll---~~~~---w~~v~ii~~~~~~g~~~~~~~ 184 (640)
.+..++....+|+|. .|++..+| .+++++++ .++| -.+++.+.+. ......+
T Consensus 112 ~ve~lA~~s~VPViN------gLtD~~HP------------~Q~LADl~Ti~E~~g~l~g~k~a~vGDg----NNv~nSl 169 (310)
T COG0078 112 TLEELAKYSGVPVIN------GLTDEFHP------------CQALADLMTIKEHFGSLKGLKLAYVGDG----NNVANSL 169 (310)
T ss_pred HHHHHHHhCCCceEc------ccccccCc------------HHHHHHHHHHHHhcCcccCcEEEEEcCc----chHHHHH
Confidence 678899999999995 25554444 37888864 3454 3566655422 5678888
Q ss_pred HHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHH-hcCCceEE
Q 006567 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKV-ALMESRVI 227 (640)
Q Consensus 185 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l-~~~~~~vi 227 (640)
.......|+++.....-... ...++....+++ ++++..+.
T Consensus 170 ~~~~a~~G~dv~ia~Pk~~~---p~~~~~~~a~~~a~~~g~~i~ 210 (310)
T COG0078 170 LLAAAKLGMDVRIATPKGYE---PDPEVVEKAKENAKESGGKIT 210 (310)
T ss_pred HHHHHHhCCeEEEECCCcCC---cCHHHHHHHHHHHHhcCCeEE
Confidence 88888889877654322111 234444445443 33444433
No 238
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=78.01 E-value=5.2 Score=38.61 Aligned_cols=78 Identities=14% Similarity=0.161 Sum_probs=57.6
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe-cChhhHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-VSPSLGFQVFSVA 243 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-~~~~~~~~il~~a 243 (640)
|+++.. ++.|.......+++.+++.|+.+... .+.. .+.......++++...++|.|++. .+......+++++
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~--~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~ 76 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQ--NDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKA 76 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EEST--TTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCC--CCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHH
Confidence 455553 45577778889999999999888765 1211 235666778888888899988887 6666778999999
Q ss_pred HHcCC
Q 006567 244 KYLGM 248 (640)
Q Consensus 244 ~~~gl 248 (640)
.+.|+
T Consensus 77 ~~~gI 81 (257)
T PF13407_consen 77 KAAGI 81 (257)
T ss_dssp HHTTS
T ss_pred hhcCc
Confidence 99876
No 239
>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=77.80 E-value=20 Score=37.16 Aligned_cols=87 Identities=10% Similarity=0.009 Sum_probs=61.0
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCC-CCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe-
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH- 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~- 230 (640)
..+.++++.++ +++.||++... ......+.+.+.+++.|+++..-..+.++ .+.++.......+++.++|.||-.
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiavG 91 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPN--PTTTTVMEGAALAREEGCDFVVGLG 91 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 55667777777 89988885443 23456778889998888876543344444 567788888899999999999965
Q ss_pred -cChhhHHHHHHH
Q 006567 231 -VSPSLGFQVFSV 242 (640)
Q Consensus 231 -~~~~~~~~il~~ 242 (640)
++.-|+...+..
T Consensus 92 GGS~iD~aK~ia~ 104 (380)
T cd08185 92 GGSSMDTAKAIAF 104 (380)
T ss_pred CccHHHHHHHHHH
Confidence 455556555543
No 240
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=77.08 E-value=22 Score=35.14 Aligned_cols=93 Identities=16% Similarity=0.043 Sum_probs=68.8
Q ss_pred CCcEEEecCCchHHHHHH----HHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHH
Q 006567 138 YPFFVRTTQSDSYQMTAV----AEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVM 213 (640)
Q Consensus 138 ~~~~~r~~p~~~~~~~al----~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~ 213 (640)
-++-|-+.|+....++.. .+.++..|.+++.++.+....-....+..++.++++||.+..-....+. ....++.
T Consensus 40 ~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~e--Ptv~s~~ 117 (465)
T KOG3857|consen 40 MSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPE--PTVGSVT 117 (465)
T ss_pred ceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCC--CchhhHH
Confidence 355666777766665544 3458889999999998766555556778899999999988755445544 4577888
Q ss_pred HHHHHHhcCCceEEEEecC
Q 006567 214 DLLVKVALMESRVIVLHVS 232 (640)
Q Consensus 214 ~~l~~l~~~~~~vivl~~~ 232 (640)
..++-.+..+.|.+|-.+.
T Consensus 118 ~alefak~~~fDs~vaiGG 136 (465)
T KOG3857|consen 118 AALEFAKKKNFDSFVAIGG 136 (465)
T ss_pred HHHHHHHhcccceEEEEcC
Confidence 8999999999998887643
No 241
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=77.05 E-value=64 Score=30.12 Aligned_cols=85 Identities=16% Similarity=0.201 Sum_probs=50.5
Q ss_pred ChHHHHHH-HHHhHhcCcEEEEcCCChHHHHHHH-HhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHH
Q 006567 81 SGFIGMVE-ALRFMETDIVAIIGPQCSTVAHIVS-YVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEM 158 (640)
Q Consensus 81 ~~~~a~~~-a~~l~~~~v~aiiGp~~s~~~~~v~-~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~l 158 (640)
++...+.. |..|-..|+..|+-|.++. ..++ .+-...+||+|+. .++.++-
T Consensus 59 ~~~~~L~~~a~~Le~~GAd~i~l~~NT~--H~~~d~iq~~~~iPllhI-------------------------idaTa~~ 111 (230)
T COG1794 59 EAGEILIDAAKKLERAGADFIVLPTNTM--HKVADDIQKAVGIPLLHI-------------------------IDATAKA 111 (230)
T ss_pred cHHHHHHHHHHHHHhcCCCEEEEeCCcH--HHHHHHHHHhcCCCeehH-------------------------HHHHHHH
Confidence 45444444 4444444898888655543 3333 3445678999852 3566666
Q ss_pred HHhcCCcEEEEEEEcCCCCcccHH-HHHHHHhhcCeEEE
Q 006567 159 VSYYGWNAVSVIFVDNEYGRNGVS-ALNDKLAERRCRIS 196 (640)
Q Consensus 159 l~~~~w~~v~ii~~~~~~g~~~~~-~~~~~~~~~g~~v~ 196 (640)
+++.|.++++++.+... ..+ -+++.+.++|+++.
T Consensus 112 ik~~g~kkvgLLgT~~T----m~~~fY~~~l~~~gievv 146 (230)
T COG1794 112 IKAAGAKKVGLLGTRFT----MEQGFYRKRLEEKGIEVV 146 (230)
T ss_pred HHhcCCceeEEeeccch----HHhHHHHHHHHHCCceEe
Confidence 77778888888875432 222 33566777776654
No 242
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=76.88 E-value=34 Score=34.82 Aligned_cols=75 Identities=16% Similarity=0.042 Sum_probs=60.4
Q ss_pred eEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHH
Q 006567 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (640)
Q Consensus 31 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~ 110 (640)
.-+||.+..+..+.-.....|+...++..|. ..++...+..+=.||..+.+.+..++++|+++|.....+....
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 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNP------DIKVKVVYVGSFSDPAKGKEAANALIDQGADVIYPAAGGTGVG 234 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCC------CccEEEEEecCccChHHHHHHHHHHHhcCCCEEEecCCCCcch
Confidence 5678888877755556778999999999994 5777877777778999999999999999999999876665444
Q ss_pred H
Q 006567 111 I 111 (640)
Q Consensus 111 ~ 111 (640)
.
T Consensus 235 v 235 (345)
T COG1744 235 V 235 (345)
T ss_pred H
Confidence 3
No 243
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=75.29 E-value=14 Score=38.14 Aligned_cols=88 Identities=15% Similarity=0.127 Sum_probs=60.7
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
.+.+.+.++.++-+++.++++.........+.+.+.+++.|+.+..-..+.++ .+.+......+.+++.++|.||-.+
T Consensus 16 l~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavG 93 (377)
T cd08176 16 IKEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPN--PTITNVKDGLAVFKKEGCDFIISIG 93 (377)
T ss_pred HHHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35567778888888988887543332356788899998888876543334433 5577788899999999999999764
Q ss_pred --ChhhHHHHHH
Q 006567 232 --SPSLGFQVFS 241 (640)
Q Consensus 232 --~~~~~~~il~ 241 (640)
+.-|+...+.
T Consensus 94 GGS~iD~aK~ia 105 (377)
T cd08176 94 GGSPHDCAKAIG 105 (377)
T ss_pred CcHHHHHHHHHH
Confidence 4445554443
No 244
>cd08191 HHD 6-hydroxyhexanoate dehydrogenase (HHD) catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. 6-hydroxyhexanoate dehydrogenase (HHD). The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. Some bacteria can grow on cyclic ketones, cyclohexylamine, and alcohols as sole carbon source. Cyclohexylamine is an insecticide and antiseptic in various industries and is considered a possible environmental pollutant. The degradation of these chemical compounds are through the cyclohexanol and cyclohexanone biological oxidation pathway. The intermediates of this pathway include cyclohexanol, cyclohexanone, e-caprolactone, 6-hydroxyhexanoate, 6-oxohexanoate and adipate. The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate.
Probab=75.24 E-value=30 Score=35.96 Aligned_cols=87 Identities=14% Similarity=0.110 Sum_probs=57.9
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe--
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-- 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-- 230 (640)
+.+.++++.++ +++.++++.........+.+.+.+++.|+++..-..+.+. ....+........++.++|.||-.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--~~~~~v~~~~~~~~~~~~D~IIaiGG 88 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPD--LPRSELCDAASAAARAGPDVIIGLGG 88 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 45667788888 8888887443333356788888998888876533333322 345567777888888899998876
Q ss_pred cChhhHHHHHHH
Q 006567 231 VSPSLGFQVFSV 242 (640)
Q Consensus 231 ~~~~~~~~il~~ 242 (640)
++.-|+..++..
T Consensus 89 GS~iD~aK~ia~ 100 (386)
T cd08191 89 GSCIDLAKIAGL 100 (386)
T ss_pred chHHHHHHHHHH
Confidence 444555555543
No 245
>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=75.12 E-value=45 Score=31.66 Aligned_cols=115 Identities=13% Similarity=0.156 Sum_probs=67.0
Q ss_pred cchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChH-HHHHHHHhhccCCce
Q 006567 44 IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST-VAHIVSYVSNELQVP 122 (640)
Q Consensus 44 ~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~-~~~~v~~~~~~~~iP 122 (640)
.|..-..++...+.++| |..+++.+.. .-++ +...+++..+.+.|+....+. .-..+...|...++|
T Consensus 62 iG~~Kae~~~~~l~~in------P~~~V~~~~~--~i~~----~~~~~l~~~~~D~VvdaiD~~~~k~~L~~~c~~~~ip 129 (231)
T cd00755 62 VGKPKVEVMAERIRDIN------PECEVDAVEE--FLTP----DNSEDLLGGDPDFVVDAIDSIRAKVALIAYCRKRKIP 129 (231)
T ss_pred CCCcHHHHHHHHHHHHC------CCcEEEEeee--ecCH----hHHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHhCCC
Confidence 35445566677777777 5556654432 2222 223445555677788765554 445578899999999
Q ss_pred EEecccCCCCCCCCCCCcEEEecCCc----hHHHHHHHHHHHhcCCc-EEEEEEEcC
Q 006567 123 LLSFGVTDPTLSSLQYPFFVRTTQSD----SYQMTAVAEMVSYYGWN-AVSVIFVDN 174 (640)
Q Consensus 123 ~is~~~~~~~l~~~~~~~~~r~~p~~----~~~~~al~~ll~~~~w~-~v~ii~~~~ 174 (640)
+|+..+..-.+. |.-+++.--. .-+++.+-.-|++.+.. .+-++|+.+
T Consensus 130 ~I~s~g~g~~~d----p~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E 182 (231)
T cd00755 130 VISSMGAGGKLD----PTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTE 182 (231)
T ss_pred EEEEeCCcCCCC----CCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCC
Confidence 998655443332 4444444221 23455555556666664 577788654
No 246
>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=75.11 E-value=31 Score=35.34 Aligned_cols=85 Identities=8% Similarity=0.062 Sum_probs=58.5
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCC-cccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
+.+.++++.++ +++.++++...+- ....+.+.+.+++.|+.+..-..+.++ .+.++.....+.+++.++|.||-.+
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavG 91 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEEN--PSLETIMEAVEIAKKFNADFVIGIG 91 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 44566778787 8888887544322 234678889998888876543334444 5677888999999999999999874
Q ss_pred --ChhhHHHHH
Q 006567 232 --SPSLGFQVF 240 (640)
Q Consensus 232 --~~~~~~~il 240 (640)
+.-|+...+
T Consensus 92 GGSviD~aK~i 102 (357)
T cd08181 92 GGSPLDAAKAI 102 (357)
T ss_pred CchHHHHHHHH
Confidence 444555444
No 247
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=74.98 E-value=33 Score=30.85 Aligned_cols=99 Identities=13% Similarity=0.004 Sum_probs=57.6
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhc--CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceE
Q 006567 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV 226 (640)
Q Consensus 149 ~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 226 (640)
.++...+.+.+...+ .++.++.+..+ .++.+.+.+++. |+.++....-.. ...+-...++++.++++|+
T Consensus 32 ~dl~~~ll~~~~~~~-~~v~llG~~~~----~~~~~~~~l~~~yp~l~i~g~~~g~~----~~~~~~~i~~~I~~~~pdi 102 (171)
T cd06533 32 SDLMPALLELAAQKG-LRVFLLGAKPE----VLEKAAERLRARYPGLKIVGYHHGYF----GPEEEEEIIERINASGADI 102 (171)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCcEEEEecCCCC----ChhhHHHHHHHHHHcCCCE
Confidence 344566666655544 56777765554 344444444443 677765322221 1334444899999999999
Q ss_pred EEEecChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 227 IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 227 ivl~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
|++.........++.+.++.. ..-+++...
T Consensus 103 v~vglG~PkQE~~~~~~~~~l---~~~v~~~vG 132 (171)
T cd06533 103 LFVGLGAPKQELWIARHKDRL---PVPVAIGVG 132 (171)
T ss_pred EEEECCCCHHHHHHHHHHHHC---CCCEEEEec
Confidence 999866665556665555432 233566544
No 248
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=74.64 E-value=14 Score=35.53 Aligned_cols=100 Identities=15% Similarity=0.190 Sum_probs=57.0
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~ 232 (640)
..+.+++++++.+++.++.+...+ ....+.+++.+++.|+++......... .+..+......+++..+.++||-.+.
T Consensus 8 ~~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~--~~~~~~~~~~~~~~~~~~d~ii~vGg 84 (250)
T PF13685_consen 8 DKLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGD--ADEDEVEKLVEALRPKDADLIIGVGG 84 (250)
T ss_dssp GGHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE-----BHHHHHHHHTTS--TT--EEEEEES
T ss_pred HHHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCC--CCHHHHHHHHHHhcccCCCEEEEeCC
Confidence 345678888888999999866543 334568888899889888743322222 33556666677776678888887765
Q ss_pred hhhHHHHHH-HHHHcCCccCCeEEEEeC
Q 006567 233 PSLGFQVFS-VAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 233 ~~~~~~il~-~a~~~gl~~~~~~~i~~~ 259 (640)
+. +.++-+ .|.++| ..|+-+-|.
T Consensus 85 G~-i~D~~K~~A~~~~---~p~isVPTa 108 (250)
T PF13685_consen 85 GT-IIDIAKYAAFELG---IPFISVPTA 108 (250)
T ss_dssp HH-HHHHHHHHHHHHT-----EEEEES-
T ss_pred cH-HHHHHHHHHHhcC---CCEEEeccc
Confidence 54 334443 444544 456666654
No 249
>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=74.22 E-value=24 Score=36.29 Aligned_cols=86 Identities=9% Similarity=0.001 Sum_probs=59.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe--
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-- 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-- 230 (640)
+.+.+.++.++.+++.+|++...+ ....+.+.+++.|+.+..-..+.++ .+.+........+++.++|.||-.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPN--PDLEDLAAGIRLLREFGPDAVLAVGG 86 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 556677888888999988754433 4566778888778665543334444 456778888888898999999866
Q ss_pred cChhhHHHHHHHH
Q 006567 231 VSPSLGFQVFSVA 243 (640)
Q Consensus 231 ~~~~~~~~il~~a 243 (640)
++.-|+..++...
T Consensus 87 Gs~~D~aK~ia~~ 99 (367)
T cd08182 87 GSVLDTAKALAAL 99 (367)
T ss_pred cHHHHHHHHHHHH
Confidence 3455666555443
No 250
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=73.60 E-value=72 Score=31.07 Aligned_cols=114 Identities=12% Similarity=0.211 Sum_probs=65.2
Q ss_pred chHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCCh-HHHHHHHHhhccCCceE
Q 006567 45 GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAHIVSYVSNELQVPL 123 (640)
Q Consensus 45 g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s-~~~~~v~~~~~~~~iP~ 123 (640)
|..-..++...+.++| |..+++.+ +..-++. ...+++..+.+.||-...+ ..-..+...|...++|+
T Consensus 82 G~~Kve~~~~rl~~IN------P~~~V~~i--~~~i~~e----~~~~ll~~~~D~VIdaiD~~~~k~~L~~~c~~~~ip~ 149 (268)
T PRK15116 82 GLAKAEVMAERIRQIN------PECRVTVV--DDFITPD----NVAEYMSAGFSYVIDAIDSVRPKAALIAYCRRNKIPL 149 (268)
T ss_pred ChHHHHHHHHHHHhHC------CCcEEEEE--ecccChh----hHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHcCCCE
Confidence 4444456666666776 45555543 3222221 2334455567778876665 44455888999999999
Q ss_pred EecccCCCCCCCCCCCcEEEecC----CchHHHHHHHHHHHh-cCCc-------EEEEEEEcC
Q 006567 124 LSFGVTDPTLSSLQYPFFVRTTQ----SDSYQMTAVAEMVSY-YGWN-------AVSVIFVDN 174 (640)
Q Consensus 124 is~~~~~~~l~~~~~~~~~r~~p----~~~~~~~al~~ll~~-~~w~-------~v~ii~~~~ 174 (640)
|+.++..-.+. |.-+++.- ...-+++.+-..|++ +|.+ .+-++|+.+
T Consensus 150 I~~gGag~k~d----p~~~~~~di~~t~~~pla~~~R~~lr~~~~~~~~~~~~~~~~~v~S~E 208 (268)
T PRK15116 150 VTTGGAGGQID----PTQIQVVDLAKTIQDPLAAKLRERLKSDFGVVKNSKGKLGVDCVFSTE 208 (268)
T ss_pred EEECCcccCCC----CCeEEEEeeecccCChHHHHHHHHHHHhhCCCcccCccCCeEEEeCCC
Confidence 98655543332 44444431 223345666666666 6664 266677654
No 251
>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=73.57 E-value=29 Score=35.15 Aligned_cols=100 Identities=12% Similarity=0.084 Sum_probs=63.7
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV- 231 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~- 231 (640)
+.+.+.++.++.+++.++++..... ...+.+.+.+++. +.+.......++ .+.++....+..+++.++|.||-.+
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 87 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPN--PTFEEVKEAVERARAAEVDAVIAVGG 87 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 4456677888889999888544332 5667888888765 554433223332 4577788888999988999988663
Q ss_pred -ChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 232 -SPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 232 -~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
+.-|+..++......+ ..++-|-|.
T Consensus 88 Gs~~D~aK~ia~~~~~~---~p~i~iPTt 113 (332)
T cd07766 88 GSTLDTAKAVAALLNRG---LPIIIVPTT 113 (332)
T ss_pred chHHHHHHHHHHHhcCC---CCEEEEeCC
Confidence 4455665554443323 334555443
No 252
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=73.18 E-value=71 Score=28.80 Aligned_cols=128 Identities=18% Similarity=0.142 Sum_probs=75.5
Q ss_pred CChHHHHHHHHHh-HhcCcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHH
Q 006567 80 CSGFIGMVEALRF-METDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEM 158 (640)
Q Consensus 80 ~~~~~a~~~a~~l-~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~l 158 (640)
.+-..++..+.++ ..+++.+||+- ..++.. +-...++|+|... ++..+..+++...
T Consensus 17 ~~~e~~v~~a~~~~~~~g~dViIsR--G~ta~~---lr~~~~iPVV~I~------------------~s~~Dil~al~~a 73 (176)
T PF06506_consen 17 ASLEEAVEEARQLLESEGADVIISR--GGTAEL---LRKHVSIPVVEIP------------------ISGFDILRALAKA 73 (176)
T ss_dssp --HHHHHHHHHHHHTTTT-SEEEEE--HHHHHH---HHCC-SS-EEEE---------------------HHHHHHHHHHC
T ss_pred ecHHHHHHHHHHhhHhcCCeEEEEC--CHHHHH---HHHhCCCCEEEEC------------------CCHhHHHHHHHHH
Confidence 3456788888888 77899999962 223322 3345589998742 1233444555553
Q ss_pred HHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHH
Q 006567 159 VSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQ 238 (640)
Q Consensus 159 l~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~ 238 (640)
- .+ -++++++...+.. .....+.+.+ |+.+..... .+..++...+++++..+.++||-...
T Consensus 74 ~-~~-~~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~~------~~~~e~~~~i~~~~~~G~~viVGg~~------ 134 (176)
T PF06506_consen 74 K-KY-GPKIAVVGYPNII--PGLESIEELL---GVDIKIYPY------DSEEEIEAAIKQAKAEGVDVIVGGGV------ 134 (176)
T ss_dssp C-CC-TSEEEEEEESS-S--CCHHHHHHHH---T-EEEEEEE------SSHHHHHHHHHHHHHTT--EEEESHH------
T ss_pred H-hc-CCcEEEEeccccc--HHHHHHHHHh---CCceEEEEE------CCHHHHHHHHHHHHHcCCcEEECCHH------
Confidence 3 23 3899998765443 2366666666 455554332 23778999999999999998887642
Q ss_pred HHHHHHHcCCc
Q 006567 239 VFSVAKYLGMM 249 (640)
Q Consensus 239 il~~a~~~gl~ 249 (640)
..+.|++.|+.
T Consensus 135 ~~~~A~~~gl~ 145 (176)
T PF06506_consen 135 VCRLARKLGLP 145 (176)
T ss_dssp HHHHHHHTTSE
T ss_pred HHHHHHHcCCc
Confidence 35677888875
No 253
>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=73.17 E-value=12 Score=38.45 Aligned_cols=89 Identities=13% Similarity=0.057 Sum_probs=63.9
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~ 232 (640)
+.+.+.++.+| ++.+|++.........+.+.+.+++.|+.+..-..+... .+..+....+..+++.++|.||-.+.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 87 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPN--PTLEDVDEAAEQARKFGADCIIAIGG 87 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS---BHHHHHHHHHHHHHTTSSEEEEEES
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCC--CcHHHHHHHHHHHHhcCCCEEEEcCC
Confidence 55667778777 998888663333336788999998899888655545555 66888999999999999999998754
Q ss_pred h--hhHHHHHHHHHH
Q 006567 233 P--SLGFQVFSVAKY 245 (640)
Q Consensus 233 ~--~~~~~il~~a~~ 245 (640)
+ -++..++.....
T Consensus 88 GS~~D~aK~va~~~~ 102 (366)
T PF00465_consen 88 GSVMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred CCcCcHHHHHHhhcc
Confidence 3 455555555444
No 254
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=72.24 E-value=30 Score=30.98 Aligned_cols=117 Identities=14% Similarity=0.185 Sum_probs=62.8
Q ss_pred cCcEEEEcCCCh---HHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcE-----
Q 006567 95 TDIVAIIGPQCS---TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNA----- 166 (640)
Q Consensus 95 ~~v~aiiGp~~s---~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~----- 166 (640)
+++..++|.... .....+..+++.+++|+++.......+.+... .|. ..-.-.+..+++.-+|+-
T Consensus 35 KrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~kgv------~~~-~~~lg~lg~~~~~p~~e~~~g~~ 107 (171)
T PRK00945 35 KRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLIDKGV------DAK-YINLHELTNYLKDPNWKGLDGNG 107 (171)
T ss_pred CCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccccccccccCCc------cCC-cccHHHHHhhccCchhhhhcCCC
Confidence 489999997664 36677889999999999975444444444210 111 111234444454444433
Q ss_pred ----EEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCC-----CCChhHHHHHHHHHh
Q 006567 167 ----VSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-----GVNTGYVMDLLVKVA 220 (640)
Q Consensus 167 ----v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~-----~~~~~~~~~~l~~l~ 220 (640)
+.++..+..+....+..+++... =..|+....+.++. +.+.+++.+.|+++.
T Consensus 108 ~~DlvlfvG~~~~~~~~~l~~lk~f~~--~~~~~~~~~y~~~a~~s~~~~~~~~~~~~l~~li 168 (171)
T PRK00945 108 NYDLVIFIGVTYYYASQGLSALKHFSP--LKTITIDRYYHPNADMSFPNLSKEEYLEYLDELI 168 (171)
T ss_pred CcCEEEEecCCchhHHHHHHHHhhcCC--ceEEEecCCcCCCCceecCCCCHHHHHHHHHHHH
Confidence 34444555555445555444332 12344444555542 134556666666654
No 255
>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=72.10 E-value=48 Score=29.41 Aligned_cols=41 Identities=15% Similarity=0.264 Sum_probs=30.2
Q ss_pred cCcEEEEcCCCh--HHHHHHHHhhccCCceEEecccCCCCCCC
Q 006567 95 TDIVAIIGPQCS--TVAHIVSYVSNELQVPLLSFGVTDPTLSS 135 (640)
Q Consensus 95 ~~v~aiiGp~~s--~~~~~v~~~~~~~~iP~is~~~~~~~l~~ 135 (640)
+++..++|+... .....+..+++..++|+++.......+.+
T Consensus 28 KRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~ 70 (162)
T TIGR00315 28 KRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIE 70 (162)
T ss_pred CCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCcccccccc
Confidence 489999997664 67788899999999999975433233333
No 256
>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=72.02 E-value=93 Score=31.03 Aligned_cols=41 Identities=24% Similarity=0.179 Sum_probs=22.8
Q ss_pred CcchhHHHHHHHHHhhhhccccccccCCCeeEEEEEEeecC
Q 006567 1 MKTIWFLPLVFLYFGLFSFGYCKSVSARPAVVNVGALFTLD 41 (640)
Q Consensus 1 M~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~l~~~~ 41 (640)
||+.+.++++.++++.+++++|.......+.++||...+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Ig~~~~~~ 41 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAACAGDGGEPTFVTIGTGGTGG 41 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHhhccCCCCCceEEEEeCCCCC
Confidence 77765444333333223334454444566789999876643
No 257
>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=71.07 E-value=39 Score=34.99 Aligned_cols=88 Identities=11% Similarity=0.119 Sum_probs=60.1
Q ss_pred HHHHHHHHhc---CCcEEEEEEEcCCCC-cccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEE
Q 006567 153 TAVAEMVSYY---GWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (640)
Q Consensus 153 ~al~~ll~~~---~w~~v~ii~~~~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 228 (640)
+.+.++++.+ +.+++.++++..... ....+.+.+.+++.|+.+..-..+.++ .+.++.....+.+++.++|.||
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~II 89 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPN--PTVDQVDEAAKLGREFGAQAVI 89 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCEEE
Confidence 4556667776 778998887544332 234678888998888876543334444 5677888899999999999988
Q ss_pred Ee--cChhhHHHHHHH
Q 006567 229 LH--VSPSLGFQVFSV 242 (640)
Q Consensus 229 l~--~~~~~~~~il~~ 242 (640)
-. ++.-|+..++..
T Consensus 90 aiGGGS~iD~aK~ia~ 105 (383)
T cd08186 90 AIGGGSPIDSAKSAAI 105 (383)
T ss_pred EeCCccHHHHHHHHHH
Confidence 66 455566655543
No 258
>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=70.33 E-value=20 Score=36.73 Aligned_cols=84 Identities=10% Similarity=0.002 Sum_probs=58.1
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV- 231 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~- 231 (640)
+.+.++++.++ +++.+++....+. ...+.+.+.+++.|+.+.+. .+..+ .+.++.....+..++.++|.||-.+
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGE--CTRAEIERLAEIARDNGADVVIGIGG 86 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCc--CCHHHHHHHHHHHhhcCCCEEEEecC
Confidence 45666777775 8888888443333 56778888898888877543 34444 4567788888999999999988774
Q ss_pred -ChhhHHHHHH
Q 006567 232 -SPSLGFQVFS 241 (640)
Q Consensus 232 -~~~~~~~il~ 241 (640)
+.-|+..++.
T Consensus 87 GS~iD~aK~ia 97 (351)
T cd08170 87 GKTLDTAKAVA 97 (351)
T ss_pred chhhHHHHHHH
Confidence 4444444443
No 259
>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=70.24 E-value=20 Score=34.84 Aligned_cols=78 Identities=6% Similarity=0.035 Sum_probs=53.0
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-ChhhHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV-SPSLGFQVFSVA 243 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~-~~~~~~~il~~a 243 (640)
|+++.. ++.|.....+.+++.+++.|+++..... . .+.......++.+...+.|.||+.. +......+++.+
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~ 76 (273)
T cd06305 2 IAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYDA---G--GDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRA 76 (273)
T ss_pred eEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHH
Confidence 566664 4667777788999999999988775321 1 2234455677777777899999874 334445677888
Q ss_pred HHcCCc
Q 006567 244 KYLGMM 249 (640)
Q Consensus 244 ~~~gl~ 249 (640)
++.|++
T Consensus 77 ~~~~ip 82 (273)
T cd06305 77 LDAGIP 82 (273)
T ss_pred HHcCCC
Confidence 887653
No 260
>PRK07475 hypothetical protein; Provisional
Probab=69.64 E-value=29 Score=33.37 Aligned_cols=44 Identities=23% Similarity=0.279 Sum_probs=26.8
Q ss_pred ChHHHHHHHH-HhHhcCcEEEEcCCChHHHHHHHHhhccCCceEEe
Q 006567 81 SGFIGMVEAL-RFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLS 125 (640)
Q Consensus 81 ~~~~a~~~a~-~l~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is 125 (640)
++.....++. +|...|+.+|+.+ |.....-...+....+||+++
T Consensus 62 ~~~~~l~~aa~~L~~~G~d~I~~~-Cgt~~~~~~~l~~~~~VPv~~ 106 (245)
T PRK07475 62 SLLDAFVAAARELEAEGVRAITTS-CGFLALFQRELAAALGVPVAT 106 (245)
T ss_pred cHHHHHHHHHHHHHHcCCCEEEec-hHHHHHHHHHHHHHcCCCEec
Confidence 4555444444 4445599999874 333333445566677999985
No 261
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=69.53 E-value=19 Score=34.49 Aligned_cols=46 Identities=17% Similarity=0.252 Sum_probs=30.4
Q ss_pred eeEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHH
Q 006567 30 AVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGM 86 (640)
Q Consensus 30 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~ 86 (640)
.+|+||+.--.++ ..++..++-+.++ .|++|+++.+.+-.-|-.|+
T Consensus 29 ~~I~vg~~~~p~a---~ile~~~k~~~~k--------~Gi~l~i~~FtDY~~PN~AL 74 (268)
T COG1464 29 KTIKVGATPGPHA---EILEVVVKPALKK--------KGLDLKIVEFTDYVQPNEAL 74 (268)
T ss_pred CcEEEeecCCchH---HHHHHHHHHHHHh--------cCceEEEEEecCCcchhHHH
Confidence 5899998644332 2334466666555 48999999987776665554
No 262
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=69.44 E-value=51 Score=31.22 Aligned_cols=86 Identities=16% Similarity=0.215 Sum_probs=58.1
Q ss_pred cchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH-HHHhhccCCce
Q 006567 44 IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI-VSYVSNELQVP 122 (640)
Q Consensus 44 ~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~-v~~~~~~~~iP 122 (640)
.|+.-..+++..+..|| |..++. ..+. +-..+...+++..+.+-||-..++-.+++ +..+|...++|
T Consensus 81 iGk~Kv~vm~eri~~In------P~c~V~--~~~~----f~t~en~~~~~~~~~DyvIDaiD~v~~Kv~Li~~c~~~ki~ 148 (263)
T COG1179 81 IGKPKVEVMKERIKQIN------PECEVT--AIND----FITEENLEDLLSKGFDYVIDAIDSVRAKVALIAYCRRNKIP 148 (263)
T ss_pred cccHHHHHHHHHHHhhC------CCceEe--ehHh----hhCHhHHHHHhcCCCCEEEEchhhhHHHHHHHHHHHHcCCC
Confidence 35556678888888887 444333 3332 23335566777778999998777765654 77889999999
Q ss_pred EEecccCCCCCCCCCCCcEEEec
Q 006567 123 LLSFGVTDPTLSSLQYPFFVRTT 145 (640)
Q Consensus 123 ~is~~~~~~~l~~~~~~~~~r~~ 145 (640)
+||.++.+-.+. |+-+++.
T Consensus 149 vIss~Gag~k~D----PTri~v~ 167 (263)
T COG1179 149 VISSMGAGGKLD----PTRIQVA 167 (263)
T ss_pred EEeeccccCCCC----CceEEee
Confidence 999766654443 5556655
No 263
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=69.14 E-value=22 Score=36.03 Aligned_cols=83 Identities=14% Similarity=0.136 Sum_probs=58.1
Q ss_pred CCcEEEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-ChhhHHHH
Q 006567 163 GWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV-SPSLGFQV 239 (640)
Q Consensus 163 ~w~~v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~-~~~~~~~i 239 (640)
.-.+++++.. +++|.....+.+++.+++.|+++.... +.. .+...-..+++.+...+++.|++.. +.......
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~--~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~ 97 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTE--PSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPA 97 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCC--CCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHH
Confidence 4567888874 456777778888999999998887532 111 2233344677888889999998864 44445678
Q ss_pred HHHHHHcCCc
Q 006567 240 FSVAKYLGMM 249 (640)
Q Consensus 240 l~~a~~~gl~ 249 (640)
+++|.+.|.+
T Consensus 98 l~~a~~~gIp 107 (336)
T PRK15408 98 LKRAMQRGVK 107 (336)
T ss_pred HHHHHHCCCe
Confidence 8999888753
No 264
>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=67.17 E-value=29 Score=35.93 Aligned_cols=85 Identities=12% Similarity=0.086 Sum_probs=57.9
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCC-CcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEY-GRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~-g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
+.+.+.++.++ +++.++.+...+ .....+.+.+.+++.|+++..-..+.++ .+.+.....+..+++.++|.||-.+
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 94 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPN--PRLETVREGIELCKEEKVDFILAVG 94 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 45666777774 888888754322 2245678889999888876543334444 5567888889999999999999764
Q ss_pred --ChhhHHHHH
Q 006567 232 --SPSLGFQVF 240 (640)
Q Consensus 232 --~~~~~~~il 240 (640)
+.-|+..++
T Consensus 95 GGS~iD~aK~i 105 (382)
T cd08187 95 GGSVIDSAKAI 105 (382)
T ss_pred ChHHHHHHHHH
Confidence 444555444
No 265
>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=66.83 E-value=34 Score=34.89 Aligned_cols=86 Identities=17% Similarity=0.090 Sum_probs=57.1
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV- 231 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~- 231 (640)
..+.+.++.++ +|+.++++...+ ....+.+.+.+++.|+.+..-..+..+ .+........+..++.++|.||-.+
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~iiavGG 87 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGE--STYENVERLKKNPAVQEADMIFAVGG 87 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCC--CCHHHHHHHHHHHhhcCCCEEEEeCC
Confidence 45566777777 888888754333 234667888888888876543344444 4567778888888888999999764
Q ss_pred -ChhhHHHHHHH
Q 006567 232 -SPSLGFQVFSV 242 (640)
Q Consensus 232 -~~~~~~~il~~ 242 (640)
+.-|+..++..
T Consensus 88 Gs~~D~aK~ia~ 99 (345)
T cd08171 88 GKAIDTVKVLAD 99 (345)
T ss_pred cHHHHHHHHHHH
Confidence 44455555543
No 266
>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=66.78 E-value=1.1e+02 Score=28.45 Aligned_cols=123 Identities=11% Similarity=0.134 Sum_probs=67.9
Q ss_pred hHhcCcEEEEcCCChHHHHHHHHhh-ccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEE
Q 006567 92 FMETDIVAIIGPQCSTVAHIVSYVS-NELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVI 170 (640)
Q Consensus 92 l~~~~v~aiiGp~~s~~~~~v~~~~-~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii 170 (640)
+...++.+|+-+ |......+...- ...++|+++. .++.++-+++ +-++++++
T Consensus 61 l~~~g~d~i~i~-C~s~~~~~~~~~~~~~~iPv~~~-------------------------~~a~~~~~~~-~~~ri~vl 113 (216)
T PF01177_consen 61 LEKAGVDAIVIA-CNSAHPFVDELRKERVGIPVVGI-------------------------VEAALEAAKA-GGKRIGVL 113 (216)
T ss_dssp HHHTTESEEEES-SHHHHHHHHHHHHHHHSSEEEES-------------------------HHHHHHHHHH-TSSEEEEE
T ss_pred HHhCCCCEEEEc-CCchhhhHHHHhhhcCceEEEec-------------------------cHHHHHHHHh-cCCEEEEE
Confidence 334488888763 333323334444 5668898862 1333444455 88999999
Q ss_pred EEcCCCCcccHHHHHHHHhhc-Ce--EEEEee--ccC----CCCCCChh---HHHHHHHHH-hcCCceEEEEecChhhHH
Q 006567 171 FVDNEYGRNGVSALNDKLAER-RC--RISYKS--GIP----PESGVNTG---YVMDLLVKV-ALMESRVIVLHVSPSLGF 237 (640)
Q Consensus 171 ~~~~~~g~~~~~~~~~~~~~~-g~--~v~~~~--~~~----~~~~~~~~---~~~~~l~~l-~~~~~~vivl~~~~~~~~ 237 (640)
.+.. ......+.+.+++. |+ .+.... .+. .. ..+.. .+...++++ +..++++|++.|..-...
T Consensus 114 ~t~~---~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~-~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~~ 189 (216)
T PF01177_consen 114 TTYT---TEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELG-DIPPEQIEILAEAARELIKEDGADAIILGCTHLPLL 189 (216)
T ss_dssp ESHH---HHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTT-CTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGGG
T ss_pred ecCc---ccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhh-cCCHHHHHHHHHHHHHHhccCCCCEEEECCCchHHH
Confidence 8532 22445666677776 76 444321 111 11 11222 344555555 378999999987654433
Q ss_pred -HHHHHHHH
Q 006567 238 -QVFSVAKY 245 (640)
Q Consensus 238 -~il~~a~~ 245 (640)
...+.+..
T Consensus 190 ~~~~~~l~~ 198 (216)
T PF01177_consen 190 LGAIEALEE 198 (216)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHhhcc
Confidence 56655554
No 267
>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=66.65 E-value=11 Score=37.75 Aligned_cols=80 Identities=9% Similarity=-0.035 Sum_probs=47.9
Q ss_pred HHHHHHHHHhCC-CCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeec------------cccceEEeCcccc
Q 006567 495 IDVFTAAVNLLP-YAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVT------------NRTKIVDFSQPYA 561 (640)
Q Consensus 495 ~dl~~~i~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~------------~R~~~vdfs~p~~ 561 (640)
.++.+.++++++ ++ +++.+. +.....+..|.+|++|+++....... .+.+.+....+++
T Consensus 48 ~~la~~~~~~~~~i~--v~~~~~------~~~~~~~~~l~~G~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~ 119 (320)
T TIGR02122 48 GAIAQLINKKSGKLR--VRVQST------GGSVENVNLLEAGEADLAIVQSDVAYYAYEGDGEFEFEGPVEKLRALASLY 119 (320)
T ss_pred HHHHHHHhccCCCee--EEEEeC------cchHHHHHHHhCCCCcEEEEcchhHHHHhcCcCccccCCCCccHHhHHHhc
Confidence 466788888887 55 666552 44668899999999999987633211 1112222123455
Q ss_pred ccceEEEEecCCCCcCcceecc
Q 006567 562 ASGLVVVVPFRKLNTGAWAFLR 583 (640)
Q Consensus 562 ~~~~~il~~~~~~~~~~~~~l~ 583 (640)
.....+++++.. ....+..|+
T Consensus 120 ~~~~~lvv~~d~-~i~sl~dL~ 140 (320)
T TIGR02122 120 PEYIQIVVRKDS-GIKTVADLK 140 (320)
T ss_pred cccEEEEEECCC-CCCcHHHcC
Confidence 566778887765 233344444
No 268
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=66.50 E-value=23 Score=34.44 Aligned_cols=79 Identities=10% Similarity=0.119 Sum_probs=52.3
Q ss_pred EEEEEEE---cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhhHHHHHH
Q 006567 166 AVSVIFV---DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFS 241 (640)
Q Consensus 166 ~v~ii~~---~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~~~~il~ 241 (640)
||+++.. ++.|.....+.+.+.+++.|..+.....-. .+.......++++...++|.+|+... .......++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~~~----~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~ 76 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGPET----FDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIK 76 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECCCC----CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHH
Confidence 4666664 345777778889999999998876543211 12445567777888889998888653 333455677
Q ss_pred HHHHcCC
Q 006567 242 VAKYLGM 248 (640)
Q Consensus 242 ~a~~~gl 248 (640)
.+++.|.
T Consensus 77 ~~~~~~i 83 (271)
T cd06312 77 RAVAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7777654
No 269
>cd08183 Fe-ADH2 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria.
Probab=65.19 E-value=47 Score=34.29 Aligned_cols=83 Identities=10% Similarity=0.040 Sum_probs=57.2
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe--
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-- 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-- 230 (640)
+.+.++++.++ +++.++++.... ..+.+.+.+++.|+.+..-. +..+ .+.+.....++..++.++|.||-.
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 84 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGE--PSVELVDAAVAEARNAGCDVVIAIGG 84 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCC--cCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 45666777774 889888754332 67778888888888765332 3333 456778888999999999999987
Q ss_pred cChhhHHHHHHH
Q 006567 231 VSPSLGFQVFSV 242 (640)
Q Consensus 231 ~~~~~~~~il~~ 242 (640)
++.-|+..++..
T Consensus 85 GS~~D~aK~ia~ 96 (374)
T cd08183 85 GSVIDAGKAIAA 96 (374)
T ss_pred chHHHHHHHHHH
Confidence 444555555543
No 270
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=64.86 E-value=24 Score=34.17 Aligned_cols=79 Identities=6% Similarity=0.094 Sum_probs=53.8
Q ss_pred EEEEEEEc--CCCCcccHHHHHHHHhh-cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-hhHHHHHH
Q 006567 166 AVSVIFVD--NEYGRNGVSALNDKLAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFS 241 (640)
Q Consensus 166 ~v~ii~~~--~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-~~~~~il~ 241 (640)
+|+++.++ ++|.....+.+.+.+++ .|+.+..... . .+.......++++.+.++|.+++.... .....++.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~-~----~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~ 75 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDA-K----NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVK 75 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCC-C----CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHH
Confidence 46777753 56777778889999998 8888775432 1 224456677888888899999886543 33456777
Q ss_pred HHHHcCCc
Q 006567 242 VAKYLGMM 249 (640)
Q Consensus 242 ~a~~~gl~ 249 (640)
++.+.+.+
T Consensus 76 ~l~~~~iP 83 (272)
T cd06301 76 AANAAGIP 83 (272)
T ss_pred HHHHCCCe
Confidence 77776643
No 271
>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=64.82 E-value=60 Score=27.18 Aligned_cols=77 Identities=14% Similarity=0.063 Sum_probs=46.9
Q ss_pred EcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh----hhHHHHHHHHHHcC
Q 006567 172 VDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP----SLGFQVFSVAKYLG 247 (640)
Q Consensus 172 ~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~----~~~~~il~~a~~~g 247 (640)
..++...-+..-+...++..|+++.+-.... .....+..+.+.++++|.+.+.. ..+..+++++++.+
T Consensus 7 ~~gd~H~lG~~~~~~~l~~~G~~vi~lG~~v--------p~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~ 78 (122)
T cd02071 7 PGLDGHDRGAKVIARALRDAGFEVIYTGLRQ--------TPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELG 78 (122)
T ss_pred cCCChhHHHHHHHHHHHHHCCCEEEECCCCC--------CHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcC
Confidence 3444445556667777888898877543222 22356666777889999887543 34556677777765
Q ss_pred CccCCeEEEE
Q 006567 248 MMGNGYVWIA 257 (640)
Q Consensus 248 l~~~~~~~i~ 257 (640)
.. .-.+|++
T Consensus 79 ~~-~i~i~~G 87 (122)
T cd02071 79 AG-DILVVGG 87 (122)
T ss_pred CC-CCEEEEE
Confidence 43 2234444
No 272
>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=64.29 E-value=25 Score=34.13 Aligned_cols=81 Identities=10% Similarity=0.032 Sum_probs=52.1
Q ss_pred EEEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHH
Q 006567 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVA 243 (640)
Q Consensus 166 ~v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a 243 (640)
+|++++. ++.|.......+++.+++.|.++.....-. . .+...-...++.+...++|.|++.....+....++.+
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~--~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~ 77 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-Y--PNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQ 77 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-C--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHH
Confidence 3667765 356777777888899999998876542211 1 1234455677788888999999875433332256777
Q ss_pred HHcCCc
Q 006567 244 KYLGMM 249 (640)
Q Consensus 244 ~~~gl~ 249 (640)
.+.|++
T Consensus 78 ~~~giP 83 (268)
T cd06306 78 VAASIP 83 (268)
T ss_pred HHCCCC
Confidence 776653
No 273
>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=63.67 E-value=38 Score=30.22 Aligned_cols=70 Identities=19% Similarity=0.259 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. ++++++.. ++...++..|.+|++|+++...... .+.+. ..++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~L~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE-------YGGKKVEQAVLNGELDVGITVLPVD---EEEFD-SQPLCNEPLVAVLPR 80 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE-------cCcHHHHHHHHcCCCCEEEEecccc---cCCce-eEEeccccEEEEecC
Confidence 456788888888764 44466654 5678899999999999998643321 22222 356777778877765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (197)
T cd08438 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 274
>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=62.43 E-value=58 Score=28.55 Aligned_cols=81 Identities=14% Similarity=0.147 Sum_probs=55.7
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe
Q 006567 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (640)
Q Consensus 151 ~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~ 230 (640)
+++.+..+.++++.+++.++- |..-.....+.+.+.+.-.|+++.... .++....+.+-...+.++++++
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~lkma~P~gvk~~i~s---------ve~a~~~l~~~~~~~~~v~vl~ 82 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVN-DDVANDEVRQTLMGIVAPTGFKVRFVS---------LEKTINVIHKPAYHDQTIFLLF 82 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCEEEEEE---------HHHHHHHHhCcCCCCceEEEEE
Confidence 577888899999999998763 333333455566666555677665432 3445555555455667899999
Q ss_pred cChhhHHHHHH
Q 006567 231 VSPSLGFQVFS 241 (640)
Q Consensus 231 ~~~~~~~~il~ 241 (640)
-++.++..+++
T Consensus 83 k~~~da~~l~~ 93 (151)
T TIGR00854 83 RNPQDVLTLVE 93 (151)
T ss_pred CCHHHHHHHHH
Confidence 99999988865
No 275
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=62.16 E-value=36 Score=34.99 Aligned_cols=84 Identities=11% Similarity=0.010 Sum_probs=57.1
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV- 231 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~- 231 (640)
..+.+.++.++ +++.+|++...+ ....+.+.+.+++.|+.+.+. .+..+ .+.+........+++.++|.||-.+
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~-~~~~e--p~~~~v~~~~~~~~~~~~d~IIavGG 93 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFE-VFNGE--CSDNEIDRLVAIAEENGCDVVIGIGG 93 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEE-EeCCC--CCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 55667788888 898888744333 235677788888888776433 34443 4566788888888888999998764
Q ss_pred -ChhhHHHHHH
Q 006567 232 -SPSLGFQVFS 241 (640)
Q Consensus 232 -~~~~~~~il~ 241 (640)
+.-|+..++.
T Consensus 94 Gsv~D~aK~iA 104 (366)
T PRK09423 94 GKTLDTAKAVA 104 (366)
T ss_pred hHHHHHHHHHH
Confidence 4445555544
No 276
>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=62.15 E-value=25 Score=33.68 Aligned_cols=77 Identities=13% Similarity=0.055 Sum_probs=52.2
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
++++.. ++.+.....+.+++.+++.|+.+..... . .+.......++++...+++.|++......... ++.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~ 75 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLCNS---D--EDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELA 75 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEEcC---C--CCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHH
Confidence 556664 3667777888899999888888764321 1 22445567778888889999988755444444 77777
Q ss_pred HcCCc
Q 006567 245 YLGMM 249 (640)
Q Consensus 245 ~~gl~ 249 (640)
+.|.+
T Consensus 76 ~~~ip 80 (264)
T cd06267 76 ALGIP 80 (264)
T ss_pred HcCCC
Confidence 76653
No 277
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=61.93 E-value=23 Score=34.61 Aligned_cols=58 Identities=17% Similarity=0.150 Sum_probs=30.8
Q ss_pred CCCeeEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEE
Q 006567 27 ARPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII 101 (640)
Q Consensus 27 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aii 101 (640)
...++|+||..-..+. ...+++.+.+-+.. |++++++.+++...+.. .+.+..+++..
T Consensus 28 ~~~~~I~IG~~~~~~~-------~~~~~~~~~l~~~~----G~~Vel~~f~~~~~~~~------ALa~GdID~~~ 85 (271)
T PRK11063 28 KDPNHIKVGVIVGAEQ-------QVAEVAQKVAKEKY----GLDVELVTFNDYVLPNE------ALSKGDIDANA 85 (271)
T ss_pred CCCCcEEEEeCCCChH-------HHHHHHHHHHHHhc----CCeEEEEEecCcHHHHH------HHHcCCcceec
Confidence 3345699999742211 12334444444332 78899988875433322 23344666644
No 278
>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=61.67 E-value=48 Score=29.55 Aligned_cols=70 Identities=17% Similarity=0.185 Sum_probs=48.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. .+++++.. +....+...+.+|++|+++...... ...+ .+.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08415 13 SLLPRAIARFRARHP-DVRISLHT-------LSSSTVVEAVLSGQADLGLASLPLD---HPGL-ESEPLASGRAVCVLPP 80 (196)
T ss_pred cccHHHHHHHHHHCC-CcEEEEEe-------cchHHHHHHHHcCCccEEEEeCCCC---CCcc-eeeeecccceEEEEcC
Confidence 456788888887764 33466655 5578899999999999998643221 1222 3577888888888765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (196)
T cd08415 81 GH 82 (196)
T ss_pred CC
Confidence 43
No 279
>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=61.51 E-value=60 Score=28.45 Aligned_cols=81 Identities=11% Similarity=0.066 Sum_probs=56.0
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe
Q 006567 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (640)
Q Consensus 151 ~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~ 230 (640)
+++.+..+.++++.+++.++- |..-.....+.+...+.-.|+++.... .++....+.+-+..+.++++++
T Consensus 12 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~s---------ve~a~~~l~~~~~~~~~v~il~ 81 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVN-DEVANDELRKTLLKLAAPPGVKLRIFT---------VEKAIEAINSPKYDKQRVFLLF 81 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCeEEEEE---------HHHHHHHHhCcCCCCceEEEEE
Confidence 578888899999999998663 433333455555565555677665432 3455555655555677899999
Q ss_pred cChhhHHHHHH
Q 006567 231 VSPSLGFQVFS 241 (640)
Q Consensus 231 ~~~~~~~~il~ 241 (640)
-++.++..+++
T Consensus 82 k~~~~~~~l~~ 92 (151)
T cd00001 82 KNPQDVLRLVE 92 (151)
T ss_pred CCHHHHHHHHH
Confidence 99999988865
No 280
>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=61.29 E-value=40 Score=30.52 Aligned_cols=70 Identities=10% Similarity=0.066 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.+++. ++++++.. ++...++..|.+|++|+++..-. ..+ ..++ +.++....+.+++++
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~l~~~l~~g~~D~~~~~~~--~~~-~~~~-~~~l~~~~~~lv~~~ 81 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTH-------MTKDEQVEGLLAGTIHVGFSRFF--PRH-PGIE-IVNIAQEDLYLAVHR 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEE-------CCHHHHHHHHHcCCceEEEecCC--CCC-CceE-EEEEeeccEEEEecC
Confidence 455677888877763 44466655 66899999999999999985321 122 2232 456677788888775
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 82 ~h 83 (198)
T cd08486 82 SQ 83 (198)
T ss_pred CC
Confidence 44
No 281
>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=60.87 E-value=25 Score=33.64 Aligned_cols=78 Identities=10% Similarity=0.152 Sum_probs=50.5
Q ss_pred EEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHH
Q 006567 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVA 243 (640)
Q Consensus 166 ~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a 243 (640)
+++++.+. ..+.......+++.+++.|+.+..... . .+.......++++...+++.||+..........++.+
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~~---~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l 75 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLANS---Q--NDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLA 75 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHh
Confidence 36677753 567777888888999999987764422 1 1234566777777777899888864433333356666
Q ss_pred HHcCC
Q 006567 244 KYLGM 248 (640)
Q Consensus 244 ~~~gl 248 (640)
.+.+.
T Consensus 76 ~~~~i 80 (264)
T cd01537 76 RKAGI 80 (264)
T ss_pred hhcCC
Confidence 66554
No 282
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=60.87 E-value=69 Score=28.31 Aligned_cols=80 Identities=14% Similarity=0.076 Sum_probs=54.5
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHh-hcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEE
Q 006567 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA-ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVL 229 (640)
Q Consensus 151 ~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~-~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl 229 (640)
+++.+..+.++++.+++.++- |..-.....+.+.+.+. -.|+++.... ..+....+.+ ...+.+++++
T Consensus 17 HGQV~~~W~~~~~~~~IiVvd-D~vA~D~~~k~~lkma~~P~gvk~~i~s---------v~~a~~~l~~-~~~~~~vlvl 85 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVVD-DVVANDDIQQKLMGITAETYGFGIRFFT---------IEKTINVIGK-AAPHQKIFLI 85 (158)
T ss_pred hHHHHHhhhcccCCCEEEEEc-chhcCCHHHHHHHHhcCCCCCCEEEEEE---------HHHHHHHHHh-ccCCceEEEE
Confidence 578888899999999998763 33333334555555544 4566665321 4455556666 5566789999
Q ss_pred ecChhhHHHHHH
Q 006567 230 HVSPSLGFQVFS 241 (640)
Q Consensus 230 ~~~~~~~~~il~ 241 (640)
+-++.++..+++
T Consensus 86 ~~~~~da~~l~~ 97 (158)
T PRK09756 86 CRTPQTVRKLVE 97 (158)
T ss_pred ECCHHHHHHHHH
Confidence 999999988875
No 283
>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=60.22 E-value=40 Score=33.15 Aligned_cols=77 Identities=9% Similarity=0.037 Sum_probs=53.7
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-ChhhHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV-SPSLGFQVFSVA 243 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~-~~~~~~~il~~a 243 (640)
|+++.. ++.|.....+.+++.+++.|+.+...... .+.......++.+.+.++|.|++.. +.+.....++++
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~~-----~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l 76 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNAN-----GDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKA 76 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECCC-----CCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHH
Confidence 567765 35577777889999999999887754321 1234456777788888999988874 344456778888
Q ss_pred HHcCC
Q 006567 244 KYLGM 248 (640)
Q Consensus 244 ~~~gl 248 (640)
++.|.
T Consensus 77 ~~~~i 81 (288)
T cd01538 77 ADAGI 81 (288)
T ss_pred HHCCC
Confidence 87664
No 284
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=60.15 E-value=2e+02 Score=30.81 Aligned_cols=141 Identities=12% Similarity=0.114 Sum_probs=73.9
Q ss_pred EEcCCChHHHHHHHHhhc-cCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC-CCC
Q 006567 100 IIGPQCSTVAHIVSYVSN-ELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYG 177 (640)
Q Consensus 100 iiGp~~s~~~~~v~~~~~-~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~-~~g 177 (640)
|++|.+.....++..+.. ...+=+|.++. . -++|- ......+...++.+...-+++.|+|... ...
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-G---------VVWRD--NPTQIVELYLKWAADYQEDRITIFYDTMSNNT 265 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC-C---------ceEeC--CHHHHHHHHHHHhhccCcCcEEEEEECCccHH
Confidence 677777766666666654 23444554322 2 22341 1222223333333333447899999432 233
Q ss_pred cccHHHHHHHHhhc--CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh------hhHHHHHHHHHHcCCc
Q 006567 178 RNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP------SLGFQVFSVAKYLGMM 249 (640)
Q Consensus 178 ~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~------~~~~~il~~a~~~gl~ 249 (640)
...++.+.+.+++. |+.+.... +. ..+...++..+. .++.|++.++. .....++.......+.
T Consensus 266 e~mA~~ia~gl~~~g~gv~v~~~~-v~------~~~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~ 336 (479)
T PRK05452 266 RMMADAIAQGIAEVDPRVAVKIFN-VA------RSDKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFR 336 (479)
T ss_pred HHHHHHHHHHHHhhCCCceEEEEE-CC------CCCHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCcC
Confidence 45677788888766 45544322 22 223444444442 46778877544 2355677777666665
Q ss_pred cCCeEEEEeCcc
Q 006567 250 GNGYVWIATDWL 261 (640)
Q Consensus 250 ~~~~~~i~~~~~ 261 (640)
+....-+++-+|
T Consensus 337 gK~~~vFGSygw 348 (479)
T PRK05452 337 NKRASAFGSHGW 348 (479)
T ss_pred CCEEEEEECCCc
Confidence 544445555444
No 285
>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=59.69 E-value=35 Score=33.02 Aligned_cols=80 Identities=10% Similarity=0.130 Sum_probs=50.7
Q ss_pred EEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhh-HHHHHHH
Q 006567 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFSV 242 (640)
Q Consensus 166 ~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~-~~~il~~ 242 (640)
||+++..+ +.|.......+++.+++.|+++........ .+.......++++...+.|.||+...... ....++.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~ 77 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPASE---TDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKE 77 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCccC---CCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHH
Confidence 46777643 556667778888888889988765422111 12344556677777788998888643333 3456777
Q ss_pred HHHcCC
Q 006567 243 AKYLGM 248 (640)
Q Consensus 243 a~~~gl 248 (640)
+.+.|+
T Consensus 78 ~~~~~i 83 (273)
T cd06310 78 AKDAGI 83 (273)
T ss_pred HHHCCC
Confidence 766554
No 286
>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=59.58 E-value=45 Score=29.82 Aligned_cols=71 Identities=14% Similarity=0.150 Sum_probs=48.5
Q ss_pred eeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEe
Q 006567 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (640)
Q Consensus 491 ~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~ 570 (640)
..+..+++..+.++.. ++++++.. ++..+++..|.+|++|+++.... ...+.+. +.|+....+.++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~~~~ 79 (198)
T cd08412 12 PYYLPGLLRRFREAYP-GVEVRVVE-------GNQEELEEGLRSGELDLALTYDL---DLPEDIA-FEPLARLPPYVWLP 79 (198)
T ss_pred hhhhHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEcCC---CCCcccc-eeeeeccceEEEec
Confidence 3566788888888765 33366655 56788999999999999975322 2222232 47788888888886
Q ss_pred cCC
Q 006567 571 FRK 573 (640)
Q Consensus 571 ~~~ 573 (640)
+..
T Consensus 80 ~~~ 82 (198)
T cd08412 80 ADH 82 (198)
T ss_pred CCC
Confidence 654
No 287
>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=59.49 E-value=53 Score=29.38 Aligned_cols=70 Identities=13% Similarity=0.121 Sum_probs=46.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+...++..+.++.. ++++++.. .....+...|.+|++|+++.... .....++ +.++....+.+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 81 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLRE-------MPQERIEAALADDRLDLGIAFAP---VRSPDID-AQPLFDERLALVVGA 81 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE-------CcHHHHHHHHHcCCccEEEEecC---CCCCCcE-EEEeccccEEEEecC
Confidence 344577888887764 44466655 45678999999999999985322 2222232 367777888888766
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
+.
T Consensus 82 ~~ 83 (197)
T cd08425 82 TH 83 (197)
T ss_pred CC
Confidence 54
No 288
>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=59.46 E-value=33 Score=30.30 Aligned_cols=70 Identities=20% Similarity=0.310 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. ++++++.. ..+..++..|.+|++|++++.... ..+.++ ..++....+.+++++
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 455677777777654 33466655 447789999999999999865543 222233 456777788888776
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (197)
T cd05466 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 289
>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=59.44 E-value=38 Score=33.52 Aligned_cols=78 Identities=9% Similarity=0.037 Sum_probs=51.5
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-hhHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVA 243 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-~~~~~il~~a 243 (640)
|+++.. ++.|.......+++.+++.|+.+....... .+.......++.+...++|.||+.... ......++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~~~~----~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~ 77 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVGPTT----ADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKA 77 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEECCCC----CCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHH
Confidence 555553 455666778888999999998876431111 124455677777777889999987433 3345677778
Q ss_pred HHcCC
Q 006567 244 KYLGM 248 (640)
Q Consensus 244 ~~~gl 248 (640)
++.|+
T Consensus 78 ~~~~i 82 (298)
T cd06302 78 REAGI 82 (298)
T ss_pred HHCCC
Confidence 77665
No 290
>cd08175 G1PDH Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner. Glycerol-1-phosphate dehydrogenase (G1PDH) plays a role in the synthesis of phosphoglycerolipids in Gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires a Ni++ ion. In Bacillus subtilis, it has been described as AraM gene in L-arabinose (ara) operon. AraM protein forms homodimer. This family is bacteria specific.
Probab=59.29 E-value=48 Score=33.81 Aligned_cols=87 Identities=10% Similarity=0.079 Sum_probs=55.4
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe--
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-- 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-- 230 (640)
+.+.++++.++.+++.++++.... ....+.+.+.+++.|+.+............+.+.....++.+++ ++|.||-.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~-~~~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTY-AAAGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHH-HHHHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 456677888888998888743322 22356788888888886643322322212456677788888877 89988866
Q ss_pred cChhhHHHHHH
Q 006567 231 VSPSLGFQVFS 241 (640)
Q Consensus 231 ~~~~~~~~il~ 241 (640)
++.-|+..++.
T Consensus 90 Gs~~D~aK~vA 100 (348)
T cd08175 90 GTINDITKYVS 100 (348)
T ss_pred cHHHHHHHHHH
Confidence 34455555554
No 291
>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=58.58 E-value=52 Score=29.21 Aligned_cols=70 Identities=16% Similarity=0.155 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. .+++++.. ++...++..+.+|++|+++... +.....+. ..+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (193)
T cd08442 13 VRLPPLLAAYHARYP-KVDLSLST-------GTTGALIQAVLEGRLDGAFVAG---PVEHPRLE-QEPVFQEELVLVSPK 80 (193)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEEeC---CCCCCCcE-EEEeecCcEEEEecC
Confidence 455678888888764 33366654 5578899999999999997532 22222222 456777788888776
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (193)
T cd08442 81 GH 82 (193)
T ss_pred CC
Confidence 55
No 292
>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=58.34 E-value=52 Score=29.23 Aligned_cols=70 Identities=17% Similarity=0.246 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. ++++++.. .+...+...+.+|++|+++.... ...+.+. +.++....+.+++++
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 456678888887764 43466654 45788999999999999986432 2222232 357777788888765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (197)
T cd08440 81 DH 82 (197)
T ss_pred CC
Confidence 44
No 293
>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=58.24 E-value=36 Score=33.57 Aligned_cols=79 Identities=6% Similarity=0.114 Sum_probs=49.6
Q ss_pred EEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-hhHHHHHHH
Q 006567 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSV 242 (640)
Q Consensus 166 ~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-~~~~~il~~ 242 (640)
||+++..+ +.|.......+++.+++.|..+.... ... .+.......+..+...++|.|++.... .....++++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~--~~~--~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~ 76 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATT--DAQ--FDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKK 76 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEec--CCC--CCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHH
Confidence 45666643 34555667788888888998776321 111 223445566777777889988886433 224567788
Q ss_pred HHHcCC
Q 006567 243 AKYLGM 248 (640)
Q Consensus 243 a~~~gl 248 (640)
+.+.|.
T Consensus 77 ~~~~~i 82 (294)
T cd06316 77 VAEAGI 82 (294)
T ss_pred HHHcCC
Confidence 887765
No 294
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=58.09 E-value=82 Score=27.82 Aligned_cols=80 Identities=14% Similarity=0.128 Sum_probs=54.9
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe
Q 006567 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (640)
Q Consensus 151 ~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~ 230 (640)
+++.+..+.++++.+++.++- |..-.....+.+...+.-.|+++.... .++....+++ ...+.++++++
T Consensus 15 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~s---------v~~a~~~l~~-~~~~~~v~il~ 83 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVAN-DEVAEDPVQQNLMEMVLAEGIAVRFWT---------LQKVIDNIHR-AADRQKILLVC 83 (157)
T ss_pred hHHhhhhhhcccCCCEEEEEc-chhcCCHHHHHHHHhhCCCCCeEEEEE---------HHHHHHHHhc-cCCCceEEEEE
Confidence 578888899999999987663 333333445555555555677665432 4455566666 55667899999
Q ss_pred cChhhHHHHHH
Q 006567 231 VSPSLGFQVFS 241 (640)
Q Consensus 231 ~~~~~~~~il~ 241 (640)
-++.++..+++
T Consensus 84 k~~~d~~~l~~ 94 (157)
T PRK11425 84 KTPADFLTLVK 94 (157)
T ss_pred CCHHHHHHHHH
Confidence 99999888765
No 295
>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=57.57 E-value=43 Score=32.08 Aligned_cols=78 Identities=6% Similarity=0.026 Sum_probs=50.9
Q ss_pred EEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhhHHHHHHH
Q 006567 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSV 242 (640)
Q Consensus 166 ~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~~~~il~~ 242 (640)
+|++|..+ +.+.....+.+++.+++.|+++.....- .+.......++++...+.+.|++... .......++.
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~ 75 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDAQ-----NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKK 75 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECCC-----CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHH
Confidence 46777753 5677778888999998889887654321 12344456777777778998888643 3333446666
Q ss_pred HHHcCC
Q 006567 243 AKYLGM 248 (640)
Q Consensus 243 a~~~gl 248 (640)
+++.+.
T Consensus 76 l~~~~i 81 (267)
T cd01536 76 ANAAGI 81 (267)
T ss_pred HHHCCC
Confidence 666543
No 296
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=57.19 E-value=91 Score=31.95 Aligned_cols=102 Identities=7% Similarity=0.003 Sum_probs=61.8
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCC-CCCChhHHHHHHHHHhcCCc---eEEE
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPE-SGVNTGYVMDLLVKVALMES---RVIV 228 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~~~~~~~~~l~~l~~~~~---~viv 228 (640)
+.+.++++.++.+++.++++... .....+.+.+.+++.|+.+.... ++.. .+.+.......++.+++.++ |.||
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~~-~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~II 97 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVVV-LPDGEQYKSLETLEKIYDALLEAGLDRSDTLI 97 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEEE-eCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEE
Confidence 45666777778899988885443 33466778888888887655321 2211 11446778888888877655 8777
Q ss_pred Eec--ChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 229 LHV--SPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 229 l~~--~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
-.+ +.-|+..++......| ..++-|-|.
T Consensus 98 avGGGsv~D~aK~iA~~~~~g---ip~i~IPTT 127 (358)
T PRK00002 98 ALGGGVIGDLAGFAAATYMRG---IRFIQVPTT 127 (358)
T ss_pred EEcCcHHHHHHHHHHHHhcCC---CCEEEcCch
Confidence 653 4455555554434434 344555443
No 297
>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=57.10 E-value=70 Score=33.34 Aligned_cols=79 Identities=15% Similarity=0.058 Sum_probs=55.0
Q ss_pred cCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe--cChhhHHHH
Q 006567 162 YGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH--VSPSLGFQV 239 (640)
Q Consensus 162 ~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~--~~~~~~~~i 239 (640)
.+.+++.+|++.........+.+.+.+++.|+.+..-..+.++ .+.......+..+++.++|+||-. ++.-|+..+
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~ 96 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPD--PSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKI 96 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHH
Confidence 3568888887443333346788899999888876543344444 557778888999999999999965 455666655
Q ss_pred HHH
Q 006567 240 FSV 242 (640)
Q Consensus 240 l~~ 242 (640)
+..
T Consensus 97 iA~ 99 (398)
T cd08178 97 MWL 99 (398)
T ss_pred HHH
Confidence 543
No 298
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=56.95 E-value=1.3e+02 Score=26.18 Aligned_cols=123 Identities=12% Similarity=0.165 Sum_probs=71.2
Q ss_pred HHHHhHhc--CcEEEEcCCCh--HHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcC
Q 006567 88 EALRFMET--DIVAIIGPQCS--TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG 163 (640)
Q Consensus 88 ~a~~l~~~--~v~aiiGp~~s--~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~ 163 (640)
.+..++++ +...|+||.-- ..-+.+..+.+..+||++..++....+.+..-. +......++-.+++.-+
T Consensus 27 v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~~~~~~~~~i~-------~~~~~lh~it~~l~Dp~ 99 (170)
T COG1880 27 VVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASSMGNLIGRGIG-------SEYINLHAITQYLTDPN 99 (170)
T ss_pred HHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchhhcchhhcccc-------cchhHHHHHHHHhcCCC
Confidence 34445544 89999998765 455678889999999999765555555543211 33334567777888755
Q ss_pred Cc---------EEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCC-----CCChhHHHHHHHHH
Q 006567 164 WN---------AVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-----GVNTGYVMDLLVKV 219 (640)
Q Consensus 164 w~---------~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~-----~~~~~~~~~~l~~l 219 (640)
|. -|.++..-..|....++.++... .=..++....|.++. +.+..++-+.|+++
T Consensus 100 w~G~dg~g~yDlviflG~~~yy~sq~Ls~lKhFs--~i~tiaId~~Y~pnAd~SFpNl~kde~~~~L~el 167 (170)
T COG1880 100 WPGFDGNGNYDLVIFLGSIYYYLSQVLSGLKHFS--NIKTIAIDRYYQPNADYSFPNLSKDEYLAYLDEL 167 (170)
T ss_pred CCCcCCCCCcceEEEEeccHHHHHHHHHHhhhhh--cceEEEeccccCcCccccCCCcCHHHHHHHHHHH
Confidence 53 35445444445444455544433 113455555555542 23444555555554
No 299
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=56.68 E-value=48 Score=31.96 Aligned_cols=78 Identities=6% Similarity=0.030 Sum_probs=48.6
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. ++.|.....+.+++.+++.|+.+....... . ........++.+...+++.|++..........++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~-~---~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 77 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPCDS-G---SPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLD 77 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeCCC-C---chHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHH
Confidence 456654 356777888899999999998876543211 1 1224455666677788898887643222345566666
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.+.
T Consensus 78 ~~~i 81 (270)
T cd01545 78 EAGV 81 (270)
T ss_pred hcCC
Confidence 6554
No 300
>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=56.53 E-value=42 Score=32.69 Aligned_cols=77 Identities=8% Similarity=0.018 Sum_probs=50.3
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhhHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVA 243 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~~~~il~~a 243 (640)
|+++.. .+.|.......+++.+++.|..+..... . .+...-...+..+...++|.|++... .+.....++.+
T Consensus 2 igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~--~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~ 76 (282)
T cd06318 2 IGFSQYTLNSPFFAALTEAAKAHAKALGYELISTDA---Q--GDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAA 76 (282)
T ss_pred eeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEcC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHH
Confidence 555553 3556667788899999999988765321 1 12334456788888889999988643 33334566777
Q ss_pred HHcCC
Q 006567 244 KYLGM 248 (640)
Q Consensus 244 ~~~gl 248 (640)
.+.|.
T Consensus 77 ~~~~i 81 (282)
T cd06318 77 KAAGV 81 (282)
T ss_pred HHCCC
Confidence 77654
No 301
>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=56.31 E-value=60 Score=31.28 Aligned_cols=75 Identities=15% Similarity=0.065 Sum_probs=47.4
Q ss_pred EEEEEEc-----CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHH
Q 006567 167 VSVIFVD-----NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFS 241 (640)
Q Consensus 167 v~ii~~~-----~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~ 241 (640)
|+++.++ +.|.....+.+++.+++.|.++..... ... .......+..+...++|.|++...... ..++
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~~~----~~~~~~~~~~l~~~~vdgiii~~~~~~--~~~~ 74 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKFV-SDE----DEEEFELPSFLEDGKVDGIILLGGIST--EYIK 74 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEeC-CCC----hHHHHHHHHHHHHCCCCEEEEeCCCCh--HHHH
Confidence 5556544 667777788888889888987765432 211 233445556677788999998754333 2366
Q ss_pred HHHHcCC
Q 006567 242 VAKYLGM 248 (640)
Q Consensus 242 ~a~~~gl 248 (640)
.+.+.|.
T Consensus 75 ~l~~~~i 81 (268)
T cd06277 75 EIKELGI 81 (268)
T ss_pred HHhhcCC
Confidence 6666554
No 302
>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=56.29 E-value=1.9e+02 Score=27.70 Aligned_cols=131 Identities=12% Similarity=0.027 Sum_probs=72.2
Q ss_pred EEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 32 VNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 32 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
-+|+.+.+...........|+..++++.+. +.+..........+...+.+.+.++++.+..+|+...... +..
T Consensus 121 ~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai~~~~d~~-A~g 193 (260)
T cd06304 121 GKVGFVGGMPIPEVNRFINGFAAGAKSVNP------DITVLVIYTGSFFDPAKGKEAALALIDQGADVIFAAAGGT-GPG 193 (260)
T ss_pred CceEEEeccccHHHHHHHHHHHHHHHHhCC------CcEEEEEEecCccCcHHHHHHHHHHHhCCCCEEEEcCCCC-chH
Confidence 457777543222233446788888876431 2233222222223344566667777776678888755444 333
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEE
Q 006567 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIF 171 (640)
Q Consensus 112 v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~ 171 (640)
+...+.+.++-++++... .......|.+..+..+...++...++.+..-.|+..-..+
T Consensus 194 v~~al~~~gv~vigfD~~--~~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (260)
T cd06304 194 VIQAAKEAGVYAIGVDSD--QSALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKGGVYWL 251 (260)
T ss_pred HHHHHHHcCCEEEeecCc--hhhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCCcceEe
Confidence 444444556666665332 2322233666666677777777777777666665544333
No 303
>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=56.13 E-value=26 Score=30.77 Aligned_cols=83 Identities=16% Similarity=0.117 Sum_probs=59.1
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe
Q 006567 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (640)
Q Consensus 151 ~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~ 230 (640)
+++.+..++++++.+++.++- |........+.+.+.+.-.|+++.... .++....+++....+.++++++
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~s---------v~~a~~~l~~~~~~~~~v~ii~ 82 (151)
T PF03830_consen 13 HGQVATAWVKKLNANRIIVVD-DEVANDPFQKMILKMAAPAGVKLSIFS---------VEEAIEKLKKPEYSKKRVLIIV 82 (151)
T ss_dssp CTTHHHHHHHHHTTSEEEEE--HHHHHSHHHHHHHHHTSHTTSEEEEE----------HHHHHHHHCGGGGTTEEEEEEE
T ss_pred eeeeeEEEhhhcccCEEEEEC-HHHhcCHHHHHHHHHhhcCCCceEEEE---------HHHHHHHHHhcccCCceEEEEE
Confidence 467888899999999998774 433334456666666656677766432 4566666777666788999999
Q ss_pred cChhhHHHHHHHH
Q 006567 231 VSPSLGFQVFSVA 243 (640)
Q Consensus 231 ~~~~~~~~il~~a 243 (640)
-++.++..++++-
T Consensus 83 k~~~d~~~l~~~g 95 (151)
T PF03830_consen 83 KSPEDALRLVEAG 95 (151)
T ss_dssp SSHHHHHHHHHTT
T ss_pred CCHHHHHHHHhcC
Confidence 9999998887643
No 304
>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=56.04 E-value=37 Score=33.24 Aligned_cols=76 Identities=13% Similarity=0.131 Sum_probs=51.0
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhhHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVA 243 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~~~~il~~a 243 (640)
|+++.. .+.|.....+.+.+.+++.|..+...... . .......++++...++|.||+... ......+++++
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~--~----~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~ 75 (289)
T cd01540 2 IGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKIDVP--D----GEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKA 75 (289)
T ss_pred eeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEccCC--C----HHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHH
Confidence 566664 34566677788889999999887643211 1 334456777788888998888753 33455678888
Q ss_pred HHcCC
Q 006567 244 KYLGM 248 (640)
Q Consensus 244 ~~~gl 248 (640)
.+.|.
T Consensus 76 ~~~~i 80 (289)
T cd01540 76 KAYNM 80 (289)
T ss_pred HhCCC
Confidence 87764
No 305
>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=55.93 E-value=44 Score=32.12 Aligned_cols=77 Identities=12% Similarity=0.102 Sum_probs=49.3
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
++++.. .+.|.......+++.+++.|+++.... .. .+...-...++.+.+.++|.|++..........++++.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~~---~~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLAN---SG--EDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLA 76 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEec---CC--CChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHH
Confidence 455554 355666677888888888888765321 11 12344566777888888998888754333334677777
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.|.
T Consensus 77 ~~~i 80 (268)
T cd06289 77 ESGI 80 (268)
T ss_pred hcCC
Confidence 7664
No 306
>PRK00865 glutamate racemase; Provisional
Probab=55.79 E-value=1.4e+02 Score=29.06 Aligned_cols=35 Identities=9% Similarity=0.194 Sum_probs=23.9
Q ss_pred HhHhcCcEEEEcCCChHHHHHHHHhhccCCceEEe
Q 006567 91 RFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLS 125 (640)
Q Consensus 91 ~l~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is 125 (640)
.+.+.|+.+|+=+-.+..+..+..+-+..++|+|+
T Consensus 62 ~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 62 FLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 34455898888765555555556666677899996
No 307
>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=55.73 E-value=51 Score=29.82 Aligned_cols=73 Identities=14% Similarity=0.211 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. ++++++.. .+...++..|.+|++|+++........-.+.+. +.+.....+.+++++
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 456778888888764 33466655 568899999999999999864322100012232 246666667777665
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 84 ~h 85 (202)
T cd08468 84 DH 85 (202)
T ss_pred CC
Confidence 44
No 308
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=55.52 E-value=16 Score=35.30 Aligned_cols=88 Identities=16% Similarity=0.195 Sum_probs=53.1
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEe-
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG- 542 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~- 542 (640)
..+|||+......+.|+ .+-.-+.+.++.|+++ ++... .++..++..+..|++|++..
T Consensus 5 ~~~l~ig~~~~~~~~p~-------------~~a~~~g~f~~~G~~v--e~~~~------~~g~~~~~al~~G~iD~a~~~ 63 (252)
T PF13379_consen 5 PTTLRIGYLPGPDYAPL-------------YVAQEKGLFEKEGLDV--EWVQF------ASGADILEALAAGEIDIAFVL 63 (252)
T ss_dssp ESEEEEEETSSGGGHHH-------------HHHHHTTHHHHTTSCE--EEEEE------SSHHHHHHHHHCTSSSEEEEC
T ss_pred CcEEEEEeecchHHHHH-------------HHHHHcChHHHcCCEE--EEEEc------CCHHHHHHHHHcCCCCEEEec
Confidence 36789988643333332 1111244667779985 44443 56999999999999999976
Q ss_pred -eeeeeccccc-----eEEeCccccccceEEEEecC
Q 006567 543 -DITIVTNRTK-----IVDFSQPYAASGLVVVVPFR 572 (640)
Q Consensus 543 -~~~~t~~R~~-----~vdfs~p~~~~~~~il~~~~ 572 (640)
+...-..+.. .+..-......|..++++.+
T Consensus 64 ~~~~~~~~~g~~~~~~~~~~~~~~~~~g~~lvv~~~ 99 (252)
T PF13379_consen 64 APALIAIAKGAGGPDVDIVVLAGLSQNGNALVVRND 99 (252)
T ss_dssp THHHHHHHTTTTT----EEEEEECSBSSEEEEECGG
T ss_pred hHHHHHHHcCCCCcccceEEeeccCCCceEEEEcCc
Confidence 1112222322 23333445667888999874
No 309
>PRK07377 hypothetical protein; Provisional
Probab=55.51 E-value=38 Score=30.27 Aligned_cols=63 Identities=13% Similarity=0.241 Sum_probs=44.4
Q ss_pred CeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeee
Q 006567 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (640)
Q Consensus 465 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~ 544 (640)
..+|+++... ..+ .+..-+-.++.++.+.++++.+ .+++++ .+-+.+.+.+.+|++|.+++.-
T Consensus 75 ~~~Rlgv~~~--------~~~-~~~~~~~l~~~l~~~~~~y~~r--lElv~y------~~~~~l~~aL~~~eVh~~c~~~ 137 (184)
T PRK07377 75 LVMRLGVLEI--------ETE-TSSVFDQLIDQLRTILDKYHLR--LELVVY------PDLQALEQALRDKEVHAICLES 137 (184)
T ss_pred cEEEEEEEec--------ccc-ccccHHHHHHHHHHHHHHhCce--eeEEec------CCHHHHHHHHhcCCccEEecCC
Confidence 3578887642 011 2223344677889999999988 566665 5689999999999999886643
No 310
>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=55.36 E-value=46 Score=30.18 Aligned_cols=83 Identities=16% Similarity=0.220 Sum_probs=57.3
Q ss_pred CeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeee
Q 006567 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (640)
Q Consensus 465 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~ 544 (640)
++|+|++... -..-+..+++..+.++.. .+++++.. +....++..|.+|++|++++..
T Consensus 6 ~~l~Ig~~~~--------------~~~~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 63 (209)
T PF03466_consen 6 GTLRIGASPS--------------FASSLLPPLLAEFRERHP-NIRIEIRE-------GDSDELIEALRSGELDLAITFG 63 (209)
T ss_dssp EEEEEEEEHH--------------HHHHTHHHHHHHHHHHST-TEEEEEEE-------ESHHHHHHHHHTTSSSEEEESS
T ss_pred eEEEEEEEhH--------------HHHHHHHHHHHHHHHHCC-CcEEEEEe-------ccchhhhHHHhcccccEEEEEe
Confidence 5688888521 123455678888888775 34466655 5578999999999999997755
Q ss_pred eeeccccceEEeCccccccceEEEEecCC
Q 006567 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 545 ~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
.. ....+. ..++....+.+++++..
T Consensus 64 ~~---~~~~~~-~~~l~~~~~~~~~~~~~ 88 (209)
T PF03466_consen 64 PP---PPPGLE-SEPLGEEPLVLVVSPDH 88 (209)
T ss_dssp SS---SSTTEE-EEEEEEEEEEEEEETTS
T ss_pred ec---cccccc-cccccceeeeeeeeccc
Confidence 54 222222 46788888899987775
No 311
>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=55.28 E-value=48 Score=33.84 Aligned_cols=84 Identities=17% Similarity=0.132 Sum_probs=54.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV- 231 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~- 231 (640)
..+.++++.++ +++.++++...+ ....+.+.+.+++.|+.+.... +... .+........+.+++.++|.||-.+
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~-~~~~~~v~~~l~~~~i~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~d~IIavGG 86 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL-KKSRPRFEAALAKSIIVVDVIV-FGGE--CSTEEVVKALCGAEEQEADVIIGVGG 86 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH-HHHHHHHHHHHHhcCCeeEEEE-cCCC--CCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 45667788888 888777743332 2456778888888777554332 3332 3466788888888888999888664
Q ss_pred -ChhhHHHHHH
Q 006567 232 -SPSLGFQVFS 241 (640)
Q Consensus 232 -~~~~~~~il~ 241 (640)
+.-|+..++.
T Consensus 87 Gs~~D~aK~ia 97 (349)
T cd08550 87 GKTLDTAKAVA 97 (349)
T ss_pred cHHHHHHHHHH
Confidence 4445554443
No 312
>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=55.25 E-value=50 Score=29.88 Aligned_cols=70 Identities=17% Similarity=0.280 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. .+++++.. .....++..+.+|++|++++..... . ..+. +.++....+.+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~--~-~~~~-~~~l~~~~~~~v~~~ 81 (203)
T cd08445 14 GLLPELIRRFRQAAP-DVEIELIE-------MTTVQQIEALKEGRIDVGFGRLRIE--D-PAIR-RIVLREEPLVVALPA 81 (203)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHcCCCcEEEecCCCC--C-CCce-eEEEEeccEEEEeeC
Confidence 566778888887764 33355554 4578999999999999998532221 1 2222 456777788888776
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 82 ~h 83 (203)
T cd08445 82 GH 83 (203)
T ss_pred CC
Confidence 44
No 313
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=55.19 E-value=19 Score=36.15 Aligned_cols=69 Identities=14% Similarity=0.163 Sum_probs=41.8
Q ss_pred HHHHHHHHhC-CCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccc-----cc-eEEeCccccccceEEE
Q 006567 496 DVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNR-----TK-IVDFSQPYAASGLVVV 568 (640)
Q Consensus 496 dl~~~i~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R-----~~-~vdfs~p~~~~~~~il 568 (640)
+....+.+++ +.+ +++... .+...++..|.+|++|+++.. .....+ .+ .+..+.++...+..++
T Consensus 44 ~~~~~~~~~~p~v~--ie~~~~------~~~~~~~~aL~~G~iDia~~~-~~~~~~~~~~g~~~~~v~~~~~~~~~~~lv 114 (314)
T PRK11553 44 KSHQLLEKRFPQTK--ISWVEF------PAGPQMLEALNVGSIDLGSTG-DIPPIFAQAAGADLVYVGVEPPKPKAEVIL 114 (314)
T ss_pred HhhCHHHHhCCCCe--eEEEEC------CCcHHHHHHHHcCCCCEEccC-CHHHHHHHhCCCCEEEEEEecCCCcceEEE
Confidence 4444555554 455 555552 245789999999999999764 222222 11 1222566666677888
Q ss_pred EecCC
Q 006567 569 VPFRK 573 (640)
Q Consensus 569 ~~~~~ 573 (640)
+++..
T Consensus 115 v~~~s 119 (314)
T PRK11553 115 VAENS 119 (314)
T ss_pred EeCCC
Confidence 87665
No 314
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=55.04 E-value=58 Score=32.03 Aligned_cols=83 Identities=12% Similarity=0.092 Sum_probs=55.1
Q ss_pred CeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeee
Q 006567 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (640)
Q Consensus 465 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~ 544 (640)
++++|++.. .-...+..+++..+.++.. .+.+++.. .....++..|.+|++|+++...
T Consensus 91 ~~i~I~~~~--------------~~~~~~l~~~l~~~~~~~p-~~~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (296)
T PRK11242 91 GSLRLAMTP--------------TFTAYLIGPLIDAFHARYP-GITLTIRE-------MSQERIEALLADDELDVGIAFA 148 (296)
T ss_pred eEEEEEecc--------------chhhhhhHHHHHHHHHHCC-CCEEEEEe-------CCHHHHHHHHHCCCCcEEEEec
Confidence 468888852 1122445677888888753 44466654 4578899999999999998533
Q ss_pred eeeccccceEEeCccccccceEEEEecCC
Q 006567 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 545 ~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
. .+.+.+ .+.++....+.+++++..
T Consensus 149 ~---~~~~~l-~~~~l~~~~~~~~~~~~~ 173 (296)
T PRK11242 149 P---VHSPEI-EAQPLFTETLALVVGRHH 173 (296)
T ss_pred C---CCCcce-eEEEeeeccEEEEEcCCC
Confidence 2 222333 247778888888887654
No 315
>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=54.69 E-value=52 Score=31.81 Aligned_cols=80 Identities=8% Similarity=0.045 Sum_probs=50.3
Q ss_pred EEEEEEE--cCCCCcccHHHHHHHHhhc---CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-hhHHHH
Q 006567 166 AVSVIFV--DNEYGRNGVSALNDKLAER---RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQV 239 (640)
Q Consensus 166 ~v~ii~~--~~~~g~~~~~~~~~~~~~~---g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-~~~~~i 239 (640)
||+++.. ++.|.....+.+++.+++. |..+..... ... .+.......++++...++|.||+.... ......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i~-~~~--~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIVT-SAD--GDVAQQIADIRNLIAQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEEe-cCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHH
Confidence 4566653 3456666778888888888 864332221 111 234556678888888899999997543 334456
Q ss_pred HHHHHHcCC
Q 006567 240 FSVAKYLGM 248 (640)
Q Consensus 240 l~~a~~~gl 248 (640)
+..+++.|.
T Consensus 78 l~~~~~~~i 86 (272)
T cd06300 78 IEEACEAGI 86 (272)
T ss_pred HHHHHHCCC
Confidence 777777664
No 316
>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=54.41 E-value=93 Score=30.78 Aligned_cols=114 Identities=16% Similarity=0.053 Sum_probs=55.9
Q ss_pred eEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChH---
Q 006567 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST--- 107 (640)
Q Consensus 31 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~--- 107 (640)
.=+||+++..+...+......++.+.++ .|+++.....++..+... +.+.+..++.+++-+.+..
T Consensus 131 ~k~igvl~~~~~~~~~~~~~~~~~~a~~--------~g~~l~~~~v~~~~~~~~----~~~~l~~~~da~~~~~~~~~~~ 198 (294)
T PF04392_consen 131 AKRIGVLYDPSEPNSVAQIEQLRKAAKK--------LGIELVEIPVPSSEDLEQ----ALEALAEKVDALYLLPDNLVDS 198 (294)
T ss_dssp --EEEEEEETT-HHHHHHHHHHHHHHHH--------TT-EEEEEEESSGGGHHH----HHHHHCTT-SEEEE-S-HHHHH
T ss_pred CCEEEEEecCCCccHHHHHHHHHHHHHH--------cCCEEEEEecCcHhHHHH----HHHHhhccCCEEEEECCcchHh
Confidence 3478998887643222223333333222 256666555555444333 2333445556665555543
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh
Q 006567 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY 161 (640)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~ 161 (640)
....+...+...++|+++.. ..... ..-+.-..++...+++..+++..+
T Consensus 199 ~~~~i~~~~~~~~iPv~~~~--~~~v~---~Gal~~~~~~~~~~G~~Aa~~a~~ 247 (294)
T PF04392_consen 199 NFEAILQLANEAKIPVFGSS--DFYVK---AGALGGYSVDYYEQGRQAAEMAVR 247 (294)
T ss_dssp THHHHHHHCCCTT--EEESS--HHHHC---TT-SEEEE--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCEEECC--HHHhc---CCcEEEEccCHHHHHHHHHHHHHH
Confidence 22346677889999999742 11121 134566778888888888887554
No 317
>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=54.14 E-value=43 Score=32.73 Aligned_cols=81 Identities=10% Similarity=0.153 Sum_probs=49.2
Q ss_pred EEEEEEEc---CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHH
Q 006567 166 AVSVIFVD---NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSV 242 (640)
Q Consensus 166 ~v~ii~~~---~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~ 242 (640)
||++|..+ ++|....++.+.+.+++.|..+......... ..+.......++.+...++|.||+..........++.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~ 79 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRP-GIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIER 79 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCc-ccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHH
Confidence 36777754 3566677788888898899776654211110 0123344566777888899999887543323445566
Q ss_pred HHHcC
Q 006567 243 AKYLG 247 (640)
Q Consensus 243 a~~~g 247 (640)
+.+.+
T Consensus 80 l~~~~ 84 (280)
T cd06303 80 VLASG 84 (280)
T ss_pred HHhCC
Confidence 65554
No 318
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=53.91 E-value=56 Score=31.35 Aligned_cols=78 Identities=9% Similarity=0.054 Sum_probs=50.2
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. .++|.....+.+.+.+++.|+.+..... . .+.......++++...++|.||+.........+++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~----~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 76 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT-D----YDAEREADAVETLLRQRVDGLILTVADAATSPALDLLD 76 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC-C----CCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHh
Confidence 455553 3456667778888999999988775432 1 12444556777777788999888632222234677777
Q ss_pred HcCCc
Q 006567 245 YLGMM 249 (640)
Q Consensus 245 ~~gl~ 249 (640)
+.|.+
T Consensus 77 ~~~ip 81 (266)
T cd06282 77 AERVP 81 (266)
T ss_pred hCCCC
Confidence 76653
No 319
>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=53.80 E-value=65 Score=28.88 Aligned_cols=70 Identities=13% Similarity=0.237 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. ++++++.. ++...++..|.+|++|+++..... ....+. ..++....+.+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 81 (200)
T cd08411 14 YLLPRLLPALRQAYP-KLRLYLRE-------DQTERLLEKLRSGELDAALLALPV---DEPGLE-EEPLFDEPFLLAVPK 81 (200)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEe-------CcHHHHHHHHHcCCccEEEEeccC---CCCCce-EEEeeccceEEEecC
Confidence 355677888887764 33366654 557899999999999999853221 112221 356677777777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 82 ~~ 83 (200)
T cd08411 82 DH 83 (200)
T ss_pred CC
Confidence 44
No 320
>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=53.64 E-value=53 Score=31.84 Aligned_cols=80 Identities=9% Similarity=0.046 Sum_probs=50.1
Q ss_pred EEEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhhHHHHHHH
Q 006567 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSV 242 (640)
Q Consensus 166 ~v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~~~~il~~ 242 (640)
+++++.. ++.|.....+.+.+.+++.|+.+.....-.. .+...-...++++...+++.||+... .......++.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~ 77 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAAPSE---GDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVER 77 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEccCCC---CCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHH
Confidence 3566664 4556667778888999999988765432111 12333456677777788998887643 2333455677
Q ss_pred HHHcCC
Q 006567 243 AKYLGM 248 (640)
Q Consensus 243 a~~~gl 248 (640)
+.+.|.
T Consensus 78 ~~~~~i 83 (275)
T cd06320 78 AKKKGI 83 (275)
T ss_pred HHHCCC
Confidence 777654
No 321
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=53.41 E-value=1.6e+02 Score=28.30 Aligned_cols=87 Identities=9% Similarity=0.025 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhh-cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEE
Q 006567 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (640)
Q Consensus 150 ~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 228 (640)
++...+.+.....+ .++.++.+..+ .++.+.+.+++ .|+.+..... .+ -+..+...++++|.++++|+++
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~----v~~~a~~~l~~~y~l~i~g~~~-Gy---f~~~e~~~i~~~I~~s~~dil~ 162 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPE----VLAQTEAKLRTQWNVNIVGSQD-GY---FTPEQRQALFERIHASGAKIVT 162 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHH----HHHHHHHHHHHHhCCEEEEEeC-CC---CCHHHHHHHHHHHHhcCCCEEE
Confidence 44566666665556 67777765543 34444444432 3677664321 11 1234556789999999999999
Q ss_pred EecChhhHHHHHHHHHH
Q 006567 229 LHVSPSLGFQVFSVAKY 245 (640)
Q Consensus 229 l~~~~~~~~~il~~a~~ 245 (640)
+.........++...++
T Consensus 163 VglG~PkQE~~~~~~~~ 179 (243)
T PRK03692 163 VAMGSPKQEIFMRDCRL 179 (243)
T ss_pred EECCCcHHHHHHHHHHH
Confidence 98655555555544433
No 322
>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=53.02 E-value=1.2e+02 Score=28.00 Aligned_cols=86 Identities=8% Similarity=-0.068 Sum_probs=50.6
Q ss_pred EEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec----ChhhHHHHHH
Q 006567 166 AVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV----SPSLGFQVFS 241 (640)
Q Consensus 166 ~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~----~~~~~~~il~ 241 (640)
++.+....++...-+..-+...++..|+++.+-- . .......++.+++.++|+|.+.+ +...+..+++
T Consensus 86 ~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG---~-----~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~ 157 (197)
T TIGR02370 86 KVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLG---R-----DVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDIND 157 (197)
T ss_pred eEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECC---C-----CCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHHH
Confidence 4544444555555566666777777787776432 1 12234455666667788777753 2345667777
Q ss_pred HHHHcCCccCCeEEEEeC
Q 006567 242 VAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 242 ~a~~~gl~~~~~~~i~~~ 259 (640)
++++.+....-.+|++..
T Consensus 158 ~l~~~~~~~~v~i~vGG~ 175 (197)
T TIGR02370 158 KLKEEGYRDSVKFMVGGA 175 (197)
T ss_pred HHHHcCCCCCCEEEEECh
Confidence 777776654445666543
No 323
>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=52.87 E-value=1.2e+02 Score=31.13 Aligned_cols=102 Identities=15% Similarity=0.064 Sum_probs=62.5
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCC-CCCChhHHHHHHHHHhcCCce---EEE
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPE-SGVNTGYVMDLLVKVALMESR---VIV 228 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~~~~~~~~~l~~l~~~~~~---viv 228 (640)
..+.++++.++-+++.++++...+ ....+.+.+.+++.|+.+... .++.. .+.+.+.....+..+++.+++ .||
T Consensus 12 ~~l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~-~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~II 89 (355)
T cd08197 12 DSVLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELL-SVPSGEEHKTLSTLSDLVERALALGATRRSVIV 89 (355)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEE
Confidence 445667777777899888754433 235677888888887765322 22221 123466788888888888887 666
Q ss_pred Ee--cChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 229 LH--VSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 229 l~--~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
-. ++.-|+..++......| ..++.|-|.
T Consensus 90 AvGGGsv~D~ak~~A~~~~rg---ip~I~IPTT 119 (355)
T cd08197 90 ALGGGVVGNIAGLLAALLFRG---IRLVHIPTT 119 (355)
T ss_pred EECCcHHHHHHHHHHHHhccC---CCEEEecCc
Confidence 55 34455555554433333 356666654
No 324
>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=52.56 E-value=34 Score=32.87 Aligned_cols=20 Identities=10% Similarity=-0.188 Sum_probs=14.7
Q ss_pred HHHHHHHHhcCCceEEEEec
Q 006567 212 VMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 212 ~~~~l~~l~~~~~~vivl~~ 231 (640)
....+..+...+.|+.+...
T Consensus 183 ~~~~~~al~~G~~Da~~~~~ 202 (254)
T TIGR01098 183 HDASALAVANGKVDAATNNS 202 (254)
T ss_pred hHHHHHHHHcCCCCeEEecH
Confidence 34567788888899888753
No 325
>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=52.47 E-value=1.5e+02 Score=25.50 Aligned_cols=95 Identities=16% Similarity=0.036 Sum_probs=55.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccC--CC-CCCChhHHHHHHHHHhcCCceEEEE
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIP--PE-SGVNTGYVMDLLVKVALMESRVIVL 229 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~--~~-~~~~~~~~~~~l~~l~~~~~~vivl 229 (640)
..+.+.+...+--...-+|.+.... .....+.+.++..|..+....... .. ...+..-..+.++.+...+.+.|++
T Consensus 27 ~~l~~~~~~~~~~~~~r~y~~~~~~-~~~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivL 105 (149)
T cd06167 27 RKLLEFLRDGGEIVLARAYGNWTSP-ERQRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVL 105 (149)
T ss_pred HHHHHHHHhCCeEEEEEEEEecCCc-hhHHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEE
Confidence 4444444433222333344333211 356788889999998876554321 11 1122222344455555557899999
Q ss_pred ecChhhHHHHHHHHHHcCC
Q 006567 230 HVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 230 ~~~~~~~~~il~~a~~~gl 248 (640)
.+...+....++.+++.|.
T Consensus 106 vSgD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 106 VSGDSDFVPLVERLRELGK 124 (149)
T ss_pred EECCccHHHHHHHHHHcCC
Confidence 9888889999999999763
No 326
>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=52.45 E-value=52 Score=31.13 Aligned_cols=78 Identities=14% Similarity=0.172 Sum_probs=51.4
Q ss_pred EEEEEEEc---CCCCcccHHHHHHHHhh--cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHH
Q 006567 166 AVSVIFVD---NEYGRNGVSALNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVF 240 (640)
Q Consensus 166 ~v~ii~~~---~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il 240 (640)
+|+++... +.++....+.+++.+++ .++++..... . .+..+....++++...+++.|++.........+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~ 75 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILADS---Q--SDPERALEALRDLIQQGVDGIIGPPSSSSALAVV 75 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEecC---C--CCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHH
Confidence 35666653 45666777788888888 6666654322 1 2234567777788888899999876655554467
Q ss_pred HHHHHcCC
Q 006567 241 SVAKYLGM 248 (640)
Q Consensus 241 ~~a~~~gl 248 (640)
..+.+.+.
T Consensus 76 ~~~~~~~i 83 (269)
T cd01391 76 ELAAAAGI 83 (269)
T ss_pred HHHHHcCC
Confidence 77777664
No 327
>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=52.40 E-value=73 Score=28.30 Aligned_cols=70 Identities=16% Similarity=0.193 Sum_probs=46.5
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. .+++++.. +....++..|.+|++|+++...... .+.+. +.+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~~~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (201)
T cd08420 13 YLLPRLLARFRKRYP-EVRVSLTI-------GNTEEIAERVLDGEIDLGLVEGPVD---HPDLI-VEPFAEDELVLVVPP 80 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEecCCCC---CcceE-EEeecCccEEEEecC
Confidence 455677888887764 33366554 4567889999999999998643222 22232 367777888888765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (201)
T cd08420 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 328
>cd08177 MAR Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes. Maleylacetate reductases (MAR) play an important role in the degradation of aromatic compounds in aerobic microbes. In fungi and yeasts, the enzymes are involved in the catabolism of compounds such as phenol, tyrosine, benzoate, 4-hydroxybenzoate and resorcinol. In bacteria, the enzymes contribute to the degradation of resorcinol, 2,4-dihydroxybenzoate ([beta]-resorcylate) and 2,6-dihydroxybenzoate ([gamma]-resorcylate) via hydroxyquinol and maleylacetate. Maleylacetate reductases catalyze NADH- or NADPH-dependent reduction, at the carbon-carbon double bond, of maleylacetate or 2-chloromaleylacetate to 3-oxoadipate. In the case of 2-chloromaleylacetate, Maleylacetate reductases initially catalyses the NAD(P)H-dependent dechlorination to maleylacetate, which is then reduced to 3-oxoadipate. This enzyme is a homodimer. It is inhibited by thiol-blocking reagents such as p-
Probab=52.36 E-value=59 Score=33.02 Aligned_cols=98 Identities=13% Similarity=0.052 Sum_probs=60.7
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
.+.+.+.++.++.+++.++++...+-. ..+.+.+.+++.+..+ + ..+.++ .+........+.+++.++|.||-.+
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~-~~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 85 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-F-DGAVMH--TPVEVTEAAVAAAREAGADGIVAIG 85 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-e-CCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 356777888999999988875443332 5566777776654322 1 123333 4466788888888888999988764
Q ss_pred --ChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 232 --SPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 232 --~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
+.-|+..++.... + ..++-|-|.
T Consensus 86 GGs~iD~aK~ia~~~--~---~p~i~IPTt 110 (337)
T cd08177 86 GGSTIDLAKAIALRT--G---LPIIAIPTT 110 (337)
T ss_pred CcHHHHHHHHHHHHh--c---CCEEEEcCC
Confidence 4455555554322 2 345555554
No 329
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=52.17 E-value=65 Score=32.72 Aligned_cols=80 Identities=8% Similarity=-0.030 Sum_probs=52.5
Q ss_pred cEEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhhHHHHHH
Q 006567 165 NAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFS 241 (640)
Q Consensus 165 ~~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~~~~il~ 241 (640)
++|+++..+ +.|.....+.+++.+++.|..+.....-.. .+.......++.+...++|.||+... .......+
T Consensus 47 ~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~~---~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l- 122 (343)
T PRK10936 47 WKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGGY---YNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL- 122 (343)
T ss_pred eEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCCC---CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-
Confidence 678888754 556666778889999999988775432111 12344456777888889999988753 33333455
Q ss_pred HHHHcCC
Q 006567 242 VAKYLGM 248 (640)
Q Consensus 242 ~a~~~gl 248 (640)
++.+.|.
T Consensus 123 ~~~~~gi 129 (343)
T PRK10936 123 ELQAANI 129 (343)
T ss_pred HHHHCCC
Confidence 6666664
No 330
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=51.87 E-value=47 Score=32.42 Aligned_cols=83 Identities=12% Similarity=0.075 Sum_probs=55.6
Q ss_pred CeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeee
Q 006567 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (640)
Q Consensus 465 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~ 544 (640)
++++|++.. .....+-.+++..+.++.. .+++++.. +....++..|.+|++|++++..
T Consensus 89 ~~l~Ig~~~--------------~~~~~~l~~~l~~f~~~~P-~v~v~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 146 (275)
T PRK03601 89 NELSIGASA--------------SLWECMLTPWLGRLYQNQE-ALQFEARI-------AQRQSLVKQLHERQLDLLITTE 146 (275)
T ss_pred ceEEEeccH--------------HHHHHHHHHHHHHHHHhCC-CcEEEEEE-------CChHHHHHHHHcCCCCEEEEcC
Confidence 568888852 1223556677888876653 33366555 5688899999999999998643
Q ss_pred eeeccccceEEeCccccccceEEEEecCC
Q 006567 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 545 ~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
... .. .+ ...|+....+.+++++..
T Consensus 147 ~~~--~~-~l-~~~~l~~~~~~~v~~~~~ 171 (275)
T PRK03601 147 APK--MD-EF-SSQLLGHFTLALYTSAPS 171 (275)
T ss_pred CCc--cC-Cc-cEEEecceeEEEEecCch
Confidence 322 22 22 356888888888887654
No 331
>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=51.75 E-value=75 Score=32.83 Aligned_cols=78 Identities=12% Similarity=0.042 Sum_probs=52.4
Q ss_pred cCCcEEEEEEEcCCCC-cccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe--cChhhHHH
Q 006567 162 YGWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH--VSPSLGFQ 238 (640)
Q Consensus 162 ~~w~~v~ii~~~~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~--~~~~~~~~ 238 (640)
++.+++.++++....- ....+.+.+.+++.|+.+..-..+.++ .+.+.....++.+++.++|.||-. ++.-|+..
T Consensus 21 ~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK 98 (375)
T cd08179 21 LKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPD--PSVETVLKGAEAMREFEPDWIIALGGGSPIDAAK 98 (375)
T ss_pred hcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHH
Confidence 3457888887543222 235677888898888876543334434 557778889999999999999976 44455555
Q ss_pred HHH
Q 006567 239 VFS 241 (640)
Q Consensus 239 il~ 241 (640)
.+.
T Consensus 99 ~ia 101 (375)
T cd08179 99 AMW 101 (375)
T ss_pred HHH
Confidence 544
No 332
>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=51.74 E-value=60 Score=31.21 Aligned_cols=77 Identities=9% Similarity=0.069 Sum_probs=50.5
Q ss_pred EEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhhHHHHHHHH
Q 006567 167 VSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVA 243 (640)
Q Consensus 167 v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~~~~il~~a 243 (640)
|+++..+ +.|.....+.+++.+++.|+.+..... . .+.......++++...++|.+++... .......++++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~~-~----~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSIA-N----QDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKA 76 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEecC-C----CCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHH
Confidence 4555543 557777788999999999988764321 1 12344566777777888999988643 33345567777
Q ss_pred HHcCC
Q 006567 244 KYLGM 248 (640)
Q Consensus 244 ~~~gl 248 (640)
++.|+
T Consensus 77 ~~~~i 81 (267)
T cd06322 77 KKAGI 81 (267)
T ss_pred HHCCC
Confidence 77664
No 333
>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=51.69 E-value=1.7e+02 Score=26.97 Aligned_cols=65 Identities=12% Similarity=0.048 Sum_probs=41.7
Q ss_pred CcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh
Q 006567 164 WNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (640)
Q Consensus 164 w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~ 233 (640)
-++|+++..| .|-....+.++...+..|+.+....... .........+++.+..+.|+|++...+
T Consensus 29 ~~~v~lis~D-~~R~ga~eQL~~~a~~l~vp~~~~~~~~----~~~~~~~~~l~~~~~~~~D~vlIDT~G 93 (196)
T PF00448_consen 29 GKKVALISAD-TYRIGAVEQLKTYAEILGVPFYVARTES----DPAEIAREALEKFRKKGYDLVLIDTAG 93 (196)
T ss_dssp T--EEEEEES-TSSTHHHHHHHHHHHHHTEEEEESSTTS----CHHHHHHHHHHHHHHTTSSEEEEEE-S
T ss_pred cccceeecCC-CCCccHHHHHHHHHHHhccccchhhcch----hhHHHHHHHHHHHhhcCCCEEEEecCC
Confidence 6788888755 4556678888888888887765432111 112345567777777889999998553
No 334
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=51.60 E-value=63 Score=31.03 Aligned_cols=76 Identities=13% Similarity=0.064 Sum_probs=51.0
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. +++|.....+.+.+.+++.|+.+..... . .+.....+.++.+...+.|.||+....... ..+++++
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~ 75 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNS---D--ENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLL 75 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHH
Confidence 566664 4556677788888889899988775432 1 224445677888888899999887543332 3477777
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.|.
T Consensus 76 ~~~i 79 (265)
T cd06299 76 KRGI 79 (265)
T ss_pred hCCC
Confidence 7664
No 335
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=51.08 E-value=1.9e+02 Score=26.15 Aligned_cols=85 Identities=11% Similarity=0.016 Sum_probs=52.1
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhc--CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceE
Q 006567 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV 226 (640)
Q Consensus 149 ~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 226 (640)
.++...+.+.....+ .++.++.+..+ .++.+.+.+++. |++++.. ... .+..+-..++++|.++++|+
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~~~----v~~~~~~~l~~~yP~l~i~g~--~g~---f~~~~~~~i~~~I~~s~~di 103 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGKPD----VLQQLKVKLIKEYPKLKIVGA--FGP---LEPEERKAALAKIARSGAGI 103 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCCEEEEE--CCC---CChHHHHHHHHHHHHcCCCE
Confidence 345566666665556 47777765543 455555555543 6777654 121 12344567899999999999
Q ss_pred EEEecChhhHHHHHHHH
Q 006567 227 IVLHVSPSLGFQVFSVA 243 (640)
Q Consensus 227 ivl~~~~~~~~~il~~a 243 (640)
+++.........++.+.
T Consensus 104 l~VglG~PkQE~~~~~~ 120 (177)
T TIGR00696 104 VFVGLGCPKQEIWMRNH 120 (177)
T ss_pred EEEEcCCcHhHHHHHHh
Confidence 99985555555555443
No 336
>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=50.79 E-value=63 Score=32.04 Aligned_cols=79 Identities=11% Similarity=0.151 Sum_probs=51.5
Q ss_pred EEEEEEEc--CCCCcccHHHHHHHHhh--cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-ChhhHHHHH
Q 006567 166 AVSVIFVD--NEYGRNGVSALNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV-SPSLGFQVF 240 (640)
Q Consensus 166 ~v~ii~~~--~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~-~~~~~~~il 240 (640)
+|+++..+ +.|.....+.+++.+++ .|+.+..... . .+...-...+..+...+++.|++.. +.......+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~~---~--~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~ 75 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYDA---K--NNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVI 75 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEecC---C--CCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHH
Confidence 35666643 45666677788888888 7777654321 1 2234455678888888999888864 433346777
Q ss_pred HHHHHcCCc
Q 006567 241 SVAKYLGMM 249 (640)
Q Consensus 241 ~~a~~~gl~ 249 (640)
+++.+.|.+
T Consensus 76 ~~~~~~giP 84 (303)
T cd01539 76 NKAKQKNIP 84 (303)
T ss_pred HHHHHCCCC
Confidence 888776653
No 337
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=50.67 E-value=73 Score=27.92 Aligned_cols=96 Identities=13% Similarity=0.032 Sum_probs=55.2
Q ss_pred ecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCe--EEEEeeccCCCCCCChhHHHHHHHHHhc
Q 006567 144 TTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRC--RISYKSGIPPESGVNTGYVMDLLVKVAL 221 (640)
Q Consensus 144 ~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~--~v~~~~~~~~~~~~~~~~~~~~l~~l~~ 221 (640)
+.+....+++.+++.++..+..--.|+.+.-....+.++.+. +..+. .+.....+.+. .+..++...++++..
T Consensus 23 Lt~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~---~~~~~~~~~~~~~~l~p~--~~~~~~~~~l~~~~~ 97 (152)
T TIGR00249 23 LTTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVG---DCLNLPSSAEVLEGLTPC--GDIGLVSDYLEALTN 97 (152)
T ss_pred cCHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHH---HHcCCCcceEEccCcCCC--CCHHHHHHHHHHHHh
Confidence 345556788899998887654333344444333222233332 22233 23322333333 345567777777765
Q ss_pred CCceEEEEecChhhHHHHHHHHH
Q 006567 222 MESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 222 ~~~~vivl~~~~~~~~~il~~a~ 244 (640)
...+.+++.++...+..++.++-
T Consensus 98 ~~~~~vliVgH~P~i~~l~~~l~ 120 (152)
T TIGR00249 98 EGVASVLLVSHLPLVGYLVAELC 120 (152)
T ss_pred cCCCEEEEEeCCCCHHHHHHHHh
Confidence 55678888888888888887774
No 338
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=50.34 E-value=1.8e+02 Score=29.35 Aligned_cols=123 Identities=8% Similarity=-0.020 Sum_probs=65.0
Q ss_pred eeEEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEcc-CCCChHHHHHHHHHhHhc----CcEEEEcC
Q 006567 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQS-SNCSGFIGMVEALRFMET----DIVAIIGP 103 (640)
Q Consensus 30 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D-~~~~~~~a~~~a~~l~~~----~v~aiiGp 103 (640)
+.++|+.+.... .........+++-|+++.+ .++.....+ ...+...+.+.+.+++++ .+.||+..
T Consensus 161 g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g--------~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~~ 232 (330)
T PRK15395 161 GKIQYVLLKGEPGHPDAEARTTYVIKELNDKG--------IKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIAN 232 (330)
T ss_pred CceEEEEEecCCCCchHHHHHHHHHHHHHhcC--------CCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEEC
Confidence 567777665432 2223345678888887642 222222222 233555667777777764 47899975
Q ss_pred CChHHHHHHHHhhccC---CceEEecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHh
Q 006567 104 QCSTVAHIVSYVSNEL---QVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSY 161 (640)
Q Consensus 104 ~~s~~~~~v~~~~~~~---~iP~is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~ 161 (640)
.+.. +..+...+.+. .+|++++......... ..-+.+..+..+...+++..++++..
T Consensus 233 ~d~~-A~gvl~al~~~Gl~~vpVvg~D~~~~~~~~~~~g~~~ttv~~~~~~~G~~a~~~l~~ 293 (330)
T PRK15395 233 NDAM-AMGAVEALKAHNKSSIPVFGVDALPEALALVKSGAMAGTVLNDANNQAKATFDLAKN 293 (330)
T ss_pred CchH-HHHHHHHHHhcCCCCCeEEeeCCCHHHHHHHHhCCceEEEecCHHHHHHHHHHHHHH
Confidence 4443 33333433333 5688876433211110 11133455556667777777776543
No 339
>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=50.20 E-value=1.4e+02 Score=24.47 Aligned_cols=85 Identities=11% Similarity=0.070 Sum_probs=44.1
Q ss_pred HHHhcCCcEEEEEEEcCC-CCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhH
Q 006567 158 MVSYYGWNAVSVIFVDNE-YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLG 236 (640)
Q Consensus 158 ll~~~~w~~v~ii~~~~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~ 236 (640)
-++..|.+.|.-+-.|.+ .+.-....+++.+++.|+.....- +... ..+..++....+.+......+.+.|.++..+
T Consensus 22 ~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iP-v~~~-~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra 99 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIP-VDGG-AITEEDVEAFADALESLPKPVLAHCRSGTRA 99 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE-----TT-T--HHHHHHHHHHHHTTTTSEEEE-SCSHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEee-cCCC-CCCHHHHHHHHHHHHhCCCCEEEECCCChhH
Confidence 456689999987776644 344456678888999998865432 2222 1345555555555555544566666666666
Q ss_pred HHHHHHHH
Q 006567 237 FQVFSVAK 244 (640)
Q Consensus 237 ~~il~~a~ 244 (640)
..+...++
T Consensus 100 ~~l~~l~~ 107 (110)
T PF04273_consen 100 SALWALAQ 107 (110)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHh
Confidence 66554443
No 340
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=49.90 E-value=95 Score=31.08 Aligned_cols=81 Identities=10% Similarity=0.055 Sum_probs=50.4
Q ss_pred CCcEEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHH
Q 006567 163 GWNAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVF 240 (640)
Q Consensus 163 ~w~~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il 240 (640)
+-+.|+++..+ +.|.......+.+.+++.|..+...... .+...-...++.+...+.|.||+..........+
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~ 134 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACSD-----DQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFY 134 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHH
Confidence 34578888753 4566667778888899999887654321 1233344567777778899988864322223455
Q ss_pred HHHHHcCC
Q 006567 241 SVAKYLGM 248 (640)
Q Consensus 241 ~~a~~~gl 248 (640)
+.+.+.|.
T Consensus 135 ~~l~~~~i 142 (328)
T PRK11303 135 QRLQNDGL 142 (328)
T ss_pred HHHHhcCC
Confidence 66666554
No 341
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=49.71 E-value=75 Score=30.32 Aligned_cols=88 Identities=10% Similarity=-0.049 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHhc--CCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEE
Q 006567 150 YQMTAVAEMVSYY--GWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVI 227 (640)
Q Consensus 150 ~~~~al~~ll~~~--~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 227 (640)
..++.+++++... .-++|.++..+. ....+.+.+++.|..|.....|... ....+.......+++.+.++|
T Consensus 102 ~~~e~L~~~~~~~~~~~~~vL~~rg~~-----~r~~l~~~L~~~G~~v~~~~vY~~~--~~~~~~~~~~~~l~~~~~d~i 174 (240)
T PRK09189 102 GDGVRLAETVAAALAPTARLLYLAGRP-----RAPVFEDRLAAAGIPFRVAECYDML--PVMYSPATLSAILGGAPFDAV 174 (240)
T ss_pred CCHHHHHHHHHHhcCCCCcEEEeccCc-----ccchhHHHHHhCCCeeEEEEEEEee--cCCCChHHHHHHHhcCCCCEE
Confidence 3467888876543 456777665433 4567788899999887665544322 111122234445555667766
Q ss_pred EEecChhhHHHHHHHHHH
Q 006567 228 VLHVSPSLGFQVFSVAKY 245 (640)
Q Consensus 228 vl~~~~~~~~~il~~a~~ 245 (640)
++.+ +..+..+++....
T Consensus 175 ~f~S-~~~~~~f~~~~~~ 191 (240)
T PRK09189 175 LLYS-RVAARRFFALMRL 191 (240)
T ss_pred EEeC-HHHHHHHHHHHhh
Confidence 6664 5567888876643
No 342
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=49.60 E-value=95 Score=31.29 Aligned_cols=81 Identities=10% Similarity=0.071 Sum_probs=52.8
Q ss_pred CCcEEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHH
Q 006567 163 GWNAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVF 240 (640)
Q Consensus 163 ~w~~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il 240 (640)
.-+.++++..+ +.|.......+.+.+++.|..+..... . .+.......++.+...+.|.||+..........+
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~ 137 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQG---G--KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLR 137 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHH
Confidence 33578888753 556667778888889889877654321 1 1234456777788888899999875433334566
Q ss_pred HHHHHcCC
Q 006567 241 SVAKYLGM 248 (640)
Q Consensus 241 ~~a~~~gl 248 (640)
+.+++.+.
T Consensus 138 ~~l~~~~i 145 (342)
T PRK10014 138 EMAEEKGI 145 (342)
T ss_pred HHHhhcCC
Confidence 66666554
No 343
>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=48.99 E-value=36 Score=33.77 Aligned_cols=66 Identities=12% Similarity=0.040 Sum_probs=39.6
Q ss_pred HHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeee-ccccceE----EeCccccccceEEEEecCC
Q 006567 500 AAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIV-TNRTKIV----DFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 500 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t-~~R~~~v----dfs~p~~~~~~~il~~~~~ 573 (640)
.+++++|+++++ ... .++..++..|..|++|+++.+.+.. ..+.+-. .+..........+++++..
T Consensus 20 ~~~k~~Gl~Ve~--~~~------~~~~~~~~al~~G~iD~~~~~~~~~~~a~~~g~~~~~v~~~~~~~~~~~lv~~~~s 90 (300)
T TIGR01729 20 AAAKEAGATIDW--RKF------DSGADISTALASGNVPIGVIGSSPLAAAASRGVPIELFWILDNIGKSEALVAREGS 90 (300)
T ss_pred chHHhcCCeeEE--Eec------CcHHHHHHHHHcCCCCEeccCCCHHHHHHHCCCCeEEEEEeccCCccceEEecCCC
Confidence 456678988544 443 4588999999999999997554322 1222222 2233333344567777654
No 344
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=48.63 E-value=2.1e+02 Score=28.85 Aligned_cols=120 Identities=18% Similarity=0.071 Sum_probs=71.1
Q ss_pred EEEEEEeecC-CccchHHHHHHHHHHHHHhccCCCCCCcEE-EEEEccCCCChHHHHHHHHHhHhc--C-cEEEEcCCCh
Q 006567 32 VNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKL-NITMQSSNCSGFIGMVEALRFMET--D-IVAIIGPQCS 106 (640)
Q Consensus 32 i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i-~~~~~D~~~~~~~a~~~a~~l~~~--~-v~aiiGp~~s 106 (640)
=+||++.... ...+..-..|+.-|+++.+ ... ...+.....+...+.+++.+++.. . +.||+...+.
T Consensus 176 ~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~--------~~~~~~~i~~~~~~~~~g~~~~~~ll~~~~~~ptAif~~nD~ 247 (333)
T COG1609 176 RRIAFIGGPLDSSASRERLEGYRAALREAG--------LPINPEWIVEGDFSEESGYEAAERLLARGEPRPTAIFCANDL 247 (333)
T ss_pred ceEEEEeCCCccccHhHHHHHHHHHHHHCC--------CCCCcceEEecCCChHHHHHHHHHHHhcCCCCCcEEEEcCcH
Confidence 4577777763 3344566788888887743 222 333334444777788888888865 3 8899975555
Q ss_pred HHHHHHHHhhcc--CCceE-EecccCCC-CCCCCCCCcEEEecCCchHHHHHHHHHHH
Q 006567 107 TVAHIVSYVSNE--LQVPL-LSFGVTDP-TLSSLQYPFFVRTTQSDSYQMTAVAEMVS 160 (640)
Q Consensus 107 ~~~~~v~~~~~~--~~iP~-is~~~~~~-~l~~~~~~~~~r~~p~~~~~~~al~~ll~ 160 (640)
-....+ ..+.+ ..||- |+..+.+. .+.....|.+-.+..+...+++..+++|-
T Consensus 248 ~Alg~l-~~~~~~g~~vP~disviGfDd~~~~~~~~P~LTTv~~~~~~~G~~A~~~Ll 304 (333)
T COG1609 248 MALGAL-RALRELGLRVPEDLSVIGFDDIELARFLTPPLTTVRQPIEELGRRAAELLL 304 (333)
T ss_pred HHHHHH-HHHHHcCCCCCCeeEEEEecChhhhhhCCCCCeeecCCHHHHHHHHHHHHH
Confidence 444444 33332 34664 54444333 23333346667777777888877777643
No 345
>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=48.60 E-value=89 Score=30.20 Aligned_cols=77 Identities=12% Similarity=0.011 Sum_probs=46.2
Q ss_pred CcEEEEEEEc---------CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChh
Q 006567 164 WNAVSVIFVD---------NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS 234 (640)
Q Consensus 164 w~~v~ii~~~---------~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~ 234 (640)
.+.|++|..+ +.|.....+.+++.+++.|+.+..... . . . +.....+.+...++|.||+.....
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~~---~--~-~-~~~~~~~~l~~~~~dgiii~~~~~ 75 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSFV---S--S-P-DRDWLARYLASGRADGVILIGQHD 75 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEeC---C--c-h-hHHHHHHHHHhCCCCEEEEeCCCC
Confidence 4677888752 234555667788888888988764321 1 1 1 233444555567899888864322
Q ss_pred hHHHHHHHHHHcCC
Q 006567 235 LGFQVFSVAKYLGM 248 (640)
Q Consensus 235 ~~~~il~~a~~~gl 248 (640)
. ...++.+.+.|.
T Consensus 76 ~-~~~~~~~~~~~i 88 (275)
T cd06295 76 Q-DPLPERLAETGL 88 (275)
T ss_pred C-hHHHHHHHhCCC
Confidence 2 244677777664
No 346
>cd08430 PBP2_IlvY The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic binding fold. In Escherichia coli, IlvY is required for the regulation of ilvC gene expression that encodes acetohydroxy acid isomeroreductase (AHIR), a key enzyme in the biosynthesis of branched-chain amino acids (isoleucine, valine, and leucine). The ilvGMEDA operon genes encode remaining enzyme activities required for the biosynthesis of these amino acids. Activation of ilvC transcription by IlvY requires the additional binding of a co-inducer molecule (either alpha-acetolactate or alpha-acetohydoxybutyrate, the substrates for AHIR) to a preformed complex of IlvY protein-DNA. Like many other LysR-family members, IlvY negatively auto-regulates the transcription of its own divergently transcribed ilvY gene in an inducer-i
Probab=48.39 E-value=1.3e+02 Score=26.66 Aligned_cols=71 Identities=17% Similarity=0.164 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. .+++++.. +++..++..+.+|++|+++..-... ....+. +.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~-~~~l~~~~~~~~~~~ 81 (199)
T cd08430 13 SFLPPILERFRAQHP-QVEIKLHT-------GDPADAIDKVLNGEADIAIAARPDK--LPARLA-FLPLATSPLVFIAPN 81 (199)
T ss_pred eeccHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHCCCCCEEEEecCCC--CCcccE-EEeeccceEEEEEeC
Confidence 455678888888874 33366655 5688899999999999997532111 112232 356666777777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 82 ~~ 83 (199)
T cd08430 82 IA 83 (199)
T ss_pred Cc
Confidence 44
No 347
>PRK09701 D-allose transporter subunit; Provisional
Probab=48.33 E-value=87 Score=31.21 Aligned_cols=84 Identities=11% Similarity=0.071 Sum_probs=55.4
Q ss_pred cCCcEEEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-hhHHH
Q 006567 162 YGWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQ 238 (640)
Q Consensus 162 ~~w~~v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-~~~~~ 238 (640)
+.-.+++++.. .+.|.....+.+++.+++.|+.+..... +.. .+.......++.+...++|.||+.... .....
T Consensus 22 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 98 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSE--GDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVM 98 (311)
T ss_pred ccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHH
Confidence 45568999885 3567777788999999999988764321 111 123445567778888889999887543 33334
Q ss_pred HHHHHHHcCC
Q 006567 239 VFSVAKYLGM 248 (640)
Q Consensus 239 il~~a~~~gl 248 (640)
.+.++.+.|+
T Consensus 99 ~l~~~~~~gi 108 (311)
T PRK09701 99 PVARAWKKGI 108 (311)
T ss_pred HHHHHHHCCC
Confidence 4666666664
No 348
>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=48.12 E-value=79 Score=28.17 Aligned_cols=70 Identities=20% Similarity=0.263 Sum_probs=47.9
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. ++++++.. ++...++..|.+|++|+++.... .....+. ..+++...+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 80 (198)
T cd08421 13 EFLPEDLASFLAAHP-DVRIDLEE-------RLSADIVRAVAEGRADLGIVAGN---VDAAGLE-TRPYRTDRLVVVVPR 80 (198)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------cCcHHHHHHHhcCCceEEEEecC---CCCCCcE-EEEeecCcEEEEeCC
Confidence 345578888888763 33466654 55788999999999999975332 2333343 367788888888866
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (198)
T cd08421 81 DH 82 (198)
T ss_pred CC
Confidence 54
No 349
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=48.11 E-value=94 Score=31.37 Aligned_cols=79 Identities=14% Similarity=0.039 Sum_probs=55.2
Q ss_pred cEEEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChh-hHHHHHH
Q 006567 165 NAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFS 241 (640)
Q Consensus 165 ~~v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~-~~~~il~ 241 (640)
.+|+++.. +++|.....+.+++.+++.|..+..... . .+.......++.+...++|.||+..... .....++
T Consensus 26 ~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~-~----~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~ 100 (330)
T PRK10355 26 VKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSA-N----GNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVIK 100 (330)
T ss_pred ceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECC-C----CCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHHH
Confidence 56777764 5678888889999999999988775422 1 2244566778888888999999875432 2345566
Q ss_pred HHHHcCC
Q 006567 242 VAKYLGM 248 (640)
Q Consensus 242 ~a~~~gl 248 (640)
.+.+.+.
T Consensus 101 ~~~~~~i 107 (330)
T PRK10355 101 EAKQEGI 107 (330)
T ss_pred HHHHCCC
Confidence 7666553
No 350
>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=48.07 E-value=68 Score=28.97 Aligned_cols=70 Identities=9% Similarity=0.096 Sum_probs=45.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
++-.+++..+.++.. .+++++.. +++..++..|.+|++|++++..... ...++. .+.....+.+++++
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 556677888877654 44465554 5689999999999999998633221 222332 45666677777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~h 82 (200)
T cd08465 81 AT 82 (200)
T ss_pred CC
Confidence 54
No 351
>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=47.97 E-value=28 Score=28.96 Aligned_cols=86 Identities=15% Similarity=0.136 Sum_probs=44.6
Q ss_pred cEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHh--cCCceEEEEecChhhHHHHHHH
Q 006567 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA--LMESRVIVLHVSPSLGFQVFSV 242 (640)
Q Consensus 165 ~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~--~~~~~vivl~~~~~~~~~il~~ 242 (640)
|+++++-..+.-+. ....+.+.+.+.|.+|... ++. ..+-+=......+. ....|.++++..++....++++
T Consensus 1 ksiAVvGaS~~~~~-~g~~v~~~l~~~G~~v~~V---np~--~~~i~G~~~y~sl~e~p~~iDlavv~~~~~~~~~~v~~ 74 (116)
T PF13380_consen 1 KSIAVVGASDNPGK-FGYRVLRNLKAAGYEVYPV---NPK--GGEILGIKCYPSLAEIPEPIDLAVVCVPPDKVPEIVDE 74 (116)
T ss_dssp -EEEEET--SSTTS-HHHHHHHHHHHTT-EEEEE---STT--CSEETTEE-BSSGGGCSST-SEEEE-S-HHHHHHHHHH
T ss_pred CEEEEEcccCCCCC-hHHHHHHHHHhCCCEEEEE---CCC--ceEECcEEeeccccCCCCCCCEEEEEcCHHHHHHHHHH
Confidence 46777764333222 3344445555577665532 222 10100001122223 3578999999999999999999
Q ss_pred HHHcCCccCCeEEEEeC
Q 006567 243 AKYLGMMGNGYVWIATD 259 (640)
Q Consensus 243 a~~~gl~~~~~~~i~~~ 259 (640)
+.++| ...+|+.++
T Consensus 75 ~~~~g---~~~v~~~~g 88 (116)
T PF13380_consen 75 AAALG---VKAVWLQPG 88 (116)
T ss_dssp HHHHT----SEEEE-TT
T ss_pred HHHcC---CCEEEEEcc
Confidence 99987 467999876
No 352
>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=47.91 E-value=39 Score=33.16 Aligned_cols=74 Identities=12% Similarity=0.066 Sum_probs=51.2
Q ss_pred cEEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHH
Q 006567 165 NAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSV 242 (640)
Q Consensus 165 ~~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~ 242 (640)
+.+++|.++ +.|..+.+..+.+.+++.|..+.....-. ..+....++.+.+.++|.+|+.+...+...+...
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~~------~~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~~ 75 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTGD------DEEKEEYIELLLQRRVDGIILASSENDDEELRRL 75 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEETT------THHHHHHHHHHHHTTSSEEEEESSSCTCHHHHHH
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCCC------chHHHHHHHHHHhcCCCEEEEecccCChHHHHHH
Confidence 367888764 56777888899999999998876543222 2333388888999999999998666553444433
Q ss_pred HH
Q 006567 243 AK 244 (640)
Q Consensus 243 a~ 244 (640)
.+
T Consensus 76 ~~ 77 (279)
T PF00532_consen 76 IK 77 (279)
T ss_dssp HH
T ss_pred HH
Confidence 33
No 353
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=47.85 E-value=2.1e+02 Score=27.40 Aligned_cols=87 Identities=23% Similarity=0.194 Sum_probs=58.8
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec-
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV- 231 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~- 231 (640)
..++..+...|-.-+.++. +..|.....+.+++.-....+.|-....+- + ..++.+.+..++|+|++..
T Consensus 64 ~~~A~~y~~~GA~aISVlT-e~~~F~Gs~~~l~~v~~~v~~PvL~KDFIi--------d-~~QI~ea~~~GADavLLI~~ 133 (247)
T PRK13957 64 VQIAKTYETLGASAISVLT-DQSYFGGSLEDLKSVSSELKIPVLRKDFIL--------D-EIQIREARAFGASAILLIVR 133 (247)
T ss_pred HHHHHHHHHCCCcEEEEEc-CCCcCCCCHHHHHHHHHhcCCCEEeccccC--------C-HHHHHHHHHcCCCEEEeEHh
Confidence 4556667778888888776 444555667777776554445444333222 1 2356666778999998873
Q ss_pred --ChhhHHHHHHHHHHcCCc
Q 006567 232 --SPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 232 --~~~~~~~il~~a~~~gl~ 249 (640)
+..+...+++.|..+||.
T Consensus 134 ~L~~~~l~~l~~~a~~lGle 153 (247)
T PRK13957 134 ILTPSQIKSFLKHASSLGMD 153 (247)
T ss_pred hCCHHHHHHHHHHHHHcCCc
Confidence 445788999999999986
No 354
>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=47.60 E-value=1.8e+02 Score=27.38 Aligned_cols=74 Identities=16% Similarity=0.070 Sum_probs=48.9
Q ss_pred cEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec--ChhhHHHHHHH
Q 006567 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV--SPSLGFQVFSV 242 (640)
Q Consensus 165 ~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~--~~~~~~~il~~ 242 (640)
.++++|....+. .....+..+..+..+.....-|.. .+..++...-+++++.++|+|++.| .....++++++
T Consensus 126 ~~vGVivP~~eQ----~~~~~~kW~~l~~~~~~a~asPy~--~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~ 199 (221)
T PF07302_consen 126 HQVGVIVPLPEQ----IAQQAEKWQPLGNPVVVAAASPYE--GDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQR 199 (221)
T ss_pred CeEEEEecCHHH----HHHHHHHHHhcCCCeEEEEeCCCC--CCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHH
Confidence 799999976542 333333344444455444433432 3578899999999999999999985 44556677765
Q ss_pred HH
Q 006567 243 AK 244 (640)
Q Consensus 243 a~ 244 (640)
+.
T Consensus 200 ~~ 201 (221)
T PF07302_consen 200 AL 201 (221)
T ss_pred Hh
Confidence 54
No 355
>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=47.19 E-value=63 Score=31.23 Aligned_cols=77 Identities=8% Similarity=0.061 Sum_probs=48.9
Q ss_pred EEEEEE-cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-hhHHHHHHHHH
Q 006567 167 VSVIFV-DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~-~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-~~~~~il~~a~ 244 (640)
|+++.. .++|.......+.+.+++.|+.+..... .. .+...-...++.+...++|.+|+.... ......++.+.
T Consensus 2 i~~v~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~--~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~ 77 (271)
T cd06314 2 IAVVTNGASPFWKIAEAGVKAAGKELGVDVEFVVP--QQ--GTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAA 77 (271)
T ss_pred eEEEcCCCcHHHHHHHHHHHHHHHHcCCeEEEeCC--CC--CCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHh
Confidence 455542 3456667788888889999988765421 11 123445667778888899988887533 23356667665
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+ +.
T Consensus 78 ~-~i 80 (271)
T cd06314 78 A-GI 80 (271)
T ss_pred c-CC
Confidence 5 53
No 356
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=46.74 E-value=2.2e+02 Score=26.50 Aligned_cols=85 Identities=14% Similarity=0.104 Sum_probs=50.7
Q ss_pred HHHHHHHHhcCCcEEEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe
Q 006567 153 TAVAEMVSYYGWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~ 230 (640)
.-+.+.++.+ -++|+.|=. .+.-.....+.+++.+++.|..+..-....+. ..++...+. ..++|++.
T Consensus 22 ~~i~n~l~g~-~~~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg~~v~~L~l~~~~----~~~Ie~~l~-----~~d~IyVg 91 (224)
T COG3340 22 PFIANFLQGK-RKTIAFIPTASVDSEDDFYVEKVRNALAKLGLEVSELHLSKPP----LAAIENKLM-----KADIIYVG 91 (224)
T ss_pred HHHHHHhcCC-CceEEEEecCccccchHHHHHHHHHHHHHcCCeeeeeeccCCC----HHHHHHhhh-----hccEEEEC
Confidence 4444445444 458887742 12222346889999999999988765444322 344444332 35666665
Q ss_pred cChhhHHHHHHHHHHcCCc
Q 006567 231 VSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 231 ~~~~~~~~il~~a~~~gl~ 249 (640)
+ .....+|+..++.|+.
T Consensus 92 G--GNTF~LL~~lke~gld 108 (224)
T COG3340 92 G--GNTFNLLQELKETGLD 108 (224)
T ss_pred C--chHHHHHHHHHHhCcH
Confidence 3 4667777777777765
No 357
>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=46.67 E-value=1.3e+02 Score=30.12 Aligned_cols=81 Identities=6% Similarity=0.020 Sum_probs=51.2
Q ss_pred CCcEEEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHH
Q 006567 163 GWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVF 240 (640)
Q Consensus 163 ~w~~v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il 240 (640)
.-+.++++.. ++.|.......+.+.+.+.|..+..... . .+.......+..+...+.|.||+..........+
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~-~----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~ 133 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACS-D----DNPDQEKVVIENLLARQVDALIVASCMPPEDAYY 133 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC-C----CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHH
Confidence 3457888875 3556667788888999999988765432 1 1233345567777778899888864322123455
Q ss_pred HHHHHcCC
Q 006567 241 SVAKYLGM 248 (640)
Q Consensus 241 ~~a~~~gl 248 (640)
+.+.+.+.
T Consensus 134 ~~l~~~~i 141 (327)
T TIGR02417 134 QKLQNEGL 141 (327)
T ss_pred HHHHhcCC
Confidence 66666553
No 358
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=46.53 E-value=88 Score=30.93 Aligned_cols=86 Identities=9% Similarity=0.117 Sum_probs=56.5
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEee
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~ 543 (640)
.++|+|++... -...+-.+++..+.++.. .+++++.. ++..+++..|.+|++|+++..
T Consensus 94 ~g~l~I~~~~~--------------~~~~~l~~~l~~~~~~~p-~i~~~~~~-------~~~~~~~~~l~~g~~Di~i~~ 151 (302)
T PRK09791 94 AGQINIGMGAS--------------IARSLMPAVISRFHQQHP-QVKVRIME-------GQLVSMINELRQGELDFTINT 151 (302)
T ss_pred ceEEEEEechH--------------HHHhhhHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHCCCccEEEEe
Confidence 36789988621 123455677888887765 44455544 557899999999999999763
Q ss_pred eeeeccccceEEeCccccccceEEEEecCC
Q 006567 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 544 ~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
..-. .....+. ..|+....+.+++++..
T Consensus 152 ~~~~-~~~~~~~-~~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 152 YYQG-PYDHEFT-FEKLLEKQFAVFCRPGH 179 (302)
T ss_pred cCCc-cccccee-EEEeccceEEEEEcCCC
Confidence 2111 1112243 37888888888887665
No 359
>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=46.51 E-value=1.1e+02 Score=27.16 Aligned_cols=72 Identities=14% Similarity=0.029 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+...++..+.++.. ++++.+.. .....++..|.+|++|+++....... +...+. ..+.....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~~~-~~~l~~~~~~~v~~~ 82 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHE-------LSPEAQKAALLSKRIDLGFVRFADTL-NDPPLA-SELLWREPMVVALPE 82 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHhCCCccEEEecccccC-CCCCce-EEEEEEeeEEEEecC
Confidence 455677888887763 33355554 55889999999999999985332210 122222 366777777777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 83 ~~ 84 (197)
T cd08449 83 EH 84 (197)
T ss_pred CC
Confidence 44
No 360
>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=46.47 E-value=89 Score=27.87 Aligned_cols=70 Identities=13% Similarity=0.138 Sum_probs=46.5
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. .+++++.. +.+..+...|.+|++|+++..... ....+. +.++....+.+++++
T Consensus 14 ~~l~~~i~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08446 14 DTVPRLLRAFLTARP-DVTVSLHN-------MTKDEQIEALRAGRIHIGFGRFYP---VEPDIA-VENVAQERLYLAVPK 81 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEee-------CCHHHHHHHHHCCCccEEEEecCC---CCCCce-eEEeeeccEEEEEeC
Confidence 345677888887764 43466654 568889999999999999853222 112121 466777788888776
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 82 ~~ 83 (198)
T cd08446 82 SH 83 (198)
T ss_pred CC
Confidence 54
No 361
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=46.41 E-value=1.5e+02 Score=28.52 Aligned_cols=88 Identities=15% Similarity=0.110 Sum_probs=56.9
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe-
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH- 230 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~- 230 (640)
...++..+...|-.-++++. +..|.....+.++..-+..++.+-....+- . .-++.+-+..++|+|++.
T Consensus 70 ~~~~a~~y~~~GA~aiSVlT-e~~~F~Gs~~dL~~v~~~~~~PvL~KDFIi-d--------~~QI~eA~~~GADaVLLI~ 139 (254)
T PF00218_consen 70 PAEIAKAYEEAGAAAISVLT-EPKFFGGSLEDLRAVRKAVDLPVLRKDFII-D--------PYQIYEARAAGADAVLLIA 139 (254)
T ss_dssp HHHHHHHHHHTT-SEEEEE---SCCCHHHHHHHHHHHHHSSS-EEEES----S--------HHHHHHHHHTT-SEEEEEG
T ss_pred HHHHHHHHHhcCCCEEEEEC-CCCCCCCCHHHHHHHHHHhCCCcccccCCC-C--------HHHHHHHHHcCCCEeehhH
Confidence 35666677778888898887 555666777777776666666655443222 1 235677788999999986
Q ss_pred --cChhhHHHHHHHHHHcCCc
Q 006567 231 --VSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 231 --~~~~~~~~il~~a~~~gl~ 249 (640)
.+......++..|..+||.
T Consensus 140 ~~L~~~~l~~l~~~a~~lGle 160 (254)
T PF00218_consen 140 AILSDDQLEELLELAHSLGLE 160 (254)
T ss_dssp GGSGHHHHHHHHHHHHHTT-E
T ss_pred HhCCHHHHHHHHHHHHHcCCC
Confidence 3446668999999999986
No 362
>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=46.39 E-value=93 Score=29.97 Aligned_cols=77 Identities=9% Similarity=0.097 Sum_probs=49.0
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. ++.+.....+.+.+.+++.|..+...... .+.......++.+...+.+.|++.........+++.++
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANSL-----NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALA 76 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeCC-----CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHH
Confidence 556664 35566677788888888888887654321 12334556677777788888888644333345666666
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.+.
T Consensus 77 ~~~i 80 (269)
T cd06281 77 SLDL 80 (269)
T ss_pred hCCC
Confidence 6553
No 363
>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=46.36 E-value=43 Score=25.37 Aligned_cols=41 Identities=17% Similarity=0.170 Sum_probs=32.8
Q ss_pred HHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEE
Q 006567 155 VAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRIS 196 (640)
Q Consensus 155 l~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~ 196 (640)
..++++.+ .++|.+.+++|.-|+...+.+.+.+...|..+.
T Consensus 35 ~~~~L~~~-~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~ 75 (79)
T cd03364 35 QAELLKRL-AKEVILAFDGDEAGQKAALRALELLLKLGLNVR 75 (79)
T ss_pred HHHHHHhc-CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEE
Confidence 35555555 688999999999999999999999988887654
No 364
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=45.63 E-value=1.7e+02 Score=28.42 Aligned_cols=87 Identities=16% Similarity=0.098 Sum_probs=57.9
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~ 232 (640)
..++..+...|-.-+.++.+.. |.....+.++..-+...+.|.....+. ..+ ++.+....++|+|.+.+.
T Consensus 73 ~~~A~~~~~~GA~aisvlte~~-~f~g~~~~l~~v~~~v~iPvl~kdfi~-------~~~--qi~~a~~~GAD~VlLi~~ 142 (260)
T PRK00278 73 VEIAKAYEAGGAACLSVLTDER-FFQGSLEYLRAARAAVSLPVLRKDFII-------DPY--QIYEARAAGADAILLIVA 142 (260)
T ss_pred HHHHHHHHhCCCeEEEEecccc-cCCCCHHHHHHHHHhcCCCEEeeeecC-------CHH--HHHHHHHcCCCEEEEEec
Confidence 4566666677887777776444 444556777666554455555332211 112 678888999999999854
Q ss_pred h---hhHHHHHHHHHHcCCc
Q 006567 233 P---SLGFQVFSVAKYLGMM 249 (640)
Q Consensus 233 ~---~~~~~il~~a~~~gl~ 249 (640)
. ..+..+++.++++||.
T Consensus 143 ~l~~~~l~~li~~a~~lGl~ 162 (260)
T PRK00278 143 ALDDEQLKELLDYAHSLGLD 162 (260)
T ss_pred cCCHHHHHHHHHHHHHcCCe
Confidence 3 5788999999999875
No 365
>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=45.57 E-value=66 Score=32.57 Aligned_cols=78 Identities=10% Similarity=0.027 Sum_probs=49.6
Q ss_pred HhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe--cChhhHH
Q 006567 160 SYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH--VSPSLGF 237 (640)
Q Consensus 160 ~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~--~~~~~~~ 237 (640)
+.++.+++.++++.........+.+.+.+++. +.+..-..+.++ .+.+.....++.+++.++|.||-. ++.-|+.
T Consensus 18 ~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~D~a 94 (332)
T cd08180 18 KELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPD--PPIEVVAKGIKKFLDFKPDIVIALGGGSAIDAA 94 (332)
T ss_pred HHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEECCchHHHHH
Confidence 44556898888754333333667788888765 444322233333 456778888888999999999966 3445555
Q ss_pred HHH
Q 006567 238 QVF 240 (640)
Q Consensus 238 ~il 240 (640)
..+
T Consensus 95 Ka~ 97 (332)
T cd08180 95 KAI 97 (332)
T ss_pred HHH
Confidence 544
No 366
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=45.42 E-value=63 Score=30.96 Aligned_cols=87 Identities=18% Similarity=0.117 Sum_probs=63.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe--
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-- 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-- 230 (640)
..++....++|-.-++++. |..|..+..+.++..-....+.|--...+. . .-++...+..++|+|++.
T Consensus 69 ~~ia~~Ye~~GAa~iSVLT-d~~~F~Gs~e~L~~v~~~v~~PvL~KDFii-D--------~yQI~~Ar~~GADavLLI~~ 138 (254)
T COG0134 69 VEIAKAYEEGGAAAISVLT-DPKYFQGSFEDLRAVRAAVDLPVLRKDFII-D--------PYQIYEARAAGADAVLLIVA 138 (254)
T ss_pred HHHHHHHHHhCCeEEEEec-CccccCCCHHHHHHHHHhcCCCeeeccCCC-C--------HHHHHHHHHcCcccHHHHHH
Confidence 3467778888888888886 666888888888777666665554433222 1 235677788899998875
Q ss_pred -cChhhHHHHHHHHHHcCCc
Q 006567 231 -VSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 231 -~~~~~~~~il~~a~~~gl~ 249 (640)
.+..++..++..|.++||.
T Consensus 139 ~L~~~~l~el~~~A~~LGm~ 158 (254)
T COG0134 139 ALDDEQLEELVDRAHELGME 158 (254)
T ss_pred hcCHHHHHHHHHHHHHcCCe
Confidence 4556789999999999996
No 367
>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=45.41 E-value=2.9e+02 Score=26.59 Aligned_cols=109 Identities=15% Similarity=0.050 Sum_probs=56.3
Q ss_pred eEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHH
Q 006567 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (640)
Q Consensus 31 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~ 110 (640)
.=+||.+.+...........|++.++++.|.. .+ ..+..........+...+.+.+.++++.++.||+...+. .+.
T Consensus 121 ~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~nd~-~A~ 196 (265)
T cd06354 121 TGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPG--VP-DIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAAAGG-TGN 196 (265)
T ss_pred CCeEEEEecccChHHHHHHHHHHHHHHHHhcc--CC-CceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEECCCC-Cch
Confidence 34677775432222222237888888876521 10 122222222122224455666777777678888875444 344
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCcEEEec
Q 006567 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTT 145 (640)
Q Consensus 111 ~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~ 145 (640)
.+...+.+.++.++++... .+.....|.+..+.
T Consensus 197 gv~~al~~~gisIvGfD~~--~~~~~~~p~lttv~ 229 (265)
T cd06354 197 GVFQAAKEAGVYAIGVDSD--QYYLAPGVVLTSMV 229 (265)
T ss_pred HHHHHHHhcCCeEEEecCc--ccccCCCcEEEEEe
Confidence 4555566667777776442 23332335555554
No 368
>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=45.40 E-value=1.2e+02 Score=27.31 Aligned_cols=70 Identities=10% Similarity=0.092 Sum_probs=44.5
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. ++++++.. +.-+.++.+|.+|++|+++...... ...+. +.++....+.+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~~~~~ 81 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ-------MSKNRQIEALDAGTIDIGFGRFYPY---QEGVV-VRNVTNERLFLGAQK 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE-------CCHHHHHHHHHcCCccEEEecCCCC---CCCeE-EEEeeccceEEEeCC
Confidence 345677778877653 44466654 4577899999999999998642221 12222 356667777776654
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 82 ~~ 83 (198)
T cd08485 82 SR 83 (198)
T ss_pred CC
Confidence 43
No 369
>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=45.29 E-value=88 Score=27.97 Aligned_cols=70 Identities=16% Similarity=0.136 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.+++. .+++++.. ++...++..|.+|++|+++... +.....+. +.++....+.+++++
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 455677888887764 33466654 5678899999999999998532 22222222 467777888888866
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (200)
T cd08466 81 DH 82 (200)
T ss_pred CC
Confidence 54
No 370
>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=45.28 E-value=1.1e+02 Score=29.41 Aligned_cols=76 Identities=7% Similarity=-0.001 Sum_probs=49.0
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
++++.. ++.|.....+.+.+.+++.|+.+...... .+...-...++.+...++|.|++....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~~-----~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~ 75 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAGH-----HSAEKEREAIEFLLERRCDALILHSKALSD-DELIELA 75 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeCC-----CchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 455553 46677778888999999999887653321 123334567777788899998887543222 2266776
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06270 76 AQVP 79 (268)
T ss_pred hCCC
Confidence 6654
No 371
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=45.27 E-value=97 Score=30.72 Aligned_cols=86 Identities=17% Similarity=0.206 Sum_probs=53.9
Q ss_pred CeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeee
Q 006567 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (640)
Q Consensus 465 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~ 544 (640)
++++|++... -...+-.+++..+.++.. .+++.+.. .....++..|.+|++|+++..-
T Consensus 95 g~l~ig~~~~--------------~~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 152 (305)
T CHL00180 95 GTLIIGASQT--------------TGTYLMPRLIGLFRQRYP-QINVQLQV-------HSTRRIAWNVANGQIDIAIVGG 152 (305)
T ss_pred ceEEEEEcCc--------------chHhHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEEcC
Confidence 5688888521 112345567777777654 33355544 4588999999999999998632
Q ss_pred eeeccccceEEeCccccccceEEEEecCC
Q 006567 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 545 ~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
....+..+.+ ...++....+.+++++..
T Consensus 153 ~~~~~~~~~~-~~~~l~~~~~~~v~~~~~ 180 (305)
T CHL00180 153 EVPTELKKIL-EITPYVEDELALIIPKSH 180 (305)
T ss_pred ccCcccccce-eEEEeccCcEEEEECCCC
Confidence 2221111222 257788888888887654
No 372
>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=44.80 E-value=91 Score=29.82 Aligned_cols=75 Identities=12% Similarity=0.109 Sum_probs=48.2
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. ++.|.....+.+.+.+++.|+.+..... . .+. +....++++...++|.|++...... ...++.+.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~----~~~-~~~~~i~~~~~~~vdgiii~~~~~~-~~~~~~~~ 74 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQPLLINT-D----DDE-DLDAALRQLLQYRVDGVIVTSGTLS-SELAEECR 74 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCeEEEEcC-C----CCH-HHHHHHHHHHHcCCCEEEEecCCCC-HHHHHHHh
Confidence 455553 3566667778888889999988764421 1 112 5667778888888998888643222 23467776
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.|.
T Consensus 75 ~~~i 78 (266)
T cd06278 75 RNGI 78 (266)
T ss_pred hcCC
Confidence 6654
No 373
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=44.79 E-value=29 Score=23.59 Aligned_cols=25 Identities=20% Similarity=0.465 Sum_probs=20.7
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcccC
Q 006567 588 LMWTVTACFFVVVGIVVWILEHRIN 612 (640)
Q Consensus 588 ~vw~~i~~~~~~~~~~~~~~~~~~~ 612 (640)
++|..+.+.++.+|+++|.+..++.
T Consensus 12 ~~~~l~~~~~~Figiv~wa~~p~~k 36 (48)
T cd01324 12 DSWGLLYLALFFLGVVVWAFRPGRK 36 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 6898888889999999999965444
No 374
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=44.56 E-value=1e+02 Score=30.35 Aligned_cols=80 Identities=4% Similarity=0.066 Sum_probs=53.2
Q ss_pred CcEEEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-hhHHHHH
Q 006567 164 WNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVF 240 (640)
Q Consensus 164 w~~v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-~~~~~il 240 (640)
-+.++++.. ++.|....+..+++.+++.|+.+..... . .+.......++++...+++.+++.... ......+
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~-~----~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l 100 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDS-Q----NNPAKELANVQDLTVRGTKILLINPTDSDAVGNAV 100 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecC-C----CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHH
Confidence 467888875 3556777788899999999988765321 1 123445566777777789988776433 3334567
Q ss_pred HHHHHcCC
Q 006567 241 SVAKYLGM 248 (640)
Q Consensus 241 ~~a~~~gl 248 (640)
+.+++.|.
T Consensus 101 ~~~~~~~i 108 (295)
T PRK10653 101 KMANQANI 108 (295)
T ss_pred HHHHHCCC
Confidence 77777654
No 375
>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=44.39 E-value=87 Score=30.94 Aligned_cols=71 Identities=11% Similarity=0.118 Sum_probs=44.3
Q ss_pred CCCCcccHHHHHHHHhhcCe-EEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhhHHHHHHHHHHcCC
Q 006567 174 NEYGRNGVSALNDKLAERRC-RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVAKYLGM 248 (640)
Q Consensus 174 ~~~g~~~~~~~~~~~~~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~~~~il~~a~~~gl 248 (640)
+.|.....+.+++.+++.|. .+.....-. .+.......++.+...+++.|++... .......++++.+.|.
T Consensus 10 ~~f~~~~~~gi~~~a~~~g~~~~i~~~~~~----~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~gi 82 (302)
T TIGR02637 10 NPFFEAANKGAEEAAKELGSVYIIYTGPTG----TTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGI 82 (302)
T ss_pred CHHHHHHHHHHHHHHHHhCCeeEEEECCCC----CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCC
Confidence 45666667788888888884 333221111 12344556777887888998888643 3344566777877664
No 376
>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=44.24 E-value=1.2e+02 Score=29.59 Aligned_cols=79 Identities=11% Similarity=0.008 Sum_probs=51.8
Q ss_pred cEEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhh-HHHHHH
Q 006567 165 NAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFS 241 (640)
Q Consensus 165 ~~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~-~~~il~ 241 (640)
++++++..+ +.|.....+.+.+.+++.|..+..... . .+.......++.+...+.|.||+.....+ ....++
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~ 75 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILDG---R--GSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELE 75 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHH
Confidence 467777753 556667788888999999988765321 1 22444567788888889999998754322 234556
Q ss_pred HHHHcCC
Q 006567 242 VAKYLGM 248 (640)
Q Consensus 242 ~a~~~gl 248 (640)
.+.+.+.
T Consensus 76 ~~~~~~i 82 (280)
T cd06315 76 LAQKAGI 82 (280)
T ss_pred HHHHCCC
Confidence 6666554
No 377
>PF13155 Toprim_2: Toprim-like
Probab=44.00 E-value=48 Score=26.15 Aligned_cols=41 Identities=17% Similarity=0.307 Sum_probs=34.7
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcC
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERR 192 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g 192 (640)
.+.+.++++..+-++|.+..++|.-|+...+.+.+.+.+.+
T Consensus 35 ~~~~~~~l~~~~~~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 35 EKQQIKFLKENPYKKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred HHHHHHHHHhCCCCcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 46788888776668898888999999999999999998776
No 378
>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=43.78 E-value=1.2e+02 Score=29.09 Aligned_cols=76 Identities=5% Similarity=-0.029 Sum_probs=45.5
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. ++.+.......+++.+++.|+.+.....-. .+.......++.+...++|.|++........ .+.++.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~ 76 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSMLAE----ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAA 76 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeCCC----CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHH
Confidence 455554 345666778888888988888776442111 1124455667777788899888764433322 233444
Q ss_pred HcC
Q 006567 245 YLG 247 (640)
Q Consensus 245 ~~g 247 (640)
+.|
T Consensus 77 ~~~ 79 (264)
T cd01574 77 PAD 79 (264)
T ss_pred hcC
Confidence 444
No 379
>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=43.70 E-value=85 Score=28.48 Aligned_cols=72 Identities=11% Similarity=0.169 Sum_probs=47.3
Q ss_pred eeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEe
Q 006567 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (640)
Q Consensus 491 ~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~ 570 (640)
..+-.+++..+.++.. .+++++... +++..++..|.+|++|+++..-.. ..+.++ ..++....+.++++
T Consensus 12 ~~~~~~~l~~~~~~~P-~~~v~~~~~------~~~~~l~~~L~~g~lDl~i~~~~~---~~~~l~-~~~l~~~~~~lv~~ 80 (203)
T cd08463 12 ALFLPELVARFRREAP-GARLEIHPL------GPDFDYERALASGELDLVIGNWPE---PPEHLH-LSPLFSDEIVCLMR 80 (203)
T ss_pred HHHhHHHHHHHHHHCC-CCEEEEEeC------CcchhHHHHHhcCCeeEEEecccc---CCCCcE-EeEeecCceEEEEe
Confidence 3566788888888765 333666541 246789999999999999863221 112233 25677778888877
Q ss_pred cCC
Q 006567 571 FRK 573 (640)
Q Consensus 571 ~~~ 573 (640)
+..
T Consensus 81 ~~h 83 (203)
T cd08463 81 ADH 83 (203)
T ss_pred CCC
Confidence 655
No 380
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=43.66 E-value=99 Score=31.16 Aligned_cols=84 Identities=13% Similarity=0.061 Sum_probs=55.7
Q ss_pred CeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeee
Q 006567 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (640)
Q Consensus 465 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~ 544 (640)
+.|+|++... -...+-.+++..+.+++. ++++.+.. +....++..|.+|++|+++..-
T Consensus 93 g~lrIg~~~~--------------~~~~~l~~~l~~f~~~~P-~v~i~l~~-------~~~~~~~~~l~~g~~Dl~i~~~ 150 (327)
T PRK12680 93 GQLTLTTTHT--------------QARFVLPPAVAQIKQAYP-QVSVHLQQ-------AAESAALDLLGQGDADIAIVST 150 (327)
T ss_pred eEEEEEecch--------------hHHHhhHHHHHHHHHHCC-CcEEEEEe-------CChHHHHHHHHCCCCcEEEEec
Confidence 5789988631 122455678888888776 33466655 5689999999999999998532
Q ss_pred eeeccccceEEeCccccccceEEEEecCC
Q 006567 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 545 ~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
.. ....... ..|++...+.++++...
T Consensus 151 ~~--~~~~~~~-~~~l~~~~~~l~~~~~h 176 (327)
T PRK12680 151 AG--GEPSAGI-AVPLYRWRRLVVVPRGH 176 (327)
T ss_pred CC--CCCCcce-EEEeeccceEEEEeCCC
Confidence 11 1111222 47888888888887654
No 381
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=43.53 E-value=1.6e+02 Score=24.24 Aligned_cols=67 Identities=12% Similarity=0.015 Sum_probs=41.1
Q ss_pred cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-h---hhHHHHHHHHHHcC
Q 006567 173 DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-P---SLGFQVFSVAKYLG 247 (640)
Q Consensus 173 ~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~---~~~~~il~~a~~~g 247 (640)
..+...-+..-+...++..|+++..-. .. ......++.+.+.++++|.+.+. . ..+..+++++++.+
T Consensus 8 ~~e~H~lG~~~~~~~l~~~G~~V~~lg---~~-----~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~ 78 (119)
T cd02067 8 GGDGHDIGKNIVARALRDAGFEVIDLG---VD-----VPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAG 78 (119)
T ss_pred CCchhhHHHHHHHHHHHHCCCEEEECC---CC-----CCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence 444555566777778888888875432 11 12335566667778888888754 2 34455666666654
No 382
>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=43.22 E-value=1e+02 Score=27.34 Aligned_cols=70 Identities=19% Similarity=0.219 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. .+++++.. ++...++..|.+|++|+++...... ...++ +.+.....+.+++++
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 455677888887764 33466655 5578899999999999998532211 12222 366777777777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (196)
T cd08450 81 DH 82 (196)
T ss_pred CC
Confidence 54
No 383
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=43.21 E-value=95 Score=30.37 Aligned_cols=26 Identities=23% Similarity=0.466 Sum_probs=17.4
Q ss_pred ccceEEEEEccCCchhHHHHHHHHhh
Q 006567 278 MQGVLVLRQHIPESDRKKNFLSRWKN 303 (640)
Q Consensus 278 ~~g~~~~~~~~~~~~~~~~f~~~~~~ 303 (640)
+.+++.++....+++.+++|++.|+.
T Consensus 228 ~~n~~~~r~~~~~~~~~~~lv~~~~s 253 (272)
T PRK09861 228 YVNILVAREDNKNAENVKEFLQSYQS 253 (272)
T ss_pred eEEEEEEcCCccCCHHHHHHHHHHcC
Confidence 34566666655567778888887763
No 384
>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=43.11 E-value=1.2e+02 Score=30.76 Aligned_cols=98 Identities=9% Similarity=0.102 Sum_probs=58.9
Q ss_pred HHHHHHHHhcCC-cEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEee-ccCCCCCCChhHHHHHHHHHhcCCceEEEEe
Q 006567 153 TAVAEMVSYYGW-NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKS-GIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (640)
Q Consensus 153 ~al~~ll~~~~w-~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~ 230 (640)
..+.++++.++. +++.++++...+.. ..+.+.+.+++.|+.+.... ...++ .+..........+++ +++.||-.
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~-~~~~i~~~L~~~~~~~~i~~~~~~~~--p~~~~v~~~~~~~~~-~~d~IIai 87 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKV-AGKEIIERLESNNFTKEVLERDSLLI--PDEYELGEVLIKLDK-DTEFLLGI 87 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHH-HHHHHHHHHHHcCCeEEEEecCCCCC--CCHHHHHHHHHHhhc-CCCEEEEE
Confidence 445667777775 78888875443222 34778888888776554211 12222 346677888888888 88988876
Q ss_pred c--ChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 231 V--SPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 231 ~--~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
+ +.-|+..++. ...| ..++-|-|.
T Consensus 88 GGGsv~D~aK~iA--~~~g---ip~I~VPTT 113 (332)
T cd08549 88 GSGTIIDLVKFVS--FKVG---KPFISVPTA 113 (332)
T ss_pred CCcHHHHHHHHHH--HHcC---CCEEEeCCC
Confidence 4 4455555554 2233 345555554
No 385
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=43.03 E-value=3.4e+02 Score=29.60 Aligned_cols=127 Identities=16% Similarity=0.130 Sum_probs=75.1
Q ss_pred hHHHHHHHHH-hHhcCcEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHH
Q 006567 82 GFIGMVEALR-FMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVS 160 (640)
Q Consensus 82 ~~~a~~~a~~-l~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~ 160 (640)
-..+++.+.+ +..+++++||.-.++... +. +...||+|....+. .+..+++... +
T Consensus 49 ~~~~v~~~~~~~~~~~~dviIsrG~ta~~--i~---~~~~iPVv~i~~s~------------------~Dil~al~~a-~ 104 (538)
T PRK15424 49 FEKAVTYIRKRLATERCDAIIAAGSNGAY--LK---SRLSVPVILIKPSG------------------FDVMQALARA-R 104 (538)
T ss_pred HHHHHHHHHHHHhhCCCcEEEECchHHHH--HH---hhCCCCEEEecCCH------------------hHHHHHHHHH-H
Confidence 4456666644 555689999974433322 22 34689999743222 2234555333 4
Q ss_pred hcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHH
Q 006567 161 YYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVF 240 (640)
Q Consensus 161 ~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il 240 (640)
.++ .++++|.-.+.. ..++.+.+.+ ++.+..... .+.++....++++++.+.++||-.+- ..
T Consensus 105 ~~~-~~iavv~~~~~~--~~~~~~~~~l---~~~i~~~~~------~~~~e~~~~v~~lk~~G~~~vvG~~~------~~ 166 (538)
T PRK15424 105 KLT-SSIGVVTYQETI--PALVAFQKTF---NLRIEQRSY------VTEEDARGQINELKANGIEAVVGAGL------IT 166 (538)
T ss_pred hcC-CcEEEEecCccc--HHHHHHHHHh---CCceEEEEe------cCHHHHHHHHHHHHHCCCCEEEcCch------HH
Confidence 443 467777533321 2355555554 455554332 23779999999999999999885532 35
Q ss_pred HHHHHcCCcc
Q 006567 241 SVAKYLGMMG 250 (640)
Q Consensus 241 ~~a~~~gl~~ 250 (640)
+.|++.|+.+
T Consensus 167 ~~A~~~g~~g 176 (538)
T PRK15424 167 DLAEEAGMTG 176 (538)
T ss_pred HHHHHhCCce
Confidence 6778888764
No 386
>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=42.83 E-value=94 Score=29.78 Aligned_cols=77 Identities=6% Similarity=0.070 Sum_probs=49.8
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-hhHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVA 243 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-~~~~~il~~a 243 (640)
|+++.. ++.|.......+.+.+++.|+.+.... .. .+.......++++...+++.|++.... ......++.+
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~---~~--~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l 76 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYELTVLD---AQ--NDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAA 76 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCceEEecC---CC--CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHH
Confidence 455553 456777778889999999998876422 11 224455677788888889988886432 2234567777
Q ss_pred HHcCC
Q 006567 244 KYLGM 248 (640)
Q Consensus 244 ~~~gl 248 (640)
++.+.
T Consensus 77 ~~~~i 81 (268)
T cd06323 77 NEAGI 81 (268)
T ss_pred HHCCC
Confidence 66554
No 387
>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=42.40 E-value=1e+02 Score=27.70 Aligned_cols=71 Identities=15% Similarity=0.141 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. .+++++.. +.+..++..+.+|++|+++..-.. .....+. +.+.....+.+++++
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 455678888888764 33466655 568889999999999999853221 1112233 367777888888766
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 82 ~h 83 (198)
T cd08413 82 GH 83 (198)
T ss_pred CC
Confidence 54
No 388
>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=42.37 E-value=85 Score=31.14 Aligned_cols=77 Identities=8% Similarity=0.085 Sum_probs=48.2
Q ss_pred EEEEEE---cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC--CceEEEEecChhhHHHHHH
Q 006567 167 VSVIFV---DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFS 241 (640)
Q Consensus 167 v~ii~~---~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~vivl~~~~~~~~~il~ 241 (640)
|+++.. ++.|.......+++.+++.|..+..... . .+...-...++.+... ++|.||+.........+++
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~v~~~~~---~--~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~ 76 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIELEVLYA---E--RDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLR 76 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCeEEEEeC---C--CCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHH
Confidence 455553 3456666777888888888887765421 1 1233345667777777 8998888643333445667
Q ss_pred HHHHcCC
Q 006567 242 VAKYLGM 248 (640)
Q Consensus 242 ~a~~~gl 248 (640)
.+.+.|.
T Consensus 77 ~~~~~gi 83 (305)
T cd06324 77 LAEGAGV 83 (305)
T ss_pred HHHhCCC
Confidence 7777664
No 389
>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=42.29 E-value=1.2e+02 Score=29.18 Aligned_cols=76 Identities=13% Similarity=0.049 Sum_probs=48.5
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. ++.+.......+.+.+++.|..+.... .. .+.......++.+...+++.|++.+... ....++.++
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~ 75 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVAS---SG--YDLDREYAQARKLLERGVDGLALIGLDH-SPALLDLLA 75 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEec---CC--CCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHH
Confidence 566664 355666777888888999998876521 11 2244456677778888888888764332 234556666
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06273 76 RRGV 79 (268)
T ss_pred hCCC
Confidence 6553
No 390
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=42.16 E-value=87 Score=31.25 Aligned_cols=70 Identities=11% Similarity=0.145 Sum_probs=47.9
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
++..+++..+.++.. .+++++.. ++...++..|.+|++|+++..... ....+. ..++....+.+++++
T Consensus 125 ~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Di~i~~~~~---~~~~l~-~~~l~~~~~~lv~~~ 192 (314)
T PRK09508 125 RLTSQIYNRIEQIAP-NIHVVFKS-------SLNQNIEHQLRYQETEFVISYEEF---DRPEFT-SVPLFKDELVLVASK 192 (314)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEe-------CcchhHHHHHhcCCccEEEecCCC---Cccccc-eeeeecCceEEEEcC
Confidence 466788888888864 33366654 557889999999999999864322 122222 356777888888876
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 193 ~h 194 (314)
T PRK09508 193 NH 194 (314)
T ss_pred CC
Confidence 54
No 391
>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=42.15 E-value=3.2e+02 Score=26.23 Aligned_cols=115 Identities=18% Similarity=0.098 Sum_probs=61.2
Q ss_pred eeEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHH
Q 006567 30 AVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (640)
Q Consensus 30 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~ 109 (640)
+.=+||++.+.....+.....+++-++++ .|.++...... +.....+.+.+++. ++.+|+.+......
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 44578888665433344556677766655 14444432221 22223344444443 45788876554332
Q ss_pred HH---HHHhhccCCceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh
Q 006567 110 HI---VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY 161 (640)
Q Consensus 110 ~~---v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~ 161 (640)
.. +.......+||++++.... +. .+.+.....+...+++..++++.+
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 22 2222223589999764332 22 245566666777788887776543
No 392
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=42.02 E-value=28 Score=30.25 Aligned_cols=29 Identities=10% Similarity=0.299 Sum_probs=23.5
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHhhhcc
Q 006567 582 LRPFSPLMWTVTACFFVVVGIVVWILEHR 610 (640)
Q Consensus 582 l~pf~~~vw~~i~~~~~~~~~~~~~~~~~ 610 (640)
-.|.++.+|++|+++++++|+++|.+.|+
T Consensus 114 ~~~~~~~i~~~i~g~ll~i~~giy~~~r~ 142 (145)
T PF10661_consen 114 KKPISPTILLSIGGILLAICGGIYVVLRK 142 (145)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35778888888888989999999888764
No 393
>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=42.02 E-value=1e+02 Score=29.76 Aligned_cols=78 Identities=10% Similarity=0.026 Sum_probs=50.6
Q ss_pred EEEEEE---cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhhHHHHHHH
Q 006567 167 VSVIFV---DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSV 242 (640)
Q Consensus 167 v~ii~~---~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~~~~il~~ 242 (640)
|++|.. ++.|.....+.+++.+++.|+.+..... . .+.......++.+...++|.|++... .......++.
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~ 76 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLDA---N--GDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRK 76 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEcC---C--cCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHH
Confidence 455553 3467777788888889899988765321 1 22444556677777788998888653 3333456677
Q ss_pred HHHcCCc
Q 006567 243 AKYLGMM 249 (640)
Q Consensus 243 a~~~gl~ 249 (640)
+.+.+.+
T Consensus 77 ~~~~~iP 83 (275)
T cd06317 77 AKQAGIP 83 (275)
T ss_pred HHHCCCc
Confidence 7776643
No 394
>PRK08105 flavodoxin; Provisional
Probab=41.95 E-value=1.2e+02 Score=26.38 Aligned_cols=81 Identities=10% Similarity=-0.011 Sum_probs=43.4
Q ss_pred cEEEEEEEc-CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-------hhH
Q 006567 165 NAVSVIFVD-NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-------SLG 236 (640)
Q Consensus 165 ~~v~ii~~~-~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-------~~~ 236 (640)
+++.|+|.. ..-....++.+.+.+.+.|..+..... . ++ ..+...+.+.+++.++. +.+
T Consensus 2 ~~i~I~YgS~tGnte~~A~~l~~~l~~~g~~~~~~~~---~------~~----~~~~~~~~~~vi~~~sT~G~Ge~p~~~ 68 (149)
T PRK08105 2 AKVGIFVGTVYGNALLVAEEAEAILTAQGHEVTLFED---P------EL----SDWQPYQDELVLVVTSTTGQGDLPDSI 68 (149)
T ss_pred CeEEEEEEcCchHHHHHHHHHHHHHHhCCCceEEech---h------hC----CchhcccCCeEEEEECCCCCCCCChhH
Confidence 478889853 333445677888888877876553221 1 11 11222223445544322 556
Q ss_pred HHHHHHHHHc--CCccCCeEEEEe
Q 006567 237 FQVFSVAKYL--GMMGNGYVWIAT 258 (640)
Q Consensus 237 ~~il~~a~~~--gl~~~~~~~i~~ 258 (640)
..++..+++. .+.+..|.-++.
T Consensus 69 ~~f~~~l~~~~~~l~~~~~avfGl 92 (149)
T PRK08105 69 VPLFQALKDTAGYQPNLRYGVIAL 92 (149)
T ss_pred HHHHHHHHhcCcccCCCEEEEEee
Confidence 7787777764 444444554444
No 395
>TIGR02424 TF_pcaQ pca operon transcription factor PcaQ. Members of this family are LysR-family transcription factors associated with operons for catabolism of protocatechuate. Members occur only in Proteobacteria.
Probab=41.81 E-value=1.2e+02 Score=29.75 Aligned_cols=86 Identities=17% Similarity=0.242 Sum_probs=54.9
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEee
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~ 543 (640)
.++|+|++... -...+-.+++..+.++.. ++++.+.. .+...++.++.+|++|++++.
T Consensus 92 ~~~l~I~~~~~--------------~~~~~~~~~l~~~~~~~P-~~~i~~~~-------~~~~~~~~~l~~g~~D~~i~~ 149 (300)
T TIGR02424 92 GPTVRIGALPT--------------VAARLMPEVVKRFLARAP-RLRVRIMT-------GPNAYLLDQLRVGALDLVVGR 149 (300)
T ss_pred CceEEEecccH--------------HHHhhhHHHHHHHHHhCC-CcEEEEEe-------CchHHHHHHHHCCCCCEEEEe
Confidence 35789988521 112344567777777765 44466655 557889999999999999864
Q ss_pred eeeeccccceEEeCccccccceEEEEecCC
Q 006567 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 544 ~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
.... .....+. ..|.....+.+++++..
T Consensus 150 ~~~~-~~~~~~~-~~~l~~~~~~~~~~~~h 177 (300)
T TIGR02424 150 LGAP-ETMQGLS-FEHLYNEPVVFVVRAGH 177 (300)
T ss_pred cCCc-cccccee-eeeecCCceEEEEcCCC
Confidence 3321 1222232 45777788888876554
No 396
>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=41.71 E-value=1e+02 Score=29.74 Aligned_cols=77 Identities=10% Similarity=0.049 Sum_probs=49.2
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhh--cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChh-hHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFS 241 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~-~~~~il~ 241 (640)
|+++.. ++.|.......+++.+++ .|.++..... . .+.......++.+...+++.||+..... .....++
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~---~--~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~ 76 (271)
T cd06321 2 IGVSVGDLGNPFFVALAKGAEAAAKKLNPGVKVTVVSA---D--YDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVK 76 (271)
T ss_pred eEEEecccCCHHHHHHHHHHHHHHHHhCCCeEEEEccC---C--CCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHH
Confidence 566664 356777788889999998 6666543211 1 2234455677777788899888865332 2356677
Q ss_pred HHHHcCC
Q 006567 242 VAKYLGM 248 (640)
Q Consensus 242 ~a~~~gl 248 (640)
.+.+.|.
T Consensus 77 ~~~~~~i 83 (271)
T cd06321 77 RAQAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7777654
No 397
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=41.43 E-value=1.3e+02 Score=29.12 Aligned_cols=88 Identities=15% Similarity=0.051 Sum_probs=49.9
Q ss_pred chHHHHHHHHH--HHh---cCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC
Q 006567 148 DSYQMTAVAEM--VSY---YGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM 222 (640)
Q Consensus 148 ~~~~~~al~~l--l~~---~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~ 222 (640)
....++.++++ +.. ..-++|.++-.+. ....+.+.+++.|..|.....|... ............+...
T Consensus 109 ~~~~se~Ll~~~~l~~~~~~~~~~vLi~rg~~-----~r~~L~~~L~~~G~~v~~~~vY~~~--~~~~~~~~~~~~~~~~ 181 (255)
T PRK05752 109 QGDDSEALLALPALRQALAVPDPRVLIMRGEG-----GRELLAERLREQGASVDYLELYRRC--LPDYPAGTLLQRVEAE 181 (255)
T ss_pred CCCCcHHHHhChhhhccccCCCCEEEEEccCc-----cHHHHHHHHHHCCCEEeEEEEEeec--CCCCCHHHHHHHHHhC
Confidence 33345677765 333 2345666654332 5667889999999888765555422 1111223344455555
Q ss_pred CceEEEEecChhhHHHHHHHH
Q 006567 223 ESRVIVLHVSPSLGFQVFSVA 243 (640)
Q Consensus 223 ~~~vivl~~~~~~~~~il~~a 243 (640)
..++|++. ++..+..+++.+
T Consensus 182 ~~d~v~ft-S~~~~~~~~~~~ 201 (255)
T PRK05752 182 RLNGLVVS-SGQGFEHLQQLA 201 (255)
T ss_pred CCCEEEEC-CHHHHHHHHHHh
Confidence 66766555 667777776644
No 398
>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=41.28 E-value=1.3e+02 Score=26.63 Aligned_cols=70 Identities=10% Similarity=0.063 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. ++++++.. ++..++...+.+|++|+++..- ......++ +.++....+.+++++
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 455678888887764 33366655 5688999999999999997532 22222232 367777888887765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~h 82 (197)
T cd08448 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 399
>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=41.28 E-value=1.2e+02 Score=28.91 Aligned_cols=75 Identities=15% Similarity=0.049 Sum_probs=47.8
Q ss_pred EEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++..+ +.+.....+.+++.+++.|+++..... . .+.......++++...++|.+|+...... ..+++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~ 75 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQMLLMNT-N----FSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIK 75 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCEEEEEeC-C----CCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHh
Confidence 4555543 445566788888989899988765322 1 12444566778888889999998754322 34556665
Q ss_pred HcC
Q 006567 245 YLG 247 (640)
Q Consensus 245 ~~g 247 (640)
+.|
T Consensus 76 ~~~ 78 (259)
T cd01542 76 KLN 78 (259)
T ss_pred cCC
Confidence 554
No 400
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=41.24 E-value=2.3e+02 Score=29.31 Aligned_cols=97 Identities=10% Similarity=0.017 Sum_probs=56.5
Q ss_pred HHHHHHHHHHhc--CCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEE
Q 006567 151 QMTAVAEMVSYY--GWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (640)
Q Consensus 151 ~~~al~~ll~~~--~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viv 228 (640)
.+..+++.+... .-++|.+......-|......+.+.+++.|..+.....|.................+.+...|+|
T Consensus 127 ~~e~L~~~l~~~~~~g~~vli~~~~~~~~~~~~~~L~~~L~~~G~~V~~~~vY~~~~~~~~~~~~~~~~~l~~~~~d~v- 205 (381)
T PRK07239 127 SSAEVLEYLLEEGVAGKRIAVQLHGATDEWEPLPEFLEALRAAGAEVVPVPVYRWVPPPDPGPLDRLVDAIASRGLDAV- 205 (381)
T ss_pred ccHHHHHHHhcCCCCCCEEEEEcCCCccccCchHHHHHHHHHCCCEEEEeCcEEEcCCCChhHHHHHHHHHHcCCccEE-
Confidence 467777776543 45677655433222323356788899999988876555532210112223445555655556654
Q ss_pred EecChhhHHHHHHHHHHcCC
Q 006567 229 LHVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 229 l~~~~~~~~~il~~a~~~gl 248 (640)
++.++..+..+++.+.+.++
T Consensus 206 ~FtS~stv~~f~~~l~~~~~ 225 (381)
T PRK07239 206 TFTSAPAVAALLERAREMGL 225 (381)
T ss_pred EEcCHHHHHHHHHHHHHcCC
Confidence 45567788888888776543
No 401
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=41.17 E-value=2e+02 Score=28.66 Aligned_cols=82 Identities=13% Similarity=0.163 Sum_probs=47.2
Q ss_pred EEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhcCcEEEEcCCChHHHHH
Q 006567 32 VNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (640)
Q Consensus 32 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aiiGp~~s~~~~~ 111 (640)
=+||+++..++.-.....+-++...+. .|+++.-....+..+-.. +.+.+..++++|++|.+......
T Consensus 160 k~Igv~Y~p~E~ns~~l~eelk~~A~~--------~Gl~vve~~v~~~ndi~~----a~~~l~g~~d~i~~p~dn~i~s~ 227 (322)
T COG2984 160 KSIGVLYNPGEANSVSLVEELKKEARK--------AGLEVVEAAVTSVNDIPR----AVQALLGKVDVIYIPTDNLIVSA 227 (322)
T ss_pred eeEEEEeCCCCcccHHHHHHHHHHHHH--------CCCEEEEEecCcccccHH----HHHHhcCCCcEEEEecchHHHHH
Confidence 457888777643322222222222222 255555444443334323 33444578999999998865544
Q ss_pred ---HHHhhccCCceEEe
Q 006567 112 ---VSYVSNELQVPLLS 125 (640)
Q Consensus 112 ---v~~~~~~~~iP~is 125 (640)
+...+...+||+++
T Consensus 228 ~~~l~~~a~~~kiPli~ 244 (322)
T COG2984 228 IESLLQVANKAKIPLIA 244 (322)
T ss_pred HHHHHHHHHHhCCCeec
Confidence 45567888999996
No 402
>cd08459 PBP2_DntR_NahR_LinR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold. This CD includes LysR-like bacterial transcriptional regulators, DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. DntR from Burkholderia species controls genes encoding enzymes for oxidative degradation of the nitro-aromatic compound 2,4-dinitrotoluene. The active form of DntR is homotetrameric, consisting of a dimer of dimers. NahR is a salicylate-dependent transcription activator of the nah and sal operons for naphthalene degradation. Salicylic acid is an intermediate o
Probab=40.99 E-value=88 Score=28.04 Aligned_cols=70 Identities=17% Similarity=0.166 Sum_probs=46.8
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. .+++++.. ++.+.++..|.+|++|+++...... ...+. +.|.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~v~~~ 80 (201)
T cd08459 13 YFLPRLLAALREVAP-GVRIETVR-------LPVDELEEALESGEIDLAIGYLPDL---GAGFF-QQRLFRERYVCLVRK 80 (201)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------cCccCHHHHhhCCCceEEEEcCCCC---cccce-EEEeecCceEEEEcC
Confidence 445677888887764 33466654 4567899999999999998643221 22232 467778888887765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (201)
T cd08459 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 403
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=40.80 E-value=1.3e+02 Score=30.35 Aligned_cols=85 Identities=18% Similarity=0.086 Sum_probs=54.3
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEee
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~ 543 (640)
.++|+|++... ....+-.+++..+.++.. ++++.+.. +....++..|.+|++|++++.
T Consensus 92 ~g~l~Ig~~~~--------------~~~~~l~~~l~~f~~~~P-~i~i~i~~-------~~~~~~~~~L~~g~iDl~i~~ 149 (324)
T PRK12681 92 KGSLYIATTHT--------------QARYALPPVIKGFIERYP-RVSLHMHQ-------GSPTQIAEAAAKGNADFAIAT 149 (324)
T ss_pred CCeEEEEechh--------------HHHHhhHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCCCEEEec
Confidence 36799988521 122455667777777764 44466655 568899999999999999863
Q ss_pred eeeeccccceEEeCccccccceEEEEecCC
Q 006567 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 544 ~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
-. ..+...+. ..++....+.+++++..
T Consensus 150 ~~--~~~~~~l~-~~~l~~~~~~~v~~~~h 176 (324)
T PRK12681 150 EA--LHLYDDLI-MLPCYHWNRSVVVPPDH 176 (324)
T ss_pred Cc--ccCCCCeE-EEEeccceeEEEeCCCC
Confidence 21 11122233 35677777777776544
No 404
>PRK11914 diacylglycerol kinase; Reviewed
Probab=40.76 E-value=1.4e+02 Score=29.80 Aligned_cols=78 Identities=12% Similarity=0.077 Sum_probs=49.2
Q ss_pred HhcCCcEEEEEEEcCCCCc----ccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhh
Q 006567 160 SYYGWNAVSVIFVDNEYGR----NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL 235 (640)
Q Consensus 160 ~~~~w~~v~ii~~~~~~g~----~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~ 235 (640)
++...+++.+|+ |...|. ..++.+.+.+++.|+++..... ....+...+.++..+.+.|+||+.+-...
T Consensus 4 ~~~~~~~~~iI~-NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~t------~~~~~~~~~a~~~~~~~~d~vvv~GGDGT 76 (306)
T PRK11914 4 RRHEIGKVTVLT-NPLSGHGAAPHAAERAIARLHHRGVDVVEIVG------TDAHDARHLVAAALAKGTDALVVVGGDGV 76 (306)
T ss_pred CcCCCceEEEEE-CCCCCCCcHHHHHHHHHHHHHHcCCeEEEEEe------CCHHHHHHHHHHHHhcCCCEEEEECCchH
Confidence 344557888888 322232 2345677778888877553322 12456677777777777888888776666
Q ss_pred HHHHHHHHH
Q 006567 236 GFQVFSVAK 244 (640)
Q Consensus 236 ~~~il~~a~ 244 (640)
+..++..+.
T Consensus 77 i~evv~~l~ 85 (306)
T PRK11914 77 ISNALQVLA 85 (306)
T ss_pred HHHHhHHhc
Confidence 777776654
No 405
>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=40.74 E-value=1.2e+02 Score=29.09 Aligned_cols=76 Identities=12% Similarity=0.079 Sum_probs=47.4
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. ++.+.......+++.+++.|+++..... . .+.......++.+...++|.|++...... ...++.+.
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~ 75 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAAGYQLLLGNT-G----YSPEREEELLRTLLSRRPAGLILTGLEHT-ERTRQLLR 75 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHcCCEEEEecC-C----CCchhHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHH
Confidence 456654 3455666777888888889988765322 1 12344567778888888998888753322 33455555
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd01575 76 AAGI 79 (268)
T ss_pred hcCC
Confidence 5553
No 406
>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=40.46 E-value=91 Score=30.17 Aligned_cols=81 Identities=12% Similarity=0.022 Sum_probs=48.6
Q ss_pred EEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-hhHHHHHHH
Q 006567 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSV 242 (640)
Q Consensus 166 ~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-~~~~~il~~ 242 (640)
+++++..+ +.|.....+.+.+.+++.|..+......... ..+.......+..+.. ++|.+++.... ......+++
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~~ 78 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDARIRVRIHFVE-SFDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVAR 78 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhccCceEEEEEcc-CCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHHH
Confidence 46677653 4566677788888888887543322211111 0123445567777777 89988886433 333567788
Q ss_pred HHHcCC
Q 006567 243 AKYLGM 248 (640)
Q Consensus 243 a~~~gl 248 (640)
+.+.|.
T Consensus 79 ~~~~~i 84 (275)
T cd06307 79 LAAAGV 84 (275)
T ss_pred HHHCCC
Confidence 877664
No 407
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=40.34 E-value=1.3e+02 Score=30.05 Aligned_cols=85 Identities=20% Similarity=0.132 Sum_probs=54.1
Q ss_pred CCeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEee
Q 006567 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (640)
Q Consensus 464 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~ 543 (640)
.++|+|++... -...+..+++..+.++.. .+++.+.. +....++..|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~~--------------~~~~~l~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~L~~g~~D~~i~~ 149 (313)
T PRK12684 92 QGNLTIATTHT--------------QARYALPAAIKEFKKRYP-KVRLSILQ-------GSPTQIAEMVLHGQADLAIAT 149 (313)
T ss_pred CCeEEEEechH--------------HHHHHhHHHHHHHHHHCC-CceEEEEe-------CChHHHHHHHHCCCcCEEEee
Confidence 35789988521 122445677888877664 33366654 558899999999999999753
Q ss_pred eeeeccccceEEeCccccccceEEEEecCC
Q 006567 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 544 ~~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
-.... . ..++ +.|+....+.+++++..
T Consensus 150 ~~~~~-~-~~l~-~~~l~~~~~~~v~~~~~ 176 (313)
T PRK12684 150 EAIAD-Y-KELV-SLPCYQWNHCVVVPPDH 176 (313)
T ss_pred cCCCC-C-CCce-EEEeccceEEEEeCCCC
Confidence 21111 1 1222 46777788888876554
No 408
>cd08467 PBP2_SyrM The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold. Rhizobium is a nitrogen fixing bacteria present in the roots of leguminous plants, which fixes atmospheric nitrogen to the soil. Most Rhizobium species possess multiple nodulation (nod) genes for the development of nodules. For example, Rhizobium meliloti possesses three copies of nodD genes. NodD1 and NodD2 activate nod operons when Rhizobium is exposed to inducers synthesized by the host plant, while NodD3 acts independent of plant inducers and requires the symbiotic regulator SyrM for nod gene expression. SyrM activates the expression of the regulatory nodulation gene nodD3. In turn, NodD3 activates expression of syrM. In addition, SyrM is involved in exopolysaccharide synthesis. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are
Probab=40.34 E-value=92 Score=28.05 Aligned_cols=70 Identities=10% Similarity=0.113 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. ++++++.. .....++..|.+|++|+++.... ... ..+. ..+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~--~~~-~~~~-~~~l~~~~~~~v~~~ 80 (200)
T cd08467 13 ALLPRLAPRLRERAP-GLDLRLCP-------IGDDLAERGLEQGTIDLAVGRFA--VPP-DGLV-VRRLYDDGFACLVRH 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CCEEEEec-------CCcccHHHHhhCCCcCEEEecCC--CCC-ccce-eEEeeeccEEEEEcC
Confidence 556678888887764 33466654 45778999999999999985321 112 2232 357777777777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~h 82 (200)
T cd08467 81 GH 82 (200)
T ss_pred CC
Confidence 43
No 409
>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=40.25 E-value=97 Score=29.93 Aligned_cols=77 Identities=10% Similarity=-0.001 Sum_probs=48.6
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhh-HHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFSVA 243 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~-~~~il~~a 243 (640)
++++.. ++.|.....+.+.+.+++.|+++..... . .+...-.+.++++...++|.||+...... ....++.+
T Consensus 2 i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~ 76 (277)
T cd06319 2 IAYIVSDLRIPFWQIMGRGVKSKAKALGYDAVELSA---E--NSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLA 76 (277)
T ss_pred eEEEeCCCCchHHHHHHHHHHHHHHhcCCeEEEecC---C--CCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHH
Confidence 555554 3556667778888888888988764311 1 12333456677777788999887643322 34567777
Q ss_pred HHcCC
Q 006567 244 KYLGM 248 (640)
Q Consensus 244 ~~~gl 248 (640)
++.|.
T Consensus 77 ~~~~i 81 (277)
T cd06319 77 AQAKI 81 (277)
T ss_pred HHCCC
Confidence 77654
No 410
>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=40.21 E-value=1.2e+02 Score=26.92 Aligned_cols=70 Identities=13% Similarity=0.218 Sum_probs=46.2
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEecC
Q 006567 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (640)
Q Consensus 493 ~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~~ 572 (640)
+..+++..+.++.. .+++++.. ++...++..+.+|++|+++...... ....+ -+.+.+...+.++++..
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 55677888888764 33355554 5578899999999999998643221 11222 24677778888887654
Q ss_pred C
Q 006567 573 K 573 (640)
Q Consensus 573 ~ 573 (640)
.
T Consensus 84 ~ 84 (199)
T cd08451 84 H 84 (199)
T ss_pred C
Confidence 3
No 411
>TIGR01256 modA molybdenum ABC transporter, periplasmic molybdate-binding protein. The model describes the molybdate ABC transporter periplasmic binding protein in bacteria and archae. Several of the periplasmic receptors constitute a diverse class of binding proteins that differ widely in size, sequence and ligand specificity. It has been shown experimentally by radioactive labeling that ModA represent hydrophylioc periplasmic-binding protein in gram-negative organisms and its counterpart in gram-positive organisms is a lipoprotein. The other components of the system include the ModB, an integral membrane protein and ModC the ATP-binding subunit. Invariably almost all of them display a common beta/alpha folding motif and have similar tertiary structures consisting of two globular domains.
Probab=40.18 E-value=45 Score=31.13 Aligned_cols=69 Identities=19% Similarity=0.200 Sum_probs=41.6
Q ss_pred HHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcC-cccEEEeeeeeeccc---cceEEeCcc--ccccceEEE
Q 006567 495 IDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTG-VFDAVVGDITIVTNR---TKIVDFSQP--YAASGLVVV 568 (640)
Q Consensus 495 ~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~D~~~~~~~~t~~R---~~~vdfs~p--~~~~~~~il 568 (640)
-++++.+.++.|+++++.. +.-..++..+..| ++|+.+++=....++ ...++-..+ +....+.++
T Consensus 9 ~~~~~~f~~~~gi~V~~~~---------~gs~~l~~~l~~~~~aDv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~~l~ 79 (216)
T TIGR01256 9 KEIAKQFEKRTGNKVVFSF---------GSSGTLYTQIENGAPADLFISADNKWPKKLVDKGLVVAGSRFTYAGNKLVLI 79 (216)
T ss_pred HHHHHHHHHhhCCeEEEEe---------CChHHHHHHHHcCCCCcEEEECCHHHHHHHHHCCCCCCCchheEEccEEEEE
Confidence 3567778888898854443 4466778888776 499998753222222 122322223 556677777
Q ss_pred EecC
Q 006567 569 VPFR 572 (640)
Q Consensus 569 ~~~~ 572 (640)
+++.
T Consensus 80 ~~~~ 83 (216)
T TIGR01256 80 SPKN 83 (216)
T ss_pred EECC
Confidence 7665
No 412
>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=39.56 E-value=2.5e+02 Score=24.21 Aligned_cols=118 Identities=18% Similarity=0.109 Sum_probs=61.8
Q ss_pred EEEEEeec-CCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc-CcEEEEcCCChHHHH
Q 006567 33 NVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTVAH 110 (640)
Q Consensus 33 ~IG~l~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~~~~ 110 (640)
+|+.+.+. ..........+++.|+++. |.+.....................++++ ++.|||...+ ..+.
T Consensus 11 ~i~~i~~~~~~~~~~~r~~gf~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~pdaii~~~~-~~a~ 81 (160)
T PF13377_consen 11 RIAFIGGPPNSSVSRERLEGFREALKEH--------GIEFEELIFFSDDDSEDAREAQLLWLRRLRPDAIICSND-RLAL 81 (160)
T ss_dssp SEEEEESSTTSHHHHHHHHHHHHHHHHT--------TSEEEGEEEEESSSHHHHHHHHHHHHHTCSSSEEEESSH-HHHH
T ss_pred eEEEEecCCCChhHHHHHHHHHHHHHHC--------CCCCCeeEeecCCcchhHHHHHHHHHhcCCCcEEEEcCH-HHHH
Confidence 45666633 3344456678888888774 3444433333333333332222223333 6788887444 4444
Q ss_pred HHHHhhccCC------ceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHHh
Q 006567 111 IVSYVSNELQ------VPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY 161 (640)
Q Consensus 111 ~v~~~~~~~~------iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~~ 161 (640)
.+...+...+ +.++++.... ..+...|.+-.+..+...+++..+++|..
T Consensus 82 ~~~~~l~~~g~~vP~di~vv~~~~~~--~~~~~~p~it~i~~~~~~~g~~a~~~l~~ 136 (160)
T PF13377_consen 82 GVLRALRELGIRVPQDISVVSFDDSP--LLEFFSPPITTIDQDPREMGREAVELLLD 136 (160)
T ss_dssp HHHHHHHHTTSCTTTTSEEEEESSSG--HHHCSSSTSEEEEE-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCcccccccEEEecCcH--HHHHHcCCCceecCCHHHHHHHHHHHHHH
Confidence 4555555443 4567654321 11223355566666778888888886543
No 413
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=39.55 E-value=1.3e+02 Score=28.92 Aligned_cols=76 Identities=8% Similarity=0.131 Sum_probs=48.9
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
++++.. ++.|.......+.+.+++.|+++...... .+.......++.+...++|.|++....... ..++.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYDVVLSESG-----RRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALR 75 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecCC-----CchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHh
Confidence 455553 46777888889999999999887654321 123345567777888889988876432222 3466666
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.+.
T Consensus 76 ~~~i 79 (270)
T cd06296 76 RTGI 79 (270)
T ss_pred cCCC
Confidence 6553
No 414
>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=39.48 E-value=1.4e+02 Score=26.49 Aligned_cols=70 Identities=16% Similarity=0.120 Sum_probs=42.9
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. ++++++.. .+.+.++.+|.+|++|+++...... ....+ -+.++....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~ 81 (195)
T cd08431 13 QPLYPLIAEFYQLNK-ATRIRLSE-------EVLGGTWDALASGRADLVIGATGEL--PPGGV-KTRPLGEVEFVFAVAP 81 (195)
T ss_pred HHHHHHHHHHHHHCC-CCceEEEE-------eccchHHHHHhCCCCCEEEEecCCC--CCCce-EEEecccceEEEEEcC
Confidence 456788888888864 23355554 4467889999999999998532111 11112 1355555566666554
Q ss_pred C
Q 006567 572 R 572 (640)
Q Consensus 572 ~ 572 (640)
.
T Consensus 82 ~ 82 (195)
T cd08431 82 N 82 (195)
T ss_pred C
Confidence 3
No 415
>PRK10481 hypothetical protein; Provisional
Probab=39.38 E-value=2.1e+02 Score=27.00 Aligned_cols=68 Identities=18% Similarity=0.064 Sum_probs=43.6
Q ss_pred CCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhH
Q 006567 163 GWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLG 236 (640)
Q Consensus 163 ~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~ 236 (640)
+-++++++....+. .+...+.+.+.|..+.....-+.. .+........+++++.++|+|++.|-+-..
T Consensus 128 ~g~riGVitP~~~q----i~~~~~kw~~~G~~v~~~~aspy~--~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~ 195 (224)
T PRK10481 128 GGHQVGVIVPVEEQ----LAQQAQKWQVLQKPPVFALASPYH--GSEEELIDAGKELLDQGADVIVLDCLGYHQ 195 (224)
T ss_pred CCCeEEEEEeCHHH----HHHHHHHHHhcCCceeEeecCCCC--CCHHHHHHHHHHhhcCCCCEEEEeCCCcCH
Confidence 44899999865543 233333333447776644332222 335577888888989999999999876554
No 416
>cd08462 PBP2_NodD The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold. The nodulation (nod) genes in soil bacteria play important roles in the development of nodules. nod genes are involved in synthesis of Nod factors that are required for bacterial entry into root hairs. Thirteen nod genes have been identified and are classified into five transcription units: nodD, nodABCIJ, nodFEL, nodMNT, and nodO. NodD is negatively auto-regulates its own expression of nodD gene, while other nod genes are inducible and positively regulated by NodD in the presence of flavonoids released by plant roots. This substrate-binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. T
Probab=39.34 E-value=92 Score=28.00 Aligned_cols=69 Identities=17% Similarity=0.214 Sum_probs=43.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-..++..+.++.. ++++++.. .+. .++..|.+|++|+++..-... ...+. ..|+....+.+++++
T Consensus 13 ~~l~~~i~~~~~~~P-~i~l~i~~-------~~~-~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 79 (200)
T cd08462 13 VLLPPVIERVAREAP-GVRFELLP-------PDD-QPHELLERGEVDLLIAPERFM---SDGHP-SEPLFEEEFVCVVWA 79 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CCh-hHHHHHhcCCeeEEEecCCCC---CCCce-eeeeeccceEEEEcC
Confidence 344567777777764 33366654 345 899999999999998632211 12222 346777777777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 80 ~h 81 (200)
T cd08462 80 DN 81 (200)
T ss_pred CC
Confidence 44
No 417
>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=39.30 E-value=3.4e+02 Score=26.14 Aligned_cols=119 Identities=12% Similarity=0.030 Sum_probs=61.3
Q ss_pred EEEEEeec-CCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc--CcEEEEcCCChHHH
Q 006567 33 NVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET--DIVAIIGPQCSTVA 109 (640)
Q Consensus 33 ~IG~l~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~--~v~aiiGp~~s~~~ 109 (640)
+||.+... +.........|++-|+++.+ + +..........+...+.+.+.+++.+ ++.||+...+ ..+
T Consensus 120 ~I~~i~~~~~~~~~~~R~~gf~~a~~~~g----~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d-~~A 190 (269)
T cd06287 120 QIALIVGSARRNSYLEAEAAYRAFAAEHG----M----PPVVLRVDEAGGEEAGYAACAQLLAQHPDLDALCVPVD-AFA 190 (269)
T ss_pred cEEEEeCCcccccHHHHHHHHHHHHHHcC----C----CcceeEecCCCChHHHHHHHHHHHhCCCCCCEEEEcCc-HHH
Confidence 56766533 22223445678888877632 1 11111112233344556666677654 5789997544 344
Q ss_pred HHHHHhhccCC--ceE-Eeccc-CCCCCCCCCCCcEEEecCCchHHHHHHHHHHH
Q 006567 110 HIVSYVSNELQ--VPL-LSFGV-TDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVS 160 (640)
Q Consensus 110 ~~v~~~~~~~~--iP~-is~~~-~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~ 160 (640)
..+...+.+.+ +|- |+..+ .+........|.+..+..+...+++..++++.
T Consensus 191 ~gvl~al~~~gl~vP~dvsvig~~d~~~~~~~~p~ltti~~~~~~~g~~A~~~l~ 245 (269)
T cd06287 191 VGAVRAATELGRAVPDQLRVVTRYDGLRARTSEPPLTAVDLHLDEVAEQAVDLLF 245 (269)
T ss_pred HHHHHHHHHcCCCCCCceEEEeccCchhhccCCCCcccccCCHHHHHHHHHHHHH
Confidence 44444444444 451 32222 22223332335556666777888887777653
No 418
>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=39.30 E-value=2.2e+02 Score=25.22 Aligned_cols=64 Identities=11% Similarity=0.100 Sum_probs=42.6
Q ss_pred CcEEEEEEEcCCCCc---ccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhc-CCceEEEEec
Q 006567 164 WNAVSVIFVDNEYGR---NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHV 231 (640)
Q Consensus 164 w~~v~ii~~~~~~g~---~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vivl~~ 231 (640)
.-++++|...|+-+. .....+...+++.|.++.....++.+ ...+...+++..+ .++|+|+..+
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~Dd----~~~i~~~l~~~~~~~~~DlVIttG 71 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKDD----IYQIRAQVSAWIADPDVQVILITG 71 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCCC----HHHHHHHHHHHHhcCCCCEEEECC
Confidence 357777765443221 23446777788889888776666643 6777888877753 5689888864
No 419
>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=39.16 E-value=51 Score=28.18 Aligned_cols=56 Identities=16% Similarity=0.274 Sum_probs=37.7
Q ss_pred HHHHHhHhc--CcEEEEcCCCh--HHHHHHHHhhccCCceEEecccCCCCCCCCCCCcEEE
Q 006567 87 VEALRFMET--DIVAIIGPQCS--TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVR 143 (640)
Q Consensus 87 ~~a~~l~~~--~v~aiiGp~~s--~~~~~v~~~~~~~~iP~is~~~~~~~l~~~~~~~~~r 143 (640)
+++.+++.+ ++.+++|.... .....+..+++..++|+++....-..+. ..+|.+.-
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~kg~i~-~~hp~~~G 61 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMGKGVIP-EDHPLFLG 61 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGGTTSST-TTSTTEEE
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCccccccC-CCCchhcc
Confidence 345555554 89999997766 7788899999999999997433332333 34466554
No 420
>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=39.07 E-value=1.7e+02 Score=29.67 Aligned_cols=83 Identities=7% Similarity=-0.071 Sum_probs=54.0
Q ss_pred HHHHHHHHh-cCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 153 TAVAEMVSY-YGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 153 ~al~~ll~~-~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
+.+.++++. .+.+++.++++...+ ....+.+.+.+++.| .+... +.++ .+.+.....++.+++.++|+||-.+
T Consensus 13 ~~l~~~l~~~~~~~~~liv~d~~~~-~~~~~~v~~~l~~~~-~~~~~--~~~~--~~~~~v~~~~~~~~~~~~d~iIaiG 86 (339)
T cd08173 13 EKIPNVLRDLLLGGRVLVVTGPTTK-SIAGKKVEALLEDEG-EVDVV--IVED--ATYEEVEKVESSARDIGADFVIGVG 86 (339)
T ss_pred HHHHHHHHHhCCCCeEEEEECCchH-HHHHHHHHHHHHhcC-CeEEE--EeCC--CCHHHHHHHHHHhhhcCCCEEEEeC
Confidence 345666763 567899888744332 345667888888777 44322 2233 4577788888888888999888664
Q ss_pred --ChhhHHHHHH
Q 006567 232 --SPSLGFQVFS 241 (640)
Q Consensus 232 --~~~~~~~il~ 241 (640)
+.-|+..++.
T Consensus 87 GGs~~D~aK~~a 98 (339)
T cd08173 87 GGRVIDVAKVAA 98 (339)
T ss_pred CchHHHHHHHHH
Confidence 4455555554
No 421
>PLN02460 indole-3-glycerol-phosphate synthase
Probab=38.94 E-value=1.1e+02 Score=30.70 Aligned_cols=87 Identities=17% Similarity=0.159 Sum_probs=60.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhh-cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe-
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH- 230 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~- 230 (640)
..++......|-.-+.++. |..|.....+.+++.-+. -.+.|--.. +-.. .-++.+.+..++|+|+|.
T Consensus 142 ~~iA~~Ye~~GA~aISVLT-d~~~F~Gs~e~L~~vr~~~v~lPvLrKD-FIID--------~yQI~eAr~~GADAVLLIa 211 (338)
T PLN02460 142 VEIAQAYEKGGAACLSVLT-DEKYFQGSFENLEAIRNAGVKCPLLCKE-FIVD--------AWQIYYARSKGADAILLIA 211 (338)
T ss_pred HHHHHHHHhCCCcEEEEec-CcCcCCCCHHHHHHHHHcCCCCCEeecc-ccCC--------HHHHHHHHHcCCCcHHHHH
Confidence 5667777788888888887 555777778877665443 334333222 2111 236677788999999986
Q ss_pred --cChhhHHHHHHHHHHcCCc
Q 006567 231 --VSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 231 --~~~~~~~~il~~a~~~gl~ 249 (640)
.+..++..+++.|+++||.
T Consensus 212 aiL~~~~L~~l~~~A~~LGme 232 (338)
T PLN02460 212 AVLPDLDIKYMLKICKSLGMA 232 (338)
T ss_pred HhCCHHHHHHHHHHHHHcCCe
Confidence 4556899999999999996
No 422
>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=38.59 E-value=3e+02 Score=24.79 Aligned_cols=92 Identities=16% Similarity=0.223 Sum_probs=43.2
Q ss_pred CcEEEEcCCChHHHHHHHHhhccC--CceE-EecccCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEE
Q 006567 96 DIVAIIGPQCSTVAHIVSYVSNEL--QVPL-LSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIF 171 (640)
Q Consensus 96 ~v~aiiGp~~s~~~~~v~~~~~~~--~iP~-is~~~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~ 171 (640)
++.+++||.+++-......++... +... ++.+...|.-.+ +.-.|.|-. . +.+-+.++.-..=...- |
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 578999999988666666565543 2322 333233333322 223444432 1 22233332211111111 3
Q ss_pred EcCCCCcccHHHHHHHHhhcCeEEE
Q 006567 172 VDNEYGRNGVSALNDKLAERRCRIS 196 (640)
Q Consensus 172 ~~~~~g~~~~~~~~~~~~~~g~~v~ 196 (640)
.+..||. ....+++.+++...++.
T Consensus 75 ~g~~YGt-~~~~i~~~~~~gk~~il 98 (183)
T PF00625_consen 75 DGNYYGT-SKSAIDKVLEEGKHCIL 98 (183)
T ss_dssp TTEEEEE-EHHHHHHHHHTTTEEEE
T ss_pred cchhhhh-ccchhhHhhhcCCcEEE
Confidence 3445663 46777777776655544
No 423
>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=38.56 E-value=1.2e+02 Score=30.02 Aligned_cols=72 Identities=11% Similarity=0.012 Sum_probs=48.6
Q ss_pred cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhhHHHHHHHHHHcCCc
Q 006567 173 DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 173 ~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~~~~il~~a~~~gl~ 249 (640)
+.++.....+.+++.+++.|+.+..... . .+...-...++.+...++|.|++... .......++.+++.|++
T Consensus 9 ~~~~~~~~~~~i~~~a~~~g~~v~~~~~---~--~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~iP 81 (302)
T TIGR02634 9 RLERWQKDRDIFVAAAESLGAKVFVQSA---N--GNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGIK 81 (302)
T ss_pred chhhHHHHHHHHHHHHHhcCCEEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCCe
Confidence 4567777788888899999988765321 1 22344556788888888998888753 33345677777776643
No 424
>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=38.55 E-value=1.5e+02 Score=26.39 Aligned_cols=70 Identities=14% Similarity=0.151 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. ++++++.. +....+...|.+|++|+++.. .......+. +.++....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~---~~~~~~~~~-~~~l~~~~~~lv~~~ 80 (197)
T cd08452 13 EFLPPIVREYRKKFP-SVKVELRE-------LSSPDQVEELLKGRIDIGFLH---PPIQHTALH-IETVQSSPCVLALPK 80 (197)
T ss_pred hHHHHHHHHHHHHCC-CcEEEEEe-------cChHHHHHHHHCCCccEEEee---CCCCCCCee-EEEeeeccEEEEEeC
Confidence 344677888877764 33466654 568889999999999999853 222223333 356777777777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~h 82 (197)
T cd08452 81 QH 82 (197)
T ss_pred CC
Confidence 44
No 425
>cd08429 PBP2_NhaR The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold. NhaR is a positive regulator of the LysR family and is known to be an activator of the nhaA gene encoding a Na(+)/H(+) antiporter. In Escherichia coli, NhaA is the vital antiporter that protects against high sodium stress, and it is essential for growth in high sodium levels, while NhaB becomes essential only if NhaA is not available. The nhaA gene of nhaAR operon is induced by monovalent cations. The nhaR of the operon activates nhaAR, as well as the osmC transcription which is induced at elevated osmolarity. OsmC is transcribed from the two overlapping promoters (osmCp1 and osmP2) and that NhaR is shown to activate only the expression of osmCp1. NhaR also activates the transcription of the pgaABCD operon which is required for production of the biofilm adhesion, poly-beta-1,6-N-acetyl-d-glucosamine
Probab=38.53 E-value=1.3e+02 Score=27.39 Aligned_cols=72 Identities=13% Similarity=0.169 Sum_probs=45.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.+++. .+++++.. +++..++..|.+|++|+++.......+-...+ ...|+....+.++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~ 83 (204)
T cd08429 13 SIAYRLLEPAMDLHE-PIRLVCRE-------GKLEQLLADLALHRLDMVLADRPMPSSLDVKG-YSHRLGECGVSFFAAP 83 (204)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEecCCCccccchhe-eeccccccceEEEecC
Confidence 455677788777764 33466655 67999999999999999985332111100111 1357777777666544
Q ss_pred C
Q 006567 572 R 572 (640)
Q Consensus 572 ~ 572 (640)
+
T Consensus 84 ~ 84 (204)
T cd08429 84 P 84 (204)
T ss_pred C
Confidence 3
No 426
>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=38.52 E-value=1.7e+02 Score=25.34 Aligned_cols=47 Identities=19% Similarity=0.185 Sum_probs=34.0
Q ss_pred cHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 180 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
....+.+.+++.|.++.....++.+ ..++...++++.+ ++|+||..+
T Consensus 28 n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~l~~~~~-~~DliIttG 74 (144)
T TIGR00177 28 NGPLLAALLEEAGFNVSRLGIVPDD----PEEIREILRKAVD-EADVVLTTG 74 (144)
T ss_pred cHHHHHHHHHHCCCeEEEEeecCCC----HHHHHHHHHHHHh-CCCEEEECC
Confidence 3457788888899988876656543 6677777777654 689998874
No 427
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=38.48 E-value=1.6e+02 Score=29.23 Aligned_cols=70 Identities=20% Similarity=0.172 Sum_probs=45.1
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEecC
Q 006567 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (640)
Q Consensus 493 ~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~~ 572 (640)
+-..++..+.++.. .+++.+.. +.++.++..|.+|++|+++...... ....+.+ .|+....+.+++++.
T Consensus 107 ~l~~~i~~f~~~~P-~i~l~~~~-------~~~~~~~~~L~~~~~D~~i~~~~~~--~~~~l~~-~~l~~~~~~~v~~~~ 175 (309)
T PRK12683 107 ALPKVVRQFKEVFP-KVHLALRQ-------GSPQEIAEMLLNGEADIGIATEALD--REPDLVS-FPYYSWHHVVVVPKG 175 (309)
T ss_pred HHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEecCCCC--CCCCceE-EEcccCeEEEEecCC
Confidence 44567777777663 33356555 5699999999999999997532111 1222333 467777777777755
Q ss_pred C
Q 006567 573 K 573 (640)
Q Consensus 573 ~ 573 (640)
.
T Consensus 176 h 176 (309)
T PRK12683 176 H 176 (309)
T ss_pred C
Confidence 4
No 428
>cd08436 PBP2_LTTR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=38.43 E-value=1.4e+02 Score=26.39 Aligned_cols=71 Identities=17% Similarity=0.145 Sum_probs=46.5
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. ++++++.. ++...++..+.+|++|+++..... +..+.+. ..+.....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~~ 81 (194)
T cd08436 13 VDLPELLARFHRRHP-GVDIRLRQ-------AGSDDLLAAVREGRLDLAFVGLPE--RRPPGLA-SRELAREPLVAVVAP 81 (194)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCHHHHHHHHHcCCccEEEEecCC--CCCCCcE-EEEeecceEEEEecC
Confidence 455677788877764 33356554 457889999999999999864322 1223232 366777777777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 82 ~~ 83 (194)
T cd08436 82 DH 83 (194)
T ss_pred CC
Confidence 54
No 429
>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=38.38 E-value=2.1e+02 Score=25.60 Aligned_cols=71 Identities=18% Similarity=0.147 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. ++++++.. ++...++..+.+|++|+++..-. ......+. +.++....+.+++++
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 456678888877764 33355554 55778999999999999985321 11222333 467777788777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 82 ~h 83 (198)
T cd08443 82 DH 83 (198)
T ss_pred CC
Confidence 54
No 430
>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=38.34 E-value=1.5e+02 Score=25.36 Aligned_cols=101 Identities=12% Similarity=0.008 Sum_probs=47.2
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccC---CCCCCChhHH-HHHHHHHhcCCceEE
Q 006567 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIP---PESGVNTGYV-MDLLVKVALMESRVI 227 (640)
Q Consensus 152 ~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~---~~~~~~~~~~-~~~l~~l~~~~~~vi 227 (640)
...+.+.+...+--....+|.+ +.......+.+.+...|+.+....... .....-+..+ .+.+........+.+
T Consensus 22 ~~~l~~~i~~~~~~~~~~~y~~--~~~~~~~~~~~~L~~~g~~v~~~~~~~~~~~~k~~~D~~l~~d~~~~~~~~~~d~i 99 (146)
T PF01936_consen 22 FERLLEEIRKYGPLVRIRAYGN--WDDPNQKSFQEALQRAGIKVRHFPLRKRGGGGKKGVDVALAVDILELAYENPPDTI 99 (146)
T ss_dssp HHHHHHHHTTTEEEEEEEEEE------HHHHHHHHHHHHHT-EEEE------S---S---HHHHHHHHHHHG--GG-SEE
T ss_pred HHHHHHHHHhcCCeEEEEEEee--ccccchhhHHHHHHhCeeeEEeeecccccccccCCcHHHHHHHHHHHhhccCCCEE
Confidence 4566666665443223334544 222235777888888898765443211 1100112222 233333333345888
Q ss_pred EEecChhhHHHHHHHHHHcCCccCCeEEEEe
Q 006567 228 VLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (640)
Q Consensus 228 vl~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 258 (640)
+|.+...+....++.+++.|. .+++..
T Consensus 100 vLvSgD~Df~~~v~~l~~~g~----~V~v~~ 126 (146)
T PF01936_consen 100 VLVSGDSDFAPLVRKLRERGK----RVIVVG 126 (146)
T ss_dssp EEE---GGGHHHHHHHHHH------EEEEEE
T ss_pred EEEECcHHHHHHHHHHHHcCC----EEEEEE
Confidence 888777888899999998763 356665
No 431
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=38.10 E-value=24 Score=30.08 Aligned_cols=24 Identities=4% Similarity=0.192 Sum_probs=13.2
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhcc
Q 006567 587 PLMWTVTACFFVVVGIVVWILEHR 610 (640)
Q Consensus 587 ~~vw~~i~~~~~~~~~~~~~~~~~ 610 (640)
|-+|++|+++++++.++++++.||
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~rR 25 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHNRR 25 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHHH
Confidence 445666665555555555555443
No 432
>cd08414 PBP2_LTTR_aromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold. This CD includes the C-terminal substrate binding domain of LTTRs involved in degradation of aromatic compounds, such as CbnR, BenM, CatM, ClcR and TfdR, as well as that of other transcriptional regulators clustered together in phylogenetic trees, including XapR, HcaR, MprR, IlvR, BudR, AlsR, LysR, and OccR. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they ca
Probab=37.92 E-value=1.3e+02 Score=26.54 Aligned_cols=70 Identities=16% Similarity=0.198 Sum_probs=46.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. ++++++.. +....++..+.+|++|+++..... ..+.+. ..++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08414 13 GLLPRLLRRFRARYP-DVELELRE-------MTTAEQLEALRAGRLDVGFVRPPP---DPPGLA-SRPLLREPLVVALPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHcCCccEEEEcCCC---CCCCee-EEEEeeccEEEEecC
Confidence 345667777777753 33455554 457889999999999999864322 222222 367777888888765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (197)
T cd08414 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 433
>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=37.87 E-value=1.5e+02 Score=26.37 Aligned_cols=73 Identities=15% Similarity=0.143 Sum_probs=45.8
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. .+++++.. +....+...|.+|++|+++..-.........++ +.+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~~-~~~l~~~~~~~v~~~ 83 (200)
T cd08453 13 SVLPELVRRFREAYP-DVELQLRE-------ATSDVQLEALLAGEIDAGIVIPPPGASAPPALA-YRPLLSEPLVLAVPA 83 (200)
T ss_pred HHHHHHHHHHHHhCC-CceEEEEe-------CCHHHHHHHHHcCCCCEEEEecCcccCCCccee-EEEeeeCceEEEEEC
Confidence 455677888877763 33355554 457789999999999999753221110112222 466777777777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 84 ~h 85 (200)
T cd08453 84 AW 85 (200)
T ss_pred CC
Confidence 54
No 434
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=37.86 E-value=2e+02 Score=28.75 Aligned_cols=79 Identities=8% Similarity=0.035 Sum_probs=50.4
Q ss_pred CcEEEEEEEc--CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHH
Q 006567 164 WNAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFS 241 (640)
Q Consensus 164 w~~v~ii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~ 241 (640)
-+.|+++..+ +.|.....+.+.+.+++.|+.+..... . .+.......+..+...+.|.||+..... ....++
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~~~~~~~~~vdgiI~~~~~~-~~~~~~ 136 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDAHGYQTMLAHY-G----YKPEMEQERLESMLSWNIDGLILTERTH-TPRTLK 136 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHHCCCEEEEecC-C----CCHHHHHHHHHHHHhcCCCEEEEcCCCC-CHHHHH
Confidence 3578887753 456667788899999999988764321 1 1233334566777788899999864221 234566
Q ss_pred HHHHcCC
Q 006567 242 VAKYLGM 248 (640)
Q Consensus 242 ~a~~~gl 248 (640)
.+.+.|+
T Consensus 137 ~l~~~~i 143 (331)
T PRK14987 137 MIEVAGI 143 (331)
T ss_pred HHHhCCC
Confidence 6666654
No 435
>cd08461 PBP2_DntR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=37.64 E-value=98 Score=27.58 Aligned_cols=70 Identities=14% Similarity=0.095 Sum_probs=45.9
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.+++. ++++++.. ++...++..+.+|++|+++..... ....+. +.++....+.++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~~~---~~~~~~-~~~l~~~~~~lv~~~ 80 (198)
T cd08461 13 AILPPLLAALRQEAP-GVRVAIRD-------LESDNLEAQLERGEVDLALTTPEY---APDGLR-SRPLFEERYVCVTRR 80 (198)
T ss_pred HHhHHHHHHHHHHCC-CcEEEEee-------CCcccHHHHHhcCCCcEEEecCcc---CCccce-eeeeecCcEEEEEcC
Confidence 455678888887764 33355544 446678999999999999753221 122222 567777888888766
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (198)
T cd08461 81 GH 82 (198)
T ss_pred CC
Confidence 54
No 436
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=37.39 E-value=1.4e+02 Score=29.70 Aligned_cols=71 Identities=15% Similarity=0.296 Sum_probs=47.7
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEecC
Q 006567 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (640)
Q Consensus 493 ~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~~ 572 (640)
+-.+++..+.+... ++++.+.. .....++..|.+|++|+++......... +.+ -..|+....+.+++++.
T Consensus 111 ~l~~~l~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~-~~l-~~~~l~~~~~~lv~~~~ 180 (312)
T PRK10341 111 FMSDMINKFKEVFP-KAQVSMYE-------AQLSSFLPAIRDGRLDFAIGTLSNEMKL-QDL-HVEPLFESEFVLVASKS 180 (312)
T ss_pred hHHHHHHHHHHhCC-CCEEEEEe-------CCHHHHHHHHHcCCCcEEEecCCccccc-CCe-eEEEEecccEEEEEcCC
Confidence 44577788877654 44466665 5588999999999999998543221111 222 24788888888888665
Q ss_pred C
Q 006567 573 K 573 (640)
Q Consensus 573 ~ 573 (640)
.
T Consensus 181 ~ 181 (312)
T PRK10341 181 R 181 (312)
T ss_pred C
Confidence 4
No 437
>cd08456 PBP2_LysR The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold. LysR, the transcriptional activator of lysA encoding diaminopimelate decarboxylase, catalyses the decarboxylation of diaminopimelate to produce lysine. The LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational
Probab=37.35 E-value=1.1e+02 Score=27.08 Aligned_cols=69 Identities=12% Similarity=0.050 Sum_probs=45.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. ++++++.. +....++.++.+|++|+++..-.. ....+. +.+.....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~~~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08456 13 SFLPRAIKAFLQRHP-DVTISIHT-------RDSPTVEQWLSAQQCDLGLVSTLH---EPPGIE-RERLLRIDGVCVLPP 80 (196)
T ss_pred hhHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEecCC---CCCCee-EEEeeccCeEEEecC
Confidence 456678888888774 33466655 557788999999999999853221 122222 456667777777655
Q ss_pred C
Q 006567 572 R 572 (640)
Q Consensus 572 ~ 572 (640)
.
T Consensus 81 ~ 81 (196)
T cd08456 81 G 81 (196)
T ss_pred C
Confidence 4
No 438
>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=37.27 E-value=1.6e+02 Score=28.13 Aligned_cols=76 Identities=9% Similarity=0.046 Sum_probs=48.0
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. ++.|.......+++.+++.|..+...... .+.......++.+...+++.|++........ .++.+.
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~-~~~~~~ 75 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARERGYQLLIACSD-----DDPETERETVETLIARQVDALIVAGSLPPDD-PYYLCQ 75 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHHCCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCCCchH-HHHHHH
Confidence 455553 35566667778888888899887654321 1234455678888888999888875432222 255666
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.|.
T Consensus 76 ~~~i 79 (264)
T cd06274 76 KAGL 79 (264)
T ss_pred hcCC
Confidence 6554
No 439
>cd08419 PBP2_CbbR_RubisCO_like The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold. CbbR, a LysR-type transcriptional regulator, is required to activate expression of RubisCO, one of two unique enzymes in the Calvin-Benson-Bassham (CBB) cycle pathway. All plants, cyanobacteria, and many autotrophic bacteria use the CBB cycle to fix carbon dioxide. Thus, this cycle plays an essential role in assimilating CO2 into organic carbon on earth. The key CBB cycle enzyme is ribulose 1,5-bisphosphate carboxylase/oxygenase (RubisCO), which catalyzes the actual CO2 fixation reaction. The CO2 concentration affects the expression of RubisCO genes. It has also shown that NADPH enhances the DNA-binding ability of the CbbR. RubisCO is composed of eight large (CbbL) and eight small subunits (CbbS). The topology of this substrate-binding domain is most similar to t
Probab=37.25 E-value=1.3e+02 Score=26.63 Aligned_cols=70 Identities=16% Similarity=0.179 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. ++++++.. +....++..+.+|++|+++...... ...+ -+.+.....+.++++.
T Consensus 12 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~~~~~ 79 (197)
T cd08419 12 YFAPRLLGAFCRRHP-GVEVSLRV-------GNREQVLERLADNEDDLAIMGRPPE---DLDL-VAEPFLDNPLVVIAPP 79 (197)
T ss_pred hHhhHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHhcCCccEEEecCCCC---CCCe-EEEEeccCCEEEEecC
Confidence 355677888887763 33366654 5578899999999999998532221 1112 2467778888888765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 80 ~~ 81 (197)
T cd08419 80 DH 81 (197)
T ss_pred CC
Confidence 54
No 440
>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=37.22 E-value=77 Score=29.88 Aligned_cols=92 Identities=17% Similarity=0.097 Sum_probs=56.7
Q ss_pred cCCchHHHHHHHHHHHh-cCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC
Q 006567 145 TQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME 223 (640)
Q Consensus 145 ~p~~~~~~~al~~ll~~-~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 223 (640)
.|.....++.+++.+.. ..-+++.++..+. ....+.+.+++.|..|.....|... ...........+....
T Consensus 97 ~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~-----~~~~l~~~L~~~g~~v~~~~vY~~~---~~~~~~~~~~~l~~~~ 168 (231)
T PF02602_consen 97 VPSSEGSSEGLAELLKEQLRGKRVLILRGEG-----GRPDLPEKLREAGIEVTEVIVYETP---PEELSPELKEALDRGE 168 (231)
T ss_dssp E-TTSSSHHHHHGGHHHCCTTEEEEEEESSS-----SCHHHHHHHHHTTEEEEEEECEEEE---EHHHHHHHHHHHHHTT
T ss_pred cCCCCCCHHHHHHHHHhhCCCCeEEEEcCCC-----ccHHHHHHHHHCCCeEEEEEEeecc---cccchHHHHHHHHcCC
Confidence 44434446888887774 4447887776443 3666888899999888766555431 1233344455555556
Q ss_pred ceEEEEecChhhHHHHHHHHHH
Q 006567 224 SRVIVLHVSPSLGFQVFSVAKY 245 (640)
Q Consensus 224 ~~vivl~~~~~~~~~il~~a~~ 245 (640)
.++ |++.++..+..+++...+
T Consensus 169 ~~~-v~ftS~~~~~~~~~~~~~ 189 (231)
T PF02602_consen 169 IDA-VVFTSPSAVRAFLELLKK 189 (231)
T ss_dssp TSE-EEESSHHHHHHHHHHSSG
T ss_pred CCE-EEECCHHHHHHHHHHhHh
Confidence 665 455567777777776654
No 441
>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=37.17 E-value=2.2e+02 Score=26.68 Aligned_cols=88 Identities=14% Similarity=0.001 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHhc--CCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEE
Q 006567 150 YQMTAVAEMVSYY--GWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVI 227 (640)
Q Consensus 150 ~~~~al~~ll~~~--~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 227 (640)
.-++.+++++... .-+++.++..+. ....+.+.+.+.|..+.....|........ ......+.....+ +
T Consensus 106 ~~~~~L~~~i~~~~~~~~~il~~~g~~-----~~~~l~~~L~~~g~~v~~~~~Y~~~~~~~~---~~~~~~l~~~~~~-~ 176 (239)
T cd06578 106 GDSEGLLELLELQDGKGKRILRPRGGR-----AREDLAEALRERGAEVDEVEVYRTVPPDLD---AELLELLEEGAID-A 176 (239)
T ss_pred cCHHHHHHHHHhcCCCCCEEEEEcCcc-----hhHHHHHHHHHCCCEEEEEEEEEEECCCCc---HHHHHHHHcCCCc-E
Confidence 3467888887765 444554443222 356778888888887765554443211111 2233344444334 6
Q ss_pred EEecChhhHHHHHHHHHHc
Q 006567 228 VLHVSPSLGFQVFSVAKYL 246 (640)
Q Consensus 228 vl~~~~~~~~~il~~a~~~ 246 (640)
|++.++..+..+++...+.
T Consensus 177 iiftS~~~v~~f~~~~~~~ 195 (239)
T cd06578 177 VLFTSPSTVRNLLELLGKE 195 (239)
T ss_pred EEEeCHHHHHHHHHHHhhh
Confidence 7777888888888887754
No 442
>PRK05569 flavodoxin; Provisional
Probab=37.12 E-value=2.6e+02 Score=23.76 Aligned_cols=85 Identities=9% Similarity=0.036 Sum_probs=0.0
Q ss_pred cEEEEEE-EcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh--------hh
Q 006567 165 NAVSVIF-VDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--------SL 235 (640)
Q Consensus 165 ~~v~ii~-~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~--------~~ 235 (640)
+++.|+| +........++.+.+.+++.|..+.....-... ..++.. .|.|++.++. .+
T Consensus 2 ~ki~iiY~S~tGnT~~iA~~i~~~~~~~g~~v~~~~~~~~~----~~~~~~---------~d~iilgsPty~~~~~~~~~ 68 (141)
T PRK05569 2 KKVSIIYWSCGGNVEVLANTIADGAKEAGAEVTIKHVADAK----VEDVLE---------ADAVAFGSPSMDNNNIEQEE 68 (141)
T ss_pred CeEEEEEECCCCHHHHHHHHHHHHHHhCCCeEEEEECCcCC----HHHHhh---------CCEEEEECCCcCCCcCChHH
Q ss_pred HHHHHHHHHHcCCccCCeEEEEeCccc
Q 006567 236 GFQVFSVAKYLGMMGNGYVWIATDWLA 262 (640)
Q Consensus 236 ~~~il~~a~~~gl~~~~~~~i~~~~~~ 262 (640)
...+++......+.+.....+.+.+|.
T Consensus 69 ~~~~~~~l~~~~~~~K~v~~f~t~g~~ 95 (141)
T PRK05569 69 MAPFLDQFKLTPNENKKCILFGSYGWD 95 (141)
T ss_pred HHHHHHHhhccCcCCCEEEEEeCCCCC
No 443
>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=37.11 E-value=61 Score=24.17 Aligned_cols=42 Identities=7% Similarity=-0.082 Sum_probs=28.4
Q ss_pred CCCcEEEEEEc--cCCCChHHHHHHHHHhHhc-CcEEEEcCCChH
Q 006567 66 LHGTKLNITMQ--SSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (640)
Q Consensus 66 l~g~~i~~~~~--D~~~~~~~a~~~a~~l~~~-~v~aiiGp~~s~ 107 (640)
+||++|.+.-. -...|+..|.+...+..++ |..||+|-.-..
T Consensus 9 i~G~ei~yl~iv~~~~~d~d~Al~eM~e~A~~lGAnAVVGvr~d~ 53 (74)
T TIGR03884 9 IPGLQLYYLGIVSTESDNVDEIVENLREKVKAKGGMGLIAFRITC 53 (74)
T ss_pred CCCeEEEEEEEEEEecCCHHHHHHHHHHHHHHcCCCEEEEEEEEc
Confidence 47888854321 2233888888887777665 999999955443
No 444
>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=37.09 E-value=2.2e+02 Score=24.90 Aligned_cols=62 Identities=18% Similarity=0.171 Sum_probs=39.7
Q ss_pred EEEEEEEcCC--CCc---ccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhc-CCceEEEEec
Q 006567 166 AVSVIFVDNE--YGR---NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHV 231 (640)
Q Consensus 166 ~v~ii~~~~~--~g~---~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vivl~~ 231 (640)
++++|...++ .|+ .....+.+.+++.|.++.....++.+ ..++.+.+++..+ +++|+||..+
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~l~~~~~~~~~DlVittG 69 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVPDD----KDEIREALIEWADEDGVDLILTTG 69 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcCCC----HHHHHHHHHHHHhcCCCCEEEECC
Confidence 4667654442 111 23446778888999887776666543 6667777776654 3689888864
No 445
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=36.93 E-value=1.3e+02 Score=29.84 Aligned_cols=70 Identities=10% Similarity=0.140 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-..++..+.+... .+++.+.. .+-+.+++.|.+|++|+++...... ... + .+.++....+.+++++
T Consensus 104 ~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~-l-~~~~l~~~~~~~~~~~ 171 (305)
T PRK11151 104 YLLPHIIPMLHQTFP-KLEMYLHE-------AQTHQLLAQLDSGKLDCAILALVKE--SEA-F-IEVPLFDEPMLLAVYE 171 (305)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEecCCC--CCC-e-EEEEeccCcEEEEecC
Confidence 445567777776553 34466655 4578999999999999998643222 122 2 3588888999998876
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 172 ~h 173 (305)
T PRK11151 172 DH 173 (305)
T ss_pred CC
Confidence 54
No 446
>cd08169 DHQ-like Dehydroquinate synthase-like which includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. Dehydroquinate synthase-like. This group contains dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. They exhibit the dehydroquinate synthase structural fold. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes ne
Probab=36.90 E-value=2.7e+02 Score=28.38 Aligned_cols=101 Identities=11% Similarity=0.009 Sum_probs=58.0
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhh-cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCC---ceEEE
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALME---SRVIV 228 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~---~~viv 228 (640)
+.+.++++.++-+++.++.+.... ....+.+.+.++. .++.+..-...... .+.+.+...+..+++.+ .+.||
T Consensus 12 ~~l~~~~~~~~~~k~livtd~~v~-~~~~~~v~~~L~~~~~~~~~~~~~~e~~--k~~~~v~~~~~~~~~~~~~r~d~II 88 (344)
T cd08169 12 ESVESYTTRDLFDQYFFISDSGVA-DLIAHYIAEYLSKILPVHILVIEGGEEY--KTFETVTRILERAIALGANRRTAIV 88 (344)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhhcCceEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCCCcEEE
Confidence 445567777777888888754332 2456677777766 55544322122222 34666777777777544 78888
Q ss_pred Eec--ChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 229 LHV--SPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 229 l~~--~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
-.+ ..-|+..++......| ..++-|-|.
T Consensus 89 aiGGGsv~D~ak~vA~~~~rg---ip~i~VPTT 118 (344)
T cd08169 89 AVGGGATGDVAGFVASTLFRG---IAFIRVPTT 118 (344)
T ss_pred EECCcHHHHHHHHHHHHhccC---CcEEEecCC
Confidence 664 4455555555444334 345555543
No 447
>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=36.69 E-value=1.4e+02 Score=28.52 Aligned_cols=76 Identities=11% Similarity=0.015 Sum_probs=49.0
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. ++.|.......+.+.+++.|..+..... . .+.....+.++.+...++|.|++....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~---~--~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYSTFVANT---G--DNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELT 75 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHH
Confidence 566665 3567677778888999999887653221 1 223455667788888899988887533222 3466776
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.+.
T Consensus 76 ~~~i 79 (265)
T cd06285 76 RRGV 79 (265)
T ss_pred HcCC
Confidence 6554
No 448
>cd08441 PBP2_MetR The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold. MetR, a member of the LysR family, is a positive regulator for the metA, metE, metF, and metH genes. The sulfur-containing amino acid methionine is the universal initiator of protein synthesis in all known organisms and its derivative S-adenosylmethionine (SAM) and autoinducer-2 (AI-2) are involved in various cellular processes. SAM plays a central role as methyl donor in methylation reactions, which are essential for the biosynthesis of phospholipids, proteins, DNA and RNA. The interspecies signaling molecule AI-2 is involved in cell-cell communication process (quorum sensing) and gene regulation in bacteria. Although methionine biosynthetic enzymes and metabolic pathways are well conserved in bacteria, the regulation of methionine biosynthesis involves various regulatory mecha
Probab=36.65 E-value=1.4e+02 Score=26.55 Aligned_cols=69 Identities=14% Similarity=0.160 Sum_probs=44.3
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEecC
Q 006567 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (640)
Q Consensus 493 ~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~~ 572 (640)
+-..++..+.++.. ++++++.. +....+...|.+|++|+++..-.. ....+. ..+++...+.++++..
T Consensus 14 ~~~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~ 81 (198)
T cd08441 14 WLMPVLDQFRERWP-DVELDLSS-------GFHFDPLPALLRGELDLVITSDPL---PLPGIA-YEPLFDYEVVLVVAPD 81 (198)
T ss_pred hhHHHHHHHHHhCC-CeEEEEEe-------CCchhHHHHHHcCCceEEEecCCc---CCCCcE-EEEccCCcEEEEEcCC
Confidence 44577788887764 23355554 557889999999999999853221 112222 3566777777777654
Q ss_pred C
Q 006567 573 K 573 (640)
Q Consensus 573 ~ 573 (640)
.
T Consensus 82 ~ 82 (198)
T cd08441 82 H 82 (198)
T ss_pred C
Confidence 3
No 449
>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=36.65 E-value=1.2e+02 Score=32.04 Aligned_cols=25 Identities=24% Similarity=0.387 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHhccCCCCCCcEEEEEEc
Q 006567 49 KIAIEEAVKDVNSNSSILHGTKLNITMQ 76 (640)
Q Consensus 49 ~~a~~~Av~~iN~~~~~l~g~~i~~~~~ 76 (640)
...++-.++++|+.. +|++|++...
T Consensus 47 ~~~~~~~~~~F~~~~---~~i~V~~~~~ 71 (437)
T TIGR03850 47 TKMWEEVVEAFEKSH---EGVKVELTVS 71 (437)
T ss_pred HHHHHHHHHHHHHHC---CCceEEEEeC
Confidence 456677888898875 5788888754
No 450
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=36.57 E-value=1.8e+02 Score=29.05 Aligned_cols=84 Identities=15% Similarity=0.208 Sum_probs=54.5
Q ss_pred CeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeee
Q 006567 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (640)
Q Consensus 465 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~ 544 (640)
++|+|++... -...+-.+++..+.++.. .+++++.. ++...++..|.+|++|+++...
T Consensus 93 g~lrIg~~~~--------------~~~~~l~~~l~~f~~~~P-~i~l~l~~-------~~~~~~~~~L~~g~~Dl~i~~~ 150 (316)
T PRK12679 93 GVLTIATTHT--------------QARYSLPEVIKAFRELFP-EVRLELIQ-------GTPQEIATLLQNGEADIGIASE 150 (316)
T ss_pred ceEEEEechH--------------hhhcchHHHHHHHHHHCC-CeEEEEec-------CCHHHHHHHHHcCCCCEEEecc
Confidence 5789988521 122456678888887764 33355544 4577899999999999997532
Q ss_pred eeeccccceEEeCccccccceEEEEecCC
Q 006567 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 545 ~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
.. ... ..+. +.++....+.+++++..
T Consensus 151 ~~-~~~-~~l~-~~~l~~~~~~~v~~~~h 176 (316)
T PRK12679 151 RL-SND-PQLV-AFPWFRWHHSLLVPHDH 176 (316)
T ss_pred cC-CCC-CCce-EEEccCCcEEEEecCCC
Confidence 21 112 2233 36788888888887655
No 451
>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=36.21 E-value=1.4e+02 Score=28.74 Aligned_cols=77 Identities=4% Similarity=0.018 Sum_probs=46.8
Q ss_pred EEEEEEc--CCCCcccHHHHHHHHhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-hhHHHHHHH
Q 006567 167 VSVIFVD--NEYGRNGVSALNDKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSV 242 (640)
Q Consensus 167 v~ii~~~--~~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-~~~~~il~~ 242 (640)
|+++..+ +.|.......+.+.+++. |+.+..... . .+...-...++.+...++|.|++.... ......++.
T Consensus 2 ig~~~~~~~~~~~~~~~~~i~~~~~~~~g~~~~~~~~-~----~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~ 76 (270)
T cd06308 2 IGFSQCNLADPWRAAMNDEIQREASNYPDVELIIADA-A----DDNSKQVADIENFIRQGVDLLIISPNEAAPLTPVVEE 76 (270)
T ss_pred EEEEeeCCCCHHHHHHHHHHHHHHHhcCCcEEEEEcC-C----CCHHHHHHHHHHHHHhCCCEEEEecCchhhchHHHHH
Confidence 5555543 345566777888888875 777764322 1 123344566777777789988887433 323455666
Q ss_pred HHHcCC
Q 006567 243 AKYLGM 248 (640)
Q Consensus 243 a~~~gl 248 (640)
+.+.|+
T Consensus 77 ~~~~~i 82 (270)
T cd06308 77 AYRAGI 82 (270)
T ss_pred HHHCCC
Confidence 666654
No 452
>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=36.20 E-value=93 Score=30.05 Aligned_cols=72 Identities=13% Similarity=0.142 Sum_probs=49.0
Q ss_pred cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh-hhHHHHHHHHHHcCCc
Q 006567 173 DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVAKYLGMM 249 (640)
Q Consensus 173 ~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~-~~~~~il~~a~~~gl~ 249 (640)
++.|.....+.+.+.+++.|+++..... . .+.......++.+...++|.||+.... ......++++.+.+.+
T Consensus 10 ~~~~~~~~~~~~~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~iP 82 (273)
T cd06309 10 ESPWRTAETKSIKDAAEKRGFDLKFADA---Q--QKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGIP 82 (273)
T ss_pred CCHHHHHHHHHHHHHHHhcCCEEEEeCC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCCC
Confidence 4566677888999999999988875421 1 124455577888888889988886433 3234567777776643
No 453
>cd08418 PBP2_TdcA The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold. TdcA, a member of the LysR family, activates the expression of the anaerobically-regulated tdcABCDEFG operon which is involved in the degradation of L-serine and L-threonine to acetate and propionate, respectively. The tdc operon is comprised of one regulatory gene tdcA and six structural genes, tdcB to tdcG. The expression of the tdc operon is affected by several transcription factors including the cAMP receptor protein (CRP), integration host factor (IHF), histone-like protein (HU), and the operon specific regulators TdcA and TcdR. TcdR is divergently transcribed from the operon and encodes a small protein that is required for efficient expression of the Escherichia coli tdc operon. This substrate-binding domain shows significant homology to the type 2 periplasmic binding
Probab=36.01 E-value=1.7e+02 Score=25.92 Aligned_cols=72 Identities=19% Similarity=0.214 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-..++..+.++.. ++++++.. .+...++..|.+|++|++++..... .+...+. +.+.....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~ 82 (201)
T cd08418 13 TLMPAVINRFKEQFP-DVQISIYE-------GQLSSLLPELRDGRLDFAIGTLPDE-MYLKELI-SEPLFESDFVVVARK 82 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CcHHHHHHHHHcCCCcEEEEecCCC-CCCccee-EEeecCCceEEEeCC
Confidence 455677788877764 44466654 5578999999999999998643211 1122232 366777788888765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 83 ~~ 84 (201)
T cd08418 83 DH 84 (201)
T ss_pred CC
Confidence 54
No 454
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=35.98 E-value=64 Score=29.21 Aligned_cols=29 Identities=21% Similarity=0.442 Sum_probs=23.9
Q ss_pred EEEEcCCChHHHHHHHHhhccCCceEEec
Q 006567 98 VAIIGPQCSTVAHIVSYVSNELQVPLLSF 126 (640)
Q Consensus 98 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 126 (640)
.+|+||.+++=+.....+++..++|+++.
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlst 31 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDT 31 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcH
Confidence 57999999876666777888899999973
No 455
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=35.94 E-value=2.1e+02 Score=28.07 Aligned_cols=94 Identities=12% Similarity=0.047 Sum_probs=63.1
Q ss_pred CcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHH
Q 006567 139 PFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVK 218 (640)
Q Consensus 139 ~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~ 218 (640)
.++++-... +..++++.++.+.+|.+.+.++-+.+ .++.+.+.++..|-+-+..+. +-.++...+
T Consensus 162 D~vIQNgan-S~VG~~ViQlaka~GiktinvVRdR~-----~ieel~~~Lk~lGA~~ViTee---------el~~~~~~k 226 (354)
T KOG0025|consen 162 DSVIQNGAN-SGVGQAVIQLAKALGIKTINVVRDRP-----NIEELKKQLKSLGATEVITEE---------ELRDRKMKK 226 (354)
T ss_pred CeeeecCcc-cHHHHHHHHHHHHhCcceEEEeecCc-----cHHHHHHHHHHcCCceEecHH---------Hhcchhhhh
Confidence 456665544 44589999999999999999997655 488999999988865443321 111122222
Q ss_pred H--hcCCceEEEEecChhhHHHHHHHHHHcC
Q 006567 219 V--ALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (640)
Q Consensus 219 l--~~~~~~vivl~~~~~~~~~il~~a~~~g 247 (640)
. ...+++.-+-+..+..+..+.+.+.+-|
T Consensus 227 ~~~~~~~prLalNcVGGksa~~iar~L~~Gg 257 (354)
T KOG0025|consen 227 FKGDNPRPRLALNCVGGKSATEIARYLERGG 257 (354)
T ss_pred hhccCCCceEEEeccCchhHHHHHHHHhcCc
Confidence 2 2345666666777777888888887654
No 456
>PRK15088 PTS system mannose-specific transporter subunits IIAB; Provisional
Probab=35.94 E-value=2.1e+02 Score=28.79 Aligned_cols=82 Identities=10% Similarity=0.051 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEE
Q 006567 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVL 229 (640)
Q Consensus 150 ~~~~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl 229 (640)
.+++.+..+.++++.+++.++- |..-.....+.+.+.+.-.|+++.... ..+....+++-+..+.+++++
T Consensus 175 IHGQV~~~W~~~~~~~~IiVvd-D~vA~D~~~k~~lk~A~P~gvk~~i~s---------v~~a~~~l~~~~~~~~~vlil 244 (322)
T PRK15088 175 IHGQVATRWTKETNVSRIIVVS-DEVAADTVRKTLLTQVAPPGVTAHVVD---------VAKMIRVYNNPKYAGERVMLL 244 (322)
T ss_pred hhHHHHHHHhhccCCCEEEEeC-ccccCCHHHHHHHHhcCCCCCeEEEEE---------HHHHHHHHhCCCCCCCeEEEE
Confidence 4577788899999999998763 333333455555555555677665421 334444555444566789999
Q ss_pred ecChhhHHHHHH
Q 006567 230 HVSPSLGFQVFS 241 (640)
Q Consensus 230 ~~~~~~~~~il~ 241 (640)
+-++.++..+++
T Consensus 245 ~k~p~d~~~l~~ 256 (322)
T PRK15088 245 FTNPTDVERLVE 256 (322)
T ss_pred ECCHHHHHHHHH
Confidence 999999988875
No 457
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=35.93 E-value=3e+02 Score=24.36 Aligned_cols=81 Identities=12% Similarity=0.103 Sum_probs=0.0
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC
Q 006567 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (640)
Q Consensus 153 ~al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~ 232 (640)
..+.+.+...|.+ .++.........+-...+.+-...+....-. +.+.||.+++.++++.+.+|+++...
T Consensus 69 ~~l~~~l~~~Gf~---pv~~kG~~Dv~laIDame~~~~~~iD~~vLv-------SgD~DF~~Lv~~lre~G~~V~v~g~~ 138 (160)
T TIGR00288 69 DKLIEAVVNQGFE---PIIVAGDVDVRMAVEAMELIYNPNIDAVALV-------TRDADFLPVINKAKENGKETIVIGAE 138 (160)
T ss_pred HHHHHHHHHCCce---EEEecCcccHHHHHHHHHHhccCCCCEEEEE-------eccHhHHHHHHHHHHCCCEEEEEeCC
Q ss_pred hhhHHHHHHHH
Q 006567 233 PSLGFQVFSVA 243 (640)
Q Consensus 233 ~~~~~~il~~a 243 (640)
......+.+++
T Consensus 139 ~~ts~~L~~ac 149 (160)
T TIGR00288 139 PGFSTALQNSA 149 (160)
T ss_pred CCChHHHHHhc
No 458
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=35.90 E-value=1.8e+02 Score=28.42 Aligned_cols=85 Identities=15% Similarity=0.132 Sum_probs=53.3
Q ss_pred CeEEEEeecCCCccceEEeecCCcceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeee
Q 006567 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (640)
Q Consensus 465 ~~l~v~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~ 544 (640)
++++|++... -...+..+++..+.++.. ++++.+.. .+-+..+..|.+|++|+++...
T Consensus 97 ~~l~I~~~~~--------------~~~~~l~~~l~~f~~~~p-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 154 (294)
T PRK09986 97 GRIEIGIVGT--------------ALWGRLRPAMRHFLKENP-NVEWLLRE-------LSPSMQMAALERRELDAGIWRM 154 (294)
T ss_pred ceEEEEEehH--------------HhHHHHHHHHHHHHHhCC-CeEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 5688887531 112344567777777765 33355544 4467899999999999997421
Q ss_pred eeeccccceEEeCccccccceEEEEecCC
Q 006567 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (640)
Q Consensus 545 ~~t~~R~~~vdfs~p~~~~~~~il~~~~~ 573 (640)
. .......++ +.|.....+.+++++..
T Consensus 155 ~-~~~~~~~l~-~~~l~~~~~~~v~~~~~ 181 (294)
T PRK09986 155 A-DLEPNPGFT-SRRLHESAFAVAVPEEH 181 (294)
T ss_pred C-ccCCCCCeE-EEEeecccEEEEEcCCC
Confidence 1 012223343 37777888888887655
No 459
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=35.84 E-value=2.5e+02 Score=27.07 Aligned_cols=128 Identities=8% Similarity=-0.013 Sum_probs=65.0
Q ss_pred HHHHhH-hcCcEEEEcCCChHHHHHHHHhhccCCceEEecc-cCCCCCCC-CCCCcEEEecCCchHHHHHHHHHHHhcCC
Q 006567 88 EALRFM-ETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFG-VTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGW 164 (640)
Q Consensus 88 ~a~~l~-~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~-~~~~~l~~-~~~~~~~r~~p~~~~~~~al~~ll~~~~w 164 (640)
.+..|. +.|+.+++=|=++..+.....+-+..++|+|+.. .+...... .....+.=++.+........-+.+..++.
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 334444 5589888876666665667777777899999732 11111111 11112233333444445555566666665
Q ss_pred cEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh
Q 006567 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (640)
Q Consensus 165 ~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~ 233 (640)
+-. +.+.. ...+-... +.|. .... .....+...+..+.+.++|.+|+.|.-
T Consensus 132 ~~~--v~~~~------~~~lv~~I-e~g~-------~~~~--~~~~~l~~~l~~l~~~~~d~lILGCTh 182 (251)
T TIGR00067 132 DLL--VEMLA------CPELVPLA-EAGL-------LGED--YALECLKRYLRPLLDTLPDTVVLGCTH 182 (251)
T ss_pred CCE--EEecC------CHHHHHHH-HcCC-------cCCH--HHHHHHHHHHHHHhcCCCCEEEECcCC
Confidence 422 22211 11111222 2221 0000 113457777777777788999988753
No 460
>cd08444 PBP2_Cbl The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold. Cbl is a member of the LysR transcriptional regulators that comprise the largest family of prokaryotic transcription factor. Cbl shows high sequence similarity to CysB, the LysR-type transcriptional activator of genes involved in sulfate and thiosulfate transport, sulfate reduction, and cysteine synthesis. In Escherichia coli, the function of Cbl is required for expression of sulfate starvation-inducible (ssi) genes, coupled with the biosynthesis of cysteine from the organic sulfur sources (sulfonates). The ssi genes include the ssuEADCB and tauABCD operons encoding uptake systems for organosulfur compounds, aliphatic sulfonates, and taurine. The genes in these operons encode an ABC-type transport system required for uptake of aliphatic sulfonates and a desulfonati
Probab=35.80 E-value=1.5e+02 Score=26.58 Aligned_cols=71 Identities=17% Similarity=0.122 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
++..+++..+.++.. ++++++.. ++...+++.|.+|++|++++.-.. .....+. +.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~~ 81 (198)
T cd08444 13 YALPWVVQAFKEQFP-NVHLVLHQ-------GSPEEIASMLANGQADIGIATEAL--ENHPELV-SFPYYDWHHHIIVPV 81 (198)
T ss_pred hhhhHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEecccc--CCCcCcE-EeeccccceeEEecC
Confidence 556778888888764 33356554 567889999999999999853211 1112232 467777778777765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 82 ~h 83 (198)
T cd08444 82 GH 83 (198)
T ss_pred CC
Confidence 54
No 461
>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=35.74 E-value=3.5e+02 Score=27.60 Aligned_cols=84 Identities=13% Similarity=0.010 Sum_probs=51.4
Q ss_pred HHHHHHHHhcCC--cEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcC---CceEE
Q 006567 153 TAVAEMVSYYGW--NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVI 227 (640)
Q Consensus 153 ~al~~ll~~~~w--~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vi 227 (640)
..+.++++.++. +++.+++ +...- ...+.+.+++.|+.+..-..+.++ .+.++.....+..++. ++|.|
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvt-d~~~~---~~~v~~~L~~~g~~~~~f~~v~~n--Pt~~~v~~~~~~~~~~~~~~~D~I 85 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFV-DDVFQ---GKDLISRLPVESEDMIIWVDATEE--PKTDQIDALTAQVKSFDGKLPCAI 85 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEE-Ccchh---hhHHHHHHHhcCCcEEEEcCCCCC--cCHHHHHHHHHHHHhhCCCCCCEE
Confidence 556667777763 4565555 33221 156677787777765433334444 5577788888888876 89999
Q ss_pred EEec--ChhhHHHHHHH
Q 006567 228 VLHV--SPSLGFQVFSV 242 (640)
Q Consensus 228 vl~~--~~~~~~~il~~ 242 (640)
|-.+ +.-|+...+..
T Consensus 86 IaiGGGS~iD~AKaia~ 102 (347)
T cd08184 86 VGIGGGSTLDVAKAVSN 102 (347)
T ss_pred EEeCCcHHHHHHHHHHH
Confidence 9763 44455555443
No 462
>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=35.71 E-value=1.9e+02 Score=24.60 Aligned_cols=47 Identities=15% Similarity=0.302 Sum_probs=33.1
Q ss_pred cHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 180 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
....+.+.+++.|.++.....++. +...+.+.+++..+. +|+|+..+
T Consensus 20 n~~~l~~~l~~~G~~v~~~~~v~D----d~~~i~~~i~~~~~~-~DlvittG 66 (133)
T cd00758 20 NGPALEALLEDLGCEVIYAGVVPD----DADSIRAALIEASRE-ADLVLTTG 66 (133)
T ss_pred hHHHHHHHHHHCCCEEEEeeecCC----CHHHHHHHHHHHHhc-CCEEEECC
Confidence 355677788889988876555543 366777777777654 88888863
No 463
>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=35.68 E-value=3.4e+02 Score=27.61 Aligned_cols=101 Identities=11% Similarity=0.053 Sum_probs=60.0
Q ss_pred HHHHHHHh-cCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCC-CCCChhHHHHHHHHHhcCCc---eEEE
Q 006567 154 AVAEMVSY-YGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPE-SGVNTGYVMDLLVKVALMES---RVIV 228 (640)
Q Consensus 154 al~~ll~~-~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~~~~~~~~~l~~l~~~~~---~viv 228 (640)
.+.+++.. .+.+++.++++...+ ....+.+.+.+++.|+.+.... ++.. .+.+.+.+...++.+++.++ +.||
T Consensus 13 ~l~~~~~~~~~~~~~livtd~~~~-~~~~~~l~~~L~~~g~~~~~~~-~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~II 90 (345)
T cd08195 13 ELGELLAKLPKGSKILIVTDENVA-PLYLEKLKAALEAAGFEVEVIV-IPAGEASKSLETLEKLYDALLEAGLDRKSLII 90 (345)
T ss_pred HHHHHHHhccCCCeEEEEECCchH-HHHHHHHHHHHHhcCCceEEEE-eCCCCCcCCHHHHHHHHHHHHHcCCCCCCeEE
Confidence 34444443 356888888754333 3566788888888776554322 3321 12456778888888888765 7777
Q ss_pred Ee--cChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 229 LH--VSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 229 l~--~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
-. ++.-|+..++......|. .++-|-|.
T Consensus 91 aiGGGsv~D~ak~vA~~~~rgi---p~i~VPTT 120 (345)
T cd08195 91 ALGGGVVGDLAGFVAATYMRGI---DFIQIPTT 120 (345)
T ss_pred EECChHHHhHHHHHHHHHhcCC---CeEEcchh
Confidence 65 444566666655455443 45555554
No 464
>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=35.66 E-value=69 Score=27.85 Aligned_cols=75 Identities=15% Similarity=0.053 Sum_probs=41.6
Q ss_pred cEEEEEEEc-CCCCcccHHHHHHHHhhc-CeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHH
Q 006567 165 NAVSVIFVD-NEYGRNGVSALNDKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSV 242 (640)
Q Consensus 165 ~~v~ii~~~-~~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~ 242 (640)
++|-|+|+. ++...+....|.+.|++. |++|.....-... .....-..-..+++ ..++.|++.|++......-..
T Consensus 1 ~kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~-i~~~g~~~W~~~~~--~~ad~Vliv~S~~~~~~~~~~ 77 (150)
T PF08357_consen 1 RKVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNE-IARQGPPRWMERQI--READKVLIVCSPGYKERYDKK 77 (150)
T ss_pred CeEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcc-cccCCHHHHHHHHH--hcCCEEEEEeccchhHHHHHh
Confidence 478899974 444446677888889888 9988766532211 01112223333333 346667766665543333333
No 465
>cd08417 PBP2_Nitroaromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of dinitrotoluene and similar compounds, such as DntR, NahR, and LinR. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. Also included are related LysR-type regulators clustered together in phylogenetic trees, including NodD, ToxR, LeuO, SyrM, TdcA, and PnbR. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrate
Probab=35.51 E-value=1e+02 Score=27.40 Aligned_cols=70 Identities=19% Similarity=0.214 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. .+++.+.. .+...+...|.+|++|+++.... .....+ -..++....+.++++.
T Consensus 13 ~~~~~~i~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08417 13 LLLPPLLARLRQEAP-GVRLRFVP-------LDRDDLEEALESGEIDLAIGVFP---ELPPGL-RSQPLFEDRFVCVARK 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CeEEEecc-------CCHHHHHHHHHcCCCCEEEeecc---cCCCcc-chhhhhcCceEEEecC
Confidence 455677788877763 33355543 56788999999999999986432 222222 2467888888888765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (200)
T cd08417 81 DH 82 (200)
T ss_pred CC
Confidence 54
No 466
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=35.12 E-value=2.7e+02 Score=27.04 Aligned_cols=39 Identities=13% Similarity=0.175 Sum_probs=26.9
Q ss_pred HHHhHhcCcEEEEcCCChHHHHHHHHhhccCCceEEecc
Q 006567 89 ALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFG 127 (640)
Q Consensus 89 a~~l~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 127 (640)
+..+.++++.+++=.=++.++.++..+=..+++|+|..-
T Consensus 60 ~~~l~~~~ik~lVIACNTASa~al~~LR~~~~iPVvGvi 98 (269)
T COG0796 60 VDFLLERGIKALVIACNTASAVALEDLREKFDIPVVGVI 98 (269)
T ss_pred HHHHHHcCCCEEEEecchHHHHHHHHHHHhCCCCEEEec
Confidence 334445687777764455666777777788899999754
No 467
>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=35.10 E-value=2.5e+02 Score=22.96 Aligned_cols=46 Identities=13% Similarity=0.075 Sum_probs=24.1
Q ss_pred cccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 178 RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 178 ~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
.-++..+...+++.|.++..... . .......+.+++.++|+|.+.+
T Consensus 14 ~lGl~~la~~l~~~G~~v~~~d~---~-----~~~~~l~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 14 PLGLLYLAAYLRKAGHEVDILDA---N-----VPPEELVEALRAERPDVVGISV 59 (121)
T ss_dssp SHHHHHHHHHHHHTTBEEEEEES---S-----B-HHHHHHHHHHTTCSEEEEEE
T ss_pred hHHHHHHHHHHHHCCCeEEEECC---C-----CCHHHHHHHHhcCCCcEEEEEc
Confidence 33455666666666666553321 1 1114444555556677766654
No 468
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=34.84 E-value=1.6e+02 Score=28.02 Aligned_cols=76 Identities=8% Similarity=0.117 Sum_probs=47.5
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. ++.|.....+.+++.+++.|+.+.... .. .+.......++.+...+.|.|++....... ..++.+.
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~~dgiii~~~~~~~-~~l~~~~ 75 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAHGYQVLVCN---SD--NDPEKEKEYLESLLAYQVDGLIVNPTGNNK-ELYQRLA 75 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEc---CC--CCHHHHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHh
Confidence 445543 455666778888999999998875432 11 123445667778888889988886433222 2356666
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.|.
T Consensus 76 ~~~i 79 (267)
T cd06283 76 KNGK 79 (267)
T ss_pred cCCC
Confidence 6553
No 469
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=34.81 E-value=1.6e+02 Score=28.40 Aligned_cols=77 Identities=13% Similarity=0.039 Sum_probs=49.3
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hh---hHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PS---LGFQVF 240 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~---~~~~il 240 (640)
|+++.. ++.|....++.+.+.+++.|..+...... .+.....+.++.+...++|.+++... .. .....+
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i 76 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQYGYTVLLCNTY-----RGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHY 76 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHCCCEEEEEeCC-----CChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHH
Confidence 455554 45677778889999999999887543211 12345566788888889998888642 22 223446
Q ss_pred HHHHHcCC
Q 006567 241 SVAKYLGM 248 (640)
Q Consensus 241 ~~a~~~gl 248 (640)
+++.+.|.
T Consensus 77 ~~~~~~~i 84 (273)
T cd06292 77 ERLAERGL 84 (273)
T ss_pred HHHHhCCC
Confidence 66666554
No 470
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=34.75 E-value=1.6e+02 Score=29.39 Aligned_cols=82 Identities=10% Similarity=0.078 Sum_probs=51.9
Q ss_pred cEEEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEe-cChhhHHHHHH
Q 006567 165 NAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-VSPSLGFQVFS 241 (640)
Q Consensus 165 ~~v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~-~~~~~~~~il~ 241 (640)
.++++++. +++|.....+.+++..++.|...... ..+.. .+...-...++.+...++|.|++. .++......++
T Consensus 34 ~~i~~~~~~~~~~f~~~~~~g~~~~a~~~g~~~~~~-~~~~~--~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~~~~~v~ 110 (322)
T COG1879 34 KTIGVVVPTLGNPFFQAVRKGAEAAAKKLGVVVAVV-IADAQ--NDVAKQIAQIEDLIAQGVDAIIINPVDPDALTPAVK 110 (322)
T ss_pred ceEEEEeccCCChHHHHHHHHHHHHHHHcCCcEEEE-ecccc--cChHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHH
Confidence 56776664 45676677777888888888511111 11111 122333344555567889988886 67777788999
Q ss_pred HHHHcCCc
Q 006567 242 VAKYLGMM 249 (640)
Q Consensus 242 ~a~~~gl~ 249 (640)
+|.+.|.+
T Consensus 111 ~a~~aGIp 118 (322)
T COG1879 111 KAKAAGIP 118 (322)
T ss_pred HHHHCCCc
Confidence 99998854
No 471
>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=34.51 E-value=3.7e+02 Score=25.49 Aligned_cols=117 Identities=14% Similarity=0.125 Sum_probs=57.5
Q ss_pred EEEEEeecCC--ccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCChHHHHHHHHHhHhc--CcEEEEcCCChHH
Q 006567 33 NVGALFTLDS--TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET--DIVAIIGPQCSTV 108 (640)
Q Consensus 33 ~IG~l~~~~~--~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~--~v~aiiGp~~s~~ 108 (640)
+|+.+..... ........|++.++++.+ + .. .........+...+.+.+.+++.+ .+.+|+...+..
T Consensus 114 ~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~----~--~~--~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~- 184 (265)
T cd06291 114 HIAHIGGPNNTVSPTNLRYEGFLDVLKENG----L--EV--RIIEIQENFDDAEKKEEIKELLEEYPDIDGIFASNDLT- 184 (265)
T ss_pred EEEEEccCcccccchHHHHHHHHHHHHHcC----C--CC--ChheeeccccchHHHHHHHHHHhCCCCCCEEEECChHH-
Confidence 6777765432 334455678888876632 1 11 111111222223355666677655 478888855543
Q ss_pred HHHHHHhhccCC------ceEEecccCCCCCCCCCCCcEEEecCCchHHHHHHHHHHH
Q 006567 109 AHIVSYVSNELQ------VPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVS 160 (640)
Q Consensus 109 ~~~v~~~~~~~~------iP~is~~~~~~~l~~~~~~~~~r~~p~~~~~~~al~~ll~ 160 (640)
+..+...+...+ |.++++.... ......+.+..+..+...++...++.+.
T Consensus 185 a~~~~~al~~~g~~vp~di~v~g~d~~~--~~~~~~~~~~tv~~~~~~~g~~a~~~l~ 240 (265)
T cd06291 185 AILVLKEAQQRGIRVPEDLQIIGYDGTK--LTRLYTPELTTIRQPIEEIAKTAVDLLI 240 (265)
T ss_pred HHHHHHHHHHcCCCCCcceEEeccCChH--HHhhcCCCceeecCCHHHHHHHHHHHHH
Confidence 333444444333 3344432221 1111224445555666777777666543
No 472
>cd08416 PBP2_MdcR The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold. This family includes the C-terminal substrate binding domain of LysR-type transcriptional regulator (LTTR) MdcR that controls the expression of the malonate decarboxylase (mdc) genes. Like other members of the LTTRs, MdcR is a positive regulatory protein for its target promoter and composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins (PBP2). The PBP2 are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these dom
Probab=34.50 E-value=1.6e+02 Score=26.12 Aligned_cols=72 Identities=13% Similarity=0.152 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+..+++..+.++.. .+++++.. +....+...+.+|++|+++..... +.....++ +.+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l~-~~~l~~~~~~~v~~~ 82 (199)
T cd08416 13 NTVPRIIMGLKLRRP-ELDIELTL-------GSNKDLLKKLKDGELDAILVATPE-GLNDPDFE-VVPLFEDDIFLAVPA 82 (199)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEEE-------cCcHHHHHHHhCCCCCEEEEecCC-cCCCCCeE-EEEeecceEEEEECC
Confidence 456677888888774 33355554 457788999999999999864321 00122222 466777777877765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 83 ~h 84 (199)
T cd08416 83 TS 84 (199)
T ss_pred CC
Confidence 43
No 473
>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=34.42 E-value=2.8e+02 Score=23.63 Aligned_cols=68 Identities=9% Similarity=0.033 Sum_probs=45.1
Q ss_pred cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecCh----hhHHHHHHHHHHcCC
Q 006567 173 DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP----SLGFQVFSVAKYLGM 248 (640)
Q Consensus 173 ~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~----~~~~~il~~a~~~gl 248 (640)
..+....+.+-+...++..|.+|....... .....++..++.++++|.+++.. .....++++.++.|.
T Consensus 11 g~D~Hd~g~~iv~~~l~~~GfeVi~lg~~~--------s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~ 82 (132)
T TIGR00640 11 GQDGHDRGAKVIATAYADLGFDVDVGPLFQ--------TPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGR 82 (132)
T ss_pred CCCccHHHHHHHHHHHHhCCcEEEECCCCC--------CHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCC
Confidence 334444456667777888999987654332 23356677778899999998544 345567777777775
No 474
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=34.41 E-value=1.7e+02 Score=31.06 Aligned_cols=140 Identities=11% Similarity=0.086 Sum_probs=83.3
Q ss_pred cEEEEcCCChHHHHHHHHhhccCCceEEecccCCCCCCC--CCCCcEEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC
Q 006567 97 IVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN 174 (640)
Q Consensus 97 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~l~~--~~~~~~~r~~p~~~~~~~al~~ll~~~~w~~v~ii~~~~ 174 (640)
.+.++|...+.....+.+++++.+|-+..+.. +....+ .-....+... .....++++..+-++++-..+.+-+
T Consensus 195 ~vnl~G~~~~~~~~~i~~lL~~lGI~v~~~lp-~~~~~eL~~~~~~~~~c~-~~P~ls~aa~~Le~~~gvp~~~~P~--- 269 (457)
T CHL00073 195 PLVLFGSLPSTVASQLTLELKRQGIKVSGWLP-SQRYTDLPSLGEGVYVCG-VNPFLSRTATTLMRRRKCKLIGAPF--- 269 (457)
T ss_pred cEEEEEecCcccHHHHHHHHHHcCCeEeEEeC-CCCHHHHHhhCcccEEEE-cCcchHHHHHHHHHHhCCceeecCC---
Confidence 47889988888888899999999999886544 433333 1112333322 2222345555555778877766543
Q ss_pred CCCcccHHHHHHHHhh-cCeEEEEeeccCCCCCCChhHHHHHHHHHhc--CCceEEEEecChhhHHHHHHHHHHcCCc
Q 006567 175 EYGRNGVSALNDKLAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (640)
Q Consensus 175 ~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~vivl~~~~~~~~~il~~a~~~gl~ 249 (640)
.+|.+....+...+.+ .|+. .+.+.. ....+.+.+...++ .+-++. +.+++.....+.+.+.++||.
T Consensus 270 PiGi~~Td~fLr~Ia~~~G~~---pe~l~~----Er~rl~dal~d~~~~L~GKrva-i~Gdp~~~i~LarfL~elGme 339 (457)
T CHL00073 270 PIGPDGTRAWIEKICSVFGIE---PQGLEE----REEQIWESLKDYLDLVRGKSVF-FMGDNLLEISLARFLIRCGMI 339 (457)
T ss_pred cCcHHHHHHHHHHHHHHhCcC---HHHHHH----HHHHHHHHHHHHHHHHCCCEEE-EECCCcHHHHHHHHHHHCCCE
Confidence 4777777666555544 3532 112211 12223333333322 355554 888888888999999999985
No 475
>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=34.38 E-value=1.6e+02 Score=28.20 Aligned_cols=76 Identities=13% Similarity=0.040 Sum_probs=47.7
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~ 244 (640)
|+++.. ++.|.....+.+++.+++.|..+..... . .+...-...++.+...++|.|++..... ...+++.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~----~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~~~~~l~ 75 (268)
T cd06298 2 VGVIIPDITNSYFAELARGIDDIATMYKYNIILSNS-D----NDKEKELKVLNNLLAKQVDGIIFMGGKI-SEEHREEFK 75 (268)
T ss_pred EEEEECCCcchHHHHHHHHHHHHHHHcCCeEEEEeC-C----CCHHHHHHHHHHHHHhcCCEEEEeCCCC-cHHHHHHHh
Confidence 455654 3567677788888888888887765432 1 1234456677777778899988864321 124555555
Q ss_pred HcCC
Q 006567 245 YLGM 248 (640)
Q Consensus 245 ~~gl 248 (640)
+.++
T Consensus 76 ~~~i 79 (268)
T cd06298 76 RSPT 79 (268)
T ss_pred cCCC
Confidence 5443
No 476
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=34.11 E-value=56 Score=31.17 Aligned_cols=71 Identities=14% Similarity=0.200 Sum_probs=43.4
Q ss_pred HHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeee---eccccceEEeCcccc-----ccceE
Q 006567 495 IDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI---VTNRTKIVDFSQPYA-----ASGLV 566 (640)
Q Consensus 495 ~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~---t~~R~~~vdfs~p~~-----~~~~~ 566 (640)
-.+.+.|.+.+|.+ +++... .++..++..+.+|++|++..+-.. -.++..+.-+..+.. .....
T Consensus 17 ~~l~~~L~~~~g~~--v~~~~~------~~~~~~~~~l~~g~~D~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~~~~ 88 (243)
T PF12974_consen 17 APLADYLSKQLGVP--VELVPA------DDYAEFIEALRSGEIDLAFMGPLPYVQARQRAGVEPLATPVGPDGSPSYRSV 88 (243)
T ss_dssp HHHHHHHHHHHTSE--EEEE--------SSHHHHHHHHHTTS-SEEE--HHHHHHHHHHSSEEEEEEEEETTT-SCEEEE
T ss_pred HHHHHHHHHHhCCC--EEEEEc------CCHHHHHHHHHcCCccEEEECcHHHHHHhhcCcEEEEEEecccCCCcceeEE
Confidence 45788999999998 555543 569999999999999999764321 111223333333332 34667
Q ss_pred EEEecCC
Q 006567 567 VVVPFRK 573 (640)
Q Consensus 567 il~~~~~ 573 (640)
|++++..
T Consensus 89 ivv~~ds 95 (243)
T PF12974_consen 89 IVVRADS 95 (243)
T ss_dssp EEEETTS
T ss_pred EEEECCC
Confidence 7777776
No 477
>cd08427 PBP2_LTTR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=33.84 E-value=1.8e+02 Score=25.64 Aligned_cols=72 Identities=17% Similarity=0.180 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. ++++++.. ++.+.++..+.+|++|+++..-.. ....+.+ .+.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~~-~~~~l~~~~~~~v~~~ 82 (195)
T cd08427 13 GLLPRALARLRRRHP-DLEVHIVP-------GLSAELLARVDAGELDAAIVVEPP-FPLPKDL-VWTPLVREPLVLIAPA 82 (195)
T ss_pred HHhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCCCEEEEcCCC-CccccCc-eEEEcccCcEEEEECC
Confidence 455677888877764 33366654 568899999999999999863211 1101222 2467777888888876
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 83 ~~ 84 (195)
T cd08427 83 EL 84 (195)
T ss_pred CC
Confidence 54
No 478
>PRK05723 flavodoxin; Provisional
Probab=33.81 E-value=2.2e+02 Score=24.96 Aligned_cols=31 Identities=6% Similarity=-0.067 Sum_probs=21.0
Q ss_pred EEEEEEEc-CCCCcccHHHHHHHHhhcCeEEE
Q 006567 166 AVSVIFVD-NEYGRNGVSALNDKLAERRCRIS 196 (640)
Q Consensus 166 ~v~ii~~~-~~~g~~~~~~~~~~~~~~g~~v~ 196 (640)
++.|+|.. ..-....++.+.+.+.+.|..+.
T Consensus 2 ~i~I~ygS~tG~ae~~A~~la~~l~~~g~~~~ 33 (151)
T PRK05723 2 KVAILSGSVYGTAEEVARHAESLLKAAGFEAW 33 (151)
T ss_pred eEEEEEEcCchHHHHHHHHHHHHHHHCCCcee
Confidence 67888843 33444567788888877777664
No 479
>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=33.76 E-value=2.9e+02 Score=28.03 Aligned_cols=99 Identities=10% Similarity=0.013 Sum_probs=57.3
Q ss_pred HHHHHHHhcCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCC-CCCChhHHHHHHHHHhcCCc---eEEEE
Q 006567 154 AVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPE-SGVNTGYVMDLLVKVALMES---RVIVL 229 (640)
Q Consensus 154 al~~ll~~~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~~~~~~~~~l~~l~~~~~---~vivl 229 (640)
.+.+.++. .+++.++++...+ ....+.+.+.+++.|+.+.... ++.. ...+.+.....+..+++.+. +.||-
T Consensus 12 ~l~~~l~~--~~~~livtd~~~~-~~~~~~v~~~L~~~g~~~~~~~-~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIa 87 (344)
T TIGR01357 12 QLVEELAE--PSKLVIITDETVA-DLYADKLLEALQALGYNVLKLT-VPDGEESKSLETVQRLYDQLLEAGLDRSSTIIA 87 (344)
T ss_pred HHHHHhhc--CCeEEEEECCchH-HHHHHHHHHHHHhcCCceeEEE-eCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 34455555 3888888754433 3356777888888877653221 2221 11345677888888877654 77776
Q ss_pred ec--ChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 230 HV--SPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 230 ~~--~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
.+ +.-|+..++......|+ .++-|-|.
T Consensus 88 vGGGsv~D~aK~iA~~~~~~~---p~i~VPTT 116 (344)
T TIGR01357 88 LGGGVVGDLAGFVAATYMRGI---RFIQVPTT 116 (344)
T ss_pred EcChHHHHHHHHHHHHHccCC---CEEEecCc
Confidence 53 44556666654444443 45555543
No 480
>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=33.72 E-value=2.5e+02 Score=28.05 Aligned_cols=78 Identities=14% Similarity=0.120 Sum_probs=50.9
Q ss_pred cCCcEEEEEEEcCCC--C---cccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecC-hhh
Q 006567 162 YGWNAVSVIFVDNEY--G---RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSL 235 (640)
Q Consensus 162 ~~w~~v~ii~~~~~~--g---~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~-~~~ 235 (640)
|.-.++++|.+.++- | ......+++.+++.|.++.....++.+ ...+...++++.+.++|+||+.+. .-+
T Consensus 157 ~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~Dd----~~~I~~ai~~~~~~g~DlIItTGGtsvg 232 (312)
T cd03522 157 FRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVPHD----EAAIAAAIAEALEAGAELLILTGGASVD 232 (312)
T ss_pred cCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcCCC----HHHHHHHHHHHhcCCCCEEEEeCCcccC
Confidence 345678888765432 2 123456778888899988877666644 777888888887667899888743 333
Q ss_pred HHHHHHHH
Q 006567 236 GFQVFSVA 243 (640)
Q Consensus 236 ~~~il~~a 243 (640)
-.++..+|
T Consensus 233 ~~D~tp~A 240 (312)
T cd03522 233 PDDVTPAA 240 (312)
T ss_pred CcchHHHH
Confidence 33444333
No 481
>PRK01844 hypothetical protein; Provisional
Probab=33.71 E-value=59 Score=24.13 Aligned_cols=23 Identities=9% Similarity=0.290 Sum_probs=13.6
Q ss_pred hhHHHHHHHHHHHHHHHH-Hhhhc
Q 006567 587 PLMWTVTACFFVVVGIVV-WILEH 609 (640)
Q Consensus 587 ~~vw~~i~~~~~~~~~~~-~~~~~ 609 (640)
.++|+.+.+..+++|+++ +++.|
T Consensus 3 ~~~~I~l~I~~li~G~~~Gff~ar 26 (72)
T PRK01844 3 IWLGILVGVVALVAGVALGFFIAR 26 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666666555 45544
No 482
>TIGR01744 XPRTase xanthine phosphoribosyltransferase. This model represent a xanthine-specific phosphoribosyltransferase of Bacillus subtilis and closely related proteins from other species, mostly from other Gram-positive bacteria. The adjacent gene is a xanthine transporter; B. subtilis can import xanthine for the purine salvage pathway or for catabolism to obtain nitrogen.
Probab=33.70 E-value=1e+02 Score=28.25 Aligned_cols=69 Identities=16% Similarity=0.188 Sum_probs=45.3
Q ss_pred HHHHhccCCCCCCcEEEEEEc-cCCCChHHHHHHHHHhHh----cCcEEEEcCCChHHHHHHHHhhccCCceEEe
Q 006567 56 VKDVNSNSSILHGTKLNITMQ-SSNCSGFIGMVEALRFME----TDIVAIIGPQCSTVAHIVSYVSNELQVPLLS 125 (640)
Q Consensus 56 v~~iN~~~~~l~g~~i~~~~~-D~~~~~~~a~~~a~~l~~----~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is 125 (640)
.+.+|+.+-++||--|....+ |...+|......+..+.+ .++.+|+|+.......+ ..++...++|++-
T Consensus 5 ~~~~~~~~~~~~~~~i~~~~~~~~~~~p~~l~~v~~~l~~~~~~~~~d~Vv~~ea~Gi~la-~~lA~~Lg~p~v~ 78 (191)
T TIGR01744 5 KQKIKEEGVVLPGGILKVDSFLNHQIDPKLMQEVGEEFARRFADDGITKIVTIEASGIAPA-IMTGLKLGVPVVF 78 (191)
T ss_pred HHHHhcCCEEcCCCEEEEehhhccccCHHHHHHHHHHHHHHhccCCCCEEEEEccccHHHH-HHHHHHHCCCEEE
Confidence 567888888888877777655 555577554443443333 27899999877765433 3345567899885
No 483
>PRK05331 putative phosphate acyltransferase; Provisional
Probab=33.45 E-value=5.2e+02 Score=26.15 Aligned_cols=139 Identities=12% Similarity=0.100 Sum_probs=68.3
Q ss_pred ChHHHHH--------HHHHhHhc-CcEEEEcCCChHHHHHHH-HhhccC---CceEEecccCCCCCCCCC---CCcEEEe
Q 006567 81 SGFIGMV--------EALRFMET-DIVAIIGPQCSTVAHIVS-YVSNEL---QVPLLSFGVTDPTLSSLQ---YPFFVRT 144 (640)
Q Consensus 81 ~~~~a~~--------~a~~l~~~-~v~aiiGp~~s~~~~~v~-~~~~~~---~iP~is~~~~~~~l~~~~---~~~~~r~ 144 (640)
+|..+++ .+..++.+ .+++++...++......+ .+.... ..|-+. +.-|...+.. -..-...
T Consensus 71 ~p~~alR~kk~ssm~~A~~lV~~G~AD~~vSgg~Tga~l~~a~~ilg~~~Gi~r~a~~--~~~p~~~~~~~~l~D~gan~ 148 (334)
T PRK05331 71 KPSQALRRKKDSSMRVALELVKEGEADACVSAGNTGALMAAALFVLGRLPGIDRPALA--AILPTVKGGGTVLLDLGANV 148 (334)
T ss_pred cHHHHHHhcCCChHHHHHHHHhCCCCCEEEeCCcHHHHHHHHHHHcccCCCCCceEEE--EEeeecCCCeEEEEeCeEcC
Confidence 3567776 47777765 788999544444333322 332221 233221 1112101100 0122455
Q ss_pred cCCchHHHHHHH---HHHHh-cCC--cEEEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHH
Q 006567 145 TQSDSYQMTAVA---EMVSY-YGW--NAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLL 216 (640)
Q Consensus 145 ~p~~~~~~~al~---~ll~~-~~w--~~v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l 216 (640)
.|+.+++++-.. .+.++ +|. .+|+++.- ...-|......-.+.+++.+..+.+.-.+...
T Consensus 149 ~p~~e~L~~~A~~~a~~a~~~~Gi~~PrVAlLn~Gse~~kg~~~~~eA~~Ll~~~~~~l~f~G~ie~~------------ 216 (334)
T PRK05331 149 DCKPEHLVQFAVMGSVYAEAVLGIENPRVGLLNIGEEEIKGNELVKEAYELLKAADSSINFIGNVEGR------------ 216 (334)
T ss_pred CCCHHHHHHHHHHHHHHHHHHcCCCCCeEEEEeCCCCCCCCCHHHHHHHHHHHccCCCceEEeeccCC------------
Confidence 677777666544 45665 687 69999963 22233333334444454422223333333322
Q ss_pred HHHhcCCceEEEEecChh
Q 006567 217 VKVALMESRVIVLHVSPS 234 (640)
Q Consensus 217 ~~l~~~~~~vivl~~~~~ 234 (640)
.+..-.+||||..+...
T Consensus 217 -dl~~g~~DVvV~DGftG 233 (334)
T PRK05331 217 -DILKGTADVVVCDGFVG 233 (334)
T ss_pred -CcCCCCCCEEEECCchh
Confidence 23345689999876544
No 484
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=33.45 E-value=2.3e+02 Score=28.89 Aligned_cols=96 Identities=9% Similarity=0.024 Sum_probs=59.3
Q ss_pred HHHHHHHHhcCC-cEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEec
Q 006567 153 TAVAEMVSYYGW-NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (640)
Q Consensus 153 ~al~~ll~~~~w-~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~ 231 (640)
..+.++++.++. +++.+|.+...+. ...+.+.+.+++.+ .+... +.++ .+...+...+..+++.++++||-.+
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~~-~~~~~l~~~l~~~~-~~~~~--~~~~--~t~~~v~~~~~~~~~~~~d~IIaiG 95 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTKK-IAGDRVEENLEDAG-DVEVV--IVDE--ATMEEVEKVEEKAKDVNAGFLIGVG 95 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHHH-HHHHHHHHHHHhcC-CeeEE--eCCC--CCHHHHHHHHHHhhccCCCEEEEeC
Confidence 456667777775 7888887544332 24567777787776 44322 3333 4567788888999888899888663
Q ss_pred --ChhhHHHHHHHHHHcCCccCCeEEEEeC
Q 006567 232 --SPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (640)
Q Consensus 232 --~~~~~~~il~~a~~~gl~~~~~~~i~~~ 259 (640)
+.-|+..++. ...| -.++-|-|.
T Consensus 96 GGsv~D~ak~vA--~~rg---ip~I~IPTT 120 (350)
T PRK00843 96 GGKVIDVAKLAA--YRLG---IPFISVPTA 120 (350)
T ss_pred CchHHHHHHHHH--HhcC---CCEEEeCCC
Confidence 4455555554 2233 345555544
No 485
>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=33.40 E-value=1.9e+02 Score=27.82 Aligned_cols=77 Identities=12% Similarity=0.119 Sum_probs=48.8
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhh----HHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL----GFQVF 240 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~----~~~il 240 (640)
|+++.. ++.|.....+.+.+.+++.|+.+..... . .+...-...++.+...++|.|++...... ....+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEKGYSLLLAST-N----NDPERERKCLENMLSQGIDGLIIEPTKSALPNPNIDLY 76 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHcCCEEEEEeC-C----CCHHHHHHHHHHHHHcCCCEEEEeccccccccccHHHH
Confidence 455553 4556667788888899999988765321 1 12333456777888889999988643221 22456
Q ss_pred HHHHHcCC
Q 006567 241 SVAKYLGM 248 (640)
Q Consensus 241 ~~a~~~gl 248 (640)
+++.+.+.
T Consensus 77 ~~~~~~~i 84 (273)
T cd01541 77 LKLEKLGI 84 (273)
T ss_pred HHHHHCCC
Confidence 66766554
No 486
>cd08435 PBP2_GbpR The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold. Galactose-binding protein regulator (GbpR), a member of the LysR family of bacterial transcriptional regulators, regulates the expression of chromosomal virulence gene chvE. The chvE gene is involved in the uptake of specific sugars, in chemotaxis to these sugars, and in the VirA-VirG two-component signal transduction system. In the presence of an inducing sugar such as L-arabinose, D-fucose, or D-galactose, GbpR activates chvE expression, while in the absence of an inducing sugar, GbpR represses expression. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a ma
Probab=33.37 E-value=2.2e+02 Score=25.20 Aligned_cols=72 Identities=17% Similarity=0.228 Sum_probs=46.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. ++++++.. ++...++.++.+|++|+++.... ...+.+.+. ..++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~~-~~~l~~~~~~~~~~~ 82 (201)
T cd08435 13 VLLPPAIARLLARHP-RLTVRVVE-------GTSDELLEGLRAGELDLAIGRLA-DDEQPPDLA-SEELADEPLVVVARP 82 (201)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCccEEEEecC-cccCCCCcE-EEEcccCcEEEEEeC
Confidence 345577777777754 44466554 45788999999999999975322 111123332 367778888888876
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 83 ~~ 84 (201)
T cd08435 83 GH 84 (201)
T ss_pred CC
Confidence 54
No 487
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=33.36 E-value=2.4e+02 Score=27.00 Aligned_cols=92 Identities=18% Similarity=0.109 Sum_probs=59.9
Q ss_pred hHHHHHHHHHHHhcC--CcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceE
Q 006567 149 SYQMTAVAEMVSYYG--WNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV 226 (640)
Q Consensus 149 ~~~~~al~~ll~~~~--w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 226 (640)
...+..+++.+..+. -+++.++.++. ....+.+.+.+.|+.+.....|... ....+.......++..+.|+
T Consensus 106 ~~~~~~l~~~l~~~~~~~~~vl~~~~~~-----~r~~l~~~L~~~G~~v~~~~~Y~~~--~~~~~~~~~~~~~~~~~~d~ 178 (248)
T COG1587 106 DGDSEGLLEELPELLKGGKRVLILRGNG-----GREVLEEKLEERGAEVREVEVYRTE--PPPLDEATLIELLKLGEVDA 178 (248)
T ss_pred ccchHHHHHHhhhhccCCCeEEEEcCCC-----chHHHHHHHHhCCCEEEEEeeeeec--CCCccHHHHHHHHHhCCCCE
Confidence 444677777776654 36887776443 3478889999999998776666544 22222334445556666665
Q ss_pred EEEecChhhHHHHHHHHHHcCC
Q 006567 227 IVLHVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 227 ivl~~~~~~~~~il~~a~~~gl 248 (640)
|+ +.++..++.++..+...+.
T Consensus 179 v~-ftS~~~v~~~~~~~~~~~~ 199 (248)
T COG1587 179 VV-FTSSSAVRALLALAPESGI 199 (248)
T ss_pred EE-EeCHHHHHHHHHHccccch
Confidence 55 4567788889988877553
No 488
>cd08426 PBP2_LTTR_like_5 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=33.16 E-value=1.6e+02 Score=26.11 Aligned_cols=70 Identities=11% Similarity=0.088 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+-.+++..+.++.. .+++++.. .+...++..+.+|++|+++...... ...+. +.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (199)
T cd08426 13 ELLPSLIARFRQRYP-GVFFTVDV-------ASTADVLEAVLSGEADIGLAFSPPP---EPGIR-VHSRQPAPIGAVVPP 80 (199)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEe-------CCcHHHHHHHHCCCccEEEecCCCC---CCCeE-EEeeccCcEEEEecC
Confidence 445677788877754 33355554 4578899999999999998533221 12232 477888888888865
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~h 82 (199)
T cd08426 81 GH 82 (199)
T ss_pred CC
Confidence 54
No 489
>PF13362 Toprim_3: Toprim domain
Probab=32.87 E-value=1.3e+02 Score=23.77 Aligned_cols=51 Identities=16% Similarity=0.130 Sum_probs=36.6
Q ss_pred CCcEEEEEEEcCCC--CcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHH
Q 006567 163 GWNAVSVIFVDNEY--GRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVK 218 (640)
Q Consensus 163 ~w~~v~ii~~~~~~--g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~ 218 (640)
.+++|.|+.++|.. |+..+..+.+.+...|..+..... ++ ...|+.+.+++
T Consensus 40 ~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~p-~~----~g~D~ND~l~~ 92 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVEP-GP----EGKDWNDLLQA 92 (96)
T ss_pred CCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEECC-CC----CCchHHHHHHh
Confidence 56788777777777 888888888888888887765433 12 24577777654
No 490
>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=32.86 E-value=1.7e+02 Score=27.95 Aligned_cols=68 Identities=10% Similarity=0.039 Sum_probs=38.4
Q ss_pred CCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHH-HhcCCceEEEEecChhhHHHHHHHHHHcCC
Q 006567 174 NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVK-VALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (640)
Q Consensus 174 ~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~-l~~~~~~vivl~~~~~~~~~il~~a~~~gl 248 (640)
+.|.....+.+.+.+++.|+.+...... . ..+-...+.+ +...++|.||+.+..... ..++.+.+.+.
T Consensus 15 ~~~~~~~~~~i~~~~~~~g~~~~~~~~~--~----~~~~~~~~~~~~~~~~vdgiii~~~~~~~-~~~~~~~~~~i 83 (268)
T cd06271 15 DPFFAEFLSGLSEALAEHGYDLVLLPVD--P----DEDPLEVYRRLVESGLVDGVIISRTRPDD-PRVALLLERGF 83 (268)
T ss_pred CccHHHHHHHHHHHHHHCCceEEEecCC--C----cHHHHHHHHHHHHcCCCCEEEEecCCCCC-hHHHHHHhcCC
Confidence 5677777888888888888887654321 1 1222233334 345578888886432221 23455555543
No 491
>cd08437 PBP2_MleR The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold. MleR, a transcription activator of malolactic fermentation system, is found in gram-positive bacteria and belongs to the lysR family of bacterial transcriptional regulators. The mleR gene is required for the expression and induction of malolactic fermentation. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase dom
Probab=32.83 E-value=1.9e+02 Score=25.69 Aligned_cols=72 Identities=7% Similarity=0.068 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+...++..+.++.. ++++++.. .....++..|.+|++|+++.... .......++ ..+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~-~~~~~~~l~-~~~l~~~~~~~~~~~ 82 (198)
T cd08437 13 YYFPKLAKDLIKTGL-MIQIDTYE-------GGSAELLEQLLQGDLDIALLGSL-TPLENSALH-SKIIKTQHFMIIVSK 82 (198)
T ss_pred HHhHHHHHHHHHhCC-ceEEEEEE-------cCHHHHHHHHHcCCCCEEEecCC-CCCCcccce-EEEeecceEEEEecC
Confidence 345677888888765 44466655 55889999999999999985321 111223333 467777888888766
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 83 ~h 84 (198)
T cd08437 83 DH 84 (198)
T ss_pred CC
Confidence 54
No 492
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=32.80 E-value=3.1e+02 Score=24.18 Aligned_cols=82 Identities=13% Similarity=0.253 Sum_probs=52.1
Q ss_pred chHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCC--ChHHHHHHHHHhHhcCcEEEEcCC-ChHHHHHHHHhhccCCc
Q 006567 45 GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC--SGFIGMVEALRFMETDIVAIIGPQ-CSTVAHIVSYVSNELQV 121 (640)
Q Consensus 45 g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~--~~~~a~~~a~~l~~~~v~aiiGp~-~s~~~~~v~~~~~~~~i 121 (640)
|.+..+.+.-|+.+..+.+ + .|-+|.+...---+ +-.+|++++.+|-.-++.++-|.. ....+.++..+-.+.+|
T Consensus 92 GAqVsqVA~GAIsEADRHN-i-RGERISvDTiPlVGEE~laEAVkAV~rLpRv~iLVLAGslMGGkIteaVk~lr~~hgI 169 (218)
T COG1707 92 GAQVSQVARGAISEADRHN-I-RGERISVDTIPLVGEEELAEAVKAVARLPRVGILVLAGSLMGGKITEAVKELREEHGI 169 (218)
T ss_pred chhHHHHHHhhcchhhhcc-c-ccceeeeecccccChHHHHHHHHHHhccccceeEEEecccccchHHHHHHHHHHhcCC
Confidence 3455555556666654432 2 46666654433222 445666666666555788888865 44678889999999999
Q ss_pred eEEeccc
Q 006567 122 PLLSFGV 128 (640)
Q Consensus 122 P~is~~~ 128 (640)
|+||..-
T Consensus 170 ~VISL~M 176 (218)
T COG1707 170 PVISLNM 176 (218)
T ss_pred eEEEecc
Confidence 9998643
No 493
>cd08460 PBP2_DntR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=32.78 E-value=1.2e+02 Score=27.22 Aligned_cols=70 Identities=23% Similarity=0.245 Sum_probs=44.6
Q ss_pred eeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEe
Q 006567 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (640)
Q Consensus 491 ~G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~ 570 (640)
..+-.+++..+.++.. .+++++.. ++. .++..|.+|++|+++..... ....++ ..+.....+.++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~v~l~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~ 78 (200)
T cd08460 12 AAFGPALLAAVAAEAP-GVRLRFVP-------ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVR 78 (200)
T ss_pred HHHHHHHHHHHHHHCC-CCEEEEec-------Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEe
Confidence 3566778888888764 44466654 445 78899999999999863221 112222 36666667777765
Q ss_pred cCC
Q 006567 571 FRK 573 (640)
Q Consensus 571 ~~~ 573 (640)
+..
T Consensus 79 ~~h 81 (200)
T cd08460 79 AGH 81 (200)
T ss_pred CCC
Confidence 544
No 494
>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=32.73 E-value=78 Score=30.67 Aligned_cols=44 Identities=18% Similarity=0.268 Sum_probs=24.8
Q ss_pred CCeeEEEEEEeecCCccchHHHHHHHHHHHHHhccCCCCCCcEEEEEEccCCCCh
Q 006567 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSG 82 (640)
Q Consensus 28 ~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~g~~i~~~~~D~~~~~ 82 (640)
...+|+||..-..+. ..++.+.+.+.+ + .|++++++.+++...+
T Consensus 16 ~~~~l~vG~~~~~~~---~~~~~~~~~~~~----~----~G~~Ve~~~f~d~~~~ 59 (258)
T TIGR00363 16 DPLHIKVGVISGAEQ---QVAEVAAKVAKE----K----YGLDVELVEFNDYALP 59 (258)
T ss_pred CCCcEEEEeCCCChH---HHHHHHHHHHHH----h----cCCEEEEEEeCCcHHH
Confidence 345799998754331 222333333222 2 3789999988765433
No 495
>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=32.72 E-value=1.6e+02 Score=25.84 Aligned_cols=70 Identities=21% Similarity=0.307 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEec
Q 006567 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (640)
Q Consensus 492 G~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~ 571 (640)
.+...++..+.++.. .+++++.. +....++.++.+|++|+++.... ...+.++ ..++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~ 80 (195)
T cd08434 13 SLVPDLIRAFRKEYP-NVTFELHQ-------GSTDELLDDLKNGELDLALCSPV---PDEPDIE-WIPLFTEELVLVVPK 80 (195)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEec-------CcHHHHHHHHHcCCccEEEEccC---CCCCCee-EEEeecceEEEEecC
Confidence 445567777777763 23355544 55788899999999999975432 2223333 367777788888765
Q ss_pred CC
Q 006567 572 RK 573 (640)
Q Consensus 572 ~~ 573 (640)
..
T Consensus 81 ~~ 82 (195)
T cd08434 81 DH 82 (195)
T ss_pred CC
Confidence 54
No 496
>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=32.69 E-value=2.4e+02 Score=27.10 Aligned_cols=80 Identities=10% Similarity=0.040 Sum_probs=47.1
Q ss_pred EEEEEEc----CCCCcccHHHHHHHHhh-------cCeEEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhh
Q 006567 167 VSVIFVD----NEYGRNGVSALNDKLAE-------RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL 235 (640)
Q Consensus 167 v~ii~~~----~~~g~~~~~~~~~~~~~-------~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~ 235 (640)
|+++... ..++......++..+.+ .|.++..... ... .+.......++++.+.++++|+.......
T Consensus 2 ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~-d~~--~~~~~~~~~~~~l~~~~v~~iig~~~~~~ 78 (298)
T cd06268 2 IGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVE-DTQ--GDPEAAAAAARELVDDGVDAVIGPLSSGV 78 (298)
T ss_pred eeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEe-cCC--CCHHHHHHHHHHHHhCCceEEEcCCcchh
Confidence 5555543 34666677777666655 3455544432 211 23445566677777778888876655555
Q ss_pred HHHHHHHHHHcCCc
Q 006567 236 GFQVFSVAKYLGMM 249 (640)
Q Consensus 236 ~~~il~~a~~~gl~ 249 (640)
...+...+.+.+++
T Consensus 79 ~~~~~~~~~~~~ip 92 (298)
T cd06268 79 ALAAAPVAEEAGVP 92 (298)
T ss_pred HHhhHHHHHhCCCc
Confidence 55667777776643
No 497
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=32.55 E-value=2.7e+02 Score=30.61 Aligned_cols=85 Identities=14% Similarity=0.095 Sum_probs=54.6
Q ss_pred CCcEEEEEEEcCCCCcccHHHHHHHHhhcCe-EEEEeeccCCCCCCChhHHHHHHHHHhcCCceEEEEecChhhHHHHHH
Q 006567 163 GWNAVSVIFVDNEYGRNGVSALNDKLAERRC-RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFS 241 (640)
Q Consensus 163 ~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~ 241 (640)
+-++|.|+.+-|..|.....-+.+.++..|. .+.+. +|......-.--...++++.+.+++.||..-.+.....-++
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 3468887777788888888888888998887 45432 22110010111124566666678888887755555667778
Q ss_pred HHHHcCCc
Q 006567 242 VAKYLGMM 249 (640)
Q Consensus 242 ~a~~~gl~ 249 (640)
.|++.|+.
T Consensus 146 ~a~~~gid 153 (575)
T PRK11070 146 HAHALGIP 153 (575)
T ss_pred HHHHCCCC
Confidence 88898875
No 498
>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=32.36 E-value=1.8e+02 Score=27.93 Aligned_cols=75 Identities=12% Similarity=0.062 Sum_probs=46.7
Q ss_pred EEEEEE--cCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHH-HHhcCCceEEEEecChhhHHHHHHHH
Q 006567 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLV-KVALMESRVIVLHVSPSLGFQVFSVA 243 (640)
Q Consensus 167 v~ii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~-~l~~~~~~vivl~~~~~~~~~il~~a 243 (640)
++++.. +++|....++.+.+.+++.|..+....... ..+....+. .+...++|.|++.....+ ...++.+
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~~~------~~~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~~l 74 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLEQRYDLALFPLLS------LARLKRYLESTTLAYLTDGLLLASYDLT-ERLAERR 74 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHHCCCEEEEEeCCC------cHHHHHHHHHHHHhcCCCEEEEecCccC-hHHHHHH
Confidence 456664 355667778899999999998877543221 223345554 466778998888754322 3455556
Q ss_pred HHcCC
Q 006567 244 KYLGM 248 (640)
Q Consensus 244 ~~~gl 248 (640)
++.|.
T Consensus 75 ~~~~i 79 (269)
T cd06297 75 LPTER 79 (269)
T ss_pred hhcCC
Confidence 66554
No 499
>TIGR03339 phn_lysR aminoethylphosphonate catabolism associated LysR family transcriptional regulator. This group of sequences represents a number of related clades with numerous examples of members adjacent to operons for the degradation of 2-aminoethylphosphonate (AEP) in Pseudomonas, Ralstonia, Bordetella and Burkholderia species. These are transcriptional regulators of the LysR family which contain a helix-turn-helix (HTH) domain (pfam00126) and a periplasmic substrate-binding protein-like domain (pfam03466).
Probab=32.24 E-value=1.8e+02 Score=28.02 Aligned_cols=69 Identities=13% Similarity=0.180 Sum_probs=45.7
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHhhHHHHHHcCcccEEEeeeeeeccccceEEeCccccccceEEEEecC
Q 006567 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (640)
Q Consensus 493 ~~~dl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~il~~~~ 572 (640)
+-.+++..+.++.. .+++++.. +....++..|.+|++|+++..-..+. ..+. ..|+....+.+++++.
T Consensus 98 ~~~~~l~~~~~~~p-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~---~~~~-~~~l~~~~~~lv~s~~ 165 (279)
T TIGR03339 98 YVLDLVARFRQRYP-GIEVSVRI-------GNSQEVLQALQSYRVDVAVSSEVVDD---PRLD-RVVLGNDPLVAVVHRQ 165 (279)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEecccCC---CceE-EEEcCCceEEEEECCC
Confidence 45567777777664 33355554 55788999999999999986332222 2222 3677778888888655
Q ss_pred C
Q 006567 573 K 573 (640)
Q Consensus 573 ~ 573 (640)
.
T Consensus 166 ~ 166 (279)
T TIGR03339 166 H 166 (279)
T ss_pred C
Confidence 4
No 500
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=32.24 E-value=3e+02 Score=30.97 Aligned_cols=95 Identities=11% Similarity=0.010 Sum_probs=0.0
Q ss_pred cCCchHHHHHHHHHHHh----cCCcEEEEEEEcCCCCcccHHHHHHHHhhcCeEEEEeeccCCCCCCChhHHHHHHHHHh
Q 006567 145 TQSDSYQMTAVAEMVSY----YGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA 220 (640)
Q Consensus 145 ~p~~~~~~~al~~ll~~----~~w~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~ 220 (640)
.|+...-++.+++.+.. ..-++|.++..+. +...+.+.+++.|..|.....|..............+.++.
T Consensus 116 ~p~~~~~se~Ll~~l~~~~~~~~g~rVLi~rG~~-----gr~~L~~~L~~~Ga~V~~v~vY~~~~~~~~~~~~~~~~~~l 190 (656)
T PRK06975 116 GGEARYDSEALFAEIDAAFGALAGKRVLIVRGDG-----GREWLAERLREAGAEVELVEAYRRVVPEPSIGAWERVHALL 190 (656)
T ss_pred CCCCccchHHHHHhHHHhccCCCCCEEEEEcCCC-----CcHHHHHHHHHCCCEEEEEeEEEeeCCCcchhHHHHHHHHH
Q ss_pred cCCceEEEEecChhhHHHHHHHHHH
Q 006567 221 LMESRVIVLHVSPSLGFQVFSVAKY 245 (640)
Q Consensus 221 ~~~~~vivl~~~~~~~~~il~~a~~ 245 (640)
..+.++|+ +.++..+..+++.+.+
T Consensus 191 ~~~idav~-fTS~s~v~~f~~la~~ 214 (656)
T PRK06975 191 SGAPHAWL-LTSSEAVRNLDELARA 214 (656)
T ss_pred hCCCcEEE-ECCHHHHHHHHHHHHh
Done!