Query 004042
Match_columns 777
No_of_seqs 358 out of 3358
Neff 9.8
Searched_HMMs 46136
Date Thu Mar 28 16:32:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004042.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004042hhsearch_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 1.4E-80 3E-85 629.1 50.3 695 28-776 23-759 (897)
2 KOG4440 NMDA selective glutama 100.0 9.2E-76 2E-80 596.7 43.5 669 26-776 30-773 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 1.3E-68 2.8E-73 564.4 54.3 626 79-776 82-774 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 3.2E-51 7E-56 472.7 48.4 515 215-776 5-540 (656)
5 cd06393 PBP1_iGluR_Kainate_Glu 100.0 1.9E-45 4.2E-50 398.1 39.5 365 31-421 2-382 (384)
6 cd06362 PBP1_mGluR Ligand bind 100.0 4.9E-45 1.1E-49 404.9 40.3 370 30-420 1-450 (452)
7 cd06374 PBP1_mGluR_groupI Liga 100.0 7.1E-45 1.5E-49 403.8 39.6 374 27-422 5-469 (472)
8 cd06361 PBP1_GPC6A_like Ligand 100.0 1.6E-44 3.5E-49 390.4 39.5 347 34-419 2-396 (403)
9 cd06375 PBP1_mGluR_groupII Lig 100.0 3.6E-44 7.8E-49 394.4 40.6 364 30-416 1-454 (458)
10 cd06376 PBP1_mGluR_groupIII Li 100.0 6E-44 1.3E-48 395.7 40.4 366 30-416 1-452 (463)
11 cd06364 PBP1_CaSR Ligand-bindi 100.0 1.1E-43 2.4E-48 394.4 41.6 373 27-417 8-494 (510)
12 cd06365 PBP1_Pheromone_recepto 100.0 5.4E-44 1.2E-48 394.6 38.3 368 30-417 1-453 (469)
13 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 3.1E-43 6.6E-48 380.9 40.0 336 29-417 17-364 (377)
14 cd06366 PBP1_GABAb_receptor Li 100.0 1.7E-43 3.6E-48 380.0 37.6 337 33-422 1-348 (350)
15 cd06392 PBP1_iGluR_delta_1 N-t 100.0 3.5E-43 7.6E-48 372.7 38.4 362 33-420 1-398 (400)
16 cd06385 PBP1_NPR_A Ligand-bind 100.0 1.7E-43 3.7E-48 386.7 37.1 356 33-418 1-392 (405)
17 cd06363 PBP1_Taste_receptor Li 100.0 7.9E-43 1.7E-47 381.2 39.0 352 28-417 3-396 (410)
18 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 8.4E-43 1.8E-47 370.4 37.9 355 33-420 1-363 (364)
19 cd06380 PBP1_iGluR_AMPA N-term 100.0 1.2E-42 2.6E-47 377.5 39.7 370 33-420 1-381 (382)
20 cd06386 PBP1_NPR_C_like Ligand 100.0 1.1E-42 2.4E-47 376.3 38.8 350 35-417 3-379 (387)
21 cd06370 PBP1_Speract_GC_like L 100.0 1.1E-42 2.3E-47 379.4 36.8 352 32-412 1-390 (404)
22 cd06367 PBP1_iGluR_NMDA N-term 100.0 9.7E-43 2.1E-47 375.3 35.4 339 31-416 2-351 (362)
23 cd06372 PBP1_GC_G_like Ligand- 100.0 3.5E-42 7.5E-47 374.8 38.4 355 33-418 1-387 (391)
24 cd06373 PBP1_NPR_like Ligand b 100.0 2.4E-42 5.3E-47 376.6 36.0 357 33-418 1-390 (396)
25 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 1.1E-41 2.3E-46 360.6 39.1 361 33-420 1-371 (372)
26 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 1.3E-41 2.8E-46 363.2 39.1 361 33-421 1-370 (371)
27 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 1.1E-41 2.4E-46 364.8 38.4 359 33-420 1-368 (370)
28 cd06371 PBP1_sensory_GC_DEF_li 100.0 1.3E-41 2.9E-46 366.9 37.1 348 33-414 1-369 (382)
29 cd06352 PBP1_NPR_GC_like Ligan 100.0 2E-41 4.3E-46 369.4 38.3 359 33-419 1-384 (389)
30 cd06384 PBP1_NPR_B Ligand-bind 100.0 6.6E-41 1.4E-45 365.0 38.6 356 33-418 1-393 (399)
31 cd06391 PBP1_iGluR_delta_2 N-t 100.0 1.7E-40 3.7E-45 356.5 39.2 365 33-420 1-398 (400)
32 cd06382 PBP1_iGluR_Kainate N-t 100.0 9.2E-41 2E-45 355.0 31.3 315 33-420 1-326 (327)
33 PRK15404 leucine ABC transport 100.0 1E-38 2.2E-43 342.8 37.5 338 28-408 22-364 (369)
34 KOG1056 Glutamate-gated metabo 100.0 1E-38 2.3E-43 351.2 36.5 393 26-460 26-495 (878)
35 cd06394 PBP1_iGluR_Kainate_KA1 100.0 1.7E-39 3.8E-44 338.4 28.5 323 33-421 1-332 (333)
36 PF01094 ANF_receptor: Recepto 100.0 4.9E-38 1.1E-42 338.1 33.1 335 47-404 1-348 (348)
37 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 2E-37 4.2E-42 331.2 34.5 328 33-403 1-334 (334)
38 cd06368 PBP1_iGluR_non_NMDA_li 100.0 3E-37 6.5E-42 327.9 32.2 316 33-420 1-323 (324)
39 cd06345 PBP1_ABC_ligand_bindin 100.0 1.4E-36 3.1E-41 325.2 33.4 321 33-395 1-338 (344)
40 cd06338 PBP1_ABC_ligand_bindin 100.0 1.3E-36 2.8E-41 326.1 33.1 328 33-402 1-344 (345)
41 cd06346 PBP1_ABC_ligand_bindin 100.0 8.8E-37 1.9E-41 321.8 30.6 304 33-400 1-310 (312)
42 cd06348 PBP1_ABC_ligand_bindin 100.0 3.2E-36 7E-41 322.6 34.2 334 33-400 1-343 (344)
43 cd06381 PBP1_iGluR_delta_like 100.0 2.3E-35 5.1E-40 313.3 36.2 332 33-420 1-362 (363)
44 cd06355 PBP1_FmdD_like Peripla 100.0 2E-35 4.3E-40 315.9 35.0 337 33-411 1-345 (348)
45 cd06350 PBP1_GPCR_family_C_lik 100.0 1.1E-35 2.4E-40 319.4 31.9 308 33-417 1-340 (348)
46 COG0683 LivK ABC-type branched 100.0 3.8E-35 8.2E-40 314.5 34.3 338 29-406 8-355 (366)
47 TIGR03669 urea_ABC_arch urea A 100.0 7.5E-35 1.6E-39 311.8 34.9 339 32-415 1-349 (374)
48 cd06340 PBP1_ABC_ligand_bindin 100.0 3.8E-35 8.1E-40 314.1 30.6 324 33-396 1-342 (347)
49 cd06344 PBP1_ABC_ligand_bindin 100.0 4.7E-35 1E-39 311.7 31.1 320 33-396 1-327 (332)
50 cd06329 PBP1_SBP_like_3 Peripl 100.0 8.1E-35 1.8E-39 311.0 31.7 315 33-391 1-332 (342)
51 TIGR03407 urea_ABC_UrtA urea A 100.0 4.4E-34 9.6E-39 306.7 35.6 331 32-404 1-338 (359)
52 cd06343 PBP1_ABC_ligand_bindin 100.0 5.5E-34 1.2E-38 307.7 35.6 342 29-408 4-362 (362)
53 cd06349 PBP1_ABC_ligand_bindin 100.0 5.5E-34 1.2E-38 304.9 34.4 331 33-408 1-340 (340)
54 cd06331 PBP1_AmiC_like Type I 100.0 3.1E-34 6.7E-39 305.7 32.1 322 33-396 1-328 (333)
55 cd06347 PBP1_ABC_ligand_bindin 100.0 8.1E-34 1.8E-38 303.3 34.1 319 33-395 1-328 (334)
56 cd06327 PBP1_SBP_like_1 Peripl 100.0 4.3E-34 9.2E-39 304.7 29.9 317 33-393 1-327 (334)
57 cd06359 PBP1_Nba_like Type I p 100.0 1.4E-33 3E-38 300.5 32.8 324 33-401 1-331 (333)
58 cd06357 PBP1_AmiC Periplasmic 100.0 6.4E-33 1.4E-37 297.8 36.4 340 33-412 1-347 (360)
59 PF13458 Peripla_BP_6: Peripla 100.0 2.3E-33 5.1E-38 300.9 31.6 334 31-406 1-342 (343)
60 cd06336 PBP1_ABC_ligand_bindin 100.0 1.7E-33 3.6E-38 301.4 29.8 323 33-396 1-342 (347)
61 cd06330 PBP1_Arsenic_SBP_like 100.0 3.7E-33 7.9E-38 299.4 31.9 325 33-395 1-338 (346)
62 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 4.4E-33 9.5E-38 295.4 30.7 304 78-422 43-355 (362)
63 cd06328 PBP1_SBP_like_2 Peripl 100.0 7.3E-33 1.6E-37 294.4 32.0 316 33-392 1-324 (333)
64 cd06360 PBP1_alkylbenzenes_lik 100.0 1.3E-32 2.9E-37 294.1 33.6 324 33-397 1-331 (336)
65 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 9.9E-32 2.2E-36 279.6 36.3 337 28-419 15-373 (382)
66 cd06356 PBP1_Amide_Urea_BP_lik 100.0 2.4E-32 5.2E-37 290.6 32.5 316 33-392 1-325 (334)
67 cd06383 PBP1_iGluR_AMPA_Like N 100.0 4.6E-33 9.9E-38 296.3 25.2 334 41-401 7-358 (368)
68 cd06358 PBP1_NHase Type I peri 100.0 5.3E-32 1.2E-36 288.3 32.8 315 33-392 1-324 (333)
69 cd06334 PBP1_ABC_ligand_bindin 100.0 2.7E-32 5.8E-37 291.0 30.4 325 33-392 1-347 (351)
70 cd06335 PBP1_ABC_ligand_bindin 100.0 5.9E-32 1.3E-36 289.4 31.8 318 33-392 1-337 (347)
71 KOG1055 GABA-B ion channel rec 100.0 3.6E-33 7.9E-38 296.6 19.3 371 27-419 37-432 (865)
72 PF13433 Peripla_BP_5: Peripla 100.0 2.7E-31 5.8E-36 269.4 29.6 318 32-391 1-325 (363)
73 cd06332 PBP1_aromatic_compound 100.0 4.7E-31 1E-35 281.8 33.2 323 33-400 1-330 (333)
74 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 5.2E-31 1.1E-35 280.9 32.4 315 33-416 1-322 (328)
75 cd06337 PBP1_ABC_ligand_bindin 100.0 8.5E-31 1.9E-35 281.2 28.5 331 33-408 1-357 (357)
76 cd06326 PBP1_STKc_like Type I 100.0 3.4E-29 7.3E-34 267.7 31.8 320 32-392 1-329 (336)
77 cd06339 PBP1_YraM_LppC_lipopro 100.0 2.1E-29 4.5E-34 267.7 25.2 302 33-393 1-329 (336)
78 TIGR03863 PQQ_ABC_bind ABC tra 100.0 1.4E-28 3.1E-33 259.4 25.7 300 45-403 10-315 (347)
79 cd06341 PBP1_ABC_ligand_bindin 100.0 2.5E-27 5.4E-32 253.6 29.5 308 33-383 1-318 (341)
80 cd06333 PBP1_ABC-type_HAAT_lik 100.0 2.1E-26 4.6E-31 243.2 29.6 278 33-326 1-293 (312)
81 cd06269 PBP1_glutamate_recepto 100.0 2.3E-26 4.9E-31 241.4 28.2 224 33-264 1-235 (298)
82 cd04509 PBP1_ABC_transporter_G 100.0 2.1E-26 4.5E-31 241.8 27.0 280 33-324 1-290 (299)
83 cd06369 PBP1_GC_C_enterotoxin_ 99.9 9.7E-26 2.1E-30 227.8 28.4 324 46-419 18-367 (380)
84 cd06268 PBP1_ABC_transporter_L 99.9 1.3E-24 2.9E-29 227.9 28.1 280 33-326 1-287 (298)
85 PRK11917 bifunctional adhesin/ 99.8 6E-18 1.3E-22 172.3 18.6 191 462-776 35-228 (259)
86 PRK09495 glnH glutamine ABC tr 99.8 1.1E-17 2.3E-22 170.1 17.7 186 464-776 24-211 (247)
87 PRK10797 glutamate and asparta 99.8 1.5E-17 3.2E-22 172.9 17.9 191 463-776 38-238 (302)
88 PRK11260 cystine transporter s 99.7 1.7E-16 3.7E-21 163.0 17.2 190 462-776 38-228 (266)
89 PRK15010 ABC transporter lysin 99.7 4E-16 8.7E-21 159.7 18.0 179 463-765 24-205 (260)
90 PF00497 SBP_bac_3: Bacterial 99.7 1.3E-16 2.7E-21 159.9 14.0 189 467-776 1-191 (225)
91 PRK15007 putative ABC transpor 99.7 8E-16 1.7E-20 156.1 17.4 174 464-765 20-193 (243)
92 TIGR01096 3A0103s03R lysine-ar 99.7 8.8E-16 1.9E-20 156.6 17.3 187 465-776 24-218 (250)
93 PRK15437 histidine ABC transpo 99.7 1.3E-15 2.9E-20 155.7 17.9 165 464-752 25-189 (259)
94 TIGR02995 ectoine_ehuB ectoine 99.7 1.5E-15 3.3E-20 156.6 15.8 178 463-763 31-212 (275)
95 PF00060 Lig_chan: Ligand-gate 99.7 5.8E-17 1.3E-21 150.5 4.4 107 586-692 1-115 (148)
96 PRK10859 membrane-bound lytic 99.6 2.6E-15 5.7E-20 166.3 15.8 190 462-776 40-232 (482)
97 cd01391 Periplasmic_Binding_Pr 99.6 1.1E-13 2.4E-18 142.1 23.9 216 33-262 1-220 (269)
98 TIGR03870 ABC_MoxJ methanol ox 99.6 1.3E-14 2.8E-19 146.8 14.8 161 466-757 1-181 (246)
99 PRK09959 hybrid sensory histid 99.5 4.3E-14 9.3E-19 176.5 14.3 181 459-764 50-232 (1197)
100 COG0834 HisJ ABC-type amino ac 99.5 2.9E-13 6.3E-18 140.2 16.9 192 464-776 33-230 (275)
101 PRK09959 hybrid sensory histid 99.5 4.3E-13 9.3E-18 167.5 16.8 186 463-776 300-488 (1197)
102 TIGR03871 ABC_peri_MoxJ_2 quin 99.5 1.3E-12 2.9E-17 131.4 16.3 167 467-764 2-180 (232)
103 TIGR02285 conserved hypothetic 99.4 1.1E-12 2.4E-17 134.9 14.7 195 464-776 17-226 (268)
104 cd00134 PBPb Bacterial peripla 99.4 2.7E-12 5.9E-17 127.1 16.5 179 467-772 1-180 (218)
105 PF04348 LppC: LppC putative l 99.4 1.1E-11 2.3E-16 137.5 22.3 309 31-405 219-535 (536)
106 smart00062 PBPb Bacterial peri 99.4 4.7E-12 1E-16 125.4 16.7 184 466-776 1-187 (219)
107 COG4623 Predicted soluble lyti 99.0 2E-09 4.3E-14 107.1 11.2 178 462-764 20-201 (473)
108 cd01537 PBP1_Repressors_Sugar_ 98.9 6.5E-08 1.4E-12 99.1 19.6 205 33-257 1-211 (264)
109 PF10613 Lig_chan-Glu_bd: Liga 98.8 2.5E-09 5.5E-14 80.4 3.9 50 485-534 13-65 (65)
110 TIGR01098 3A0109s03R phosphate 98.8 3.7E-08 8E-13 100.6 13.1 181 465-776 32-235 (254)
111 cd01536 PBP1_ABC_sugar_binding 98.8 6.6E-07 1.4E-11 91.9 22.5 205 33-257 1-213 (267)
112 cd06267 PBP1_LacI_sugar_bindin 98.8 5.1E-07 1.1E-11 92.5 19.7 204 33-256 1-209 (264)
113 cd06300 PBP1_ABC_sugar_binding 98.7 1.7E-06 3.7E-11 89.2 22.2 202 33-251 1-211 (272)
114 cd06325 PBP1_ABC_uncharacteriz 98.7 1E-06 2.2E-11 91.4 20.1 201 33-248 1-208 (281)
115 COG2984 ABC-type uncharacteriz 98.7 6.2E-06 1.3E-10 82.2 23.6 204 28-249 27-241 (322)
116 smart00079 PBPe Eukaryotic hom 98.7 9.3E-08 2E-12 86.8 8.9 91 681-776 1-101 (134)
117 COG3107 LppC Putative lipoprot 98.6 3.6E-06 7.7E-11 88.3 19.6 318 30-411 256-603 (604)
118 cd06320 PBP1_allose_binding Pe 98.6 1.2E-05 2.5E-10 83.2 23.1 206 33-257 1-214 (275)
119 cd06282 PBP1_GntR_like_2 Ligan 98.5 1.2E-05 2.6E-10 82.5 19.3 200 33-254 1-206 (266)
120 PRK10653 D-ribose transporter 98.4 0.00012 2.6E-09 76.5 24.1 208 30-258 25-239 (295)
121 PRK00489 hisG ATP phosphoribos 98.3 2.1E-06 4.6E-11 88.5 10.2 133 523-775 51-185 (287)
122 cd06323 PBP1_ribose_binding Pe 98.3 9.1E-05 2E-09 76.0 22.1 204 33-258 1-213 (268)
123 cd06273 PBP1_GntR_like_1 This 98.3 6.5E-05 1.4E-09 77.2 19.6 201 33-253 1-207 (268)
124 cd06317 PBP1_ABC_sugar_binding 98.2 0.00012 2.6E-09 75.5 20.6 208 33-257 1-219 (275)
125 cd06319 PBP1_ABC_sugar_binding 98.2 0.00017 3.6E-09 74.5 21.6 206 33-258 1-218 (277)
126 cd06301 PBP1_rhizopine_binding 98.2 0.00026 5.7E-09 72.9 22.3 209 33-259 1-218 (272)
127 PRK10936 TMAO reductase system 98.2 0.00084 1.8E-08 71.7 25.8 201 29-249 44-255 (343)
128 cd06312 PBP1_ABC_sugar_binding 98.2 0.00044 9.5E-09 71.2 22.7 208 33-258 1-216 (271)
129 cd06310 PBP1_ABC_sugar_binding 98.1 0.0007 1.5E-08 69.7 23.9 209 33-259 1-217 (273)
130 PF13407 Peripla_BP_4: Peripla 98.1 0.00033 7.1E-09 71.5 20.9 202 34-251 1-209 (257)
131 cd06305 PBP1_methylthioribose_ 98.1 0.00033 7.2E-09 72.1 21.0 208 33-259 1-217 (273)
132 cd01545 PBP1_SalR Ligand-bindi 98.1 0.00041 8.8E-09 71.3 20.1 208 33-259 1-215 (270)
133 cd06309 PBP1_YtfQ_like Peripla 98.0 0.00075 1.6E-08 69.5 21.4 208 33-257 1-218 (273)
134 PRK09701 D-allose transporter 98.0 0.0039 8.4E-08 65.6 26.3 212 33-258 26-249 (311)
135 cd06289 PBP1_MalI_like Ligand- 97.9 0.00078 1.7E-08 69.1 19.2 206 33-257 1-212 (268)
136 cd06284 PBP1_LacI_like_6 Ligan 97.9 0.001 2.3E-08 68.1 19.9 198 34-252 2-204 (267)
137 PRK15395 methyl-galactoside AB 97.9 0.004 8.6E-08 66.1 24.6 209 28-248 21-249 (330)
138 cd06298 PBP1_CcpA_like Ligand- 97.9 0.0011 2.3E-08 68.0 19.6 207 33-259 1-213 (268)
139 cd06303 PBP1_LuxPQ_Quorum_Sens 97.9 0.0026 5.7E-08 65.8 22.4 211 33-258 1-223 (280)
140 TIGR03431 PhnD phosphonate ABC 97.8 0.00013 2.8E-09 75.9 11.5 70 681-756 126-205 (288)
141 cd06311 PBP1_ABC_sugar_binding 97.8 0.005 1.1E-07 63.4 23.4 202 34-249 2-210 (274)
142 cd01539 PBP1_GGBP Periplasmic 97.8 0.0047 1E-07 64.7 22.5 208 33-251 1-228 (303)
143 COG1879 RbsB ABC-type sugar tr 97.8 0.0082 1.8E-07 63.5 24.5 205 30-250 32-245 (322)
144 cd06322 PBP1_ABC_sugar_binding 97.8 0.007 1.5E-07 62.0 22.9 194 34-248 2-203 (267)
145 cd01540 PBP1_arabinose_binding 97.7 0.0052 1.1E-07 63.8 22.1 215 33-259 1-229 (289)
146 cd06275 PBP1_PurR Ligand-bindi 97.7 0.0021 4.5E-08 65.9 18.8 204 33-255 1-209 (269)
147 cd06288 PBP1_sucrose_transcrip 97.7 0.0018 3.9E-08 66.4 18.1 204 33-257 1-210 (269)
148 TIGR01481 ccpA catabolite cont 97.7 0.0036 7.7E-08 66.5 20.7 203 30-252 58-264 (329)
149 cd06271 PBP1_AglR_RafR_like Li 97.7 0.0034 7.5E-08 64.2 19.5 200 34-254 2-211 (268)
150 cd06306 PBP1_TorT-like TorT-li 97.7 0.007 1.5E-07 62.1 21.7 204 33-257 1-215 (268)
151 cd06281 PBP1_LacI_like_5 Ligan 97.7 0.0022 4.8E-08 65.8 18.1 199 33-252 1-204 (269)
152 cd06321 PBP1_ABC_sugar_binding 97.7 0.0088 1.9E-07 61.4 22.5 206 33-259 1-214 (271)
153 cd01575 PBP1_GntR Ligand-bindi 97.7 0.0039 8.5E-08 63.8 19.7 201 33-253 1-206 (268)
154 cd01542 PBP1_TreR_like Ligand- 97.6 0.0044 9.5E-08 63.1 19.3 199 34-257 2-206 (259)
155 cd06308 PBP1_sensor_kinase_lik 97.6 0.0095 2.1E-07 61.1 21.9 208 33-260 1-217 (270)
156 cd06283 PBP1_RegR_EndR_KdgR_li 97.6 0.0057 1.2E-07 62.6 20.1 202 33-254 1-208 (267)
157 cd06274 PBP1_FruR Ligand bindi 97.6 0.0076 1.6E-07 61.6 20.9 205 33-256 1-210 (264)
158 PF00532 Peripla_BP_1: Peripla 97.6 0.0035 7.5E-08 64.7 18.0 202 33-254 3-211 (279)
159 cd06324 PBP1_ABC_sugar_binding 97.6 0.012 2.6E-07 61.7 22.5 210 34-258 2-237 (305)
160 cd06285 PBP1_LacI_like_7 Ligan 97.6 0.0053 1.2E-07 62.8 19.5 204 33-258 1-210 (265)
161 cd01574 PBP1_LacI Ligand-bindi 97.6 0.0098 2.1E-07 60.7 21.3 198 33-252 1-202 (264)
162 cd06299 PBP1_LacI_like_13 Liga 97.6 0.0053 1.1E-07 62.8 19.3 204 33-256 1-207 (265)
163 PF04392 ABC_sub_bind: ABC tra 97.6 0.0052 1.1E-07 63.9 19.2 185 33-233 1-194 (294)
164 cd06270 PBP1_GalS_like Ligand 97.6 0.0078 1.7E-07 61.7 20.3 200 33-252 1-205 (268)
165 cd06295 PBP1_CelR Ligand bindi 97.6 0.007 1.5E-07 62.3 20.0 198 32-252 4-214 (275)
166 cd06278 PBP1_LacI_like_2 Ligan 97.6 0.0073 1.6E-07 61.7 19.9 190 34-246 2-196 (266)
167 PRK10355 xylF D-xylose transpo 97.6 0.022 4.7E-07 60.4 23.8 202 29-249 23-236 (330)
168 cd06293 PBP1_LacI_like_11 Liga 97.5 0.012 2.7E-07 60.3 21.2 205 33-257 1-210 (269)
169 cd01538 PBP1_ABC_xylose_bindin 97.5 0.019 4.1E-07 59.6 22.4 199 33-250 1-216 (288)
170 PRK10703 DNA-binding transcrip 97.5 0.0079 1.7E-07 64.2 20.0 207 31-256 59-271 (341)
171 cd06313 PBP1_ABC_sugar_binding 97.5 0.02 4.4E-07 58.8 22.1 180 68-259 29-216 (272)
172 PRK15408 autoinducer 2-binding 97.5 0.046 9.9E-07 58.0 25.0 198 33-249 25-234 (336)
173 cd06316 PBP1_ABC_sugar_binding 97.5 0.025 5.3E-07 58.9 22.5 212 33-259 1-219 (294)
174 cd06286 PBP1_CcpB_like Ligand- 97.5 0.01 2.2E-07 60.5 19.1 198 33-252 1-203 (260)
175 PRK11303 DNA-binding transcrip 97.4 0.021 4.5E-07 60.6 21.9 202 31-254 61-268 (328)
176 PRK10014 DNA-binding transcrip 97.4 0.018 4E-07 61.4 21.4 203 30-251 63-270 (342)
177 cd06296 PBP1_CatR_like Ligand- 97.4 0.012 2.6E-07 60.3 19.3 207 33-259 1-214 (270)
178 cd06292 PBP1_LacI_like_10 Liga 97.4 0.021 4.5E-07 58.7 20.7 205 34-256 2-213 (273)
179 PRK10423 transcriptional repre 97.4 0.027 5.9E-07 59.6 21.6 205 30-255 55-266 (327)
180 COG1609 PurR Transcriptional r 97.4 0.035 7.6E-07 58.7 22.0 201 30-252 57-265 (333)
181 cd06318 PBP1_ABC_sugar_binding 97.4 0.044 9.5E-07 56.5 22.6 207 33-257 1-222 (282)
182 cd06290 PBP1_LacI_like_9 Ligan 97.4 0.02 4.2E-07 58.6 19.7 199 33-252 1-204 (265)
183 cd06314 PBP1_tmGBP Periplasmic 97.3 0.073 1.6E-06 54.5 23.7 204 33-258 1-212 (271)
184 cd06354 PBP1_BmpA_PnrA_like Pe 97.3 0.029 6.2E-07 57.4 20.4 196 33-247 1-206 (265)
185 cd06302 PBP1_LsrB_Quorum_Sensi 97.3 0.063 1.4E-06 56.0 23.2 207 33-258 1-218 (298)
186 cd06294 PBP1_ycjW_transcriptio 97.3 0.019 4.2E-07 58.7 19.1 205 33-257 1-217 (270)
187 TIGR02955 TMAO_TorT TMAO reduc 97.3 0.057 1.2E-06 56.2 22.6 195 33-248 1-207 (295)
188 PRK11553 alkanesulfonate trans 97.3 0.0024 5.1E-08 67.3 12.3 70 681-756 120-193 (314)
189 cd06307 PBP1_uncharacterized_s 97.3 0.069 1.5E-06 54.9 23.0 210 33-259 1-219 (275)
190 cd06291 PBP1_Qymf_like Ligand 97.3 0.023 5.1E-07 58.0 19.2 195 33-252 1-201 (265)
191 cd01541 PBP1_AraR Ligand-bindi 97.3 0.018 3.9E-07 59.1 18.5 206 33-257 1-216 (273)
192 cd06297 PBP1_LacI_like_12 Liga 97.3 0.027 5.8E-07 57.8 19.5 201 33-257 1-213 (269)
193 TIGR02417 fruct_sucro_rep D-fr 97.2 0.042 9.2E-07 58.2 21.4 205 31-258 60-272 (327)
194 cd06280 PBP1_LacI_like_4 Ligan 97.2 0.029 6.3E-07 57.2 19.4 200 33-256 1-204 (263)
195 cd06304 PBP1_BmpA_like Peripla 97.2 0.024 5.3E-07 57.8 18.7 199 33-247 1-202 (260)
196 cd06272 PBP1_hexuronate_repres 97.2 0.022 4.8E-07 58.0 18.5 195 33-252 1-200 (261)
197 PRK09526 lacI lac repressor; R 97.2 0.061 1.3E-06 57.3 22.5 200 31-254 63-270 (342)
198 cd06277 PBP1_LacI_like_1 Ligan 97.2 0.047 1E-06 55.9 20.3 197 34-251 2-204 (268)
199 PRK10727 DNA-binding transcrip 97.2 0.039 8.4E-07 58.9 20.3 204 30-254 58-267 (343)
200 TIGR01729 taurine_ABC_bnd taur 97.2 0.0019 4E-08 67.6 9.6 70 681-756 91-164 (300)
201 cd01543 PBP1_XylR Ligand-bindi 97.1 0.03 6.5E-07 57.2 18.5 203 33-259 1-207 (265)
202 cd06279 PBP1_LacI_like_3 Ligan 97.1 0.047 1E-06 56.5 19.4 201 34-258 2-230 (283)
203 PF13379 NMT1_2: NMT1-like fam 97.1 0.0018 4E-08 65.7 8.4 73 681-758 105-189 (252)
204 PRK09492 treR trehalose repres 97.1 0.062 1.4E-06 56.5 20.4 191 31-248 62-256 (315)
205 TIGR02122 TRAP_TAXI TRAP trans 96.9 0.0068 1.5E-07 64.0 11.7 59 681-746 132-197 (320)
206 PRK14987 gluconate operon tran 96.9 0.12 2.6E-06 54.8 20.9 205 31-256 63-271 (331)
207 PRK10401 DNA-binding transcrip 96.9 0.12 2.7E-06 55.1 20.6 203 31-254 59-267 (346)
208 PRK11041 DNA-binding transcrip 96.7 0.19 4.1E-06 52.7 20.5 208 30-257 34-246 (309)
209 cd06353 PBP1_BmpA_Med_like Per 96.6 0.1 2.3E-06 52.9 17.1 193 33-247 1-200 (258)
210 TIGR02405 trehalos_R_Ecol treh 96.6 0.32 7E-06 51.0 21.3 190 31-248 59-253 (311)
211 cd01544 PBP1_GalR Ligand-bindi 96.6 0.18 3.8E-06 51.7 18.7 198 33-257 1-213 (270)
212 PF09084 NMT1: NMT1/THI5 like; 96.5 0.013 2.9E-07 57.8 9.2 61 681-747 84-148 (216)
213 PF12974 Phosphonate-bd: ABC t 96.4 0.0095 2.1E-07 60.1 7.8 80 681-766 96-188 (243)
214 TIGR02634 xylF D-xylose ABC tr 96.4 0.56 1.2E-05 49.0 21.2 171 68-249 28-209 (302)
215 TIGR02637 RhaS rhamnose ABC tr 96.3 1.4 3E-05 46.0 23.7 197 34-249 1-210 (302)
216 cd06315 PBP1_ABC_sugar_binding 96.1 0.98 2.1E-05 46.5 21.1 203 33-251 2-216 (280)
217 TIGR01728 SsuA_fam ABC transpo 96.1 0.031 6.7E-07 57.9 9.8 71 680-756 91-165 (288)
218 TIGR03427 ABC_peri_uca ABC tra 96.0 0.043 9.4E-07 57.6 10.4 69 681-756 97-170 (328)
219 TIGR02990 ectoine_eutA ectoine 95.7 0.21 4.7E-06 49.5 13.4 93 151-246 107-204 (239)
220 PF07885 Ion_trans_2: Ion chan 95.6 0.069 1.5E-06 42.9 7.9 55 620-674 22-78 (79)
221 COG4213 XylF ABC-type xylose t 95.1 3.1 6.8E-05 41.9 18.8 209 27-251 21-244 (341)
222 COG1744 Med Uncharacterized AB 95.1 2.4 5.2E-05 44.9 19.6 208 29-248 33-244 (345)
223 COG3221 PhnD ABC-type phosphat 95.1 0.2 4.2E-06 51.5 11.1 90 680-775 134-238 (299)
224 cd06287 PBP1_LacI_like_8 Ligan 94.8 3.1 6.7E-05 42.5 19.4 155 92-256 52-210 (269)
225 PRK11480 tauA taurine transpor 94.2 0.3 6.4E-06 51.5 10.2 67 681-753 113-183 (320)
226 PF02608 Bmp: Basic membrane p 93.3 7 0.00015 40.8 18.6 200 32-248 2-212 (306)
227 PRK10339 DNA-binding transcrip 93.0 7.1 0.00015 41.1 18.4 146 95-252 113-262 (327)
228 KOG1419 Voltage-gated K+ chann 92.4 0.21 4.6E-06 53.5 5.4 88 588-675 235-324 (654)
229 COG0715 TauA ABC-type nitrate/ 91.8 0.66 1.4E-05 49.2 8.7 72 680-757 126-202 (335)
230 TIGR00787 dctP tripartite ATP- 91.7 1.5 3.2E-05 44.6 10.7 60 680-750 126-185 (257)
231 cd06276 PBP1_FucR_like Ligand- 91.3 13 0.00029 37.2 17.2 143 89-252 45-190 (247)
232 PF14503 YhfZ_C: YhfZ C-termin 91.2 0.5 1.1E-05 46.1 6.2 77 488-573 24-107 (232)
233 COG3473 Maleate cis-trans isom 91.1 7.6 0.00016 36.8 13.3 91 152-245 106-201 (238)
234 cd06353 PBP1_BmpA_Med_like Per 90.9 3.2 7E-05 42.1 12.2 86 33-127 122-207 (258)
235 PF13377 Peripla_BP_3: Peripla 90.8 1 2.2E-05 41.7 7.9 93 156-252 1-96 (160)
236 PF12683 DUF3798: Protein of u 90.6 19 0.00042 35.8 17.2 208 31-248 2-224 (275)
237 TIGR00035 asp_race aspartate r 89.1 4 8.7E-05 40.5 11.0 86 82-196 60-146 (229)
238 PF03808 Glyco_tran_WecB: Glyc 89.1 6.5 0.00014 37.0 11.8 100 149-260 34-135 (172)
239 cd05466 PBP2_LTTR_substrate Th 88.9 12 0.00025 34.8 14.0 70 492-573 13-82 (197)
240 COG2358 Imp TRAP-type uncharac 88.4 3.6 7.8E-05 42.4 10.0 78 681-764 128-214 (321)
241 COG1454 EutG Alcohol dehydroge 88.3 4.5 9.8E-05 43.0 11.1 92 152-245 17-110 (377)
242 COG1794 RacX Aspartate racemas 87.9 4 8.7E-05 39.3 9.3 86 81-196 59-146 (230)
243 PRK09860 putative alcohol dehy 87.3 2.9 6.3E-05 45.1 9.3 88 153-242 20-109 (383)
244 PF12727 PBP_like: PBP superfa 87.3 4.4 9.5E-05 38.9 9.6 68 680-751 81-156 (193)
245 PF03466 LysR_substrate: LysR 86.8 12 0.00025 35.8 12.7 70 492-573 19-88 (209)
246 cd08442 PBP2_YofA_SoxR_like Th 86.4 18 0.00038 33.8 13.6 70 492-573 13-82 (193)
247 cd06533 Glyco_transf_WecG_TagA 85.9 12 0.00027 35.1 11.6 100 148-259 31-132 (171)
248 cd08192 Fe-ADH7 Iron-containin 85.9 6.5 0.00014 42.3 11.1 89 153-243 13-103 (370)
249 PRK15454 ethanol dehydrogenase 85.7 3.9 8.4E-05 44.4 9.2 88 153-242 38-127 (395)
250 cd08189 Fe-ADH5 Iron-containin 85.6 6.9 0.00015 42.2 11.1 90 153-244 15-106 (374)
251 KOG3857 Alcohol dehydrogenase, 84.9 6.5 0.00014 40.1 9.4 96 137-234 39-138 (465)
252 PRK10624 L-1,2-propanediol oxi 84.9 4.7 0.0001 43.6 9.4 88 152-241 18-107 (382)
253 PRK10537 voltage-gated potassi 84.7 3.8 8.2E-05 44.1 8.4 56 619-674 165-222 (393)
254 cd08190 HOT Hydroxyacid-oxoaci 84.5 4.8 0.0001 44.0 9.3 87 153-241 12-100 (414)
255 KOG3713 Voltage-gated K+ chann 84.3 0.98 2.1E-05 48.4 3.6 65 596-664 355-421 (477)
256 TIGR01256 modA molybdenum ABC 84.1 6.9 0.00015 38.3 9.6 40 495-543 9-49 (216)
257 PF13531 SBP_bac_11: Bacterial 83.9 3.7 8E-05 40.7 7.6 74 491-573 10-89 (230)
258 cd08193 HVD 5-hydroxyvalerate 83.7 5.5 0.00012 42.9 9.3 89 153-243 15-105 (376)
259 cd08551 Fe-ADH iron-containing 83.4 6.3 0.00014 42.4 9.6 89 153-243 12-102 (370)
260 PRK10200 putative racemase; Pr 83.3 12 0.00025 37.2 10.7 86 81-195 59-146 (230)
261 cd08459 PBP2_DntR_NahR_LinR_li 83.2 22 0.00049 33.5 12.8 70 492-573 13-82 (201)
262 cd08440 PBP2_LTTR_like_4 TThe 82.9 38 0.00082 31.5 14.2 70 492-573 13-82 (197)
263 TIGR02638 lactal_redase lactal 82.9 6.1 0.00013 42.7 9.2 87 153-241 18-106 (379)
264 cd08420 PBP2_CysL_like C-termi 82.7 42 0.0009 31.3 14.6 70 492-573 13-82 (201)
265 PF01177 Asp_Glu_race: Asp/Glu 82.6 24 0.00053 34.4 12.8 124 91-245 60-198 (216)
266 COG1638 DctP TRAP-type C4-dica 82.5 9.2 0.0002 40.2 10.1 60 680-750 157-216 (332)
267 PF06506 PrpR_N: Propionate ca 82.4 36 0.00077 32.1 13.2 127 81-249 18-145 (176)
268 cd08194 Fe-ADH6 Iron-containin 82.3 7.1 0.00015 42.1 9.5 87 153-241 12-100 (375)
269 PF00465 Fe-ADH: Iron-containi 81.8 7.5 0.00016 41.7 9.5 89 153-245 12-102 (366)
270 PLN03192 Voltage-dependent pot 81.8 3.2 6.9E-05 50.0 7.2 54 622-675 250-305 (823)
271 cd08434 PBP2_GltC_like The sub 81.5 42 0.0009 31.2 13.8 69 492-573 13-82 (195)
272 cd08419 PBP2_CbbR_RubisCO_like 81.4 44 0.00096 31.1 14.0 69 492-573 12-81 (197)
273 PRK05452 anaerobic nitric oxid 81.4 45 0.00098 37.2 15.5 141 100-261 198-348 (479)
274 PF03480 SBP_bac_7: Bacterial 80.8 10 0.00022 39.1 9.8 60 680-750 126-185 (286)
275 cd08438 PBP2_CidR The C-termin 80.2 34 0.00073 31.9 12.7 70 492-573 13-82 (197)
276 PF02608 Bmp: Basic membrane p 80.0 9.1 0.0002 39.9 9.1 89 33-128 128-221 (306)
277 cd08188 Fe-ADH4 Iron-containin 79.8 9.8 0.00021 41.0 9.5 87 152-240 16-104 (377)
278 cd08427 PBP2_LTTR_like_2 The C 79.6 43 0.00093 31.2 13.3 70 492-573 13-84 (195)
279 cd08468 PBP2_Pa0477 The C-term 79.5 38 0.00083 32.0 12.9 73 492-573 13-85 (202)
280 cd08421 PBP2_LTTR_like_1 The C 79.3 55 0.0012 30.6 14.5 70 492-573 13-82 (198)
281 cd08463 PBP2_DntR_like_4 The C 78.8 61 0.0013 30.8 14.2 71 492-573 13-83 (203)
282 cd08429 PBP2_NhaR The C-termin 78.8 30 0.00066 33.1 12.0 72 492-572 13-84 (204)
283 cd08418 PBP2_TdcA The C-termin 78.7 58 0.0012 30.5 14.5 72 492-573 13-84 (201)
284 cd08185 Fe-ADH1 Iron-containin 78.6 11 0.00023 40.8 9.4 88 153-243 15-105 (380)
285 cd08191 HHD 6-hydroxyhexanoate 78.6 19 0.00041 39.0 11.3 88 153-243 12-101 (386)
286 cd08412 PBP2_PAO1_like The C-t 78.1 53 0.0011 30.6 13.4 70 492-573 13-82 (198)
287 cd08176 LPO Lactadehyde:propan 78.1 9.9 0.00022 41.0 8.9 87 153-241 17-105 (377)
288 cd08460 PBP2_DntR_like_1 The C 78.1 18 0.00039 34.2 10.1 69 492-573 13-81 (200)
289 cd08411 PBP2_OxyR The C-termin 78.0 37 0.00079 31.9 12.3 70 492-573 14-83 (200)
290 TIGR02122 TRAP_TAXI TRAP trans 78.0 50 0.0011 34.4 14.2 41 1-41 1-41 (320)
291 cd08453 PBP2_IlvR The C-termin 77.8 50 0.0011 31.0 13.2 73 492-573 13-85 (200)
292 cd08426 PBP2_LTTR_like_5 The C 77.7 45 0.00097 31.2 12.8 70 492-573 13-82 (199)
293 COG1910 Periplasmic molybdate- 77.3 33 0.00072 33.0 10.8 69 680-752 87-163 (223)
294 COG1744 Med Uncharacterized AB 77.2 35 0.00076 36.2 12.4 75 31-111 161-235 (345)
295 cd08461 PBP2_DntR_like_3 The C 77.0 51 0.0011 30.8 12.9 70 492-573 13-82 (198)
296 TIGR00696 wecB_tagA_cpsF bacte 76.9 43 0.00093 31.6 11.6 87 149-245 34-122 (177)
297 PF13407 Peripla_BP_4: Peripla 76.8 6.6 0.00014 39.5 6.9 78 167-248 1-81 (257)
298 cd08433 PBP2_Nac The C-teminal 76.7 66 0.0014 30.0 14.3 70 492-573 13-82 (198)
299 cd08181 PPD-like 1,3-propanedi 76.3 14 0.00031 39.4 9.4 86 153-241 15-103 (357)
300 cd08414 PBP2_LTTR_aromatics_li 76.1 67 0.0014 29.8 14.4 69 493-573 14-82 (197)
301 PRK07475 hypothetical protein; 76.0 15 0.00032 36.9 8.8 122 81-234 62-207 (245)
302 PF13685 Fe-ADH_2: Iron-contai 75.7 14 0.0003 37.1 8.4 100 154-259 9-108 (250)
303 cd08486 PBP2_CbnR The C-termin 75.4 43 0.00092 31.7 11.9 70 492-573 14-83 (198)
304 cd08417 PBP2_Nitroaromatics_li 75.2 59 0.0013 30.4 12.9 70 492-573 13-82 (200)
305 cd07766 DHQ_Fe-ADH Dehydroquin 75.0 23 0.00051 37.4 10.6 100 153-259 12-113 (332)
306 TIGR00363 lipoprotein, YaeC fa 74.9 15 0.00033 37.0 8.7 67 680-753 106-196 (258)
307 cd08170 GlyDH Glycerol dehydro 74.7 12 0.00026 40.0 8.3 85 153-242 12-98 (351)
308 CHL00180 rbcR LysR transcripti 74.7 87 0.0019 32.4 14.8 72 493-573 109-180 (305)
309 cd08182 HEPD Hydroxyethylphosp 74.2 17 0.00036 39.1 9.3 86 153-243 12-99 (367)
310 cd08425 PBP2_CynR The C-termin 74.1 48 0.001 31.0 11.9 70 492-573 14-83 (197)
311 PRK03692 putative UDP-N-acetyl 73.8 40 0.00087 33.6 11.1 88 149-245 91-179 (243)
312 cd08446 PBP2_Chlorocatechol Th 73.8 70 0.0015 29.8 13.0 70 492-573 14-83 (198)
313 cd08415 PBP2_LysR_opines_like 73.7 50 0.0011 30.7 11.9 70 492-573 13-82 (196)
314 cd08436 PBP2_LTTR_like_3 The C 73.4 77 0.0017 29.3 15.3 71 492-573 13-83 (194)
315 cd08456 PBP2_LysR The C-termin 73.3 50 0.0011 30.8 11.8 70 492-573 13-82 (196)
316 cd08448 PBP2_LTTR_aromatics_li 73.3 64 0.0014 30.0 12.5 70 492-573 13-82 (197)
317 cd08451 PBP2_BudR The C-termin 73.2 66 0.0014 30.0 12.6 70 493-573 15-84 (199)
318 PRK11151 DNA-binding transcrip 73.1 95 0.0021 32.1 14.6 70 492-573 104-173 (305)
319 PRK11063 metQ DL-methionine tr 73.1 13 0.00029 37.8 7.8 68 680-753 119-209 (271)
320 cd08450 PBP2_HcaR The C-termin 72.9 52 0.0011 30.6 11.8 70 492-573 13-82 (196)
321 cd06305 PBP1_methylthioribose_ 72.2 17 0.00036 36.9 8.5 78 166-248 1-81 (273)
322 cd08441 PBP2_MetR The C-termin 71.8 87 0.0019 29.2 14.3 69 493-573 14-82 (198)
323 PRK10677 modA molybdate transp 71.8 25 0.00053 35.6 9.4 71 494-573 41-117 (257)
324 PRK12684 transcriptional regul 71.7 99 0.0021 32.2 14.4 85 464-573 92-176 (313)
325 cd08171 GlyDH-like2 Glycerol d 71.7 19 0.00041 38.3 8.9 87 153-243 12-100 (345)
326 cd08413 PBP2_CysB_like The C-t 71.7 72 0.0016 30.0 12.5 71 492-573 13-83 (198)
327 cd08186 Fe-ADH8 Iron-containin 71.3 20 0.00044 38.7 9.2 88 153-242 12-105 (383)
328 cd08437 PBP2_MleR The substrat 71.1 79 0.0017 29.5 12.7 72 492-573 13-84 (198)
329 PRK11233 nitrogen assimilation 71.0 57 0.0012 33.8 12.3 67 493-572 106-173 (305)
330 COG0725 ModA ABC-type molybdat 70.7 42 0.0009 33.9 10.6 90 681-776 123-223 (258)
331 TIGR00070 hisG ATP phosphoribo 70.5 27 0.00058 33.0 8.5 77 681-769 100-176 (182)
332 KOG0498 K+-channel ERG and rel 70.4 7.2 0.00016 45.0 5.6 68 622-689 294-368 (727)
333 cd08458 PBP2_NocR The C-termin 70.4 75 0.0016 29.7 12.3 70 492-573 13-82 (196)
334 cd08466 PBP2_LeuO The C-termin 70.4 87 0.0019 29.2 12.8 70 492-573 13-82 (200)
335 cd08187 BDH Butanol dehydrogen 70.0 22 0.00048 38.4 9.1 85 153-240 18-105 (382)
336 cd08462 PBP2_NodD The C-termin 70.0 66 0.0014 30.2 11.8 69 492-573 13-81 (200)
337 cd08423 PBP2_LTTR_like_6 The C 69.9 94 0.002 28.9 13.1 73 492-573 13-87 (200)
338 PRK15408 autoinducer 2-binding 69.9 21 0.00046 37.7 8.8 82 163-248 22-106 (336)
339 cd08457 PBP2_OccR The C-termin 69.5 86 0.0019 29.3 12.5 69 492-572 13-81 (196)
340 cd08449 PBP2_XapR The C-termin 69.2 86 0.0019 29.1 12.4 72 492-573 13-84 (197)
341 cd08452 PBP2_AlsR The C-termin 69.1 89 0.0019 29.3 12.5 70 492-573 13-82 (197)
342 cd08443 PBP2_CysB The C-termin 68.8 1E+02 0.0022 28.9 13.6 71 492-573 13-83 (198)
343 TIGR03339 phn_lysR aminoethylp 68.7 86 0.0019 31.7 13.0 69 493-573 98-166 (279)
344 cd08467 PBP2_SyrM The C-termin 68.5 1.1E+02 0.0023 28.8 13.0 70 492-573 13-82 (200)
345 PRK09423 gldA glycerol dehydro 68.2 23 0.00049 38.1 8.7 84 153-241 19-104 (366)
346 cd08416 PBP2_MdcR The C-termin 68.1 95 0.0021 28.9 12.5 72 492-573 13-84 (199)
347 PRK11242 DNA-binding transcrip 67.8 1E+02 0.0022 31.6 13.4 70 492-573 104-173 (296)
348 cd08444 PBP2_Cbl The C-termina 67.4 87 0.0019 29.4 12.1 71 492-573 13-83 (198)
349 cd06301 PBP1_rhizopine_binding 67.2 21 0.00046 36.1 8.0 78 166-248 1-82 (272)
350 COG4521 TauA ABC-type taurine 66.7 19 0.00042 35.0 6.7 69 681-755 121-193 (334)
351 cd02071 MM_CoA_mut_B12_BD meth 66.6 49 0.0011 29.0 9.0 68 173-248 8-79 (122)
352 PRK09906 DNA-binding transcrip 66.5 82 0.0018 32.3 12.4 70 492-573 103-172 (296)
353 PRK11063 metQ DL-methionine tr 66.2 15 0.00032 37.5 6.4 57 28-101 29-85 (271)
354 cd06306 PBP1_TorT-like TorT-li 66.0 23 0.0005 35.9 8.0 80 166-248 1-82 (268)
355 cd01537 PBP1_Repressors_Sugar_ 65.9 20 0.00044 35.7 7.5 78 166-248 1-80 (264)
356 cd08469 PBP2_PnbR The C-termin 65.2 98 0.0021 29.6 12.1 70 492-573 13-82 (221)
357 cd08183 Fe-ADH2 Iron-containin 65.2 32 0.0007 37.0 9.2 83 153-242 12-96 (374)
358 cd06312 PBP1_ABC_sugar_binding 65.1 24 0.00053 35.7 8.0 79 166-248 1-83 (271)
359 cd06267 PBP1_LacI_sugar_bindin 64.2 25 0.00054 35.1 7.9 76 167-248 2-79 (264)
360 PRK12680 transcriptional regul 62.6 1.2E+02 0.0025 31.9 12.7 84 465-573 93-176 (327)
361 cd08550 GlyDH-like Glycerol_de 62.5 34 0.00073 36.4 8.6 84 153-241 12-97 (349)
362 PRK09756 PTS system N-acetylga 61.8 64 0.0014 29.8 9.0 80 151-241 17-97 (158)
363 cd06310 PBP1_ABC_sugar_binding 61.8 32 0.00069 34.8 8.1 80 166-248 1-83 (273)
364 COG1464 NlpA ABC-type metal io 61.6 34 0.00074 34.2 7.6 47 30-87 29-75 (268)
365 PRK15116 sulfur acceptor prote 61.6 1.6E+02 0.0035 29.9 12.6 114 45-174 82-208 (268)
366 TIGR02424 TF_pcaQ pca operon t 61.5 1.5E+02 0.0033 30.4 13.3 71 493-573 107-177 (300)
367 cd06302 PBP1_LsrB_Quorum_Sensi 61.0 34 0.00074 35.3 8.3 78 167-248 2-82 (298)
368 cd08445 PBP2_BenM_CatM_CatR Th 60.9 1.3E+02 0.0029 28.1 12.0 70 492-573 14-83 (203)
369 cd08175 G1PDH Glycerol-1-phosp 60.8 40 0.00086 35.9 8.8 87 153-241 12-100 (348)
370 cd08197 DOIS 2-deoxy-scyllo-in 60.8 82 0.0018 33.6 11.0 101 153-258 12-118 (355)
371 PRK10341 DNA-binding transcrip 60.7 1E+02 0.0022 32.1 11.8 71 493-573 111-181 (312)
372 cd08177 MAR Maleylacetate redu 60.6 27 0.00059 36.9 7.5 85 153-242 12-98 (337)
373 TIGR00854 pts-sorbose PTS syst 60.6 61 0.0013 29.6 8.6 81 151-241 13-93 (151)
374 cd00001 PTS_IIB_man PTS_IIB, P 60.3 61 0.0013 29.6 8.6 81 151-241 12-92 (151)
375 PRK12682 transcriptional regul 60.1 1.4E+02 0.0031 30.9 12.8 71 492-573 106-176 (309)
376 PRK12683 transcriptional regul 59.9 1.5E+02 0.0033 30.7 13.0 70 493-573 107-176 (309)
377 PRK00002 aroB 3-dehydroquinate 59.8 86 0.0019 33.5 11.1 92 153-247 20-118 (358)
378 PRK11119 proX glycine betaine 59.5 37 0.0008 35.8 8.1 63 461-546 25-88 (331)
379 PRK11921 metallo-beta-lactamas 59.5 1.5E+02 0.0032 32.2 13.1 101 152-261 235-344 (394)
380 cd01536 PBP1_ABC_sugar_binding 59.2 39 0.00085 33.8 8.3 78 166-248 1-81 (267)
381 cd08430 PBP2_IlvY The C-termin 59.0 1.5E+02 0.0033 27.4 14.1 70 492-573 13-83 (199)
382 PRK00865 glutamate racemase; P 58.8 95 0.0021 31.4 10.7 37 89-125 60-96 (261)
383 PRK09791 putative DNA-binding 58.8 1.4E+02 0.0031 30.7 12.5 86 464-573 94-179 (302)
384 cd08435 PBP2_GbpR The C-termin 58.7 1.5E+02 0.0033 27.4 15.0 71 493-573 14-84 (201)
385 cd08178 AAD_C C-terminal alcoh 58.6 32 0.0007 37.4 7.7 79 162-242 19-99 (398)
386 PRK11425 PTS system N-acetylga 58.2 78 0.0017 29.2 8.9 80 151-241 15-94 (157)
387 cd00755 YgdL_like Family of ac 58.0 1E+02 0.0022 30.6 10.4 117 43-175 61-183 (231)
388 cd06316 PBP1_ABC_sugar_binding 57.1 38 0.00082 34.8 7.8 79 166-248 1-82 (294)
389 cd06289 PBP1_MalI_like Ligand- 57.0 43 0.00093 33.6 8.1 77 167-248 2-80 (268)
390 cd06304 PBP1_BmpA_like Peripla 56.9 1.5E+02 0.0033 29.6 12.1 126 32-166 121-246 (260)
391 cd06282 PBP1_GntR_like_2 Ligan 56.5 46 0.00099 33.4 8.2 77 167-248 2-80 (266)
392 cd01538 PBP1_ABC_xylose_bindin 56.5 56 0.0012 33.5 8.9 77 167-248 2-81 (288)
393 PRK09861 cytoplasmic membrane 56.4 53 0.0011 33.5 8.3 137 495-750 47-207 (272)
394 cd01994 Alpha_ANH_like_IV This 55.9 1.7E+02 0.0038 28.0 11.4 101 109-233 47-147 (194)
395 PF04273 DUF442: Putative phos 55.8 1.2E+02 0.0025 26.1 9.0 86 157-244 21-107 (110)
396 cd06277 PBP1_LacI_like_1 Ligan 55.5 62 0.0013 32.5 9.0 75 167-248 2-81 (268)
397 PRK11013 DNA-binding transcrip 55.4 1.7E+02 0.0038 30.2 12.5 70 492-573 107-176 (309)
398 PRK09508 leuO leucine transcri 55.3 89 0.0019 32.5 10.3 69 492-573 125-194 (314)
399 TIGR02370 pyl_corrinoid methyl 55.2 92 0.002 30.0 9.4 88 165-260 85-176 (197)
400 cd01545 PBP1_SalR Ligand-bindi 54.7 51 0.0011 33.1 8.2 78 167-248 2-81 (270)
401 cd06300 PBP1_ABC_sugar_binding 54.6 53 0.0011 33.1 8.3 80 166-248 1-86 (272)
402 PRK12681 cysB transcriptional 54.6 1.9E+02 0.0041 30.3 12.7 85 464-573 92-176 (324)
403 cd01391 Periplasmic_Binding_Pr 54.2 51 0.0011 32.5 8.1 78 166-248 1-83 (269)
404 cd08179 NADPH_BDH NADPH-depend 54.0 33 0.00071 37.0 6.8 78 162-241 21-101 (375)
405 cd08447 PBP2_LTTR_aromatics_li 54.0 1.8E+02 0.004 26.8 12.2 69 492-572 13-81 (198)
406 TIGR03414 ABC_choline_bnd chol 53.9 94 0.002 32.1 9.9 40 495-543 24-63 (290)
407 cd06322 PBP1_ABC_sugar_binding 53.9 57 0.0012 32.8 8.4 77 167-248 2-81 (267)
408 TIGR00249 sixA phosphohistidin 53.7 72 0.0016 29.2 8.1 96 145-245 24-121 (152)
409 COG0426 FpaA Uncharacterized f 53.5 3.1E+02 0.0068 29.4 13.8 142 100-263 195-343 (388)
410 TIGR01098 3A0109s03R phosphate 53.4 31 0.00068 34.5 6.3 20 211-230 182-201 (254)
411 cd06303 PBP1_LuxPQ_Quorum_Sens 53.0 47 0.001 33.8 7.7 82 166-248 1-85 (280)
412 cd01540 PBP1_arabinose_binding 52.8 44 0.00096 34.1 7.5 77 166-248 1-80 (289)
413 PRK12679 cbl transcriptional r 52.6 2.4E+02 0.0052 29.3 13.1 84 465-573 93-176 (316)
414 PRK10837 putative DNA-binding 52.6 2.7E+02 0.0058 28.3 14.5 69 492-573 102-171 (290)
415 cd08180 PDD 1,3-propanediol de 52.5 37 0.00081 35.8 6.9 79 160-241 18-98 (332)
416 cd02067 B12-binding B12 bindin 52.4 1.3E+02 0.0029 25.9 9.3 66 174-247 9-78 (119)
417 PF00448 SRP54: SRP54-type pro 52.2 1.2E+02 0.0026 29.1 9.7 65 164-233 29-93 (196)
418 PRK02261 methylaspartate mutas 52.2 1.8E+02 0.0038 26.1 10.6 86 165-259 4-93 (137)
419 PRK14498 putative molybdopteri 52.1 57 0.0012 38.0 8.9 66 163-233 185-262 (633)
420 cd06299 PBP1_LacI_like_13 Liga 52.1 66 0.0014 32.2 8.5 76 167-248 2-79 (265)
421 PF03830 PTSIIB_sorb: PTS syst 51.7 31 0.00068 31.5 5.3 82 151-242 13-94 (151)
422 cd06167 LabA_like LabA_like pr 51.5 1.8E+02 0.004 26.1 11.3 68 179-248 52-124 (149)
423 TIGR00315 cdhB CO dehydrogenas 51.4 1.9E+02 0.0042 26.7 10.3 41 95-135 28-70 (162)
424 COG2247 LytB Putative cell wal 51.3 2.9E+02 0.0063 28.5 12.1 121 98-249 30-156 (337)
425 cd06320 PBP1_allose_binding Pe 51.3 61 0.0013 32.7 8.2 80 166-248 1-83 (275)
426 PRK11303 DNA-binding transcrip 51.0 86 0.0019 32.7 9.5 80 164-248 61-142 (328)
427 PF02310 B12-binding: B12 bind 50.8 1.3E+02 0.0028 25.9 9.0 49 175-231 11-59 (121)
428 PF07287 DUF1446: Protein of u 50.8 3.4E+02 0.0073 29.0 13.7 113 43-189 7-120 (362)
429 cd06318 PBP1_ABC_sugar_binding 50.7 57 0.0012 33.1 7.9 78 166-248 1-81 (282)
430 cd06281 PBP1_LacI_like_5 Ligan 50.7 68 0.0015 32.3 8.4 77 167-248 2-80 (269)
431 PRK10014 DNA-binding transcrip 50.3 89 0.0019 32.9 9.5 80 164-248 64-145 (342)
432 TIGR02637 RhaS rhamnose ABC tr 49.8 65 0.0014 33.2 8.2 77 168-248 2-82 (302)
433 PRK00945 acetyl-CoA decarbonyl 49.8 1.4E+02 0.003 28.0 9.1 115 96-220 36-168 (171)
434 PRK10936 TMAO reductase system 49.2 75 0.0016 33.7 8.6 81 164-248 46-129 (343)
435 PRK09986 DNA-binding transcrip 48.9 3E+02 0.0064 28.0 13.0 70 494-573 112-181 (294)
436 PLN02245 ATP phosphoribosyl tr 48.8 41 0.00089 35.9 6.2 26 525-550 120-145 (403)
437 PF01007 IRK: Inward rectifier 48.4 60 0.0013 34.2 7.4 58 621-678 83-144 (336)
438 PRK09701 D-allose transporter 48.3 84 0.0018 32.7 8.8 84 162-248 22-108 (311)
439 cd08173 Gro1PDH Sn-glycerol-1- 48.2 83 0.0018 33.3 8.7 82 154-241 14-98 (339)
440 PF00532 Peripla_BP_1: Peripla 46.9 49 0.0011 33.9 6.5 77 165-248 2-80 (279)
441 cd01539 PBP1_GGBP Periplasmic 46.6 89 0.0019 32.3 8.6 78 166-248 1-83 (303)
442 cd06315 PBP1_ABC_sugar_binding 46.2 1.1E+02 0.0023 31.1 9.1 79 165-248 1-82 (280)
443 PRK11914 diacylglycerol kinase 45.6 1E+02 0.0022 32.1 8.8 80 160-245 4-86 (306)
444 KOG0025 Zn2+-binding dehydroge 45.4 1.5E+02 0.0033 30.1 9.0 97 138-247 161-257 (354)
445 KOG3684 Ca2+-activated K+ chan 45.4 17 0.00037 38.8 2.7 64 619-682 284-349 (489)
446 cd08169 DHQ-like Dehydroquinat 45.3 1.8E+02 0.004 30.8 10.7 100 153-258 12-117 (344)
447 COG4143 TbpA ABC-type thiamine 45.2 1.5E+02 0.0033 30.6 9.3 70 28-112 24-97 (336)
448 PRK13010 purU formyltetrahydro 45.1 3.6E+02 0.0079 27.7 12.9 75 97-174 11-103 (289)
449 KOG0780 Signal recognition par 45.1 2.6E+02 0.0057 29.8 11.0 102 152-259 118-222 (483)
450 PRK10653 D-ribose transporter 45.0 1.4E+02 0.003 30.6 9.8 81 163-248 25-108 (295)
451 PRK11062 nhaR transcriptional 45.0 1.9E+02 0.004 29.8 10.7 73 492-573 106-178 (296)
452 cd06270 PBP1_GalS_like Ligand 45.0 1E+02 0.0022 30.9 8.6 76 167-248 2-79 (268)
453 cd06273 PBP1_GntR_like_1 This 44.9 98 0.0021 31.0 8.5 76 167-248 2-79 (268)
454 cd08464 PBP2_DntR_like_2 The C 44.9 2.6E+02 0.0055 25.9 12.4 70 492-573 13-82 (200)
455 TIGR02417 fruct_sucro_rep D-fr 44.9 1.4E+02 0.003 31.2 9.8 81 163-248 59-141 (327)
456 cd01574 PBP1_LacI Ligand-bindi 44.9 1E+02 0.0022 30.7 8.6 77 167-248 2-80 (264)
457 TIGR02667 moaB_proteo molybden 44.8 1.3E+02 0.0029 27.8 8.4 66 164-233 4-73 (163)
458 KOG1545 Voltage-gated shaker-l 44.8 7.2 0.00016 39.9 -0.0 44 617-660 388-433 (507)
459 PF00205 TPP_enzyme_M: Thiamin 44.6 24 0.00053 31.5 3.4 57 87-144 2-62 (137)
460 PF13380 CoA_binding_2: CoA bi 44.5 31 0.00067 29.9 3.9 86 165-259 1-88 (116)
461 cd06317 PBP1_ABC_sugar_binding 44.5 90 0.0019 31.4 8.1 77 167-248 2-82 (275)
462 COG0426 FpaA Uncharacterized f 44.5 4.3E+02 0.0093 28.4 15.9 150 32-198 213-363 (388)
463 PRK05569 flavodoxin; Provision 44.4 1.7E+02 0.0037 26.0 9.1 85 165-262 2-95 (141)
464 cd06321 PBP1_ABC_sugar_binding 44.0 90 0.0019 31.4 8.0 77 167-248 2-83 (271)
465 cd08428 PBP2_IciA_ArgP The C-t 43.6 2.7E+02 0.0058 25.7 10.9 65 494-571 15-79 (195)
466 cd06295 PBP1_CelR Ligand bindi 43.6 1.1E+02 0.0025 30.7 8.8 77 164-248 3-88 (275)
467 PRK10481 hypothetical protein; 43.4 2.2E+02 0.0048 28.0 9.9 75 156-236 120-195 (224)
468 cd06323 PBP1_ribose_binding Pe 43.3 89 0.0019 31.2 7.9 77 167-248 2-81 (268)
469 COG1922 WecG Teichoic acid bio 43.1 1.6E+02 0.0034 29.5 8.9 98 150-260 95-195 (253)
470 cd08549 G1PDH_related Glycerol 43.1 1E+02 0.0022 32.6 8.3 85 153-241 12-100 (332)
471 cd06324 PBP1_ABC_sugar_binding 43.0 84 0.0018 32.5 7.8 77 167-248 2-83 (305)
472 PRK10355 xylF D-xylose transpo 42.8 1.2E+02 0.0026 31.8 9.0 80 164-248 25-107 (330)
473 COG1179 Dinucleotide-utilizing 42.7 1.1E+02 0.0024 30.3 7.5 99 43-157 80-179 (263)
474 cd06296 PBP1_CatR_like Ligand- 42.4 1E+02 0.0022 30.9 8.1 76 167-248 2-79 (270)
475 cd06319 PBP1_ABC_sugar_binding 42.4 98 0.0021 31.2 8.1 78 166-248 1-81 (277)
476 cd08195 DHQS Dehydroquinate sy 42.2 2.5E+02 0.0055 29.7 11.3 100 155-259 14-120 (345)
477 PF12683 DUF3798: Protein of u 42.1 1.5E+02 0.0032 29.8 8.5 100 148-257 15-138 (275)
478 cd01542 PBP1_TreR_like Ligand- 42.0 1.1E+02 0.0024 30.4 8.3 76 167-248 2-79 (259)
479 PRK15421 DNA-binding transcrip 41.8 4.2E+02 0.0092 27.5 13.3 68 494-573 104-171 (317)
480 PRK07377 hypothetical protein; 41.7 68 0.0015 30.0 5.7 61 465-542 75-135 (184)
481 cd06314 PBP1_tmGBP Periplasmic 41.6 88 0.0019 31.5 7.5 77 167-248 2-80 (271)
482 cd06307 PBP1_uncharacterized_s 41.5 90 0.002 31.5 7.6 80 166-248 1-84 (275)
483 cd08485 PBP2_ClcR The C-termin 41.3 3E+02 0.0065 25.6 12.1 69 492-572 14-82 (198)
484 PRK05723 flavodoxin; Provision 41.2 1.8E+02 0.0039 26.6 8.5 79 166-257 2-91 (151)
485 cd02070 corrinoid_protein_B12- 41.0 2.4E+02 0.0053 27.1 10.0 87 165-259 83-173 (201)
486 cd00758 MoCF_BD MoCF_BD: molyb 40.8 1.2E+02 0.0025 27.0 7.2 47 181-232 21-67 (133)
487 PF00218 IGPS: Indole-3-glycer 40.8 2.1E+02 0.0045 28.8 9.5 88 152-249 70-160 (254)
488 PRK00843 egsA NAD(P)-dependent 40.5 1.2E+02 0.0026 32.3 8.4 83 153-241 22-107 (350)
489 TIGR00640 acid_CoA_mut_C methy 40.4 1.7E+02 0.0037 26.0 8.0 62 179-248 17-82 (132)
490 cd00886 MogA_MoaB MogA_MoaB fa 40.4 1.4E+02 0.0031 27.2 7.8 64 166-233 2-71 (152)
491 cd06285 PBP1_LacI_like_7 Ligan 40.2 1.3E+02 0.0029 29.9 8.6 76 167-248 2-79 (265)
492 PRK03635 chromosome replicatio 40.2 2.5E+02 0.0055 28.7 10.8 65 495-572 106-170 (294)
493 COG0563 Adk Adenylate kinase a 40.2 62 0.0013 30.6 5.5 29 98-126 3-31 (178)
494 PRK13054 lipid kinase; Reviewe 40.1 1.6E+02 0.0034 30.5 9.2 76 165-246 4-79 (300)
495 cd01575 PBP1_GntR Ligand-bindi 40.0 1.2E+02 0.0026 30.3 8.2 76 167-248 2-79 (268)
496 cd08184 Fe-ADH3 Iron-containin 39.9 1.5E+02 0.0033 31.5 9.0 84 153-242 12-102 (347)
497 cd06354 PBP1_BmpA_PnrA_like Pe 39.6 4E+02 0.0087 26.6 13.8 120 32-157 122-241 (265)
498 cd06278 PBP1_LacI_like_2 Ligan 39.4 1.2E+02 0.0025 30.3 8.0 75 167-248 2-78 (266)
499 cd06274 PBP1_FruR Ligand bindi 39.3 1.3E+02 0.0029 30.0 8.4 76 167-248 2-79 (264)
500 TIGR01357 aroB 3-dehydroquinat 39.2 2.5E+02 0.0053 29.8 10.6 97 155-258 13-115 (344)
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=1.4e-80 Score=629.12 Aligned_cols=695 Identities=19% Similarity=0.309 Sum_probs=568.0
Q ss_pred CCceEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCC-CCEEEEEEccCC-CChHHHHHHHHHHHhcCcEEEEcCCC
Q 004042 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILH-GTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQC 105 (777)
Q Consensus 28 ~~~~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~-g~~i~~~~~D~~-~~~~~a~~~a~~l~~~~v~aviGp~~ 105 (777)
-+.+|.||.+||.... +...|+++|+...|.+..--. -.+|..++..-. .+....+.++|...++||.||+|-+.
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 FPNTIQIGGLFPRNTD---QEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLESANSFAVTNAFCSQFSRGVYAIFGFYD 99 (897)
T ss_pred CCCceeeccccCCcch---HHHHHHHHHHHHhhcCCCCCCCCcccccccchhhhhhhHHHHHHHHHHHhhhHhhheeccc
Confidence 4678999999999864 567889999988887543210 145555444322 46777888999999999999999999
Q ss_pred hhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHH
Q 004042 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (777)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~ 185 (777)
.-....+..+|....+|+|+++... +...++..++.|+- -.++++++.|++|.++.++| |.+-|....+.+-
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 9999999999999999999876522 22346788888874 48999999999999999999 5556788889999
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (777)
+.+.++++.|.+...-.+. +...++.+++.+.....+.|++.|..+....++.++-+.+-...+|++++.+..-...
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 9999999998876544333 3556999999999989999999999988888888888887777899999987543333
Q ss_pred cCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcC------CCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcc
Q 004042 266 DSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (777)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~ 339 (777)
+. +.+.....++.+++..+.+++..++|.++|++... ...++...++++|||+.++++|++.+.++..+.
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 33 33445566789999999999999999999988653 335677789999999999999999998776543
Q ss_pred cccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEEEEEeCCCC
Q 004042 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSG 419 (777)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~g 419 (777)
.. .+..|+| ...+..+|.+|..|.++|+++.++|+||+|.||..|.|.+.+.+|+++..++-.++|.|+..+|
T Consensus 325 ~r------RG~~GD~-~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e~~~ 397 (897)
T KOG1054|consen 325 SR------RGNAGDC-LANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNEGEG 397 (897)
T ss_pred hc------cCCCccc-cCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeecccCc
Confidence 21 1223333 3345788999999999999999999999999999999999999999999999999999999988
Q ss_pred CccCCCcccccCCCCCCccccccceeeeCCCCCCCCCcceecCCCceeEEeecCCCcccceeee---ccCCcceeeeeHH
Q 004042 420 LSKEPPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVFPNNGKLLKIGVPNRASYREFVSK---VRGSDMFQGFCID 496 (777)
Q Consensus 420 l~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~~~~l~v~~~~~~~~~~~~~~---~~~~~~~~G~~~d 496 (777)
+...... .+.++. ....+.++.+|.+....||..+.+. -+|+++++|||+|
T Consensus 398 fv~~~t~-------------a~~~~d-------------~~~~~n~tvvvttiL~spyvm~kkn~~~~egn~ryEGyCvd 451 (897)
T KOG1054|consen 398 FVPGSTV-------------AQSRND-------------QASKENRTVVVTTILESPYVMLKKNHEQLEGNERYEGYCVD 451 (897)
T ss_pred eeecccc-------------cccccc-------------ccccccceEEEEEecCCchhHHHhhHHHhcCCcccceeHHH
Confidence 6443110 000000 0011345666666665566554432 2478999999999
Q ss_pred HHHHHHHHCCCeecEEEEecC-CCC--CCCC-hhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEecc
Q 004042 497 VFTAAVNLLPYAVPYQFVAFG-DGH--KNPS-YTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (777)
Q Consensus 497 l~~~l~~~l~f~~~~~~~~~~-~~~--~~~~-~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~ 572 (777)
|+.+||++.+.+|++.+...+ +|. .+++ |+||+++|..|++|++++++++|.+|++.+|||.|++.+++.|+++||
T Consensus 452 La~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIKKP 531 (897)
T KOG1054|consen 452 LAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIKKP 531 (897)
T ss_pred HHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEeCc
Confidence 999999999998666665433 343 3455 999999999999999999999999999999999999999999999999
Q ss_pred C-CCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCc-------------ccchhhHHHHHhhhhhccC
Q 004042 573 K-LNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPP-------------KRQVITILWFSLSTLFFAH 638 (777)
Q Consensus 573 ~-~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~ 638 (777)
+ ..+..+.|+.|+..++|+|++..++.++++++++.|++|++|+.+. .+++.||+|+++++++|||
T Consensus 532 qKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFMQQG 611 (897)
T KOG1054|consen 532 QKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFMQQG 611 (897)
T ss_pred ccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHHhcC
Confidence 9 7899999999999999999999999999999999999999885432 3569999999999999999
Q ss_pred cC-cccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCC-eEEeeCchHHHHHHhhhccccc
Q 004042 639 KE-NTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDP-IGYQEGSFAEYYLSQELNISKS 716 (777)
Q Consensus 639 ~~-~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~-i~~~~~~~~~~~~~~~~~~~~~ 716 (777)
++ .||+.|+|++.++||||+||++++|||||+||||+.++.+||.|.+||.+|.+. +|+..++++.+||++..-.-..
T Consensus 612 ~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr~Skiavy~ 691 (897)
T KOG1054|consen 612 CDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRRSKIAVYE 691 (897)
T ss_pred CCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHhhhhHHHHH
Confidence 88 899999999999999999999999999999999999999999999999988885 9999999999999754433345
Q ss_pred ccccc----------CCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhC-CCCeEEecccccccceEEEe
Q 004042 717 RLVAL----------RTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSS-QCSFRIVGQEFTKSGWGFVS 776 (777)
Q Consensus 717 ~~~~~----------~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~-~~~l~~~~~~~~~~~~g~~~ 776 (777)
+||.| .+..|++.+|++. ++.|||+.+...-+|..++ .|+-..+|..+.+.|||||.
T Consensus 692 kMW~yM~SaepsVFv~t~aeGv~rVRks---KGkyAfLLEsTmNey~eqRkPCDTMKVGgNLds~GYGiAT 759 (897)
T KOG1054|consen 692 KMWTYMKSAEPSVFVRTTAEGVARVRKS---KGKYAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIAT 759 (897)
T ss_pred HHHHHHhcCCcceeeehhhhHHHHHHhc---CCceEeehHhhhhhhhhccCCccceecccccCCcceeecC
Confidence 66653 4778889998875 8899999999999998764 79999999999999999985
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=9.2e-76 Score=596.74 Aligned_cols=669 Identities=24% Similarity=0.393 Sum_probs=547.8
Q ss_pred CCCCceEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCC--ChHHHHHHHH-HHHhcCcEEEEc
Q 004042 26 SARPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC--SGFIGMVEAL-RFMETDIVAIIG 102 (777)
Q Consensus 26 ~~~~~~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~--~~~~a~~~a~-~l~~~~v~aviG 102 (777)
+..+.+++||.++.-. ..+.-+.-++.++|++.+ ..++.+....... ++.+.+-.+| +|++..|.+|+-
T Consensus 30 ~~np~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~---s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~v 101 (993)
T KOG4440|consen 30 ACNPKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHG---SWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLV 101 (993)
T ss_pred CCCccceeeeeeeech-----hHHHHHHHHHHHhhcccc---ceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEe
Confidence 4567899999998864 367788889999997652 3566654333223 4555555666 567778888875
Q ss_pred --CCChh---HHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCcc
Q 004042 103 --PQCST---VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEY 176 (777)
Q Consensus 103 --p~~s~---~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~ 176 (777)
|.+|. .-.+++..++.++||++.....+..+++ +-|+.|.|+.|+.++++.+..+++..+.|++|.++.++|.-
T Consensus 102 Sh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~~ 181 (993)
T KOG4440|consen 102 SHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDHE 181 (993)
T ss_pred cCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEccccc
Confidence 22222 2345667788999999999999999999 56899999999999999999999999999999999999998
Q ss_pred ccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004042 177 GRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (777)
Q Consensus 177 g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i 256 (777)
|.....+++...++...++.....+.++ ..++...+-++|...++++++..+.+++..++++|-.++|++.+|+||
T Consensus 182 gra~~~r~qt~~e~~~~~~e~v~~f~p~----~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnmTG~G~VWi 257 (993)
T KOG4440|consen 182 GRAAQKRLQTLLEERESKAEKVLQFDPG----TKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNMTGSGYVWI 257 (993)
T ss_pred chhHHhHHHHHHHHHhhhhhhheecCcc----cchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcccCceEEEE
Confidence 8888778887777766666666677777 788999999999999999999999999999999999999999999999
Q ss_pred EeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcC
Q 004042 257 ATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (777)
Q Consensus 257 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~ 336 (777)
.+....... ....|+++.+..+.. ...++.-|++.+++.|++++++..
T Consensus 258 V~E~a~~~n----------n~PdG~LGlqL~~~~----------------------~~~~hirDsv~vlasAv~e~~~~e 305 (993)
T KOG4440|consen 258 VGERAISGN----------NLPDGILGLQLINGK----------------------NESAHIRDSVGVLASAVHELLEKE 305 (993)
T ss_pred EeccccccC----------CCCCceeeeEeecCc----------------------cccceehhhHHHHHHHHHHHHhhc
Confidence 987533221 236788888775421 124667899999999999998753
Q ss_pred CcccccCCccccccCCCCcccCCccccCchhHHHHHHHccc-ccCceeeEEEecCCCcccceEEEEEee-cCceEEEEEE
Q 004042 337 GKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGYW 414 (777)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~tG~v~fd~~g~r~~~~~~I~~~~-~~~~~~vg~w 414 (777)
.-- ..+..||++...|..+..+.+.+...+ -+|.||.|.|+++|+|....|+|+|+. +.+.+-+|.|
T Consensus 306 ~I~-----------~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~y 374 (993)
T KOG4440|consen 306 NIT-----------DPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGIY 374 (993)
T ss_pred cCC-----------CCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhccc
Confidence 221 122347888899998999988888765 579999999999999999999999994 5555556666
Q ss_pred eCCCCCccCCCcccccCCCCCCccccccceeeeCCCCCCCCCcceecCCCceeEEeecCCCcccceeee--cc-------
Q 004042 415 SNYSGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVFPNNGKLLKIGVPNRASYREFVSK--VR------- 485 (777)
Q Consensus 415 ~~~~gl~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~~~~l~v~~~~~~~~~~~~~~--~~------- 485 (777)
+.- ... .+-+.|+|||+.++.|+++..| .+||+.+.+++||. |... .+
T Consensus 375 d~~---r~~----------------~nd~~IiWpGg~~~KP~gi~~p---thLrivTi~~~PFV-Yv~p~~sd~~c~eef 431 (993)
T KOG4440|consen 375 DGT---RVI----------------PNDRKIIWPGGETEKPRGIQMP---THLRIVTIHQEPFV-YVKPTLSDGTCKEEF 431 (993)
T ss_pred cce---eec----------------cCCceeecCCCCcCCCcccccc---ceeEEEEeccCCeE-EEecCCCCcchhhhc
Confidence 432 221 2346899999999999999987 46999999988865 2221 00
Q ss_pred --------------------C------CcceeeeeHHHHHHHHHHCCCeecEEEEecCC-CC----------CCCChhHH
Q 004042 486 --------------------G------SDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGD-GH----------KNPSYTQL 528 (777)
Q Consensus 486 --------------------~------~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~-~~----------~~~~~~~~ 528 (777)
+ ..|+.|+|+||+-+|+..+||+|+..+...+. |. ...+|+|+
T Consensus 432 ~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~G~ 511 (993)
T KOG4440|consen 432 TVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWNGM 511 (993)
T ss_pred cccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccceehhh
Confidence 0 23899999999999999999998888877552 11 22479999
Q ss_pred HHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeee
Q 004042 529 VDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILE 608 (777)
Q Consensus 529 ~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~ 608 (777)
|++|..|++||+++++++++||.++++||.||...+++|+.+++.+.+....|++||+.++|+++++++.++++++++++
T Consensus 512 iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYlLD 591 (993)
T KOG4440|consen 512 IGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYLLD 591 (993)
T ss_pred hhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCC-CCC-------cccchhhHHHHHhhhhhccCc--CcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccc
Q 004042 609 HRINDEF-RGP-------PKRQVITILWFSLSTLFFAHK--ENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQL 678 (777)
Q Consensus 609 ~~~~~~~-~~~-------~~~~~~~~~~~~~~~~~~~~~--~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~ 678 (777)
|++|.+. +.. ...++...+||+||.++..|- ..|||.|.|++.++|+-|++|++++|||||+|||..++.
T Consensus 592 rfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdrP 671 (993)
T KOG4440|consen 592 RFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDRP 671 (993)
T ss_pred hcCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeecCc
Confidence 9999853 222 235689999999999998873 389999999999999999999999999999999999999
Q ss_pred cCCCCChhhhh--hC--CCCeEEeeCchHHHHHHhhhcccc--cccc--ccCCHHHHHHHHhcCCCCCCceEEEecchhh
Q 004042 679 YSPINGIESLR--KS--DDPIGYQEGSFAEYYLSQELNISK--SRLV--ALRTPEDYAKALKDGPGKGGVAAVVDERPYV 750 (777)
Q Consensus 679 ~~~i~s~~dl~--~~--~~~i~~~~~~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~ 750 (777)
+..+.++.|-. +. +...|.+++|+.+.||+++-+... ++|. .|.+.+|++.+|++ |+.+|||.|+..+
T Consensus 672 e~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~----gkL~AFIWDS~rL 747 (993)
T KOG4440|consen 672 EERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRD----GKLHAFIWDSARL 747 (993)
T ss_pred cccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHc----CceeEEEeeccee
Confidence 99999999944 32 335899999999999976443321 2332 25678899999999 9999999999999
Q ss_pred HHHhhCCCCeEEecccccccceEEEe
Q 004042 751 ELFLSSQCSFRIVGQEFTKSGWGFVS 776 (777)
Q Consensus 751 ~~~~~~~~~l~~~~~~~~~~~~g~~~ 776 (777)
+|-..+.|.|.+.|+.|+..+||||.
T Consensus 748 EfEAs~~CeLvT~GeLFgRSgyGIGl 773 (993)
T KOG4440|consen 748 EFEASQKCELVTTGELFGRSGYGIGL 773 (993)
T ss_pred eehhhcccceEecccccccccccccc
Confidence 99999999999999999999999985
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=1.3e-68 Score=564.45 Aligned_cols=626 Identities=20% Similarity=0.336 Sum_probs=496.7
Q ss_pred CCChHHHHHHHHHHHhc-CcEEEEcCCChh---HHHHHHHhhccCCceEEecccCCC-CCCCC-CCCceEEecCCchHHH
Q 004042 79 NCSGFIGMVEALRFMET-DIVAIIGPQCST---VAHIVSYVSNELQVPLLSFGVTDP-TLSSL-QYPFFVRTTQSDSYQM 152 (777)
Q Consensus 79 ~~~~~~a~~~a~~l~~~-~v~aviGp~~s~---~~~~va~~~~~~~iP~Is~~a~~~-~l~~~-~~~~~~r~~p~~~~~~ 152 (777)
..||..-++..|+++.. +|.+|+--..|. +++.+--++....||+|+....+. .++++ ....++++.|+-++++
T Consensus 82 ~tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieqqa 161 (1258)
T KOG1053|consen 82 TTDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQQA 161 (1258)
T ss_pred CCCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHHHH
Confidence 47999999999999976 888777544443 334444566788999999876554 34453 3457999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhc--ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEe
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~ 230 (777)
+++.++|+.++|..+++|.+..+........+++..... |+++.......+. ..++..-...++|+-++.||+++
T Consensus 162 ~Vml~iL~~ydW~~Fs~vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s---~~d~~a~~q~qLkki~a~Villy 238 (1258)
T KOG1053|consen 162 QVMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPS---TDDLLAKLQAQLKKIQAPVILLY 238 (1258)
T ss_pred HHHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCC---CCchHHHHHHHHHhcCCcEEEEE
Confidence 999999999999999999998888888888888877765 6666665566554 23333444455555568999999
Q ss_pred cChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCCC
Q 004042 231 VSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLG 310 (777)
Q Consensus 231 ~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 310 (777)
|+.+++..++..|+++|+++++|+||++...... + +.-.+...|++.+... ..
T Consensus 239 C~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~-~-----~~pa~~P~GLisv~~~---------------------~w 291 (1258)
T KOG1053|consen 239 CSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL-E-----PRPAEFPLGLISVSYD---------------------TW 291 (1258)
T ss_pred ecHHHHHHHHHHHHhcCCcCCceEEEeehhccCC-C-----CCCccCccceeeeecc---------------------ch
Confidence 9999999999999999999999999997654321 0 1112456677766542 12
Q ss_pred CCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCcc--ccCchhHHHHHHHcccccCceeeEEEe
Q 004042 311 MNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMS--IFDDGMLLLGNILQSNLVGLTGPLKFN 388 (777)
Q Consensus 311 ~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~l~~~~f~G~tG~v~fd 388 (777)
...+...+-|+|.+++.|...+....+.++.++ ..|.... ....++.+.+.|.|+.|+| +.++|+
T Consensus 292 ~~~l~~rVrdgvaiva~aa~s~~~~~~~lp~~~-----------~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf~ 358 (1258)
T KOG1053|consen 292 RYSLEARVRDGVAIVARAASSMLRIHGFLPEPK-----------MDCREQEETRLTSGETLHRFLANVTWDG--RDLSFN 358 (1258)
T ss_pred hhhHHHHHhhhHHHHHHHHHHHHhhcccCCCcc-----------cccccccCccccchhhhhhhhheeeecc--cceeec
Confidence 234567889999999999999988766544332 2344322 2234889999999999999 779999
Q ss_pred cCCCcccceEEEEEee-cCceEEEEEEeCCCCCccCCCcccccCCCCCCccccccceeeeCCCCCCCCCcceecCCCcee
Q 004042 389 SDRSLIHAAYDIINVI-GTGFRMIGYWSNYSGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVFPNNGKLL 467 (777)
Q Consensus 389 ~~g~r~~~~~~I~~~~-~~~~~~vg~w~~~~gl~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~~~~l 467 (777)
++|...+....++... +..|++||.|...+ | .++..+||.-. +..++.+. ..+|
T Consensus 359 ~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L--------------------~M~y~vWPr~~---~~~q~~~d-~~HL 413 (1258)
T KOG1053|consen 359 EDGYLVHPNLVVIDLNRDRTWERVGSWENGT-L--------------------VMKYPVWPRYH---KFLQPVPD-KLHL 413 (1258)
T ss_pred CCceeeccceEEEecCCCcchheeceecCCe-E--------------------EEecccccccc---CccCCCCC-ccee
Confidence 9998788888877776 45699999998764 3 34567888322 23333333 3578
Q ss_pred EEeecCCCcccceeeecc-------------------------C----CcceeeeeHHHHHHHHHHCCCeecEEEEecC-
Q 004042 468 KIGVPNRASYREFVSKVR-------------------------G----SDMFQGFCIDVFTAAVNLLPYAVPYQFVAFG- 517 (777)
Q Consensus 468 ~v~~~~~~~~~~~~~~~~-------------------------~----~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~- 517 (777)
+|.+.+++||......|. . +.|+.|||+||+++|++..||+|+.+++..+
T Consensus 414 ~VvTLeE~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~FtYDLYlVtnGK 493 (1258)
T KOG1053|consen 414 TVVTLEERPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFTYDLYLVTNGK 493 (1258)
T ss_pred EEEEeccCCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcceEEEEecCCc
Confidence 888888877654332221 0 3489999999999999999999777766655
Q ss_pred CCC-CCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHH
Q 004042 518 DGH-KNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACF 596 (777)
Q Consensus 518 ~~~-~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~ 596 (777)
+|+ .||.|+|||++|..+++||+++++++++||.+.||||.||..+++.++|++.+....+.+||.||++.||+.++++
T Consensus 494 hGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWVmmFVm 573 (1258)
T KOG1053|consen 494 HGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWVMMFVM 573 (1258)
T ss_pred ccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHHHHHHH
Confidence 455 7899999999999999999999999999999999999999999999999999999999999999999999998888
Q ss_pred HHHHHh-hheeeecccCCCCCCC---------cccchhhHHHHHhhhhhccCc--CcccCchhHHHHHHHHHHHHHHHhH
Q 004042 597 FVVVGI-VVWILEHRINDEFRGP---------PKRQVITILWFSLSTLFFAHK--ENTVSTLGRLVLIIWLFVVLIINSS 664 (777)
Q Consensus 597 ~~~~~~-~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~--~~p~~~~~R~~~~~~~~~~lv~~~~ 664 (777)
+++++. .++++|+++|..+... +.+++..++|+.|+.+|.+.. +.|+++.+|+++.+|.||++++.++
T Consensus 574 ~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAfFavifLAs 653 (1258)
T KOG1053|consen 574 CLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAFFAVIFLAS 653 (1258)
T ss_pred HHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHHHHHHHHHH
Confidence 886655 5679999998765321 367899999999999998864 4899999999999999999999999
Q ss_pred hhHhHHHhhhhccccCCCCChhhhhhC-------CCCeEEeeCchHHHHHHhhhcccccccccc--CCHHHHHHHHhcCC
Q 004042 665 YTASLTSILTVQQLYSPINGIESLRKS-------DDPIGYQEGSFAEYYLSQELNISKSRLVAL--RTPEDYAKALKDGP 735 (777)
Q Consensus 665 Y~a~L~s~l~~~~~~~~i~s~~dl~~~-------~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~~ 735 (777)
|||||+|||...++..++.++.|-+-+ ..++|++.+++++++.+++...-...|+.| ...+++++.||+
T Consensus 654 YTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~Nyp~MHeYM~kyNq~~v~dal~sLK~-- 731 (1258)
T KOG1053|consen 654 YTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRSNYPEMHEYMVKYNQPGVEDALESLKN-- 731 (1258)
T ss_pred HHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHhccHHHHHHHHHhccCchHHHHHHHhc--
Confidence 999999999999999999999997633 447999999999999954322111233334 589999999999
Q ss_pred CCCCceEEEecchhhHHHhhC--CCCeEEec--ccccccceEEEe
Q 004042 736 GKGGVAAVVDERPYVELFLSS--QCSFRIVG--QEFTKSGWGFVS 776 (777)
Q Consensus 736 ~~~~~~a~i~~~~~~~~~~~~--~~~l~~~~--~~~~~~~~g~~~ 776 (777)
|+.||||+|.++++|...+ .|.|.++| +.|..+|||||+
T Consensus 732 --gKLDAFIyDaAVLnY~agkDegCKLvTIGsgKvFAttGYGIal 774 (1258)
T KOG1053|consen 732 --GKLDAFIYDAAVLNYMAGKDEGCKLVTIGSGKVFATTGYGIAL 774 (1258)
T ss_pred --ccchhHHHHHHHHHHhhccCCCceEEEecCCceeeecceeeec
Confidence 9999999999999999876 69999998 999999999997
No 4
>KOG1052 consensus Glutamate-gated kainate-type ion channel receptor subunit GluR5 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=3.2e-51 Score=472.73 Aligned_cols=515 Identities=36% Similarity=0.647 Sum_probs=435.1
Q ss_pred HHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhH
Q 004042 215 LLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRK 294 (777)
Q Consensus 215 ~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 294 (777)
.+.+++....+++++.+.+..+..++.++.++||...+|+|+.+.......+.... ....+...+.+....+.+.....
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 34455556788999988888899999999999999999999999977666555221 34446677788877778888888
Q ss_pred HHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHH
Q 004042 295 KNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNIL 374 (777)
Q Consensus 295 ~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~ 374 (777)
+.|..+|+.. .......+..+||++++++.|+++.... . .....|.+...|.++..+.+.++
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 8888888764 2345678999999999999999998641 1 22456777777888899999998
Q ss_pred cccccC---ceeeEEEecCCCcccceEEEEEeecCceEEEEEEeCCCCCccCCCcccccCCCCCCccccccceeeeCCCC
Q 004042 375 QSNLVG---LTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGET 451 (777)
Q Consensus 375 ~~~f~G---~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~gl~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~ 451 (777)
+....+ .+|.+.++.++.+....++|++..+.+-..+|.|++..| ..|.||+..
T Consensus 146 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-----------------------~~i~~~~~~ 202 (656)
T KOG1052|consen 146 KLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-----------------------ENISWPGKD 202 (656)
T ss_pred hhhhhccccceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-----------------------ceeeccCCc
Confidence 876554 456777877888899999999999888888999998764 478999999
Q ss_pred CCCCCcceecCCCceeEEeecCCCcccceeee---ccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCC--CCCChh
Q 004042 452 LSKPRGWVFPNNGKLLKIGVPNRASYREFVSK---VRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGH--KNPSYT 526 (777)
Q Consensus 452 ~~~p~~~~~~~~~~~l~v~~~~~~~~~~~~~~---~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~--~~~~~~ 526 (777)
...|.++..+.+|++++|++...+||..+... ..++..+.|+|+|++++++++|||++++..++.+.|. ++|+|+
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 99999988877899999999999997766553 1256789999999999999999999888887776555 447999
Q ss_pred HHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhhee
Q 004042 527 QLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWI 606 (777)
Q Consensus 527 ~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~ 606 (777)
|++++|.+|++|++ ++++++.+|.+++|||.||++.+++++++++...+..+.|++||+++||++++++++++++++|+
T Consensus 283 g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~ 361 (656)
T KOG1052|consen 283 GLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWI 361 (656)
T ss_pred HHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999 89999999999999999999999999999999655599999999999999999999999999999
Q ss_pred eecccCCCCCCCc-----ccchhhHHHHHhhhhhccCcC-cccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccC
Q 004042 607 LEHRINDEFRGPP-----KRQVITILWFSLSTLFFAHKE-NTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYS 680 (777)
Q Consensus 607 ~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~-~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~ 680 (777)
++|+.+.++ .+. .....+++|++++.++.|+.. .|++.++|++.++||+++|+++++|||+|+|+||.+++.+
T Consensus 362 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~ 440 (656)
T KOG1052|consen 362 LERLSPYEL-PPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRS 440 (656)
T ss_pred HhccccccC-CccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCC
Confidence 999999988 222 234667899999999999865 8999999999999999999999999999999999999999
Q ss_pred CCCChhhhhh-CCCCeEEeeCchHHHHHHhh---hccccc-cccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhh
Q 004042 681 PINGIESLRK-SDDPIGYQEGSFAEYYLSQE---LNISKS-RLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLS 755 (777)
Q Consensus 681 ~i~s~~dl~~-~~~~i~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~ 755 (777)
+|++++||.+ +++++|...+++...++.+. ...... ....+.+.+|+++++++|.. ..++++.+...+.|...
T Consensus 441 ~i~~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~--~~~~~~~~~~~~~~~~~ 518 (656)
T KOG1052|consen 441 PIDSLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPS--GGYAFASDELYLAYLFL 518 (656)
T ss_pred cccCHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCC--CceEEEeccHHHHHHHh
Confidence 9999999995 78889999999999999665 222223 55667999999999999311 26888888888888877
Q ss_pred CC--CCeEEecccccccceEEEe
Q 004042 756 SQ--CSFRIVGQEFTKSGWGFVS 776 (777)
Q Consensus 756 ~~--~~l~~~~~~~~~~~~g~~~ 776 (777)
++ |++..+++.|...+|| |+
T Consensus 519 ~~~~c~~~~v~~~~~~~~~~-~~ 540 (656)
T KOG1052|consen 519 RDEICDLTEVGEPFLYKGYG-AF 540 (656)
T ss_pred hcCCCceEEeCCcccCCCcc-ee
Confidence 65 9999999999999999 76
No 5
>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-45 Score=398.14 Aligned_cols=365 Identities=21% Similarity=0.310 Sum_probs=305.1
Q ss_pred eEEEEEEee-CC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCC-ChHHHHHHHHHHHhcCcEEEEcCCC
Q 004042 31 VVNVGALFT-LD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC-SGFIGMVEALRFMETDIVAIIGPQC 105 (777)
Q Consensus 31 ~i~IG~l~~-~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~-~~~~a~~~a~~l~~~~v~aviGp~~ 105 (777)
.|+||+++| ++ +..|...+.|+++|+++||+++++|++.+|.+.+.+.++ ++..+++.+|+++.++|.|||||.+
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~~~V~AiiGp~~ 81 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLALGVVAIFGPSQ 81 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhcccccCcEEEECCCC
Confidence 589999999 55 556778999999999999999999999999999998665 7768888999988889999999999
Q ss_pred hhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHH
Q 004042 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (777)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~ 185 (777)
|..+.+++++++.++||+|+++++++.+++.. ++++|+.|++..++.++++++++++|++|++||.++. |....+.+.
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 99999999999999999999999888888643 5678888888889999999999999999999997653 655566788
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (777)
+.+++.|++|+. +.++.+ ..|++.+|+++|+.++++||+.++..++..+++||+++||..+.|+|++++......
T Consensus 160 ~~~~~~g~~v~~-~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~ 234 (384)
T cd06393 160 MAPSRYNIRLKI-RQLPTD----SDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYAL 234 (384)
T ss_pred HhhhccCceEEE-EECCCC----chHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCccccc
Confidence 888889999886 446544 689999999999999999999999999999999999999999999999877543322
Q ss_pred cCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhh-cCCCC---------CCCchhhhHhhHHHHHHHHHHHHHhc
Q 004042 266 DSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL-TGGSL---------GMNSYGLYAYDSVWLLAHAIESFFNQ 335 (777)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~---------~~~~~~~~~yDAv~lla~Al~~~~~~ 335 (777)
+. +........++++....+.++..++|.++|+++ ++... .++.+++++||||+++++|++++...
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 111112223567777777888999999999854 52101 12568999999999999999976432
Q ss_pred CCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEec-CCCcccceEEEEEeecCceEEEEEE
Q 004042 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRSLIHAAYDIINVIGTGFRMIGYW 414 (777)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~-~g~r~~~~~~I~~~~~~~~~~vg~w 414 (777)
+ .....|.+..+|++|..|+++|++++|+|+||+++||+ +|+|.+..++|+++.++++++||.|
T Consensus 311 ~---------------~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W 375 (384)
T cd06393 311 T---------------VNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVW 375 (384)
T ss_pred C---------------CCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEE
Confidence 1 12336788889999999999999999999999999996 6789999999999999999999999
Q ss_pred eCCCCCc
Q 004042 415 SNYSGLS 421 (777)
Q Consensus 415 ~~~~gl~ 421 (777)
++..||.
T Consensus 376 ~~~~g~~ 382 (384)
T cd06393 376 NPNTGLN 382 (384)
T ss_pred cCCCCcC
Confidence 9998864
No 6
>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=4.9e-45 Score=404.85 Aligned_cols=370 Identities=24% Similarity=0.375 Sum_probs=307.2
Q ss_pred ceEEEEEEeeCCC-------------cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHh--
Q 004042 30 AVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-- 94 (777)
Q Consensus 30 ~~i~IG~l~~~s~-------------~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~-- 94 (777)
+++.||++||++. ..|.....|+++|+|+||+++|+|||++|++.++|+++++..|++.+.+++.
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 3466779999999999999999999999999999999999999999998885
Q ss_pred ---------------------cCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHH
Q 004042 95 ---------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (777)
Q Consensus 95 ---------------------~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~ 152 (777)
.+|.+||||.+|..+.++++++..+++|+|+++++++.+++ ..||++||+.|++..++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~ 160 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQA 160 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHH
Confidence 38999999999999999999999999999999999999987 57899999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhc-CCCeEEEEec
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHV 231 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vIvl~~ 231 (777)
.++++++++++|++|++|+++++||....+.+.+.+++.|++|+..+.++.. ....|+++++++|++ +++|+||+.+
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 9999999999999999999999999999999999999999999988888654 347899999999987 5799999999
Q ss_pred ChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHH---------------
Q 004042 232 SPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKN--------------- 296 (777)
Q Consensus 232 ~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~--------------- 296 (777)
...++..++++|+++|++ .++.||+++.|...... .....+..+|++++.+.....+.++.
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 56899999887653221 12334667888887776554443333
Q ss_pred HHHHHHhhcC------CC----------------CCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCccccccCCCC
Q 004042 297 FLSRWKNLTG------GS----------------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGN 354 (777)
Q Consensus 297 f~~~~~~~~~------~~----------------~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (777)
|.+.|+..+. .. ...+.+++++||||+++|+||++++.++.... .
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 3333444332 00 11244788999999999999999986542210 1
Q ss_pred cccCCccccCchhHHHHHHHcccccCcee-eEEEecCCCcccceEEEEEeec----CceEEEEEEeCCCCC
Q 004042 355 LHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG----TGFRMIGYWSNYSGL 420 (777)
Q Consensus 355 ~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~g~r~~~~~~I~~~~~----~~~~~vg~w~~~~gl 420 (777)
..|.... |.++.+|.++|++++|.|++| +|.||++|+| ...|+|++++. ..+++||.|++..||
T Consensus 382 ~~c~~~~-~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~-~~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 382 GLCDAMK-PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDG-PGRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CCCcCcc-CCCHHHHHHHHHhCCcCCCCCceEEECCCCCC-CCceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 1355443 445999999999999999998 7999999997 56899999984 348999999887664
No 7
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=7.1e-45 Score=403.76 Aligned_cols=374 Identities=21% Similarity=0.328 Sum_probs=307.3
Q ss_pred CCCceEEEEEEeeCCC-----------------cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHH
Q 004042 27 ARPAVVNVGALFTLDS-----------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEA 89 (777)
Q Consensus 27 ~~~~~i~IG~l~~~s~-----------------~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a 89 (777)
..+++|.||++||.|. ..|.+...|+.+|+|+||++++||||++|++.++|+|+++..|++.+
T Consensus 5 ~~~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~ 84 (472)
T cd06374 5 RMDGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQS 84 (472)
T ss_pred EecCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHHH
Confidence 4678999999999983 13667789999999999999999999999999999999999999999
Q ss_pred HHHHh--------------------------cCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceE
Q 004042 90 LRFME--------------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFV 142 (777)
Q Consensus 90 ~~l~~--------------------------~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~ 142 (777)
.+++. .+|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..||++|
T Consensus 85 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~f 164 (472)
T cd06374 85 IEFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFL 164 (472)
T ss_pred HHHHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCceE
Confidence 99885 27999999999999999999999999999999999999998 5799999
Q ss_pred EecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC
Q 004042 143 RTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM 222 (777)
Q Consensus 143 r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~ 222 (777)
|+.|++..++.++++++++++|++|++||++++||....+.+++.+++.|++|+..+.++.. ....|++.++.+|+++
T Consensus 165 Rt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~lk~~ 242 (472)
T cd06374 165 RVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSN--AGEQSFDRLLRKLRSR 242 (472)
T ss_pred EcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CchHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999988877543 3478999999999975
Q ss_pred --CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHH---
Q 004042 223 --ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNF--- 297 (777)
Q Consensus 223 --~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f--- 297 (777)
+++||++++...++..++++++++|+. .+++||+++.|...... .....+..+|.+++.+..+..+.+++|
T Consensus 243 ~~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~---~~~~~~~~~G~l~~~~~~~~~~~F~~~l~~ 318 (472)
T cd06374 243 LPKARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDV---VEGYEEEAEGGITIKLQSPEVPSFDDYYLK 318 (472)
T ss_pred CCCcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHh---hhcchhhhheeEEEEecCCCCccHHHHHHh
Confidence 455677777788899999999999996 56899999988653211 123446679999998877666655554
Q ss_pred ------------HHHHHhhcC-C------CC-----------------CCCchhhhHhhHHHHHHHHHHHHHhcCCcccc
Q 004042 298 ------------LSRWKNLTG-G------SL-----------------GMNSYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (777)
Q Consensus 298 ------------~~~~~~~~~-~------~~-----------------~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~ 341 (777)
.+.|+..++ . .. .....+.++||||+++|+||++++.+....
T Consensus 319 l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~-- 396 (472)
T cd06374 319 LRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPG-- 396 (472)
T ss_pred CCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCC--
Confidence 445555442 0 00 012455689999999999999998653211
Q ss_pred cCCccccccCCCCcccCCccccCchhHHHHHHHcccccCcee-eEEEecCCCcccceEEEEEeec-----CceEEEEEEe
Q 004042 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG-----TGFRMIGYWS 415 (777)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~g~r~~~~~~I~~~~~-----~~~~~vg~w~ 415 (777)
....|..... .++..|.++|++++|+|++| +|.||++|++ ...|+|+|++. ..+++||.|+
T Consensus 397 -----------~~~~c~~~~~-~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~-~~~ydI~n~~~~~~~~~~~~~VG~w~ 463 (472)
T cd06374 397 -----------HVGLCDAMKP-IDGRKLLEYLLKTSFSGVSGEEVYFDENGDS-PGRYDIMNLQYTEDLRFDYINVGSWH 463 (472)
T ss_pred -----------CCCCCcCCCC-CCHHHHHHHHHhCcccCCCCCeEEEcCCCCC-CCceEEEEEEECCCCCEEEEEEEEEe
Confidence 0113554433 35899999999999999999 7999999997 45899999994 2479999997
Q ss_pred CCCCCcc
Q 004042 416 NYSGLSK 422 (777)
Q Consensus 416 ~~~gl~~ 422 (777)
+ .+|.+
T Consensus 464 ~-~~l~~ 469 (472)
T cd06374 464 E-GDLGI 469 (472)
T ss_pred C-Ccccc
Confidence 5 35544
No 8
>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=1.6e-44 Score=390.37 Aligned_cols=347 Identities=23% Similarity=0.346 Sum_probs=293.0
Q ss_pred EEEEeeCCC---------------------cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHH
Q 004042 34 VGALFTLDS---------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRF 92 (777)
Q Consensus 34 IG~l~~~s~---------------------~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l 92 (777)
||++||.|. ..|.+...|+.+|+|+||+++ +|+|++|+++++|+|++|..|++.+.+|
T Consensus 2 lgglf~vh~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~l 80 (403)
T cd06361 2 IGGLFAIHEAMLSVEDTPSRPQIQECVGFEIKGFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLRF 80 (403)
T ss_pred EEEEEECcccccccccccCCCCCCcccccChhHHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHHH
Confidence 788888874 226778899999999999998 5589999999999999999999999999
Q ss_pred Hhc-------------------CcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHH
Q 004042 93 MET-------------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (777)
Q Consensus 93 ~~~-------------------~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~ 152 (777)
+++ +|.+||||.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++
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 7999999999999999999999999999999999999998 67999999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCC---hhhHHHHHHHHhcCCCeEEEE
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVN---TGYVMDLLVKVALMESRVIVL 229 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~---~~d~~~~l~~l~~~~~~vIvl 229 (777)
+++++++++++|++|++|+++++||....+.|++.+++.|+||+..+.++...... ..+++.+++.++++++|+||+
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 99999999999999999999999999999999999999999999999887641111 156777777789999999999
Q ss_pred ecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCC
Q 004042 230 HVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSL 309 (777)
Q Consensus 230 ~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 309 (777)
.+...++..++++|+++|+ +++||+++.|...... ..........|.+++.+..+..+ .|.+.|++++
T Consensus 241 ~~~~~~~~~l~~~a~~~g~---~~~wigs~~w~~~~~~--~~~~~~~~~~g~ig~~~~~~~~~---~F~~~~~~~~---- 308 (403)
T cd06361 241 FARQFHVFLLFNKAIERNI---NKVWIASDNWSTAKKI--LTDPNVKKIGKVVGFTFKSGNIS---SFHQFLKNLL---- 308 (403)
T ss_pred EeChHHHHHHHHHHHHhCC---CeEEEEECcccCcccc--ccCCcccccceEEEEEecCCccc---hHHHHHHHhh----
Confidence 9999999999999999998 6899999998753322 11122256678888888665544 4555555543
Q ss_pred CCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEec
Q 004042 310 GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS 389 (777)
Q Consensus 310 ~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~ 389 (777)
..++||||+++|+||+++..++ .|....+. ++.+|+++|++++|.|++|++.||+
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 4468999999999999864321 25444344 4889999999999999988999999
Q ss_pred CCCcccceEEEEEeecCc----eEEEEEEeCCCC
Q 004042 390 DRSLIHAAYDIINVIGTG----FRMIGYWSNYSG 419 (777)
Q Consensus 390 ~g~r~~~~~~I~~~~~~~----~~~vg~w~~~~g 419 (777)
+|+. ...|+|++++++. +++||.|++...
T Consensus 364 ~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~~ 396 (403)
T cd06361 364 NGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQND 396 (403)
T ss_pred CCCC-CcceEEEEeEecCCcEEEEEEEEEeCCCC
Confidence 9995 7789999999643 699999988753
No 9
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=3.6e-44 Score=394.37 Aligned_cols=364 Identities=22% Similarity=0.368 Sum_probs=305.9
Q ss_pred ceEEEEEEeeCCC-------------cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHh--
Q 004042 30 AVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-- 94 (777)
Q Consensus 30 ~~i~IG~l~~~s~-------------~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~-- 94 (777)
++|.||++||.+. ..|.+...|+.+|+|+||+++++|||++|++.++|+|+++..|++.+.+++.
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 4689999999982 3578889999999999999999999999999999999999999999988873
Q ss_pred -----------------------cCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchH
Q 004042 95 -----------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSY 150 (777)
Q Consensus 95 -----------------------~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~ 150 (777)
.+|.|||||.+|..+.+++++++.+++|+|+++++++.+++ ..||++||+.|++..
T Consensus 81 ~~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~psd~~ 160 (458)
T cd06375 81 LTKVDTSEYECPDGSYAVQENSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVPPDFY 160 (458)
T ss_pred hhcccccccccccCCccccccCCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCChhhcccccCCCeEEecCCcHH
Confidence 27999999999999999999999999999999999999998 579999999999999
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhc-CCCeEEEE
Q 004042 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVL 229 (777)
Q Consensus 151 ~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vIvl 229 (777)
++.+++++++++||++|++||++++||....+.+++.+++.|+||+..+.++.. ....|+..+++++++ +++|+||+
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 999999999999999999999999999999999999999999999988888654 346899999999875 68999999
Q ss_pred ecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHH-----------
Q 004042 230 HVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFL----------- 298 (777)
Q Consensus 230 ~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~----------- 298 (777)
.+...++..++++|+++|+. +.||+++.|...... .....+..+|++++.+.....+.+++|+
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 789999988643221 0123356789999998776666665554
Q ss_pred ----HHHHhhcC---C--C-----------------CCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCccccccCC
Q 004042 299 ----SRWKNLTG---G--S-----------------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEG 352 (777)
Q Consensus 299 ----~~~~~~~~---~--~-----------------~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~ 352 (777)
+.|+..++ . . ......+.++||||+++|+||++++.++.+.
T Consensus 313 ~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~------------- 379 (458)
T cd06375 313 PWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPN------------- 379 (458)
T ss_pred cHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCC-------------
Confidence 44555553 0 0 0123468889999999999999998654321
Q ss_pred CCcccCCccccCchhHHH-HHHHccccc-----Ccee-eEEEecCCCcccceEEEEEeec--C--c--eEEEEEEeC
Q 004042 353 GNLHLGAMSIFDDGMLLL-GNILQSNLV-----GLTG-PLKFNSDRSLIHAAYDIINVIG--T--G--FRMIGYWSN 416 (777)
Q Consensus 353 ~~~~~~~~~~~~~~~~l~-~~l~~~~f~-----G~tG-~v~fd~~g~r~~~~~~I~~~~~--~--~--~~~vg~w~~ 416 (777)
....|+.....+ +.++. +.|++++|. |.+| +|.||++|+ ....|+|+|++. + . +++||.|+.
T Consensus 380 ~~~~c~~~~~~~-~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd-~~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 380 TTKLCDAMKPLD-GKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGD-GLGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCCCCCCCCCC-HHHHHHHHHHhccccccccCCCCCCeeEECCCCC-CCcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 112476655564 78888 599999999 9988 699999999 477899999993 2 2 689999964
No 10
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=6e-44 Score=395.73 Aligned_cols=366 Identities=23% Similarity=0.392 Sum_probs=296.3
Q ss_pred ceEEEEEEeeCC--C-----------cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHH----HH
Q 004042 30 AVVNVGALFTLD--S-----------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEAL----RF 92 (777)
Q Consensus 30 ~~i~IG~l~~~s--~-----------~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~----~l 92 (777)
++|+||++||.| . ..|.+...|+++|+|+||+++++|||++|+++++|+++++..+.+.+. ++
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 469999999998 2 256677999999999999999999999999999999997765555444 33
Q ss_pred Hh-------------------cCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHH
Q 004042 93 ME-------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (777)
Q Consensus 93 ~~-------------------~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~ 152 (777)
++ ++|.|||||.+|..+.+++++++.+++|+|+++++++.+++ ..||++||+.|++..++
T Consensus 81 ~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~ 160 (463)
T cd06376 81 IQKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQA 160 (463)
T ss_pred hhcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHH
Confidence 32 37999999999999999999999999999999999999987 57899999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhc-ceEEEEeeecCCCCCCChhhHHHHHHHHhc-CCCeEEEEe
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLH 230 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vIvl~ 230 (777)
+++++++++++|++|++||.+++||....+.+.+.+++. +++|...+.++.. ....|++.++++|++ +++|+||+.
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 4677665555433 347899999999987 699999999
Q ss_pred cChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHH------------
Q 004042 231 VSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFL------------ 298 (777)
Q Consensus 231 ~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------------ 298 (777)
+...++..++++|+++|+.+ .++||+++.|....... ....+...|.+++.+.....+.+++|.
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 59999999886543221 112246789999887766555555544
Q ss_pred ---HHHHhhcC---C--CC---------------------CCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCccccc
Q 004042 299 ---SRWKNLTG---G--SL---------------------GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKT 349 (777)
Q Consensus 299 ---~~~~~~~~---~--~~---------------------~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~ 349 (777)
+.|+..++ . .. .....+.++||||+++|+||++++.++...
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 45655442 0 00 012267799999999999999998653210
Q ss_pred cCCCCcccCCccccCchhHHHHHHHcccccCcee-eEEEecCCCcccceEEEEEeec-----CceEEEEEEeC
Q 004042 350 MEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG-----TGFRMIGYWSN 416 (777)
Q Consensus 350 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~g~r~~~~~~I~~~~~-----~~~~~vg~w~~ 416 (777)
....|.... |.++.+|.++|++++|+|++| +|.||++|++ ...|+|.+++. .++++||.|++
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 112465544 445899999999999999999 7999999996 45799998883 35799999975
No 11
>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=1.1e-43 Score=394.43 Aligned_cols=373 Identities=20% Similarity=0.302 Sum_probs=307.4
Q ss_pred CCCceEEEEEEeeCCC----------------------cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHH
Q 004042 27 ARPAVVNVGALFTLDS----------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFI 84 (777)
Q Consensus 27 ~~~~~i~IG~l~~~s~----------------------~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~ 84 (777)
..+++|.||++||.+. ..|.+...|+++|+|+||+++++||+++|++.++|+|+++..
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 3578999999999983 336778999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhc-------------------CcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEe
Q 004042 85 GMVEALRFMET-------------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRT 144 (777)
Q Consensus 85 a~~~a~~l~~~-------------------~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~ 144 (777)
|++.+.+++.+ +|.+||||.+|..+.++++++..+++|+|+++++++.+++ ..||++||+
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 99999999864 2469999999999999999999999999999999999998 679999999
Q ss_pred cCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCC
Q 004042 145 TQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMES 224 (777)
Q Consensus 145 ~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~ 224 (777)
.|++..+++++++++++++|++|++|+.|++||....+.|++.+++.|+||+..+.++.. ....|+.+++.+++++++
T Consensus 168 ~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~--~~~~d~~~~l~klk~~~a 245 (510)
T cd06364 168 IPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQY--SDEEEIQRVVEVIQNSTA 245 (510)
T ss_pred CCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCC--CCHHHHHHHHHHHHhcCC
Confidence 999999999999999999999999999999999999999999999999999988877653 347899999999999999
Q ss_pred eEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHH------
Q 004042 225 RVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFL------ 298 (777)
Q Consensus 225 ~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------ 298 (777)
|+||+.+...++..++++|+++|+. +.+||+++.|...... ......+...|++++.+.....+.+++|+
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 4699999988654332 22334567888888887665544444333
Q ss_pred ---------HHHHhhcC---CC---C------------------------C--------------------CCchhhhHh
Q 004042 299 ---------SRWKNLTG---GS---L------------------------G--------------------MNSYGLYAY 319 (777)
Q Consensus 299 ---------~~~~~~~~---~~---~------------------------~--------------------~~~~~~~~y 319 (777)
+.|++.++ .. . . ....+.++|
T Consensus 322 ~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~ 401 (510)
T cd06364 322 KSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVY 401 (510)
T ss_pred cCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHH
Confidence 33444442 00 0 0 112356799
Q ss_pred hHHHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCcee-eEEEecCCCcccceE
Q 004042 320 DSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAY 398 (777)
Q Consensus 320 DAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~g~r~~~~~ 398 (777)
|||+++|+||++++.|.... .......|......+ +.++.++|++++|.|.+| +|.||++|+. ...|
T Consensus 402 ~AVyAvAhaLh~~~~c~~~~----------~~~~~~~c~~~~~~~-~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~Y 469 (510)
T cd06364 402 LAVYSIAHALQDIYTCTPGK----------GLFTNGSCADIKKVE-AWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGNY 469 (510)
T ss_pred HHHHHHHHHHHHHhcCCCCC----------CCccCCCCCCCCCCC-HHHHHHHHHhcEEecCCCCEEEEecCCCC-ccce
Confidence 99999999999998764321 000112466655554 789999999999999988 6999999994 7789
Q ss_pred EEEEeec----C--ceEEEEEEeCC
Q 004042 399 DIINVIG----T--GFRMIGYWSNY 417 (777)
Q Consensus 399 ~I~~~~~----~--~~~~vg~w~~~ 417 (777)
+|+|++. + .+++||.|++.
T Consensus 470 dI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 470 SIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred eEEEeeecCCCCcEEEEEEEEEcCC
Confidence 9999994 2 26899999754
No 12
>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=5.4e-44 Score=394.65 Aligned_cols=368 Identities=20% Similarity=0.290 Sum_probs=302.0
Q ss_pred ceEEEEEEeeCCC----------------------cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHH
Q 004042 30 AVVNVGALFTLDS----------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMV 87 (777)
Q Consensus 30 ~~i~IG~l~~~s~----------------------~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~ 87 (777)
++|.||++||.|. ..|.+...|+.+|+|+||++..+|||++|++.++|+||++..|++
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 4689999999982 125677899999999999999999999999999999999999999
Q ss_pred HHHHHHh--------------cCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHH
Q 004042 88 EALRFME--------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (777)
Q Consensus 88 ~a~~l~~--------------~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~ 152 (777)
.+.+++. .++.+||||.+|..+.+++++++.++||+|+++++++.+++ ..||++||+.|++..++
T Consensus 81 ~~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~ 160 (469)
T cd06365 81 SSLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLP 160 (469)
T ss_pred HHHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHH
Confidence 9999985 36999999999999999999999999999999999999998 67899999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
.++++++++++|++|++|+.+++||....+.+.+.+++.|+||+..+.++...+....++..++++++++++|+||+++.
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 99999999999999999999999999999999999999999999998887662112348899999999999999999999
Q ss_pred hhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHH------------
Q 004042 233 PSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSR------------ 300 (777)
Q Consensus 233 ~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~------------ 300 (777)
..++..++.++.+.+. .+++||+++.|...... .....+.++|++++.+..+..+.+++|.+.
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 9888777666665554 46899999988654322 123446789999999988877777666543
Q ss_pred ---HHhhcC------C-----------C----------CCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCcccccc
Q 004042 301 ---WKNLTG------G-----------S----------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTM 350 (777)
Q Consensus 301 ---~~~~~~------~-----------~----------~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~ 350 (777)
|+..++ . . ...+..+.++||||+++|+||++++.++...
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 444332 0 0 0012356789999999999999999875421
Q ss_pred CCCCcccCCccccCchhHHHHHHHcccccCcee-eEEEecCCCcccceEEEEEeec--C---ceEEEEEEeCC
Q 004042 351 EGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG--T---GFRMIGYWSNY 417 (777)
Q Consensus 351 ~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~g~r~~~~~~I~~~~~--~---~~~~vg~w~~~ 417 (777)
.+..+|.. ... ++.++.+.|++++|.|.+| +|.||+||++ ...|+|+|+|. + .+++||.|+..
T Consensus 385 -~~~~~~~~-~~~-~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~~ 453 (469)
T cd06365 385 -QSENNGKR-LIF-LPWQLHSFLKNIQFKNPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSPQ 453 (469)
T ss_pred -CCcCCCCC-CCc-cHHHHHHHHHhccccCCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeCC
Confidence 01122322 333 3778999999999999999 5999999995 67899999983 2 36999999753
No 13
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=100.00 E-value=3.1e-43 Score=380.86 Aligned_cols=336 Identities=25% Similarity=0.346 Sum_probs=275.4
Q ss_pred CceEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHH-HHHhcCcEEEEc-CC-C
Q 004042 29 PAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEAL-RFMETDIVAIIG-PQ-C 105 (777)
Q Consensus 29 ~~~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~-~l~~~~v~aviG-p~-~ 105 (777)
+.+|+||+++|.+ ..+.|+++|++++|++.+.+++.++.-...+..+++.+++..+| +|++++|.+||| +. +
T Consensus 17 ~~~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~~V~aii~~~~~s 91 (377)
T cd06379 17 PKTVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLISNQVYAVIVSHPPT 91 (377)
T ss_pred CcEEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhhcceEEEEEeCCCC
Confidence 5689999999843 57999999999999965532333333222222346666555555 678889999974 33 3
Q ss_pred hh---HHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchH
Q 004042 106 ST---VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGV 181 (777)
Q Consensus 106 s~---~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~ 181 (777)
+. .+.+++.+++.+++|+|+++++++.+++ ..|+++||+.|++..++.++++++++++|++|++||++++||....
T Consensus 92 s~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~ 171 (377)
T cd06379 92 SNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEGRAAQ 171 (377)
T ss_pred CcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcchhHHH
Confidence 32 4677888999999999999988888887 4589999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcce----EEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 182 SALNDKLAERRC----RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 182 ~~~~~~~~~~g~----~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
+.+++.+++.|+ +++..+.++++ ..|++.++++++++++|+|++.++..++..++++|+++||++++|+||+
T Consensus 172 ~~~~~~~~~~g~~~~~~v~~~~~~~~~----~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~~~wi~ 247 (377)
T cd06379 172 KRFETLLEEREIEFKIKVEKVVEFEPG----EKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEGYVWIV 247 (377)
T ss_pred HHHHHHHHhcCCccceeeeEEEecCCc----hhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCEEEEE
Confidence 999999999999 88888878755 7899999999999999999999999999999999999999998999999
Q ss_pred eCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCC
Q 004042 258 TDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGG 337 (777)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~ 337 (777)
++.+... .....|++++++..+ ...++++||||+++|+|++++.++..
T Consensus 248 t~~~~~~----------~~~~~g~~g~~~~~~----------------------~~~~~~~yDAV~~~A~Al~~~~~~~~ 295 (377)
T cd06379 248 SEQAGAA----------RNAPDGVLGLQLING----------------------KNESSHIRDAVAVLASAIQELFEKEN 295 (377)
T ss_pred ecccccc----------ccCCCceEEEEECCC----------------------CCHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 9987322 133578888877542 12467899999999999999875321
Q ss_pred cccccCCccccccCCCCcccCCcc-ccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEEEEEeC
Q 004042 338 KISFSNDSRLKTMEGGNLHLGAMS-IFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSN 416 (777)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~ 416 (777)
. ......|.+.. +|.+|..+.++|++++|+|++|+|.||++|+|....|+|+++++.++++||.|++
T Consensus 296 ~------------~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG~w~~ 363 (377)
T cd06379 296 I------------TEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVGLYNG 363 (377)
T ss_pred C------------CCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEeeEEcC
Confidence 1 11112455433 6888999999999999999999999999999877899999999999999999986
Q ss_pred C
Q 004042 417 Y 417 (777)
Q Consensus 417 ~ 417 (777)
.
T Consensus 364 ~ 364 (377)
T cd06379 364 D 364 (377)
T ss_pred c
Confidence 4
No 14
>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=1.7e-43 Score=379.96 Aligned_cols=337 Identities=47% Similarity=0.807 Sum_probs=301.8
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~~~ 110 (777)
|||+++|++ +..|.....|+++|+++||+++|+++|++|+++++|++|+|..+++.+++|+.+ +|.+||||.||..+.
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 888999999999999999999977689999999999999999999999999987 999999999999999
Q ss_pred HHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHh
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~ 189 (777)
+++++++.+++|+|+++++++.+++ ..++++||+.|++..++.++++++++++|++|++|++++++|.+..+.+++.++
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 9999999999999999999888865 568999999999999999999999999999999999999999999999999999
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC--
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS-- 267 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~-- 267 (777)
+.|++|+..+.++.+ ....|+.+++++++++++|+|++++.+.++..++++++++|+..+.++|+.++.+......
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 999999998888764 2368999999999999999999999999999999999999998888999998865543210
Q ss_pred CCCCchhhhhccceEEEEeecCC-chhHHHHHHHHHhhcCCCC-----CCCchhhhHhhHHHHHHHHHHHHHhcCCcccc
Q 004042 268 ASLPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGSL-----GMNSYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (777)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~-----~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~ 341 (777)
.+..+...+..+|++++.++.+. .+..++|.++|+++++ .. +++.+++++|||+++
T Consensus 239 ~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~-~~~~~~~~p~~~a~~~YDav~~----------------- 300 (350)
T cd06366 239 DCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFG-NENPELTEPSIYALYAYDAVWA----------------- 300 (350)
T ss_pred CCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhc-ccCcCcCCCCcccchhhhheee-----------------
Confidence 12334455778999999988877 7889999999999983 22 578899999999988
Q ss_pred cCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEEEEEeCCCCCc
Q 004042 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (777)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~gl~ 421 (777)
+.+|+|++|+|+||++|++....|+++++.++++++||.|++..|++
T Consensus 301 ---------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~ 347 (350)
T cd06366 301 ---------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLS 347 (350)
T ss_pred ---------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCcc
Confidence 13689999999999999988899999999999999999999988765
Q ss_pred c
Q 004042 422 K 422 (777)
Q Consensus 422 ~ 422 (777)
.
T Consensus 348 ~ 348 (350)
T cd06366 348 V 348 (350)
T ss_pred c
Confidence 3
No 15
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=3.5e-43 Score=372.67 Aligned_cols=362 Identities=20% Similarity=0.320 Sum_probs=287.8
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEE-ccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITM-QSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~-~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
.||+||+..+. ..+.|+++|++++|.+..++++.+|.+.+ +++.+|+..+..++|+++++||.|||||.++.++..
T Consensus 1 ~iG~if~~~~~---~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~gV~AI~Gp~s~~~a~~ 77 (400)
T cd06392 1 HIGAIFEENAA---KDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQGILALVTSTGCASANA 77 (400)
T ss_pred CeeeccCCCch---HHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhcCeEEEECCCchhHHHH
Confidence 48999998753 46899999999999999999999999998 899999999999999999999999999999999999
Q ss_pred HHHhhccCCceEEecccC-----------CCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccch
Q 004042 112 VSYVSNELQVPLLSFGVT-----------DPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG 180 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~-----------~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~ 180 (777)
++.+|+..+||+|++++. ++.++..+| .+.+.|+ ..+.+|+++++.+++|++|++|| |+++|...
T Consensus 78 v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~--~~~lrp~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~ 153 (400)
T cd06392 78 LQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEY--TLAARPP-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRG 153 (400)
T ss_pred HHHHhccCcCCcEeecccccccccccccCCCCcCcCce--eEEecCc-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHH
Confidence 999999999999998552 233333444 4555565 46788999999999999999999 78899999
Q ss_pred HHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCC-------CeEEEEecChhHHHHHHHHHHHcCCCCCCe
Q 004042 181 VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-------SRVIVLHVSPSLGFQVFSVAKYLGMMGNGY 253 (777)
Q Consensus 181 ~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~-------~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~ 253 (777)
.+.+.+.+.+.+.+|.... +... ...++.+.++.++.+. -++||+.|+++.+..++++|.++||+..+|
T Consensus 154 lq~L~~~~~~~~~~I~~~~-v~~~---~~~~~~~~l~~~~~~~L~~~~~~~r~iVv~~s~~~~~~il~qA~~lgM~~~~y 229 (400)
T cd06392 154 LQSFLDQASRLGLDVSLQK-VDRN---ISRVFTNLFTTMKTEELNRYRDTLRRAILLLSPRGAQTFINEAVETNLASKDS 229 (400)
T ss_pred HHHHHHHHhhcCceEEEEE-cccC---cchhhhhHHHHHHHhhhhhccccceEEEEEcCcHHHHHHHHHHHHhCcccCCe
Confidence 9999999999998887554 2211 0113444444444332 488999999999999999999999999999
Q ss_pred EEEEeCcchhcccCCCCCchhhhhcc-ceEEEEeecCCchhHHHHH----HHHHhhcCC---C--CCCCchhhhHhhHHH
Q 004042 254 VWIATDWLAYMLDSASLPSETLESMQ-GVLVLRQHIPESDRKKNFL----SRWKNLTGG---S--LGMNSYGLYAYDSVW 323 (777)
Q Consensus 254 ~~i~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~f~----~~~~~~~~~---~--~~~~~~~~~~yDAv~ 323 (777)
+||++++.....+. .+...... ++++++...|.+....+|. .+|++.... + ..+..+++++||||+
T Consensus 230 ~wI~t~~~~~~~dl----~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~l~~~aalayDaV~ 305 (400)
T cd06392 230 HWVFVNEEISDTEI----LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGYLQMLQVSNLYLYDSVL 305 (400)
T ss_pred EEEEecCCcccccH----HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHH
Confidence 99999986654333 33334343 5666888877766554443 666543311 1 146778999999999
Q ss_pred HHHHHHHHHHhcCCcccccCCccccccCCCCccc--CCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEE
Q 004042 324 LLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHL--GAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDII 401 (777)
Q Consensus 324 lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~ 401 (777)
++|+|+++.+.+.... ......| .+..+|+.|..|+++|++++|+|+||+|.|+++|+|.++.|+|+
T Consensus 306 ~~A~Al~~ll~~~~~~-----------~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi 374 (400)
T cd06392 306 MLANAFHRKLEDRKWH-----------SMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEIL 374 (400)
T ss_pred HHHHHHHHHhhccccC-----------CCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEE
Confidence 9999999865432211 1122457 55789999999999999999999999999999999999999999
Q ss_pred Eee-----cCceEEEEEEeCCCCC
Q 004042 402 NVI-----GTGFRMIGYWSNYSGL 420 (777)
Q Consensus 402 ~~~-----~~~~~~vg~w~~~~gl 420 (777)
+++ +.++++||+|++..||
T Consensus 375 ~l~~~~~~g~g~~~iG~W~~~~gl 398 (400)
T cd06392 375 GTSYSETFGKDVRRLATWDSEKGL 398 (400)
T ss_pred eccccccCCCCceEeEEecCCCCC
Confidence 965 5569999999999885
No 16
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=100.00 E-value=1.7e-43 Score=386.69 Aligned_cols=356 Identities=21% Similarity=0.286 Sum_probs=290.3
Q ss_pred EEEEEeeCCCc---ch-hhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHH-----HHHH-HhcCcEEEEc
Q 004042 33 NVGALFTLDST---IG-RVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVE-----ALRF-METDIVAIIG 102 (777)
Q Consensus 33 ~IG~l~~~s~~---~g-~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~-----a~~l-~~~~v~aviG 102 (777)
+||+++|++.. .| ..+..|+++|+|+||+++|+|+|++|++++.|+++++..+... +.++ ..++|.+|||
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 59999999843 44 6788999999999999999999999999999997666543333 3332 3459999999
Q ss_pred CCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEE-EEEeCcc-ccc
Q 004042 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSV-IFVDNEY-GRN 179 (777)
Q Consensus 103 p~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vai-i~~~~~~-g~~ 179 (777)
|.||..+.+++++++.+++|+|+++++++.+++ ..||++||+.|++..++.++++++++++|+++++ +|.++.+ +..
T Consensus 81 p~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~~~ 160 (405)
T cd06385 81 PGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDDRP 160 (405)
T ss_pred CCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccccc
Confidence 999999999999999999999999999999988 6799999999999999999999999999999985 5654433 333
Q ss_pred ---hHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004042 180 ---GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (777)
Q Consensus 180 ---~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i 256 (777)
..+.+.+.+++.|++|+..+..+.+ ..|++.+|+++++.. |+||++++..++..++++|.++||+.++|+||
T Consensus 161 ~~~~~~~l~~~~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i 235 (405)
T cd06385 161 CYFAMEGLYMELKKNNITVVDLVFEEDD----LINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREGLPSEDYVFF 235 (405)
T ss_pred hHHHHHHHHHHHHhCCeEEEEeeccCCc----hhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 4578888999999999877633222 679999999998754 99999999999999999999999999999999
Q ss_pred EeCcchhcccC----------CCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhh----cCCC---CCCCchhhhHh
Q 004042 257 ATDWLAYMLDS----------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TGGS---LGMNSYGLYAY 319 (777)
Q Consensus 257 ~~~~~~~~~~~----------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~---~~~~~~~~~~y 319 (777)
+++++...... +..+....+++++++......+.++..++|.++|+++ ++.. ..++.+++++|
T Consensus 236 ~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~Y 315 (405)
T cd06385 236 YIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFY 315 (405)
T ss_pred EeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHH
Confidence 98765432110 1111234566788888777777778889999999985 4211 11567889999
Q ss_pred hHHHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEE
Q 004042 320 DSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYD 399 (777)
Q Consensus 320 DAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~ 399 (777)
|||+++++|++++.+.++. +.+|+.|.++|++++|+|++|+|.||++|+| ...|.
T Consensus 316 Dav~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r-~~~~~ 370 (405)
T cd06385 316 DGVMLYAHALNETMAKGGT------------------------RPPGTAITQRMWNRTFYGVTGFVKIDDNGDR-ETDFA 370 (405)
T ss_pred HHHHHHHHHHHHHHhcCCC------------------------CCCHHHHHHHhhCceEeeceeEEEEcCCCCE-eceeE
Confidence 9999999999998664322 3369999999999999999999999999998 57788
Q ss_pred EEEe---ecCceEEEEEEeCCC
Q 004042 400 IINV---IGTGFRMIGYWSNYS 418 (777)
Q Consensus 400 I~~~---~~~~~~~vg~w~~~~ 418 (777)
|+++ ++++++.||.|+..+
T Consensus 371 ~~~~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 371 LWDMTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred EEEccCCCCCcEEEEEEEcccC
Confidence 8755 678899999998654
No 17
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=7.9e-43 Score=381.20 Aligned_cols=352 Identities=24% Similarity=0.373 Sum_probs=295.0
Q ss_pred CCceEEEEEEeeCCC---------------------cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHH
Q 004042 28 RPAVVNVGALFTLDS---------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGM 86 (777)
Q Consensus 28 ~~~~i~IG~l~~~s~---------------------~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~ 86 (777)
.++++.||++||.|. ..|.....|+++|+++||+++|+|+|++|+++++|+|+ +..++
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 468899999999983 12567789999999999999999999999999999976 77799
Q ss_pred HHHHHHHh----------------cCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCch
Q 004042 87 VEALRFME----------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDS 149 (777)
Q Consensus 87 ~~a~~l~~----------------~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~ 149 (777)
+.+.+|++ ++|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..+|++||+.|++.
T Consensus 82 ~~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~~ 161 (410)
T cd06363 82 PPTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSDK 161 (410)
T ss_pred HHHHHHHhccCcccCcccccccCCCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccccCCCeeEecCCcH
Confidence 99999874 48999999999999999999999999999999999988887 57899999999999
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEE
Q 004042 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVL 229 (777)
Q Consensus 150 ~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl 229 (777)
.++.++++++++++|++|++|+++++||.+..+.+++.+++.|++++..+.++... ....|+++++++++++++|+|++
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 99999999999999999999999999999999999999999999999888876421 24789999999999999999999
Q ss_pred ecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCC
Q 004042 230 HVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSL 309 (777)
Q Consensus 230 ~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 309 (777)
.+.++++..++++|+++|+.. ..|++++.|...... ......+...+++++....+..+.+++|.++
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 999999999999999999853 488988766432211 1111123344567776666677777777765
Q ss_pred CCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEec
Q 004042 310 GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS 389 (777)
Q Consensus 310 ~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~ 389 (777)
+++.+||||+++++|+++++.++.. .|....+. +++.|+++|++++|+|++|++.||+
T Consensus 308 ----~~~~~YDaV~~~a~Al~~a~~~~~~-----------------~~~~~~~~-~~~~l~~~L~~~~~~g~~g~i~fd~ 365 (410)
T cd06363 308 ----FAFSVYAAVYAVAHALHNVLQCGSG-----------------GCPKRVPV-YPWQLLEELKKVNFTLLGQTVRFDE 365 (410)
T ss_pred ----HHHHHHHHHHHHHHHHHHHhCCCCC-----------------CCCCCCCC-CHHHHHHHHhccEEecCCcEEEeCC
Confidence 4567999999999999999765432 23322222 4788999999999999999999999
Q ss_pred CCCcccceEEEEEeecC----ceEEEEEEeCC
Q 004042 390 DRSLIHAAYDIINVIGT----GFRMIGYWSNY 417 (777)
Q Consensus 390 ~g~r~~~~~~I~~~~~~----~~~~vg~w~~~ 417 (777)
+|++ ...+.|++++.. ++++||.|++.
T Consensus 366 ~G~~-~~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 366 NGDP-NFGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred CCCC-ccceEEEEEEEcCCceeEEEEEEEECC
Confidence 9995 567889988543 48999999874
No 18
>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=8.4e-43 Score=370.39 Aligned_cols=355 Identities=18% Similarity=0.239 Sum_probs=296.1
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
+||++|+..+ ...+.|+++|++++|.+..+++ .++ +-+..|+..+.+.+|+++++||.|||||.++.++..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~--~~~---~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLP--QID---IVNISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCccccc--ceE---EeccccHHHHHHHHHHHhhcCceEEEccCChhHHHHH
Confidence 4899998864 3578999999999998765543 111 2234588999999999999999999999999999999
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcc
Q 004042 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERR 192 (777)
Q Consensus 113 a~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g 192 (777)
+.+|+..+||+|+++. +.. ...++++++.|+ +.+|+++++++++|++|++||+++ ||....+.+.+.+++.|
T Consensus 73 ~sic~~~~vP~i~~~~--~~~--~~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~ 144 (364)
T cd06390 73 TSFCGALHVCFITPSF--PVD--TSNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKN 144 (364)
T ss_pred HHhhcCCCCCceecCC--CCC--CCCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccC
Confidence 9999999999998744 322 233568999987 789999999999999999999655 99999999999999999
Q ss_pred eEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCc
Q 004042 193 CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPS 272 (777)
Q Consensus 193 ~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~ 272 (777)
++|.....++.. ..+++.+|++++++++++||+.|+++.+..+++++.+.+++..+|+||+++......+. +
T Consensus 145 ~~I~~~~~~~~~----~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~~----~ 216 (364)
T cd06390 145 WQVTAVNILTTT----EEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDIDL----T 216 (364)
T ss_pred ceeeEEEeecCC----hHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccccH----H
Confidence 999877666543 67999999999999999999999999999999999888888999999999843322222 4
Q ss_pred hhhhhccceEEEEeecCCchhHHHHHHHHHhhcC------CCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCcc
Q 004042 273 ETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (777)
Q Consensus 273 ~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~ 346 (777)
+......|++++++..|.++..++|.++|+++.. +...++.+++++||||+++|+|++++...+...+..
T Consensus 217 ~~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~---- 292 (364)
T cd06390 217 KFRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRR---- 292 (364)
T ss_pred HHhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccC----
Confidence 4566788999999999999999999999987653 112457789999999999999999986554332211
Q ss_pred ccccCCCCcccC--CccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEEEEEeCCCCC
Q 004042 347 LKTMEGGNLHLG--AMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (777)
Q Consensus 347 ~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~gl 420 (777)
+....|. +..+|+.|..|.++|++++|+|+||+|.|+++|+|.+..|+|+++.+.++++||.|++..||
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 1122453 34579999999999999999999999999999999999999999999999999999998875
No 19
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=1.2e-42 Score=377.48 Aligned_cols=370 Identities=20% Similarity=0.284 Sum_probs=296.2
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCC-CChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~-~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++|+.+. ...+.|+++|++++|++..++++.++.+++.++. +|+.++++.+|++++++|.+||||.+|..+.+
T Consensus 1 ~iG~if~~~~---~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~ 77 (382)
T cd06380 1 PIGGLFDVDE---DQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSRGVFAIFGSYDKSSVNT 77 (382)
T ss_pred CceeEECCCC---hHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhcCcEEEEecCcHHHHHH
Confidence 4899999984 6789999999999999876667788887777765 79999999999999999999999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhc
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~ 191 (777)
++++++.++||+|+++++.+.+++ .++|+||+.|+. ..++++++++++|++|++||+++. +....+.+.+.+++.
T Consensus 78 ~~~~~~~~~iP~i~~~~~~~~l~~-~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~~ 152 (382)
T cd06380 78 LTSYSDALHVPFITPSFPTNDLDD-GNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLREK 152 (382)
T ss_pred HHHHHhcCCCCeEecCCCcccCCC-CCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhcc
Confidence 999999999999999888887753 568999998853 458889999999999999997664 666777788888888
Q ss_pred c--eEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCC
Q 004042 192 R--CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (777)
Q Consensus 192 g--~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~ 269 (777)
| +++.... +... ....|++.+|++||+.++|+||+.++.+++..+++||+++||..++|+||++++.....+.
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 6666432 3222 1357999999999999999999999999999999999999999999999998754332221
Q ss_pred CCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCC------CCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccC
Q 004042 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG------SLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (777)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~ 343 (777)
........++.+++...+..+..++|.++|++.++. ...++.+++++||||+++++|++++.+.+.......
T Consensus 228 --~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~~ 305 (382)
T cd06380 228 --SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHRI 305 (382)
T ss_pred --HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhcccccccc
Confidence 111122234566666666678899999999998731 123667899999999999999999865432110000
Q ss_pred CccccccCCCCcccCC--ccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEEEEEeCCCCC
Q 004042 344 DSRLKTMEGGNLHLGA--MSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (777)
Q Consensus 344 ~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~gl 420 (777)
..........|.. ..+|.+|+.|.++|++++|+|++|+|.||++|+|....+.|++++++++++||.|++..||
T Consensus 306 ---~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 306 ---DISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNEDDGL 381 (382)
T ss_pred ---ccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCCcCc
Confidence 0001122334543 4578889999999999999999999999999999889999999999999999999998775
No 20
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=100.00 E-value=1.1e-42 Score=376.31 Aligned_cols=350 Identities=16% Similarity=0.251 Sum_probs=288.8
Q ss_pred EEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 35 GALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 35 G~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
=+++|.+ ...+.....|+++|+|+||+++++++|++|+++++|++|++..+...+..+.+++|.+||||.||..+.+
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 3566655 2234678999999999999999998999999999999999877777777777789999999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCC--CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccch---HHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG---VSALND 186 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~--~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~---~~~~~~ 186 (777)
++++++.+++|+|+++++++.+++ ..||++||+.|++..++.++++++++++|++|++||+++++++.. .+.+.+
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 999999999999999998888876 358999999999999999999999999999999999999998876 889999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhc-c
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYM-L 265 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~-~ 265 (777)
.+++.|++|+....++.. ..++..+++++++.+ |+||++++...+..++++|+++||+..+|+||..+...+. .
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 999999999876655433 679999999999987 9999999999999999999999999999999999865311 1
Q ss_pred c------CCCCC---chhhhhccceEEEEeecCCchhHHHHHHHHHhhcC--C----CCCCCchhhhHhhHHHHHHHHHH
Q 004042 266 D------SASLP---SETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG--G----SLGMNSYGLYAYDSVWLLAHAIE 330 (777)
Q Consensus 266 ~------~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~--~----~~~~~~~~~~~yDAv~lla~Al~ 330 (777)
. .+..+ ....+...|+..+. +..+.+++|.+++++++. + ...++.+++++|||++++|+|++
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 00011 11223344444433 345678888888884442 1 12344789999999999999999
Q ss_pred HHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEee---cCc
Q 004042 331 SFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI---GTG 407 (777)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~---~~~ 407 (777)
++++.+.+ +.+|..|+++|++++|+|++|++.||++|+| ...|.|+.++ .++
T Consensus 315 ~~~~~g~~------------------------~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r-~~~~~v~~~~~~~~~~ 369 (387)
T cd06386 315 EVLKNGYS------------------------KKDGTKITQRMWNRTFEGIAGQVSIDANGDR-YGDFSVIAMTDVEAGT 369 (387)
T ss_pred HHhhCCCC------------------------CCCHHHHHHHHhCCceeeccccEEECCCCCc-cccEEEEEccCCCCcc
Confidence 98765432 3469999999999999999999999999998 5599999886 467
Q ss_pred eEEEEEEeCC
Q 004042 408 FRMIGYWSNY 417 (777)
Q Consensus 408 ~~~vg~w~~~ 417 (777)
++.||.|...
T Consensus 370 ~~~~~~~~~~ 379 (387)
T cd06386 370 YEVVGNYFGK 379 (387)
T ss_pred EEEEeEEccc
Confidence 8999999754
No 21
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=100.00 E-value=1.1e-42 Score=379.39 Aligned_cols=352 Identities=20% Similarity=0.311 Sum_probs=294.1
Q ss_pred EEEEEEeeCCC----cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChh
Q 004042 32 VNVGALFTLDS----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST 107 (777)
Q Consensus 32 i~IG~l~~~s~----~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~ 107 (777)
|+||++.|+++ ..|.....|+++|+++||+++|+++|++|++++.|++|++..|++.+++|++++|.+||||.||.
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 68999999985 44888999999999999999999889999999999999999999999999999999999999984
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 186 (777)
. +++.+++.+++|+|+++++++.+++ ..|+++||+.|++..++.++++++++++|++|++|+.+++||....+.+++
T Consensus 81 ~--~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g~~~~~~~~~ 158 (404)
T cd06370 81 T--TEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKYSSVFETLKE 158 (404)
T ss_pred H--HHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCcccHHHHHHHHH
Confidence 4 4567999999999999999988887 578999999999999999999999999999999999999999999999999
Q ss_pred HHhhcceEEEEeeecCCCCC---CChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCC-CCCeEEEEeCcch
Q 004042 187 KLAERRCRISYKSGIPPESG---VNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMM-GNGYVWIATDWLA 262 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~---~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~-~~~~~~i~~~~~~ 262 (777)
.+++.|++|+..+.++.... ....++..+++++++. ++++|+++...++..++++|+++||. ..+|+||+.+...
T Consensus 159 ~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~~~~~y~~i~~~~~~ 237 (404)
T cd06370 159 EAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLLESGDYMVLGVDIEY 237 (404)
T ss_pred HHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCCCCCcEEEEEEchhh
Confidence 99999999998888875410 1247899999988765 77888888888899999999999998 5789999866311
Q ss_pred hcc---------------c-CCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcC------------CCCCCCch
Q 004042 263 YML---------------D-SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------------GSLGMNSY 314 (777)
Q Consensus 263 ~~~---------------~-~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------------~~~~~~~~ 314 (777)
... . .........++++|++.+.+..+ .+..++|.+.|+++.. ....++.+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (404)
T cd06370 238 YDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIE 316 (404)
T ss_pred ccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccccccccccee
Confidence 100 0 01111344567888888776555 6677889999988642 12246678
Q ss_pred hhhHhhHHHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCcee-eEEEecCCCc
Q 004042 315 GLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSL 393 (777)
Q Consensus 315 ~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~g~r 393 (777)
++++|||++++++|++++++++... .+++.|.++|++++|+|++| +|.||++|+|
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 25899999999999999999 8999999997
Q ss_pred ccceEEEEEeecCceEEEE
Q 004042 394 IHAAYDIINVIGTGFRMIG 412 (777)
Q Consensus 394 ~~~~~~I~~~~~~~~~~vg 412 (777)
...|.|++++++.|-.-|
T Consensus 373 -~~~y~v~~~~~~~~~~~~ 390 (404)
T cd06370 373 -EGNYSVLALQPIPPGDNG 390 (404)
T ss_pred -ccceEEEEeccccccCCC
Confidence 688999999988665433
No 22
>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=9.7e-43 Score=375.27 Aligned_cols=339 Identities=21% Similarity=0.272 Sum_probs=292.0
Q ss_pred eEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH-
Q 004042 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV- 108 (777)
Q Consensus 31 ~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~- 108 (777)
.|+||.++|.++ ...+++.|+..+|.+..+..++++++++.|+.++|.+++..+|+++.+ +|.+|+||.+|..
T Consensus 2 ~~~ig~~~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~~s~~~ 76 (362)
T cd06367 2 TVNIGVVLSGSS-----SEPAFRDAVTAANFRHNLPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSDPTDEE 76 (362)
T ss_pred ceEEEEEecCCc-----chhhHHHHhhhccccccCCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEecCCCCcc
Confidence 589999999984 358888888888877655468999999999999999999999998865 8999999999998
Q ss_pred --HHHHHHhhccCCceEEecccCCCCC-CC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHH
Q 004042 109 --AHIVSYVSNELQVPLLSFGVTDPTL-SS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSAL 184 (777)
Q Consensus 109 --~~~va~~~~~~~iP~Is~~a~~~~l-~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~ 184 (777)
+.+++.+++.++||+|+++++++.+ ++ ..|+++||+.|++..+++++++++++++|++|++||+++++|.+..+.+
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 9999999999999999999998888 77 6799999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcceE--EEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 004042 185 NDKLAERRCR--ISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (777)
Q Consensus 185 ~~~~~~~g~~--v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 262 (777)
++.+++.|++ ++....++.. ...+++..+.++++.++|+||+.|+..++..++++|+++|+++++|+||+++.+.
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 9999999998 7776666654 1238899999999999999999999999999999999999999899999999886
Q ss_pred hcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCccccc
Q 004042 263 YMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (777)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~ 342 (777)
.... ...+...|++++++... ..+.+++||||+++++|++++..++....
T Consensus 234 ~~~~------~~~~~~~G~~g~~~~~~----------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~~~-- 283 (362)
T cd06367 234 GSGL------APEGLPVGLLGVGLDTW----------------------YSLEARVRDAVAIVARAAESLLRDKGALP-- 283 (362)
T ss_pred cccC------CccCCCCeeEEEEeccc----------------------ccHHHHHHHHHHHHHHHHHHHHHhcCCCC--
Confidence 4211 12245678999887532 23578899999999999999977533211
Q ss_pred CCccccccCCCCcccCCccc--cCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEee-cCceEEEEEEeC
Q 004042 343 NDSRLKTMEGGNLHLGAMSI--FDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGYWSN 416 (777)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~-~~~~~~vg~w~~ 416 (777)
.....|..... |.+|..+.++|++++|+|++|+|.||++|+|.+..|+|++++ +.+|++||.|++
T Consensus 284 ---------~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 284 ---------EPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred ---------CCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEcC
Confidence 12235666543 788999999999999999999999999999988899999999 788999999975
No 23
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=3.5e-42 Score=374.78 Aligned_cols=355 Identities=17% Similarity=0.269 Sum_probs=287.9
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
+||++.|.+ ...+.....|+++|+++||+++++++|++|++++.|++|++.+++..+++++.+ +|.+||||.||..
T Consensus 1 ~vg~~~p~~~~~~~~~~~~~~a~~lAi~~IN~~~~~l~~~~l~~~~~D~~~~~~~a~~~~~~l~~~~~v~aiiGp~~S~~ 80 (391)
T cd06372 1 TVGFQAPWNISHPFSAQRLGAALQIAMDKVNSDPVYLGNYSMEFTYTNSTCSAKESLAGFIDQVQKEHISALFGPACPEA 80 (391)
T ss_pred CceeeccccccCchhhhhHHHHHHHHHHHHhcCCCCCCCceEEEEEecCCCCccHHHHHHHHHHHhcCceEEECCCCCcH
Confidence 589999976 334667779999999999999999989999999999999999999999999875 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC---ccc--cchHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYG--RNGVS 182 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~---~~g--~~~~~ 182 (777)
+.+++++++.+++|+|+++++++.+++ ..||+++|+.|++..++.++++++++++|++|++||.++ .++ ....+
T Consensus 81 ~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~~~ 160 (391)
T cd06372 81 AEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDELWK 160 (391)
T ss_pred HHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHHHH
Confidence 999999999999999999999999987 578999999999999999999999999999999998542 333 22334
Q ss_pred HHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeC---
Q 004042 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD--- 259 (777)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~--- 259 (777)
.+.+.++ .+++++..+.++.+ ..++...+.+.+++++|+||++++..++..++++|+++||..++|+||.+.
T Consensus 161 ~~~~~~~-~~~~i~~~~~~~~~----~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~ 235 (391)
T cd06372 161 AVENQLK-FHFNITATVRYSSS----NPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLLQQFE 235 (391)
T ss_pred HHHHHHh-hCEEEEEEEecCCC----ChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEehhhc
Confidence 4555553 67888888877655 567776666666788999999999999999999999999988889999953
Q ss_pred --cchhcccCCCCCchhhhhccceEEEEeecCC-chhHHHHHHHHHhhcCCC---------CCCCchhhhHhhHHHHHHH
Q 004042 260 --WLAYMLDSASLPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGS---------LGMNSYGLYAYDSVWLLAH 327 (777)
Q Consensus 260 --~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~---------~~~~~~~~~~yDAv~lla~ 327 (777)
+|...... .......+..+|++++.+..+. .+..++|.++|++++... ...+.+++++||||+++++
T Consensus 236 ~~~w~~~~~~-~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~ 314 (391)
T cd06372 236 DNFWKEVLTD-DQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYAL 314 (391)
T ss_pred CccccccCCC-cchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHH
Confidence 33221110 0112233567888888776542 355677888887776201 1235789999999999999
Q ss_pred HHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHH---cccccCceeeEEEecCCCcccceEEEEEee
Q 004042 328 AIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNIL---QSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (777)
Q Consensus 328 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~---~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~ 404 (777)
|++++++++.. |.+|..+.++|+ +++|+|++|+|.||++|+| ...|.|++++
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 99998765422 446899999999 6899999999999999997 7899999998
Q ss_pred c--C--ceEEEEEEeCCC
Q 004042 405 G--T--GFRMIGYWSNYS 418 (777)
Q Consensus 405 ~--~--~~~~vg~w~~~~ 418 (777)
+ + .++.||.|+..+
T Consensus 370 ~~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 370 KSGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred ccCCccceeeEEEecchh
Confidence 5 2 389999998754
No 24
>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=2.4e-42 Score=376.65 Aligned_cols=357 Identities=19% Similarity=0.299 Sum_probs=296.7
Q ss_pred EEEEEeeCCC----cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCC----ChHHHHHHHHHHH-hcCcEEEEcC
Q 004042 33 NVGALFTLDS----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC----SGFIGMVEALRFM-ETDIVAIIGP 103 (777)
Q Consensus 33 ~IG~l~~~s~----~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~----~~~~a~~~a~~l~-~~~v~aviGp 103 (777)
+||+++|.+. ..|.....|+++|+|+||+++|+++|++|+++++|++| ++..++..+.+++ +++|.+||||
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 5899999994 33567899999999999999998899999999999999 8999999888887 4599999999
Q ss_pred CChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccc----c
Q 004042 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYG----R 178 (777)
Q Consensus 104 ~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g----~ 178 (777)
.||..+.+++++++.+++|+|+++++++.+++ ..|+++||+.|++..++.++++++++++|++|++||.++.++ .
T Consensus 81 ~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~~~ 160 (396)
T cd06373 81 GCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRPCY 160 (396)
T ss_pred CccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcchHH
Confidence 99999999999999999999999999998987 678999999999999999999999999999999999877664 4
Q ss_pred chHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 179 NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 179 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
...+.+.+.+++.|++++.. .+... ....|++.++++++++. |+|++++...++..++++++++|++..+|+||..
T Consensus 161 ~~~~~~~~~~~~~g~~v~~~-~~~~~--~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~~yv~i~~ 236 (396)
T cd06373 161 FTLEGVYTVLKEENITVSDF-PFDED--KELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSGEYVFFNI 236 (396)
T ss_pred HHHHHHHHHHhhcCceeeEE-eecCC--ccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 46788888999999998754 34433 11479999999999875 9999999999999999999999999999999997
Q ss_pred Ccchhccc---------CCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhh----cC---CCCCCCchhhhHhhHH
Q 004042 259 DWLAYMLD---------SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TG---GSLGMNSYGLYAYDSV 322 (777)
Q Consensus 259 ~~~~~~~~---------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~---~~~~~~~~~~~~yDAv 322 (777)
+....... .....+...+..++++.+....++.+..++|.++|+++ ++ ....++.+++++||||
T Consensus 237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav 316 (396)
T cd06373 237 DLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAV 316 (396)
T ss_pred ccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHH
Confidence 65432111 00011233455678888888777788889999999875 31 0113557889999999
Q ss_pred HHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEE
Q 004042 323 WLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIIN 402 (777)
Q Consensus 323 ~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~ 402 (777)
+++++|++++.++++. +.+++.|.++|++++|+|++|+++||++|+| ...|.|++
T Consensus 317 ~~~a~Al~~~~~~~~~------------------------~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~-~~~~~v~~ 371 (396)
T cd06373 317 LLYALALNETLAEGGD------------------------PRDGTNITRRMWNRTFEGITGNVSIDENGDR-ESDFSLWD 371 (396)
T ss_pred HHHHHHHHHHHhccCC------------------------CCChHHHHHHhcCCceecccCceEeecCCcc-cceeeeee
Confidence 9999999998654322 1258999999999999999999999999997 56788865
Q ss_pred e---ecCceEEEEEEeCCC
Q 004042 403 V---IGTGFRMIGYWSNYS 418 (777)
Q Consensus 403 ~---~~~~~~~vg~w~~~~ 418 (777)
+ ++++++.++.|++..
T Consensus 372 ~~~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 372 MTDTETGTFEVVANYNGSN 390 (396)
T ss_pred ccCCCCceEEEEeeccccc
Confidence 5 578899999998754
No 25
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.1e-41 Score=360.59 Aligned_cols=361 Identities=15% Similarity=0.223 Sum_probs=299.1
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCC-CEEEEEEccC-CCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHG-TKLNITMQSS-NCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g-~~i~~~~~D~-~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~ 110 (777)
.||++|+.++ .+.+.|+++|++++|.+..+++. .+|...+... ..|+..+.+.+|+++++||.||+||.++.++.
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 3899999665 35789999999999998877654 5777755443 45999999999999999999999999999999
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhh
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE 190 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~ 190 (777)
.+..+|+..+||+|.+... .+...++.+++.|+ +.+|+++++++|+|++|.+|| |+++|....+.+.+.++.
T Consensus 78 ~v~s~c~~~~iP~i~~~~~----~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~gl~~Lq~L~~~~~~ 149 (372)
T cd06387 78 TLTSFCGALHTSFITPSFP----TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERGFSILQAIMEAAVQ 149 (372)
T ss_pred HHHHhhccccCCeeeeCCC----CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhcc
Confidence 9999999999999987332 12334677899998 689999999999999999999 667888888899998888
Q ss_pred cceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCC
Q 004042 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASL 270 (777)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~ 270 (777)
.+..|......+.. ...+++..++++++.+.++||+.|+++.+..++++|.++||+..+|+||+++......+.
T Consensus 150 ~~~~V~~~~v~~~~---~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl--- 223 (372)
T cd06387 150 NNWQVTARSVGNIK---DVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISL--- 223 (372)
T ss_pred CCceEEEEEeccCC---chHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccH---
Confidence 89887665433322 356899999999999999999999999999999999999999999999999854443333
Q ss_pred CchhhhhccceEEEEeecCCchhHHHHHHHHHhhcC------CCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCC
Q 004042 271 PSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (777)
Q Consensus 271 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~ 344 (777)
++......+++++++..+.++..++|.++|++... +..++..+++++||||+++|+|++++...+..++.
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 23444444599999999999999999999987653 11245678999999999999999998654333211
Q ss_pred ccccccCCCCcccCC--ccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEEEEEeCCCCC
Q 004042 345 SRLKTMEGGNLHLGA--MSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (777)
Q Consensus 345 ~~~~~~~~~~~~~~~--~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~gl 420 (777)
.+....|.. ..+|+.|..|.++|++++|+|+||++.|+++|+|.+..++|+++.+.++++||.|++..|+
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 112224543 5689999999999999999999999999999999999999999999999999999998875
No 26
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.3e-41 Score=363.21 Aligned_cols=361 Identities=17% Similarity=0.220 Sum_probs=288.7
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCC-CCEEEEEEccCC-CChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILH-GTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~-g~~i~~~~~D~~-~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~ 110 (777)
+||+||+..+ .+...|+++|++.+|.+..++. +.+|...+.... .|+..+.+.+|+++++||.||+||.+|..+.
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~ss~~~~ 77 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYSRGVFAIFGLYDKRSVH 77 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHhCCceEEEecCCHHHHH
Confidence 4899999655 3568999999999998764532 256776655544 4899999999999999999999999999999
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhh
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE 190 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~ 190 (777)
+++++|+..+||+|++++. +...+.+.+++.|+ +..++++++++++|++|++||+ .+++....+.|.+.+++
T Consensus 78 ~v~~i~~~~~IP~I~~~~~----~~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd-~~~~~~~lq~l~~~~~~ 149 (371)
T cd06388 78 TLTSFCSALHISLITPSFP----TEGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYD-TDRGYSILQAIMEKAGQ 149 (371)
T ss_pred HHHHHhhCCCCCeeecCcc----ccCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEec-CCccHHHHHHHHHhhHh
Confidence 9999999999999997543 22334444455555 4688888999999999999995 33455678899999999
Q ss_pred cceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCC
Q 004042 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASL 270 (777)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~ 270 (777)
.|++|+.....+.+ ..|++.+|++++.+++++||+.|+++.+..+++||+++||..++|+||+++......+.
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 99998875554433 56999999999999999999999999999999999999999999999998753222111
Q ss_pred CchhhhhccceEEEEeecCCchhHHHHHHHHHhhcC---CC--CCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCc
Q 004042 271 PSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG---GS--LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (777)
Q Consensus 271 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~---~~--~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~ 345 (777)
.+......++.+++...+.++..++|.++|++.+. ++ ..+...++++||||+++++|++++.......+
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 22223344488888888788889999999987653 11 35778899999999999999998754322211
Q ss_pred cccccCCCCccc--CCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEEEEEeCCCCCc
Q 004042 346 RLKTMEGGNLHL--GAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (777)
Q Consensus 346 ~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~gl~ 421 (777)
..+....| .+..+|++|..|+++|++++|+|+||++.||++|+|.+..++|+++..+++++||.|++..||.
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 01222355 3466899999999999999999999999999999998989999999999999999999998863
No 27
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.1e-41 Score=364.77 Aligned_cols=359 Identities=17% Similarity=0.239 Sum_probs=291.5
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEcc-CCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQS-SNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D-~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||+||+.... +.+.|+++|++.+|.. +.+|...+.. +..|...+.+.+|+++++||.||+||.+|..+.+
T Consensus 1 ~ig~if~~~~~---~~~~af~~a~~~~n~~-----~~~l~~~~~~~~~~dsf~~~~~~C~~~~~GV~AI~Gp~ss~~~~~ 72 (370)
T cd06389 1 QIGGLFPRGAD---QEYSAFRVGMVQFSTS-----EFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNT 72 (370)
T ss_pred CCceeecCCch---HHHHHHHHHHHHhccc-----CceeeeeeEEecccchHHHHHHHHHHhhcCcEEEEecCCHHHHHH
Confidence 48999997653 5789999999999985 3566664443 4458999999999999999999999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhc
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~ 191 (777)
++++|+..+||+|++.++ ++..+.+.+++.|+ ...++++++++++|++|++||+ +++|....+.+.+.+++.
T Consensus 73 v~~i~~~~~IP~I~~~~~----~~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~gl~~lq~l~~~~~~~ 144 (370)
T cd06389 73 ITSFCGTLHVSFITPSFP----TDGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRGLSTLQAVLDSAAEK 144 (370)
T ss_pred HHHhhccCCCCeeeecCC----CCCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchHHHHHHHHHHhhccC
Confidence 999999999999987554 23356778888887 5799999999999999999997 559999999999999999
Q ss_pred ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCC
Q 004042 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLP 271 (777)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~ 271 (777)
|++|...............|++.+|++++++++++||+.|+++++..+++||+++||+.+.|+||+++......+.
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 9887644422111112367999999999999999999999999999999999999999999999998753222222
Q ss_pred chhhhhccceEEEEeecCCchhHHHHHHHHHh----hcC--CCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCc
Q 004042 272 SETLESMQGVLVLRQHIPESDRKKNFLSRWKN----LTG--GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (777)
Q Consensus 272 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----~~~--~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~ 345 (777)
........++.+++...+..+..++|.++|++ .++ +...++..++++||||+++++|++++...+.....
T Consensus 221 ~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~~---- 296 (370)
T cd06389 221 SKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEISR---- 296 (370)
T ss_pred hhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCccc----
Confidence 11222234577888888888899999999986 441 12457789999999999999999998554332211
Q ss_pred cccccCCCCcccCC--ccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEEEEEeCCCCC
Q 004042 346 RLKTMEGGNLHLGA--MSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (777)
Q Consensus 346 ~~~~~~~~~~~~~~--~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~gl 420 (777)
.++...|.+ ..+|++|..|+++|++++|+|+||+++||++|+|.+..++|++++.+++++||.|++..||
T Consensus 297 -----~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~ 368 (370)
T cd06389 297 -----RGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKM 368 (370)
T ss_pred -----CCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCc
Confidence 122334543 5689999999999999999999999999999999998999999999999999999998875
No 28
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=100.00 E-value=1.3e-41 Score=366.91 Aligned_cols=348 Identities=20% Similarity=0.285 Sum_probs=284.1
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~ 109 (777)
|||++.|++ +..|...+.|+++|+|+||+++++++|++|++++.|++|++..++..+..+ .++|.+||||.||..+
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 699999997 455778899999999999999999889999999999999988776554433 4699999999999999
Q ss_pred HHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHH
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 188 (777)
.+++++++.++||+|+++++++.+++ ..|++++|+.|++ +.++++++++++|++|++|+++++++....+.+.+.+
T Consensus 80 ~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~~~~~~~l~~~l 156 (382)
T cd06371 80 EAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIWVETAQKLASAL 156 (382)
T ss_pred HHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccchHHHHHHHHHHH
Confidence 99999999999999999999999997 6789999999876 4668889999999999999999999999999999999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCC-CeEEEEecCh-----hHHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSP-----SLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vIvl~~~~-----~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 262 (777)
++.|++|+..+.++.+ ..|++++|++||+.+ +|+||++++. .++..+++||+++||+..+|+||.++...
T Consensus 157 ~~~gi~v~~~~~~~~~----~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~ 232 (382)
T cd06371 157 RAHGLPVGLVTSMGPD----EKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPYDTLL 232 (382)
T ss_pred HHCCCcEEEEEEecCC----HHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEecccc
Confidence 9999999988888765 789999999999987 6999998876 67889999999999998899999988532
Q ss_pred hcc-------cCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhh-cCCC---CCCCchhhhHhhHHHHHHHHHHH
Q 004042 263 YML-------DSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL-TGGS---LGMNSYGLYAYDSVWLLAHAIES 331 (777)
Q Consensus 263 ~~~-------~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~---~~~~~~~~~~yDAv~lla~Al~~ 331 (777)
... .....+.+..++.++++.+.+..+..+..++|.+.|+.. ++.. ...+.+++++|||++++++|+++
T Consensus 233 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~ 312 (382)
T cd06371 233 YSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGEIPSDLEPEQVSPLFGTIYNSIYLLAHAVEN 312 (382)
T ss_pred ccCCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCCCCCCCccccchhHHHHHHHHHHHHHHHHH
Confidence 111 111112334467788877766554444455555554321 1111 12345556899999999999999
Q ss_pred HHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEE
Q 004042 332 FFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMI 411 (777)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~v 411 (777)
+++.++. .++++++++|++++|+|++|+|+||++|++ ...|.|+++++.+++.+
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 79999999998887765
Q ss_pred EEE
Q 004042 412 GYW 414 (777)
Q Consensus 412 g~w 414 (777)
-.+
T Consensus 367 ~~~ 369 (382)
T cd06371 367 PTY 369 (382)
T ss_pred eeE
Confidence 544
No 29
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=100.00 E-value=2e-41 Score=369.44 Aligned_cols=359 Identities=21% Similarity=0.393 Sum_probs=310.6
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||+++|++ +..|.....|+++|+|+||+++|+++|++|++++.|++|++..+++.+.+++.+ +|.+||||.||..
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 699999999 456888999999999999999976679999999999999999999999999875 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc-cccchHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALND 186 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~-~g~~~~~~~~~ 186 (777)
+.+++++++.+++|+|+++++++.+++ ..++|+||+.|++..++.++++++++++|++++++++++. ||....+.+.+
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 999999999999999999998888887 5789999999999999999999999999999999998887 89999999999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (777)
.+++.|++|+....++.. ....|+..+++++++.+ |+|++++.+.++..++++++++|+...+++|++.+.+.....
T Consensus 161 ~~~~~G~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~ 237 (389)
T cd06352 161 ALREFNLTVSHVVFMEDN--SGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLFNYSLP 237 (389)
T ss_pred HHHhcCCeEEEEEEecCC--ccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehhccccc
Confidence 999999999988888754 12589999999999887 999999999999999999999999877899999876654421
Q ss_pred C---------CCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCC--------CCCCCchhhhHhhHHHHHHHHH
Q 004042 267 S---------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG--------SLGMNSYGLYAYDSVWLLAHAI 329 (777)
Q Consensus 267 ~---------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~~~yDAv~lla~Al 329 (777)
. ....+...+...|++++.+..+..+..++|.++|+++++. ...++.++.++|||++++++|+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 317 (389)
T cd06352 238 YQNSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHAL 317 (389)
T ss_pred cCCCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHH
Confidence 1 1122344567788988888777788899999999998831 1235778999999999999999
Q ss_pred HHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeec--Cc
Q 004042 330 ESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIG--TG 407 (777)
Q Consensus 330 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~--~~ 407 (777)
+++..++.. |.++..+.+.|++++|.|++|++.||++|+| ...|.|+++++ +.
T Consensus 318 ~~~~~~~~~------------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~-~~~~~v~~~~~~~~~ 372 (389)
T cd06352 318 NETLAEGGD------------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDR-EGDYSLLDLDSTGGQ 372 (389)
T ss_pred HHHHHhCCC------------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCe-eeeEEEEEecCCCce
Confidence 998765432 3358889999999999999999999999997 57899999996 56
Q ss_pred eEEEEEEeCCCC
Q 004042 408 FRMIGYWSNYSG 419 (777)
Q Consensus 408 ~~~vg~w~~~~g 419 (777)
+..++.++...+
T Consensus 373 ~~~~~~~~~~~~ 384 (389)
T cd06352 373 LEVVYLYDTSSG 384 (389)
T ss_pred EEEEEeccccce
Confidence 788888876543
No 30
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=6.6e-41 Score=364.99 Aligned_cols=356 Identities=17% Similarity=0.261 Sum_probs=285.1
Q ss_pred EEEEEeeCCCc---ch-hhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCCh----HHHHHHHHHH-HhcCcEEEEcC
Q 004042 33 NVGALFTLDST---IG-RVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSG----FIGMVEALRF-METDIVAIIGP 103 (777)
Q Consensus 33 ~IG~l~~~s~~---~g-~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~----~~a~~~a~~l-~~~~v~aviGp 103 (777)
+||+++|.... .+ .....|+++|+|+||+++|+++|++|++.++|+++++ ..+...+..+ +.+++.+||||
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 47888886521 11 4567899999999999999888999999999986654 3333223222 34588999999
Q ss_pred CChhHHHHHHHhhccCCceEEecccCCCCCCC--CCCCceEEecCCchHHHHHHHHHHHhcCCc-EEEEEEEeCcccc--
Q 004042 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWN-AVSVIFVDNEYGR-- 178 (777)
Q Consensus 104 ~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~--~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~-~vaii~~~~~~g~-- 178 (777)
.||..+.+++++++.+++|+|+++++++.+++ ..||++||+.|++..++.++..++++++|+ ++++||.++..+.
T Consensus 81 ~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~~~ 160 (399)
T cd06384 81 GCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDDRP 160 (399)
T ss_pred CCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccCCc
Confidence 99999999999999999999999999988886 378999999999999999988889999999 6889986543221
Q ss_pred --chHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004042 179 --NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (777)
Q Consensus 179 --~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i 256 (777)
...+.+.+.+++.|++|+....+..+ ..|++++++++|. ++|+|+++++..++..++++|+++||+.++|+||
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 13566777888899999876655544 7899999999997 8999999999999999999999999999999999
Q ss_pred EeCcchhccc-----------CCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhh----cCCCCCC---CchhhhH
Q 004042 257 ATDWLAYMLD-----------SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TGGSLGM---NSYGLYA 318 (777)
Q Consensus 257 ~~~~~~~~~~-----------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~~~---~~~~~~~ 318 (777)
+.++...... .++..+...+++++++.++.+.+.++..++|.++|+++ ++.+..+ +.+++++
T Consensus 236 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~ 315 (399)
T cd06384 236 YLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCF 315 (399)
T ss_pred EehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhh
Confidence 8875432111 01123455568889998888888888889999999875 4211123 6678999
Q ss_pred hhHHHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceE
Q 004042 319 YDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAY 398 (777)
Q Consensus 319 yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~ 398 (777)
||||++++.|++++++.++ +|.++..|+++|++++|+|++|++.||++|+| ...+
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 4556
Q ss_pred EE---EEeecCceEEEEEEeCCC
Q 004042 399 DI---INVIGTGFRMIGYWSNYS 418 (777)
Q Consensus 399 ~I---~~~~~~~~~~vg~w~~~~ 418 (777)
.+ .++++++++.+|+|+..+
T Consensus 371 ~~~~~~~~~~g~~~~v~~~~~~~ 393 (399)
T cd06384 371 DLWAMTDHETGKYEVVAHYNGIT 393 (399)
T ss_pred EEEEeecCCCCeEEEEEEEcCCC
Confidence 66 466889999999998754
No 31
>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=1.7e-40 Score=356.45 Aligned_cols=365 Identities=22% Similarity=0.346 Sum_probs=288.8
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEE--EEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNI--TMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~--~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~ 110 (777)
+||++|+.++.. .+.|+++|++++|++..+|+|++|++ ...|++ ++..+..++|+++++||.||+||.++..+.
T Consensus 1 ~IGaif~~~s~~---~~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~~-d~f~a~~~~c~l~~~gv~ai~Gp~~~~~~~ 76 (400)
T cd06391 1 HIGAIFDESAKK---DDEVFRMAVADLNQNNEILQTEKITVSVTFVDGN-NPFQAVQEACELMNQGILALVSSIGCTSAG 76 (400)
T ss_pred CcceeeccCCch---HHHHHHHHHHHhcCCccccCCCcceEEEEEeeCC-CcHHHHHHHHHHHhCCeEEEECCCcchHHH
Confidence 489999998754 35699999999999999999995554 888984 999999999999999999999998888889
Q ss_pred HHHHhhccCCceEEec----ccCC-----CCCCC--CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccc
Q 004042 111 IVSYVSNELQVPLLSF----GVTD-----PTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRN 179 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~----~a~~-----~~l~~--~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~ 179 (777)
.++.+|+.+++|+|++ ++++ +.+++ ..|++++| |+ ..+.+++++++++|+|++++++| ++++|..
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 23443 45676777 54 67889999999999999999865 6668888
Q ss_pred hHHHHHHHHhhcceEEEEeeecCCCCC-CChhhHHH-HHHHHhc--CCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEE
Q 004042 180 GVSALNDKLAERRCRISYKSGIPPESG-VNTGYVMD-LLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (777)
Q Consensus 180 ~~~~~~~~~~~~g~~v~~~~~~~~~~~-~~~~d~~~-~l~~l~~--~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~ 255 (777)
..+.+.+.+++.|+||.... +..... .....++. .++++++ ++.++||+.++++.+..+|++|+++||++.+|+|
T Consensus 153 ~l~~l~~~~~~~~i~I~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y~w 231 (400)
T cd06391 153 GIQEFLDKVSQQGMDVALQK-VENNINKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLVAFDCHW 231 (400)
T ss_pred HHHHHHHHHHHcCCeEEEEe-cCcchhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCCCCCeEE
Confidence 99999999999999998643 221100 00112332 4556665 6679999999999999999999999999999999
Q ss_pred EEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCC---------CCCCCchhhhHhhHHHHHH
Q 004042 256 IATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG---------SLGMNSYGLYAYDSVWLLA 326 (777)
Q Consensus 256 i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~~~~~~~~~~~yDAv~lla 326 (777)
|++++.....+.. +.......|+.+++++.|......+|..+|+.+++. ...++.+++++||||+++|
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 9999877666551 122234567777888888777788888888776521 0135678999999999999
Q ss_pred HHHHHHHhcCCcccccCCccccccCCCCcccC--CccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEee
Q 004042 327 HAIESFFNQGGKISFSNDSRLKTMEGGNLHLG--AMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (777)
Q Consensus 327 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~ 404 (777)
+|++++...+... ......|. +..+|+.|..|+++|++++|+|+||++.|+++|+|.++.|+|+++.
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 9999875332211 11222454 3568999999999999999999999999999999999999999996
Q ss_pred -----cCceEEEEEEeCCCCC
Q 004042 405 -----GTGFRMIGYWSNYSGL 420 (777)
Q Consensus 405 -----~~~~~~vg~w~~~~gl 420 (777)
+.++++||.|++..||
T Consensus 378 ~~~~~~~g~rkiG~Ws~~~gl 398 (400)
T cd06391 378 YGEDLGRGVRKLGCWNPITGL 398 (400)
T ss_pred ccccCCCcceEEEEEcCCcCC
Confidence 7789999999999875
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=9.2e-41 Score=354.97 Aligned_cols=315 Identities=21% Similarity=0.328 Sum_probs=269.8
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCC-CChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~-~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++|++ ..|...+.|+++|+|+||+++|+++|++|++++.|++ +++..+++.+|+|++++|.+||||.+|..+.+
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~~V~aiiG~~~S~~~~a 78 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQGVAAIFGPSSSEASSI 78 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhcCcEEEECCCChhHHHH
Confidence 59999998 4578899999999999999999999999999999999 89999999999999889999999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhc
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~ 191 (777)
++++++.+++|+|+++++++.++ .++++||+.|++..++.++++++++++|++|+++|++++++ ..+++.+++.
T Consensus 79 v~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~----~~l~~~~~~~ 152 (327)
T cd06382 79 VQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGL----LRLQELLQAF 152 (327)
T ss_pred HHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHH----HHHHHHHHhh
Confidence 99999999999999888777666 45789999999999999999999999999999999887754 3445555555
Q ss_pred ce---EEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 004042 192 RC---RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (777)
Q Consensus 192 g~---~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (777)
+. .+.. +.+++. . |+++++++++++++|+|++.+.+.++..++++|+++||..+.|+|++++......+.
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 456554 4 999999999999999999999999999999999999999988999998765444322
Q ss_pred CCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCC-------CCCchhhhHhhHHHHHHHHHHHHHhcCCcccc
Q 004042 269 SLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSL-------GMNSYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (777)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~-------~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~ 341 (777)
........+++++++..++++..++|.++|+++++ .. .|+.+++.+|||++++
T Consensus 226 ---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~-~~~~~~~~~~p~~~~a~~yDav~~~---------------- 285 (327)
T cd06382 226 ---EDYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWD-EGCRILPSTGVTTESALMYDAVYLF---------------- 285 (327)
T ss_pred ---hhhccCceeEEEEEEecCCchhHHHHHHHHHhhcc-cccccCCCCCcchhhhhhhceEEEe----------------
Confidence 12222334677777888888899999999999983 21 2677888899998665
Q ss_pred cCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEEEEEeCCCCC
Q 004042 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (777)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~gl 420 (777)
|+||+|.||++|+|.+..++|++++++++++||.|++..||
T Consensus 286 --------------------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 --------------------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred --------------------------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 78999999999999999999999999999999999998774
No 33
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=1e-38 Score=342.76 Aligned_cols=338 Identities=16% Similarity=0.209 Sum_probs=291.1
Q ss_pred CCceEEEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCC
Q 004042 28 RPAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQ 104 (777)
Q Consensus 28 ~~~~i~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~ 104 (777)
.+++|+||++.|+| +..|.....++++|+++||+.||+ .|++|++++.|++++|..+++.+.+|++++|.+|||+.
T Consensus 22 ~~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi-~G~~ielv~~D~~~~p~~a~~~~~~Li~~~V~~iiG~~ 100 (369)
T PRK15404 22 LADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGI-KGDKLEGVEYDDACDPKQAVAVANKVVNDGIKYVIGHL 100 (369)
T ss_pred cCCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCC-CCeEEEEEeecCCCCHHHHHHHHHHHHhCCceEEEcCC
Confidence 45689999999999 456888999999999999999999 59999999999999999999999999998999999999
Q ss_pred ChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEeCccccchHHH
Q 004042 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSA 183 (777)
Q Consensus 105 ~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~vaii~~~~~~g~~~~~~ 183 (777)
+|..+.+++++++..++|+|++.++++.+++..++|+||+.+.+..++.++++++ ++++|+++++|++|+.||++..+.
T Consensus 101 ~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~~~~ 180 (369)
T PRK15404 101 CSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEGLARS 180 (369)
T ss_pred CchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHHHHHH
Confidence 9999999999999999999999998988888678999999999999999999975 567999999999999999999999
Q ss_pred HHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchh
Q 004042 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (777)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 263 (777)
+++.+++.|.+++....++.+ ..|++.++.+++++++|+|++.+...+...++++++++|+.. .|+++++...
T Consensus 181 ~~~~~~~~G~~v~~~~~~~~g----~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~---~~i~~~~~~~ 253 (369)
T PRK15404 181 VKDGLKKAGANVVFFEGITAG----DKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT---QFMGPEGVGN 253 (369)
T ss_pred HHHHHHHcCCEEEEEEeeCCC----CCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC---eEEecCcCCC
Confidence 999999999999988888876 789999999999999999998888888999999999999854 3666654322
Q ss_pred cccCCCCCchhhhhccceEEEEeec-CCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCccccc
Q 004042 264 MLDSASLPSETLESMQGVLVLRQHI-PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (777)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~ 342 (777)
.... ....+..+|+++..++. ..++..++|.+.|++++ ..+++.++..+||+++++++|++++...
T Consensus 254 ~~~~----~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~Y~~~~~l~~Al~~aG~~------- 320 (369)
T PRK15404 254 KSLS----NIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKK--QDPSGPFVWTTYAAVQSLAAGINRAGSD------- 320 (369)
T ss_pred HHHH----HhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhc--CCCCccchHHHHHHHHHHHHHHHhhCCC-------
Confidence 1111 12235668877665432 34577899999999987 4566677889999999999999986221
Q ss_pred CCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCce
Q 004042 343 NDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGF 408 (777)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~ 408 (777)
+++.|.++|++..|+|++|+++|+++|++....|.|+|+++++.
T Consensus 321 ----------------------~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~~ 364 (369)
T PRK15404 321 ----------------------DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADGT 364 (369)
T ss_pred ----------------------CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCCe
Confidence 37899999999999999999999999987778888988886543
No 34
>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=1e-38 Score=351.19 Aligned_cols=393 Identities=24% Similarity=0.422 Sum_probs=333.2
Q ss_pred CCCCceEEEEEEeeCCC-------------cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHH
Q 004042 26 SARPAVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRF 92 (777)
Q Consensus 26 ~~~~~~i~IG~l~~~s~-------------~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l 92 (777)
..-+++|.||++||.+. ..|.+...|+.+|+|+||+ +.+|||.|+++.++|+|..+..|.++..++
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 34578999999999981 2366778999999999999 999999999999999999999999999988
Q ss_pred Hhc-----------------CcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHH
Q 004042 93 MET-----------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTA 154 (777)
Q Consensus 93 ~~~-----------------~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a 154 (777)
+.+ .|.++|||..|..+.+++.+..-++||+|+++++++.++| .+|++|.|+.|+|..|++|
T Consensus 105 v~~~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~A 184 (878)
T KOG1056|consen 105 VRASLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQA 184 (878)
T ss_pred HHhcccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHH
Confidence 853 4899999999999999999999999999999999999999 6899999999999999999
Q ss_pred HHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhc-CCCeEEEEecCh
Q 004042 155 VAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHVSP 233 (777)
Q Consensus 155 ~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vIvl~~~~ 233 (777)
|++++++++|++|..++++++||+.+.+.|++..+++|+||...+.++.. .....+...++++.+ .++++||+++.+
T Consensus 185 m~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~--~~~~~~~~~l~kl~~~~~a~vvV~F~~~ 262 (878)
T KOG1056|consen 185 MVDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQL--SIEQEFDCVLRKLLETPNARVVVVFCRG 262 (878)
T ss_pred HHHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccc--cchhHHHHHHHHHhhcCCCeEEEEecCc
Confidence 99999999999999999999999999999999999999999998777665 668889999999988 789999999999
Q ss_pred hHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHH-------------
Q 004042 234 SLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSR------------- 300 (777)
Q Consensus 234 ~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~------------- 300 (777)
++++.++++|.++++++ .++|+.+++|....+.. +......+|++++.+..+..+.+++|.+.
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-EFLWIASDGWASQNSPT---EAPEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFA 338 (878)
T ss_pred chHHHHHHHHHHhCCCc-ceEEEecchhhccCChh---hhhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccc
Confidence 99999999999999975 69999999998754431 22234788999998888777776666544
Q ss_pred --HHhhcC------------------CC--------CCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCccccccCC
Q 004042 301 --WKNLTG------------------GS--------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEG 352 (777)
Q Consensus 301 --~~~~~~------------------~~--------~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~ 352 (777)
|.+.++ +. .....-...++|||+++|+||+.+.++-.. +
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 00 111224567999999999999999876322 1
Q ss_pred CCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecC----ceEEEEEEeCCCCCccCCCccc
Q 004042 353 GNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGT----GFRMIGYWSNYSGLSKEPPETL 428 (777)
Q Consensus 353 ~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~----~~~~vg~w~~~~gl~~~~~~~~ 428 (777)
....|......+ |..+.+.+.+++|.+..|.+.||++|| ....|+|++++.. .+..+|.|+....
T Consensus 406 ~~~~C~~m~~~d-g~~L~~~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~--------- 474 (878)
T KOG1056|consen 406 TSGLCSAMKAID-GSLLLKYLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLS--------- 474 (878)
T ss_pred ccccCcCccccC-HHHHHhhhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeeccccc---------
Confidence 234588887765 999999999999999999999999999 5888999999842 5799999987643
Q ss_pred ccCCCCCCccccccceeeeCCCCCCCCCccee
Q 004042 429 YAQPFNRSSTIQHLHSVIWPGETLSKPRGWVF 460 (777)
Q Consensus 429 ~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~ 460 (777)
.+...+.|.++....|++.|-
T Consensus 475 -----------l~i~~~~w~~~~~~v~~S~CS 495 (878)
T KOG1056|consen 475 -----------LNIEDLDWTTKPSGVPKSVCS 495 (878)
T ss_pred -----------ccceeeeeccCCCCCcccccc
Confidence 234678999988888888874
No 35
>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=1.7e-39 Score=338.38 Aligned_cols=323 Identities=20% Similarity=0.287 Sum_probs=261.0
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChH-HHHHHHHHHHhcCcEEEEcCCChhH-HH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGF-IGMVEALRFMETDIVAIIGPQCSTV-AH 110 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~-~a~~~a~~l~~~~v~aviGp~~s~~-~~ 110 (777)
+||++++..+..|...+.|+++|++++|++++++++.+|++++.|+..++. .+..++|+++++||.|||||.+|.. +.
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 489999999999999999999999999999999866799999999999775 7788899999889999999999975 67
Q ss_pred HHHHhhccCCceEEecccCC-CCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHh
Q 004042 111 IVSYVSNELQVPLLSFGVTD-PTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~-~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~ 189 (777)
+++++|+..+||+|+++... +.+...+++ ..++.|++..+++|+++++++|+|++|++||+++++ ...+++.++
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 99999999999999976432 222223333 389999999999999999999999999999988875 555666665
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCC
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~ 269 (777)
..++. ...++........|++++|++|+++++++||+.|+++.+..++++|+++||..+.|+|++++......+.
T Consensus 156 ~~~~~---~~~i~~~~~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L-- 230 (333)
T cd06394 156 QFLIS---KETLSVRMLDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPLLRL-- 230 (333)
T ss_pred hhccc---CCceeeEEccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCcccccH--
Confidence 54321 1122221112367899999999999999999999999999999999999999999999998876543333
Q ss_pred CCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcC---CC---CCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccC
Q 004042 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG---GS---LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (777)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~---~~---~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~ 343 (777)
.++......+.+++..+++++..++|.+.|++++. .. ......++++||||+++
T Consensus 231 --~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~------------------ 290 (333)
T cd06394 231 --DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV------------------ 290 (333)
T ss_pred --HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE------------------
Confidence 23333455688888989999999999998887552 01 11123456666665433
Q ss_pred CccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEEEEEeCCCCCc
Q 004042 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (777)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~gl~ 421 (777)
|+||+|.||++|+|.+..++|+++..++.++||.|++..||.
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 889999999999999999999999999999999999998864
No 36
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=100.00 E-value=4.9e-38 Score=338.14 Aligned_cols=335 Identities=31% Similarity=0.508 Sum_probs=281.3
Q ss_pred hHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHH-HHHHHHhcCcEEEEcCCChhHHHHHHHhhccCCceEEe
Q 004042 47 VAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMV-EALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLS 125 (777)
Q Consensus 47 ~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~-~a~~l~~~~v~aviGp~~s~~~~~va~~~~~~~iP~Is 125 (777)
++..|+++|+++||++++++++++|++.+.|+++++..+.. ..+.+..++|.+||||.|+..+.+++.+++.+++|+|+
T Consensus 1 ~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is 80 (348)
T PF01094_consen 1 RVLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQIS 80 (348)
T ss_dssp HHHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEE
T ss_pred CHHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCCcccccchhhhccCCCcEEEECCCcccccchhheeecccccceee
Confidence 36789999999999999988999999999999965555444 45555667999999999999999999999999999999
Q ss_pred cccCCCCCCC--CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEe-eecC
Q 004042 126 FGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYK-SGIP 202 (777)
Q Consensus 126 ~~a~~~~l~~--~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~-~~~~ 202 (777)
++++++.+++ ..||+++|+.|++..+++++++++++++|++|++||+++.+|.+..+.+++.+++.+..+... ....
T Consensus 81 ~~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (348)
T PF01094_consen 81 PGSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISVVI 160 (348)
T ss_dssp SSGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEE
T ss_pred ccccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccccccchhhhhhhcccccceeccccccc
Confidence 9999999988 379999999999999999999999999999999999999999999999999999965443333 3333
Q ss_pred CCCCCChhhHHHHHHHHhc--CCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccc
Q 004042 203 PESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQG 280 (777)
Q Consensus 203 ~~~~~~~~d~~~~l~~l~~--~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g 280 (777)
.. ..+....++.+++ .++++||++++..++..++++|.++|+...+|+||+++.+...... ..........|
T Consensus 161 ~~----~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~--~~~~~~~~~~~ 234 (348)
T PF01094_consen 161 SS----DSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQ--NNEDFREAFQG 234 (348)
T ss_dssp TT----TSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTS--THCHHHCCHTT
T ss_pred cc----ccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeeccccccccc--ccccccccccc
Confidence 22 4555555666655 9999999999999999999999999999999999999987655311 23466778899
Q ss_pred eEEEEeecCCchhHHHHHHHHHhhc------CCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCccccccCCCC
Q 004042 281 VLVLRQHIPESDRKKNFLSRWKNLT------GGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGN 354 (777)
Q Consensus 281 ~~~~~~~~~~~~~~~~f~~~~~~~~------~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (777)
++++++..+..+.+++|.+.|++.. .....+..++.++|||++++++|++++.++++...
T Consensus 235 ~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~-------------- 300 (348)
T PF01094_consen 235 VLGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVT-------------- 300 (348)
T ss_dssp EEEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTT--------------
T ss_pred eeeeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCC--------------
Confidence 9999999988999999999999752 13566788999999999999999999987644321
Q ss_pred cccCCccccCchhHHHHHHHcccccCceeeEEEec-CCCcccceEEEEEee
Q 004042 355 LHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRSLIHAAYDIINVI 404 (777)
Q Consensus 355 ~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~-~g~r~~~~~~I~~~~ 404 (777)
.....|.+|..+.+.|++++|+|++|++.||+ +|+|.+..|.|+++|
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 11156888999999999999999999999999 999999999999875
No 37
>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=2e-37 Score=331.18 Aligned_cols=328 Identities=19% Similarity=0.243 Sum_probs=286.1
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~ 109 (777)
+||++.|+| +..|.....|+++|++++|+++|+ +|++|++++.|++|++..+.+.+.+|++++|.+|+||.++..+
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 599999999 456788999999999999999888 6999999999999999999999999999999999999999999
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEeCccccchHHHHHHHH
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 188 (777)
.+++++++..++|+|++.+.++.+.+..++++||+.|++..++.++++++ ++++|++|++++++++||....+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999998877676776678999999999999999999986 57899999999999999999999999999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (777)
++.|++|+....++.+ ..|++..+++++++++++|++.+.+.++..++++++++|+.. .|+..+.+......
T Consensus 160 ~~~g~~v~~~~~~~~~----~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~~~- 231 (334)
T cd06342 160 KAAGGKVVAREGTTDG----ATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLKA---PFMGGDGLCDPEFI- 231 (334)
T ss_pred HHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCCC---cEEecCccCCHHHH-
Confidence 9999999998888766 789999999999999999999999999999999999999843 46666543211111
Q ss_pred CCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCcc
Q 004042 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (777)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~ 346 (777)
.......+|++...++.+ ..+..++|.++|++++ +..++.++..+||+++++++|++++..
T Consensus 232 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~al~~~~~------------ 294 (334)
T cd06342 232 ---KIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKF--GDPPGAYAPYAYDAANVLAEAIKKAGS------------ 294 (334)
T ss_pred ---HHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHh--CCCCchhHHHHHHHHHHHHHHHHHhCC------------
Confidence 122345678877766555 4678899999999988 455688899999999999999998611
Q ss_pred ccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEe
Q 004042 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINV 403 (777)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~ 403 (777)
.+++.+.++|++.+|+|++|++.|+++|++.+..|.|+|+
T Consensus 295 -----------------~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 -----------------TDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred -----------------CCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 1488999999999999999999999999999999999875
No 38
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=3e-37 Score=327.94 Aligned_cols=316 Identities=22% Similarity=0.346 Sum_probs=265.7
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccC-CCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSS-NCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~-~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||+++|.++ .....|+++|+++||+++|++++.++++.+.|+ .+++..+++.+|+|++++|.+||||.+|..+.+
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 5999999997 678999999999999999998777999999997 589999999999999999999999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhc
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~ 191 (777)
++++++.+++|+|+++++++.++. ++.+++.|+...++.++++++++++|++|++||+++.+ ....+.+.+.+++.
T Consensus 78 v~~i~~~~~ip~is~~~~~~~~~~---~~~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~-~~~l~~~~~~~~~~ 153 (324)
T cd06368 78 VQSICDALEIPHITTSWSPNPKPR---QFTINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEG-LLRLQELLDALSPK 153 (324)
T ss_pred HHHHHhccCCCcEEecCCcCCCCC---cceEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHh-HHHHHHHHHhhccC
Confidence 999999999999999888887762 34455567777899999999999999999999977654 44556677778888
Q ss_pred ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCC
Q 004042 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLP 271 (777)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~ 271 (777)
|++++.....+ . ..|+++++.++++.++|+|++.+.+.++..++++|+++|+..+.|+||+++......+.
T Consensus 154 g~~v~~~~~~~-~----~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~---- 224 (324)
T cd06368 154 GIQVTVRRLDD-D----TDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL---- 224 (324)
T ss_pred CceEEEEEecC-C----chHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch----
Confidence 99988765443 3 33899999999999999999999999999999999999999889999997754322111
Q ss_pred chhhhhccceEEEEeecCCchhHHHHHHHHHhhcCC------CCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCc
Q 004042 272 SETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG------SLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (777)
Q Consensus 272 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~ 345 (777)
........++.++....+.++..++|.++|+++++. ...|+.+++++||||+++
T Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~-------------------- 284 (324)
T cd06368 225 ELFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF-------------------- 284 (324)
T ss_pred hhhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe--------------------
Confidence 112223344666666677788999999999999831 126788999999999765
Q ss_pred cccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCceEEEEEEeCCCCC
Q 004042 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (777)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~vg~w~~~~gl 420 (777)
||++.||++|+|.+..++|+++.+++++.+|.|++..|+
T Consensus 285 ------------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 ------------------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred ------------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 688999999999999999999999999999999987764
No 39
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.4e-36 Score=325.22 Aligned_cols=321 Identities=21% Similarity=0.269 Sum_probs=273.8
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||++.|+| +..|.....|+++|++++|++||+ +|++|++++.|++++|..+++.+++|+++ +|.+||||.+|..
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 699999999 567899999999999999999998 59999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC----CCCCceEEecCCchHHHHHHHHHHHh-----cCCcEEEEEEEeCccccc
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSS----LQYPFFVRTTQSDSYQMTAVAEMVSY-----YGWNAVSVIFVDNEYGRN 179 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~----~~~~~~~r~~p~~~~~~~a~~~~l~~-----~~w~~vaii~~~~~~g~~ 179 (777)
+.+++++++.+++|+|+++++++.+++ ..++++||+.|++..++.++++++.+ ++|++|++++.++.||..
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~ 159 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKG 159 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhH
Confidence 999999999999999999888887773 46899999999999999999998765 899999999999999999
Q ss_pred hHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 180 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
..+.+++.+++.|++|+....++.+ ..|++.++.+|+++++|+|++.+.+.+...+++++.++|+..+ ++..+
T Consensus 160 ~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~ 232 (344)
T cd06345 160 IDAGIKALLPEAGLEVVSVERFSPD----TTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIP---TIGIS 232 (344)
T ss_pred HHHHHHHHHHHcCCeEEEEEecCCC----CCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCc---eEEec
Confidence 9999999999999999988888765 7899999999999999999999999999999999999998533 33332
Q ss_pred cchhcccCCCCCchhhhhccceEEEEeecC----CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhc
Q 004042 260 WLAYMLDSASLPSETLESMQGVLVLRQHIP----ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (777)
Q Consensus 260 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~ 335 (777)
.+...... ........++.+....+.+ .++..++|.++|+++| +..|+.++..+||+++++++|++++...
T Consensus 233 ~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--g~~p~~~~~~~yda~~~l~~A~~~ag~~ 307 (344)
T cd06345 233 VEGNSPAF---WKATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKF--GGPPNYMGASTYDSIYILAEAIERAGST 307 (344)
T ss_pred CCcCCHHH---HHhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHh--CCCCcccchHHHHHHHHHHHHHHHhcCC
Confidence 22111000 0112234556555444333 4677899999999998 5678889999999999999999986321
Q ss_pred CCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCccc
Q 004042 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIH 395 (777)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~ 395 (777)
+++.|.++|++.+|+|++|+|+||++|++..
T Consensus 308 -----------------------------~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~ 338 (344)
T cd06345 308 -----------------------------DGDALVEALEKTDFVGTAGRIQFYGDDSAFA 338 (344)
T ss_pred -----------------------------CHHHHHHHHHhCCCcCCceeEEECCCCCcCc
Confidence 4788999999999999999999999999643
No 40
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.3e-36 Score=326.09 Aligned_cols=328 Identities=16% Similarity=0.212 Sum_probs=278.6
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCC---CCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSIL---HGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil---~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~ 105 (777)
|||+++|+| +..|.....|+++|++++|++||+. +|++|+++++|++++|..+++.+++|+++ +|.+||||.+
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~la~~~iN~~ggi~~g~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG~~~ 80 (345)
T cd06338 1 RIGASLSLTGPLAGGGQLTQRGYELWVEDVNAAGGIKGGGKGYPVELIYYDDQSNPARAARAYERLITQDKVDFLLGPYS 80 (345)
T ss_pred CeeEEEeCCCccccccHHHHHHHHHHHHHHHhcCCcccCCCCceEEEEEecCCCCHHHHHHHHHHHHhhcCccEEecCCc
Confidence 699999999 5568889999999999999988763 47999999999999999999999999987 9999999999
Q ss_pred hhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcC--CcEEEEEEEeCccccchHHH
Q 004042 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG--WNAVSVIFVDNEYGRNGVSA 183 (777)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~--w~~vaii~~~~~~g~~~~~~ 183 (777)
+..+.+++++++..++|+|++++.++.++...++++||+.|++..++.++++++.+++ |+++++++.+++||.+..+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999998888777766679999999999999999999999887 99999999999999999999
Q ss_pred HHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchh
Q 004042 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (777)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 263 (777)
+++.+++.|++|+....++.. .+|+++++++|++.++|+|++.+.+.++..++++++++|+..+ .++. ..+...
T Consensus 161 ~~~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~~~-~~~~~~ 234 (345)
T cd06338 161 AREKAEAAGLEVVYDETYPPG----TADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-ALYM-TVGPAF 234 (345)
T ss_pred HHHHHHHcCCEEEEEeccCCC----ccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EEEE-ecCCCc
Confidence 999999999999988888765 6899999999999999999999999999999999999999654 2222 222111
Q ss_pred cccCCCCCchhhhhccceEEEEeecCC-------chhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcC
Q 004042 264 MLDSASLPSETLESMQGVLVLRQHIPE-------SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (777)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~ 336 (777)
.... .......+|+++...+.+. .+..++|.++|+++| +..|+.++..+||+++++++|++++...
T Consensus 235 ~~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~a~~~~~~a~~~ag~~- 307 (345)
T cd06338 235 PAFV----KALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKY--GKAPDYHAAGAYAAGQVLQEAVERAGSL- 307 (345)
T ss_pred HHHH----HHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHh--CCCCCcccHHHHHHHHHHHHHHHHhCCC-
Confidence 1011 1223445787777665553 366899999999998 4557778899999999999999986221
Q ss_pred CcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEE
Q 004042 337 GKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIIN 402 (777)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~ 402 (777)
+++.+.++|++++|+|++|+++|+++|++.. .+.+++
T Consensus 308 ----------------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~ 344 (345)
T cd06338 308 ----------------------------DPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQ 344 (345)
T ss_pred ----------------------------CHHHHHHHHHhCCCcccccCeeECCCCCcCC-Cceeee
Confidence 3789999999999999999999999998644 555554
No 41
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=8.8e-37 Score=321.76 Aligned_cols=304 Identities=21% Similarity=0.288 Sum_probs=264.7
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||++.|++ +..|.....|+++|+++||++||+ +|++|+++++|++++|..+++.+++|+++ +|.+|+||.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi-~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~ 79 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGV-LGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGV 79 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCC-CCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchh
Confidence 699999999 455788999999999999999999 69999999999999999999999999987 9999999999999
Q ss_pred HHHH-HHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHH
Q 004042 109 AHIV-SYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (777)
Q Consensus 109 ~~~v-a~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 186 (777)
+.++ +++++..++|+|+++++++.+++ ..++++||+.|++..++.++++++.+++|+++++|+.+++||.+..+.+++
T Consensus 80 ~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g~~~~~~~~~ 159 (312)
T cd06346 80 TIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYGVGLADAFTK 159 (312)
T ss_pred hHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchhhHHHHHHHH
Confidence 9999 99999999999999999988887 457899999999999999999999999999999999999999999999999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (777)
.+++.|++|+....++++ ..|+++++++++++++|+|++.+.+.++..++++++++|+..+ |++++.+.....
T Consensus 160 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~ 232 (312)
T cd06346 160 AFEALGGTVTNVVAHEEG----KSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFDK---FLLTDGMKSDSF 232 (312)
T ss_pred HHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCCc---eEeeccccChHH
Confidence 999999999998888877 8999999999999999999999999999999999999998443 666654332110
Q ss_pred CCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCcc
Q 004042 267 SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (777)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~ 346 (777)
. ........+|+++..+..+. +..++|.++|+++| +..|+.++..+||+++++++|
T Consensus 233 ~---~~~~~~~~~g~~~~~~~~~~-~~~~~f~~~~~~~~--g~~p~~~~~~~Yd~~~~l~~A------------------ 288 (312)
T cd06346 233 L---PADGGYILAGSYGTSPGAGG-PGLEAFTSAYKAAY--GESPSAFADQSYDAAALLALA------------------ 288 (312)
T ss_pred H---HhhhHHHhCCcEEccCCCCc-hhHHHHHHHHHHHh--CCCCCccchhhHHHHHHHHHH------------------
Confidence 1 11122456788776665443 77899999999999 566888999999999998876
Q ss_pred ccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEE
Q 004042 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDI 400 (777)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I 400 (777)
|.|++|++.|+++|++.. .|.-
T Consensus 289 -------------------------------~~g~~g~~~f~~~g~~~~-~~~~ 310 (312)
T cd06346 289 -------------------------------YQGASGVVDFDENGDVAG-SYDE 310 (312)
T ss_pred -------------------------------hCCCccceeeCCCCCccc-ceee
Confidence 568899999999998643 5544
No 42
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.2e-36 Score=322.62 Aligned_cols=334 Identities=15% Similarity=0.234 Sum_probs=275.2
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||++.|+| +..|.....|+++|+++||++||+ +|++|++++.|++++|..+.+.+++|+++ +|.+|+||.++..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi-~G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~ 79 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGV-NGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQ 79 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCc-CCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHH
Confidence 699999999 556899999999999999999999 59999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHH-HHHHHHhc-CCcEEEEEEEe-CccccchHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTA-VAEMVSYY-GWNAVSVIFVD-NEYGRNGVSALN 185 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a-~~~~l~~~-~w~~vaii~~~-~~~g~~~~~~~~ 185 (777)
+.++.++++..++|+|+++++++.+.+ .++++||+.+++..+... +..+++++ +|+++++||.+ +.||.+....++
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 468999998777655444 44567777 99999999975 459999999999
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (777)
+.+++.|++++....++.+ ..|+..++.+++++++|+|++.+.+.++..+++++++.|+..+ ++..+++....
T Consensus 159 ~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~ 231 (344)
T cd06348 159 KALRDQGLNLVTVQTFQTG----DTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNGL---IVGGNGFNTPN 231 (344)
T ss_pred HHHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCc---eeccccccCHH
Confidence 9999999999998888866 7899999999999999999999999999999999999999643 55544332211
Q ss_pred cCCCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccC
Q 004042 266 DSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (777)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~ 343 (777)
.. ....+..+|++...++.+ ..+..++|.+.|++++ +..++.++..+||+++++++|++++..+++..
T Consensus 232 ~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~yda~~~~~~A~~~a~~~~~~~---- 301 (344)
T cd06348 232 VF----PVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKY--GKAPPQFSAQAFDAVQVVAEALKRLNQKQKLA---- 301 (344)
T ss_pred HH----HhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHH--CCCccHHHHHHHHHHHHHHHHHHHhcCCCccc----
Confidence 11 223356678877766554 3467899999999998 55677889999999999999999986432210
Q ss_pred CccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEE
Q 004042 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDI 400 (777)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I 400 (777)
.|. .-..+..|.++|++.+|+|++|++.|+++|++...+|.|
T Consensus 302 ------------~~~---~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 302 ------------ELP---LPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred ------------cch---hhhHHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 000 001367899999999999999999999999987777654
No 43
>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=2.3e-35 Score=313.31 Aligned_cols=332 Identities=16% Similarity=0.171 Sum_probs=256.0
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
+||++|+.++.. ....-++.+|++++|+++|+ +|+.++++.+|+.+||.++++++|+|+++||.|||||.+|..+.++
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 589999997542 34455666667788888886 5788999999999999999999999999999999999999999999
Q ss_pred HHhhccCCceEEecccCCC--------CCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHH
Q 004042 113 SYVSNELQVPLLSFGVTDP--------TLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSA 183 (777)
Q Consensus 113 a~~~~~~~iP~Is~~a~~~--------~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~ 183 (777)
+++++..+||+|++.+... .+.+ ...+|.|++.|++ .+..++++++++++|++|+++|+++. |....+.
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 9999999999999654321 1112 1235666776774 68899999999999999999998775 5566677
Q ss_pred HHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHh-------cCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004042 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA-------LMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (777)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~-------~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i 256 (777)
+.+.+++.|+.+... ....+ ....+...++.++ ..+.++||+.|+++.+..++++|.++||+..+|+|+
T Consensus 157 ~~~~~~~~g~~v~~~-~~~~~---~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi 232 (363)
T cd06381 157 FLDQLSRQGIDVLLQ-KVDLN---ISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKDSHWF 232 (363)
T ss_pred HHHHHHhcCceEEEE-ecccc---cchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEE
Confidence 888888889866532 23211 1223344444332 345568899999999999999999999999999999
Q ss_pred EeCcchhc-ccCCCCCchhhhhccceEEEEeecCCchhHH----HHHHHHHhhcCC----CCCCCchhhhHhhHHHHHHH
Q 004042 257 ATDWLAYM-LDSASLPSETLESMQGVLVLRQHIPESDRKK----NFLSRWKNLTGG----SLGMNSYGLYAYDSVWLLAH 327 (777)
Q Consensus 257 ~~~~~~~~-~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~----~f~~~~~~~~~~----~~~~~~~~~~~yDAv~lla~ 327 (777)
+++.|... .+. +.......|+++++...+..+..+ .|.+.|+..+.+ ...+...++++||||+++.
T Consensus 233 ~~~~l~~~~~~l----~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~yDaV~~~~- 307 (363)
T cd06381 233 LINEEISDTEID----ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDGYLQMLEISNLYIYDSVLLLL- 307 (363)
T ss_pred Eeccccccchhh----HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCCCCCChhHHHHHHHHHHHHHH-
Confidence 88777653 222 456678899999999887766666 455566543311 1234557999999999991
Q ss_pred HHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecCc
Q 004042 328 AIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTG 407 (777)
Q Consensus 328 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~~ 407 (777)
++|+++.|+|+||+|.|+++|+|.+..++|+++..++
T Consensus 308 -------------------------------------------~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~ 344 (363)
T cd06381 308 -------------------------------------------ETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSE 344 (363)
T ss_pred -------------------------------------------HHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCC
Confidence 3567788999999999999999999999999998554
Q ss_pred -----eEEEEEEeCCCCC
Q 004042 408 -----FRMIGYWSNYSGL 420 (777)
Q Consensus 408 -----~~~vg~w~~~~gl 420 (777)
.+.+|.|++..||
T Consensus 345 ~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 345 TLGKDGRWLATWNPSKGL 362 (363)
T ss_pred ccccceEEeeeccCCCCC
Confidence 7889999998775
No 44
>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=2e-35 Score=315.92 Aligned_cols=337 Identities=16% Similarity=0.136 Sum_probs=276.7
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
+||++.|+| +..|....+|+++|+++||++||++ |++|+++++|++++|.++++.+.+|+++ +|.+|+|+.+|..
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 699999999 5568899999999999999999995 9999999999999999999999999976 8999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEeCccccchHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVSALNDK 187 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w~~vaii~~~~~~g~~~~~~~~~~ 187 (777)
+.++.++++..++|++++.+... ...+|++||+.+++..++..+++++.. .++++|++++.|++||.+..+.+++.
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 99999999999999997653221 134689999999999999999998764 57999999999999999999999999
Q ss_pred HhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 004042 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (777)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (777)
+++.|++++....++.+ ..|+++++.+++++++|+|++...+.++..+++++++.|+..+...++..........
T Consensus 157 ~~~~G~~vv~~~~~~~~----~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~- 231 (348)
T cd06355 157 LESLGGEVVGEEYLPLG----HTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELR- 231 (348)
T ss_pred HHHcCCeEEeeEEecCC----hhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHh-
Confidence 99999999998888876 8999999999999999999999999999999999999999754444554332211111
Q ss_pred CCCCchhhhhccceEEEEee--cCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCc
Q 004042 268 ASLPSETLESMQGVLVLRQH--IPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (777)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~ 345 (777)
....+...|++....+ ..+.+..++|.++|+++|+....++.++..+||+++++++|++++...
T Consensus 232 ----~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~~~~~~a~~~Y~a~~~~~~Al~~ag~~---------- 297 (348)
T cd06355 232 ----GIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDRVTNDPMEAAYIGVYLWKQAVEKAGSF---------- 297 (348)
T ss_pred ----hcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC----------
Confidence 1112345676654433 235677899999999998322234566888999999999999986321
Q ss_pred cccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEee-cCceEEE
Q 004042 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMI 411 (777)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~-~~~~~~v 411 (777)
+++.|.++|++.+|+++.|.++|+++++.....+.|.+++ +++++.|
T Consensus 298 -------------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 298 -------------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred -------------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 3889999999999999999999998554455667777885 5666654
No 45
>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=1.1e-35 Score=319.39 Aligned_cols=308 Identities=32% Similarity=0.534 Sum_probs=264.9
Q ss_pred EEEEEeeCCCc-------------chhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc----
Q 004042 33 NVGALFTLDST-------------IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET---- 95 (777)
Q Consensus 33 ~IG~l~~~s~~-------------~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~---- 95 (777)
.||++||++.. .|.....++.+|+++||+++++++|++|++++.|++|+|.+|++.+++|+.+
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 2466778999999999999999999999999999999999999999999975
Q ss_pred ----------CcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCC
Q 004042 96 ----------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGW 164 (777)
Q Consensus 96 ----------~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w 164 (777)
+|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..++++||+.|++..++.++++++++++|
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~ 160 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGW 160 (348)
T ss_pred CCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCC
Confidence 8999999999999999999999999999999999998876 57899999999999999999999999999
Q ss_pred cEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 165 ~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
++|++|+.+++||....+.+++.+++.|++++..+.++.. ....|+..++++++++++|+|++.+.+.++..++++++
T Consensus 161 ~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~--~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~ 238 (348)
T cd06350 161 TWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPS--STEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAY 238 (348)
T ss_pred eEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCC--CcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHH
Confidence 9999999999999999999999999999999998888765 23689999999999999999999999999999999999
Q ss_pred HcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHH
Q 004042 245 YLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWL 324 (777)
Q Consensus 245 ~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~l 324 (777)
++|+ .+. .|++.+.|..... ......+..+|++++..+.+.....+.|.+.+++ +++++|||+++
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 334 4555555543311 1123345678888888887765555666666664 67889999877
Q ss_pred HHHHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEee
Q 004042 325 LAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (777)
Q Consensus 325 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~ 404 (777)
.+.|+++|+| ...+.|++++
T Consensus 304 -----------------------------------------------------------~v~f~~~gd~-~~~~~i~~~~ 323 (348)
T cd06350 304 -----------------------------------------------------------EVKFDENGDR-LASYDIINWQ 323 (348)
T ss_pred -----------------------------------------------------------EEEecCCCCc-ccceeEEEEE
Confidence 4889999996 6678898887
Q ss_pred c----CceEEEEEEeCC
Q 004042 405 G----TGFRMIGYWSNY 417 (777)
Q Consensus 405 ~----~~~~~vg~w~~~ 417 (777)
. ..+++||.|++.
T Consensus 324 ~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 324 IFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EcCCcEEEEEEEEEcCC
Confidence 6 678999999874
No 46
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=3.8e-35 Score=314.51 Aligned_cols=338 Identities=22% Similarity=0.242 Sum_probs=279.9
Q ss_pred CceEEEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHh-cCcEEEEcCC
Q 004042 29 PAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-TDIVAIIGPQ 104 (777)
Q Consensus 29 ~~~i~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~-~~v~aviGp~ 104 (777)
.++|+||++.|+| +.+|....+++++|+++||+.||++ |++|+++++|+.|+|..+++.+.+|+. ++|.+|+|+.
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 4589999999999 6778999999999999999999985 888999999999999999999999988 4999999999
Q ss_pred ChhHHHHHHHhhccCCceEEecccCCCCCCCCCC-CceEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEeCccccchHH
Q 004042 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQY-PFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVS 182 (777)
Q Consensus 105 ~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~-~~~~r~~p~~~~~~~a~~~~l~~-~~w~~vaii~~~~~~g~~~~~ 182 (777)
+|..+.++.+++++.++|+|+++++++.+....+ +++||+.|++.+++.++++++.+ .+.++|++|++++.||++..+
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 9999999999999999999999999998777433 55999999999999999999765 555699999999999999999
Q ss_pred HHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 004042 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (777)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 262 (777)
.+++.+++.|.+++..+.+.+. ..++..++.+++++++|+|++.+...+...++++++++|+... ..+. +...
T Consensus 167 ~~~~~l~~~G~~~~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~-~~~~--~~~~ 239 (366)
T COG0683 167 AFKAALKALGGEVVVEEVYAPG----DTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK-LIGG--DGAG 239 (366)
T ss_pred HHHHHHHhCCCeEEEEEeeCCC----CCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc-cccc--cccC
Confidence 9999999999986666777766 5569999999999999999999999999999999999998754 2222 2211
Q ss_pred hcccCCCCCchhhhhccc-e-EEEEeecC-CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcc
Q 004042 263 YMLDSASLPSETLESMQG-V-LVLRQHIP-ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (777)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g-~-~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~ 339 (777)
..... ........+ . +......+ ..+..+.|.++|++++.....++.++..+||+++++++|++++.. .
T Consensus 240 ~~~~~----~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~y~a~~~~~~ai~~a~~-~--- 311 (366)
T COG0683 240 TAEFE----EIAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDPAAPSYFAAAAYDAVKLLAKAIEKAGK-S--- 311 (366)
T ss_pred chhhh----hhcccCccccEEEEecccccccCcchHHHHHHHHHHhCCCCCcccchHHHHHHHHHHHHHHHHHhc-C---
Confidence 11000 011112222 2 32333333 345677899999999932355667999999999999999999853 1
Q ss_pred cccCCccccccCCCCcccCCccccCchhHHHHHHHccc-ccCceeeEEEecCCCcccceEEEEEeecC
Q 004042 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNSDRSLIHAAYDIINVIGT 406 (777)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~tG~v~fd~~g~r~~~~~~I~~~~~~ 406 (777)
. +++.+.++|+... +++.+|.+.||++|++....+.|.+++.+
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 3788999999987 78999999999999999999999888854
No 47
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=100.00 E-value=7.5e-35 Score=311.84 Aligned_cols=339 Identities=10% Similarity=0.072 Sum_probs=273.4
Q ss_pred EEEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 004042 32 VNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (777)
Q Consensus 32 i~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~ 107 (777)
|+||++.|+| +..|...++|+++|+++||++||++ |++|++++.|++++|..+++.+.+|+++ +|.+||||.+|.
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 6999999999 5568899999999999999999996 9999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 186 (777)
.+.++.+++++.++|+|.... ... ...+|+||+.|++..++.++++++....-+++++|++|+.||+...+.+++
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~----~~~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g~~~~~~~~~ 155 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQ----YEGGVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFGQLSADWVRV 155 (374)
T ss_pred HHHHHHHHHHhcCceEEcCcc----cccccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHHHHHHHHHHH
Confidence 999999999999999996432 122 235899999999999999999997654337899999999999999999999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (777)
.+++.|++++....++.+ ..|+++++.++++++||+|++...+.+...+++|++++|+..+ ++..........
T Consensus 156 ~~~~~G~~vv~~~~~~~g----~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~ 228 (374)
T TIGR03669 156 IAKENGAEVVGEEFIPLS----VSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYE 228 (374)
T ss_pred HHHHcCCeEEeEEecCCC----cchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhh
Confidence 999999999988888876 8999999999999999999999988889999999999999644 222211111100
Q ss_pred CCCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCC-CCchhhhHhhHHHHHHHHHHHHHhcCCcccccC
Q 004042 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLG-MNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (777)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~ 343 (777)
.. ........|++....+.+ +.+..++|.++|+++|+ ..+ ++.++..+||+++++++|++++.+.
T Consensus 229 ~~---~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g-~~p~~~~~a~~~Yda~~~l~~Ai~~AGs~-------- 296 (374)
T TIGR03669 229 HK---RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFP-DAPYINQEAENNYFSVYMYKQAVEEAGTT-------- 296 (374)
T ss_pred hh---hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcC-CCCCCChHHHHHHHHHHHHHHHHHHhCCC--------
Confidence 00 011134566666555444 45778999999999983 222 3567888999999999999987321
Q ss_pred CccccccCCCCcccCCccccCchhHHHHHHHc-ccccCceeeEEEecCCCcccceEEEEEeec-CceEEEEEEe
Q 004042 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQ-SNLVGLTGPLKFNSDRSLIHAAYDIINVIG-TGFRMIGYWS 415 (777)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~-~~~~~vg~w~ 415 (777)
+++.|+++|++ .+|+|+.|+++||++++.....+.|.+++. +.+..+..|+
T Consensus 297 ---------------------d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 297 ---------------------DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred ---------------------CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 48999999997 579999999999987765555566666663 3345454554
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=3.8e-35 Score=314.10 Aligned_cols=324 Identities=20% Similarity=0.255 Sum_probs=274.2
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCC--CCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCCh
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSI--LHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCS 106 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gi--l~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s 106 (777)
|||++.|++ +..|.....|+++|+++||+.||+ ++|++|+++++|++++|..+++.+++|+++ +|.+|+||.+|
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 699999999 456889999999999999999973 479999999999999999999999999988 99999999999
Q ss_pred hHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc------CCcEEEEEEEeCccccch
Q 004042 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVDNEYGRNG 180 (777)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~------~w~~vaii~~~~~~g~~~ 180 (777)
..+.+++++++..++|+|++.++++.+++..++|+||+.|++..++.++++++.++ +|+++++|+.+++||...
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 99999999999999999998888887877678999999999999999999998765 469999999999999999
Q ss_pred HHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 004042 181 VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW 260 (777)
Q Consensus 181 ~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 260 (777)
.+.+++.+++.|++|+..+.++.. ..|++.++++++++++|+|++.+.+.++..++++++++|+..+ .++...++
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 999999999999999988888866 7899999999999999999999999999999999999999643 22222221
Q ss_pred chhcccCCCCCchhhhhccceEEEEeecCC-chhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcc
Q 004042 261 LAYMLDSASLPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (777)
Q Consensus 261 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~ 339 (777)
....... ....+..+|++...++.+. .+..++|.++|+++| +..++.++..+||+++++++|++++.+.
T Consensus 236 ~~~~~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~--~~~~~~~~~~~Y~a~~~l~~A~~~ag~~---- 305 (347)
T cd06340 236 AEDPSFV----KALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARF--GVDLSGNSARAYTAVLVIADALERAGSA---- 305 (347)
T ss_pred cCcHHHH----HHhhHhhheEEeccccCCCCChHHHHHHHHHHHHh--CCCCChHHHHHHHHHHHHHHHHHHhcCC----
Confidence 1111001 1233456788877766554 677899999999998 4568889999999999999999986321
Q ss_pred cccCCccccccCCCCcccCCccccCchhHHH--HHHHccccc---CceeeEEEecCCCcccc
Q 004042 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLL--GNILQSNLV---GLTGPLKFNSDRSLIHA 396 (777)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~l~~~~f~---G~tG~v~fd~~g~r~~~ 396 (777)
+++.+. .+|++.+++ ++.|+++||++|+..+.
T Consensus 306 -------------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 306 -------------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred -------------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 377788 588888875 46889999999985443
No 49
>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=4.7e-35 Score=311.70 Aligned_cols=320 Identities=15% Similarity=0.152 Sum_probs=269.5
Q ss_pred EEEEEeeCC--CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhHH
Q 004042 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTVA 109 (777)
Q Consensus 33 ~IG~l~~~s--~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~~ 109 (777)
+||++.|+| +..|....+|+++|+++||+.||+ +|++|++++.|++++|..+++.+.+|+++ +|.+|+|+.+|..+
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi-~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~ 79 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGI-NGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDAT 79 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCC-CCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 489999999 567888999999999999999998 59999999999999999999999999987 99999999999999
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEeCc-cccchHHHHHHH
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNE-YGRNGVSALNDK 187 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~-w~~vaii~~~~~-~g~~~~~~~~~~ 187 (777)
.+++++++..++|+|++.+.++.++ +.++|+||+.|++..+++++++++.+.+ |+++++|+.++. ||++..+.+++.
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 9999999999999999887777777 4579999999999999999999998776 999999998775 999999999999
Q ss_pred Hhh-cceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 004042 188 LAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (777)
Q Consensus 188 ~~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (777)
+++ .|.++.....++.. +.++..++.++++.++++|++.+.......+++++++.+. ...+++++.+.....
T Consensus 159 ~~~~~g~~v~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~~~~ 231 (332)
T cd06344 159 LLERGGGIVVTPCDLSSP----DFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG---RLTLLGGDSLYTPDT 231 (332)
T ss_pred HHHhcCCeeeeeccCCCC----CCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---CceEEecccccCHHH
Confidence 999 58888765555433 6688899999999999999999998888889999988764 233555444322211
Q ss_pred CCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCcc
Q 004042 267 SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (777)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~ 346 (777)
. .......+|++...++.+..+..++|.+.|++++ +.+++.++..+||+++++++|++++.+.
T Consensus 232 ~----~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~a~~~Yda~~~l~~A~~~ag~~----------- 294 (332)
T cd06344 232 L----LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLW--GGDVSWRTATAYDATKALIAALSQGPTR----------- 294 (332)
T ss_pred H----HhchhhhcCeEEEEecccccccchHHHHHHHHHh--cCCchHHHHhHHHHHHHHHHHHHhCCCh-----------
Confidence 1 1123456788888888777777899999999998 5678889999999999999999986321
Q ss_pred ccccCCCCcccCCccccCchhHHH-HHHHcccccCceeeEEEecCCCcccc
Q 004042 347 LKTMEGGNLHLGAMSIFDDGMLLL-GNILQSNLVGLTGPLKFNSDRSLIHA 396 (777)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~l~-~~l~~~~f~G~tG~v~fd~~g~r~~~ 396 (777)
++..+. ..+++..|+|+.|+++||++|++...
T Consensus 295 ------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~ 327 (332)
T cd06344 295 ------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNGQ 327 (332)
T ss_pred ------------------hhhhhhhhhcccccccCCCceeEeCCCCcccCc
Confidence 244444 67888889999999999999997543
No 50
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=8.1e-35 Score=311.03 Aligned_cols=315 Identities=15% Similarity=0.176 Sum_probs=271.1
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~ 109 (777)
+||++.|++ +..|.....++++|+++||+.||+ +|++|+++++|++++|.++++.+++|++++|.+||||.+|..+
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 599999999 456889999999999999999999 5999999999999999999999999999999999999999999
Q ss_pred HHH-------HHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEeCccccch
Q 004042 110 HIV-------SYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGRNG 180 (777)
Q Consensus 110 ~~v-------a~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~-w~~vaii~~~~~~g~~~ 180 (777)
.++ +++++.+++|+|++.++++.+++ +.++++||+.|++..++.++++++.+.+ |+++++++.++.||.+.
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~ 159 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDV 159 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHH
Confidence 998 78889999999999888888877 5679999999999999999999988775 99999999999999999
Q ss_pred HHHHHHHHhh--cceEEEEeeecCCCCCCCh-hhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 181 VSALNDKLAE--RRCRISYKSGIPPESGVNT-GYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 181 ~~~~~~~~~~--~g~~v~~~~~~~~~~~~~~-~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
.+.+++.+++ .|++++....++.+ . +|+.+++.+++++++|+|++...+.++..++++++++|+..+ ++.
T Consensus 160 ~~~~~~~~~~~~~G~~vv~~~~~~~~----~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~ 232 (342)
T cd06329 160 AAAFKAMLAAKRPDIQIVGEDLHPLG----KVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKLP---FYT 232 (342)
T ss_pred HHHHHHHHHhhcCCcEEeceeccCCC----CCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCce---EEe
Confidence 9999999999 99999988777765 6 899999999999999999999988899999999999998543 444
Q ss_pred eCcchhcccCCCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhc
Q 004042 258 TDWLAYMLDSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (777)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~ 335 (777)
....... .. ....+..+|++....+.+ ..+..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 233 ~~~~~~~-~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~y~~~~~~~~a~~~ag~~ 305 (342)
T cd06329 233 PYLDQPG-NP----AALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKY--GRVPDYYEGQAYNGIQMLADAIEKAGST 305 (342)
T ss_pred ccccchh-HH----HhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHh--CCCCCchHHHHHHHHHHHHHHHHHhCCC
Confidence 4332221 11 123345677776665443 3577899999999998 4567788999999999999999985211
Q ss_pred CCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCC
Q 004042 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDR 391 (777)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g 391 (777)
+++.+.++|++++|+|+.|+++|++.+
T Consensus 306 -----------------------------~~~~v~~al~~~~~~~~~g~~~~~~~~ 332 (342)
T cd06329 306 -----------------------------DPEAVAKALEGMEVDTPVGPVTMRASD 332 (342)
T ss_pred -----------------------------CHHHHHHHHhCCccccCCCCeEEcccC
Confidence 388999999999999999999998643
No 51
>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=4.4e-34 Score=306.71 Aligned_cols=331 Identities=15% Similarity=0.114 Sum_probs=267.5
Q ss_pred EEEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 004042 32 VNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (777)
Q Consensus 32 i~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~ 107 (777)
|+||++.|+| +..|..+.+|+++|+++||++||++ |++|+++++|++++|.++++.+++|+++ +|.+|+|+.+|.
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 6899999999 4567889999999999999999995 9999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEeCccccchHHHHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVSALND 186 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w~~vaii~~~~~~g~~~~~~~~~ 186 (777)
.+.++.++++..++|++.+.... .+...+++||+.+++..++..+++++.. .|.+++++++.|++||.+..+.+++
T Consensus 80 ~~~a~~~~~~~~~~~~i~~~~~~---~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~~~ 156 (359)
T TIGR03407 80 SRKAVLPVFEENNGLLFYPVQYE---GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKIIKA 156 (359)
T ss_pred HHHHHHHHHhccCCceEeCCccc---CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHHHHHHHHHHH
Confidence 99999999999999999764321 1235689999999999999999998766 5999999999999999999999999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (777)
.+++.|++++....++.+ ..|+++++.+|+++++|+|++...+.+...++++++++|+......++..........
T Consensus 157 ~~~~~G~~vv~~~~~~~~----~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~ 232 (359)
T TIGR03407 157 YLKSLGGTVVGEDYTPLG----HTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIR 232 (359)
T ss_pred HHHHcCCEEEeeEEecCC----hHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHh
Confidence 999999999988888876 8999999999999999999988888888889999999999644333444332211111
Q ss_pred CCCCCchhhhhccceEEEEee--cCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCC
Q 004042 267 SASLPSETLESMQGVLVLRQH--IPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (777)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~ 344 (777)
....+..+|+++...+ ....+..++|.++|+++|+....+..++..+||++.++++|++++.+.
T Consensus 233 -----~~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~A~~~ag~~--------- 298 (359)
T TIGR03407 233 -----GIGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDRVTNDPMEAAYLGVYLWKAAVEKAGSF--------- 298 (359)
T ss_pred -----hcChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 1112346776654322 235577899999999998311223445677999999999999986321
Q ss_pred ccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEee
Q 004042 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (777)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~ 404 (777)
+++.++++|++++|+++.|+++|+++++.....+.+.+++
T Consensus 299 --------------------~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~~ 338 (359)
T TIGR03407 299 --------------------DVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEIR 338 (359)
T ss_pred --------------------CHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEEc
Confidence 3889999999999999999999998444344445555554
No 52
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=5.5e-34 Score=307.65 Aligned_cols=342 Identities=15% Similarity=0.200 Sum_probs=285.3
Q ss_pred CceEEEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCC
Q 004042 29 PAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQ 104 (777)
Q Consensus 29 ~~~i~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~ 104 (777)
+++|+||+++|++ +..|.....++++|++++|+.||+ .|++|+++++|+++++..+++.+.+|+++ +|.+|+||.
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 5789999999999 456888999999999999999999 59999999999999999999999999975 999999999
Q ss_pred ChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEeCccccchHH
Q 004042 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVS 182 (777)
Q Consensus 105 ~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~vaii~~~~~~g~~~~~ 182 (777)
+|..+.+++++++..++|+|++.+.++.+++ +.++++||+.|++..++.++++++ ++.+|++|++|++++.||.+..+
T Consensus 83 ~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~~ 162 (362)
T cd06343 83 GTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYLK 162 (362)
T ss_pred CcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHHH
Confidence 9999999999999999999998777777777 478999999999999999999975 56799999999999999999999
Q ss_pred HHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 004042 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (777)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 262 (777)
.+++.+++.|++++....++.. ..|+++++.+++++++|+|++.+.+.+...++++++++|+... ++..+.+.
T Consensus 163 ~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~ 235 (362)
T cd06343 163 GLKDGLGDAGLEIVAETSYEVT----EPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPT---FLLSSVSA 235 (362)
T ss_pred HHHHHHHHcCCeEEEEeeecCC----CccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCce---EEEEeccc
Confidence 9999999999999988888876 7899999999999999999999999999999999999998643 55554432
Q ss_pred hcccCCCCCchhhhhccceEEEEeec-------CCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhc
Q 004042 263 YMLDSASLPSETLESMQGVLVLRQHI-------PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (777)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~ 335 (777)
..... .........+|++....+. ...+..++|.+.|+++++...+++.+...+||++.++++|++++..
T Consensus 236 ~~~~~--~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~a~~~ag~- 312 (362)
T cd06343 236 SVASV--LKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGDPPDTYAVYGYAAAETLVKVLKQAGD- 312 (362)
T ss_pred ccHHH--HHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHhCC-
Confidence 22110 0011224567777665432 2357789999999999831125788999999999999999998621
Q ss_pred CCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccc---cC-ceeeEEEecCCCcccceEEEEEeecCce
Q 004042 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNL---VG-LTGPLKFNSDRSLIHAAYDIINVIGTGF 408 (777)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f---~G-~tG~v~fd~~g~r~~~~~~I~~~~~~~~ 408 (777)
. . +++.|.++|+++++ .+ ..|+++|++++++....+.|.++++++|
T Consensus 313 --~------------------------~-~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~ 362 (362)
T cd06343 313 --D------------------------L-TRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGRW 362 (362)
T ss_pred --C------------------------C-CHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCcC
Confidence 1 1 38899999999997 33 3458999877666667788888887764
No 53
>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-34 Score=304.85 Aligned_cols=331 Identities=18% Similarity=0.228 Sum_probs=275.4
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||++.|+| +..|.....|+++|++++|+++|+ +|++|+++++|+++++..+.+.+.+|+++ +|.+|+|+.+|..
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 699999999 456899999999999999999999 69999999999999999999999999987 7999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEeCccccchHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~vaii~~~~~~g~~~~~~~~~~ 187 (777)
+.+++++++..++|+|++.+..+.+++ ..+|+||+.|++..++.++++++ ++++|++|++++.+++||.+..+.+++.
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 999999999999999998877776665 35899999999999999999985 6789999999999999999999999999
Q ss_pred HhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 004042 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (777)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (777)
+++.|++++....+++. ..|++.++.+++.+++|+|++.+.+.+...+++++++.|+..+ ++..+.+......
T Consensus 159 ~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~~ 231 (340)
T cd06349 159 AEKLGGQVVAHEEYVPG----EKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDIP---VVASSSVYSPKFI 231 (340)
T ss_pred HHHcCCEEEEEEEeCCC----CCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc---EEccCCcCCHHHH
Confidence 99999999988888766 7899999999999999999999999999999999999998643 4444332211111
Q ss_pred CCCCchhhhhccceEEEEeecCC--chhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCc
Q 004042 268 ASLPSETLESMQGVLVLRQHIPE--SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (777)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~ 345 (777)
........|++...++.+. .+..++|.++|+++| +..++.++..+||++.++++|++++...
T Consensus 232 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~~~~~~~~a~~~ag~~---------- 295 (340)
T cd06349 232 ----ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKY--GAQPDAFAAQAYDAVGILAAAVRRAGTD---------- 295 (340)
T ss_pred ----HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH--CCCcchhhhhHHHHHHHHHHHHHHhCCC----------
Confidence 1223457888877666553 567899999999888 4567888999999999999999985221
Q ss_pred cccccCCCCcccCCccccCchhHHHHH-HHcccccCceeeEEEecC-CCcccceEEEEEeecCce
Q 004042 346 RLKTMEGGNLHLGAMSIFDDGMLLLGN-ILQSNLVGLTGPLKFNSD-RSLIHAAYDIINVIGTGF 408 (777)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~l~~~-l~~~~f~G~tG~v~fd~~-g~r~~~~~~I~~~~~~~~ 408 (777)
+...+.+. +.+..+.+++|.++|+++ +++ ...+.++.+++++|
T Consensus 296 -------------------~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~-~~~~~~~~~~~g~~ 340 (340)
T cd06349 296 -------------------RRAARDGFAKAEDVYSGVTGSTKFDPNTRRV-IKRFVPLVVRNGKF 340 (340)
T ss_pred -------------------CHHHHHHHHHhccCcccceEeEEECCCCCCc-cCceEEEEEeCCcC
Confidence 12233333 245568899999999987 554 55788888877653
No 54
>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=3.1e-34 Score=305.69 Aligned_cols=322 Identities=16% Similarity=0.147 Sum_probs=269.7
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
+||+++|+| +..|.....++++|++++|++||+ +|++|+++++|++++|..+++.+++|+++ +|.+|+||.+|..
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 599999999 456789999999999999999999 59999999999999999999999999988 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 188 (777)
+.+++++++..++|+|++.+.... ...+++||+.|+...++.++++++...+|++|++|++|+.||.+..+.+++.+
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 23589999999999999999998876669999999999999999999999999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (777)
++.|.+++....++.+ ..|+++++.++++.++|+|++.+.+.+...+++++++.|+...... +.+...... ..
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~-~~- 229 (333)
T cd06331 157 EELGGEVVGEEYLPLG----TSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRIP-ILSLTLDEN-EL- 229 (333)
T ss_pred HHcCCEEEEEEEecCC----cccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCCe-eEEcccchh-hh-
Confidence 9999999988888876 7999999999999999999999999999999999999999633333 333222111 11
Q ss_pred CCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCcc
Q 004042 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (777)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~ 346 (777)
.........|++...++.+ +.+..++|.++|+++++....++.++..+||+++++++|++++.+
T Consensus 230 --~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~ag~------------ 295 (333)
T cd06331 230 --AAIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDAVINSPAEAAYEAVYLWAAAVEKAGS------------ 295 (333)
T ss_pred --hccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCcCCCchhHHHHHHHHHHHHHHHHcCC------------
Confidence 0111234678777766544 457789999999998832125788899999999999999998521
Q ss_pred ccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccc
Q 004042 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHA 396 (777)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~ 396 (777)
.+++.|.++|++++|+|++|.+.|++++++...
T Consensus 296 -----------------~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~~~ 328 (333)
T cd06331 296 -----------------TDPEAVRAALEGVSFDAPQGPVRIDPDNHHTWL 328 (333)
T ss_pred -----------------CCHHHHHHHhhcCcccCCCCceEecCCCCcccc
Confidence 148899999999999999999999998876443
No 55
>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=8.1e-34 Score=303.30 Aligned_cols=319 Identities=18% Similarity=0.274 Sum_probs=271.4
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s~---~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
+||++.|+++ ..|.....|+++|++++|++||+ +|++|++++.|++++|.++++.+++|+++ +|.+||||.++..
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 6999999994 45788999999999999999998 69999999999999999999999999988 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEeC-ccccchHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDN-EYGRNGVSALND 186 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~vaii~~~~-~~g~~~~~~~~~ 186 (777)
+.+++++++..+||+|++.+..+.+++.. +++||+.|++..++.++++++ ++++|++|++|+.++ +|+....+.+++
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~~~~~~-~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~ 158 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPKVTQGK-DYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKE 158 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCCcccCC-CeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHH
Confidence 99999999999999999988777776533 589999999988999999986 577999999999775 899988899999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (777)
.+++.|++++....++.+ ..|+.++++++++.++++|++.+...+...+++++++.|+. ..|+.++.|.....
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 999999999988888765 67899999999999999999999999999999999999984 34777666543211
Q ss_pred CCCCCchhhhhccceEEEEeecCC--chhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCC
Q 004042 267 SASLPSETLESMQGVLVLRQHIPE--SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (777)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~ 344 (777)
. ........|++...++.+. .+..++|.+.|++++ +..++.++..+||+++++++|++++...
T Consensus 232 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~Al~~ag~~--------- 296 (334)
T cd06347 232 E----EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKY--GKEPDAFAALGYDAYYLLADAIERAGST--------- 296 (334)
T ss_pred H----HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH--CCCcchhHHHHHHHHHHHHHHHHHhCCC---------
Confidence 1 1223567887777665553 577899999999988 4677888999999999999999975211
Q ss_pred ccccccCCCCcccCCccccCchhHHHHHHHcc-cccCceeeEEEecCCCccc
Q 004042 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQS-NLVGLTGPLKFNSDRSLIH 395 (777)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~f~G~tG~v~fd~~g~r~~ 395 (777)
+++.+.++|.+. +|+|++|+++|+++|+..+
T Consensus 297 --------------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~ 328 (334)
T cd06347 297 --------------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVK 328 (334)
T ss_pred --------------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCC
Confidence 378898998765 6999999999999988543
No 56
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=100.00 E-value=4.3e-34 Score=304.74 Aligned_cols=317 Identities=15% Similarity=0.156 Sum_probs=270.7
Q ss_pred EEEEEeeCCCcc----hhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 004042 33 NVGALFTLDSTI----GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (777)
Q Consensus 33 ~IG~l~~~s~~~----g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~ 107 (777)
+||+++|+++.. |.....|+++|++++| ||+ .|++|+++++|++++|..+++.+.+|+++ +|.+||||.+|.
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 589999998444 7889999999999999 888 59999999999999999999999999987 999999999999
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 186 (777)
.+.+++++++..++|+|+++++++.+++ ...||+||+.+++..++.++++++...+++++++++.++.||.+....+++
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~ 157 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARK 157 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHH
Confidence 9999999999999999999888888887 457999999999999999999998877899999999999999999999999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (777)
.+++.|++++....++.. .+|+++++.+++++++|+|++.+.+.++..++++++++|+.. ...++....+....
T Consensus 158 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~- 231 (334)
T cd06327 158 VVKANGGKVVGSVRHPLG----TSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK-GQKLAGLLLFLTDV- 231 (334)
T ss_pred HHHhcCCEEcCcccCCCC----CccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc-CCcEEEecccHHHH-
Confidence 999999999988888766 789999999999999999999999999999999999999863 22333322221110
Q ss_pred CCCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCC
Q 004042 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (777)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~ 344 (777)
. ....+..+|++...++.+ ..+..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 232 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~Y~~~~~~~~A~~~ag~~--------- 296 (334)
T cd06327 232 H----SLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKY--GKMPSMVQAGAYSAVLHYLKAVEAAGTD--------- 296 (334)
T ss_pred H----hhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHH--CcCCCcHHHHHHHHHHHHHHHHHHHCCC---------
Confidence 0 112245678877776543 3677899999999998 4568888999999999999999997332
Q ss_pred ccccccCCCCcccCCccccCchhHHHHHHHccc-ccCceeeEEEec-CCCc
Q 004042 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNS-DRSL 393 (777)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~tG~v~fd~-~g~r 393 (777)
+++.|.++|+++. ++++.|+++|++ +|+.
T Consensus 297 --------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~ 327 (334)
T cd06327 297 --------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQM 327 (334)
T ss_pred --------------------ChHHHHHhccccceeccCCCCceeeccccch
Confidence 3667999999986 688999999987 6664
No 57
>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=1.4e-33 Score=300.53 Aligned_cols=324 Identities=13% Similarity=0.172 Sum_probs=268.6
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
+||+++|++ +..|....+|+++|++++| +|+ +|++|+++++|++++|..+++.+.+|+.+ +|.+|+||.+|..
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 699999999 4557889999999999998 677 69999999999999999999999999977 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 187 (777)
+.+++++++..++|+|++++..+.+.+ ..++|+||+.+++..+..++++++...+|++++++++++.||.+..+.+++.
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~ 157 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRT 157 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHH
Confidence 999999999999999998766666665 4579999999999999999999999899999999999999999988888887
Q ss_pred HhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 004042 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (777)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (777)
++ .+++....++.+ .+|+++++.+++++++|+|++...+.++..++++++++|+.. ...++...........
T Consensus 158 ~~---~~v~~~~~~~~~----~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~~~~ 229 (333)
T cd06359 158 FK---GEVVGEVYTKLG----QLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEEDTL 229 (333)
T ss_pred hC---ceeeeeecCCCC----CcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCHHHH
Confidence 64 356655556544 789999999999999999999888888999999999999853 3345554433221001
Q ss_pred CCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCc
Q 004042 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (777)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~ 345 (777)
....+..+|++...++.+ +++..++|.++|++++ +..++.++..+||+++++++|++++..+.
T Consensus 230 ----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~A~~~ag~~~--------- 294 (333)
T cd06359 230 ----PAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKY--GRLPTLYAAQAYDAAQLLDSAVRKVGGNL--------- 294 (333)
T ss_pred ----HhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHHhcCCC---------
Confidence 122345678887776665 4678899999999998 55788899999999999999999863210
Q ss_pred cccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEE
Q 004042 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDII 401 (777)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~ 401 (777)
.+++.|.++|++..|+|++|++.|+++|+. .....++
T Consensus 295 ------------------~~~~~v~~al~~~~~~~~~G~~~~~~~~~~-~~~~~~~ 331 (333)
T cd06359 295 ------------------SDKDALRAALRAADFKSVRGAFRFGTNHFP-IQDFYLR 331 (333)
T ss_pred ------------------CCHHHHHHHHhcCccccCccceEECCCCCc-ceeEEEE
Confidence 137899999999999999999999998874 4444444
No 58
>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=6.4e-33 Score=297.85 Aligned_cols=340 Identities=15% Similarity=0.150 Sum_probs=274.1
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||++.|+| +..|...++|+++|+++||++||++ |++|+++++|++++|..+++.+++|+++ +|.+|+|+.+|..
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~ 79 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVL-GRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSS 79 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCC-CeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHH
Confidence 699999999 5678999999999999999999995 9999999999999999999999999975 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 188 (777)
+.+++++++..++|++.+++... + ...+++|++.++...+..++++++.+.+-+++++|+.|+.||++..+.+++.+
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 99999999999999998654221 1 22367888888877778889998776666899999999999999999999999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (777)
++.|++++....++.+ ....|+++++.+++++++|+|++.+.+.++..++++++++|+.... ..+.+...... ..
T Consensus 157 ~~~G~~vv~~~~~~~~--~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~-~~~~~~~~~~~-~~- 231 (360)
T cd06357 157 EQRGGEVLGERYLPLG--ASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPAR-MPIASLTTSEA-EV- 231 (360)
T ss_pred HHcCCEEEEEEEecCC--CchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccC-ceeEEeeccHH-HH-
Confidence 9999999876555543 3489999999999999999999999999999999999999986432 33333221111 01
Q ss_pred CCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCcc
Q 004042 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (777)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~ 346 (777)
.....+..+|+++..++.+ ..+..++|.++|+++|+....++.++..+||+++++++|++++...
T Consensus 232 --~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~yda~~~l~~Al~~ag~~----------- 298 (360)
T cd06357 232 --AAMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGEDAPVSACAEAAYFQVHLFARALQRAGSD----------- 298 (360)
T ss_pred --hhcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHcCCC-----------
Confidence 0122356788887766543 4677899999999998322235678899999999999999986221
Q ss_pred ccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEe-ecCceEEEE
Q 004042 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINV-IGTGFRMIG 412 (777)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~-~~~~~~~vg 412 (777)
+++.|+++|++.+|+|+.|.+.|+++++.......+.++ ++|+|..+.
T Consensus 299 ------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 299 ------------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred ------------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 378899999999999999999999876544455566677 566666554
No 59
>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=2.3e-33 Score=300.95 Aligned_cols=334 Identities=22% Similarity=0.328 Sum_probs=278.8
Q ss_pred eEEEEEEeeCCC---cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHh-cCcEEEEcCCCh
Q 004042 31 VVNVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-TDIVAIIGPQCS 106 (777)
Q Consensus 31 ~i~IG~l~~~s~---~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~-~~v~aviGp~~s 106 (777)
+|+||++.|+++ ..|.....|+++|++++|++||+ +|++|+++++|+++++..+.+.+.+|++ ++|.+|+||.++
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 589999999994 45788999999999999999999 4999999999999999999999999999 699999999999
Q ss_pred hHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEeCccccchHHHHH
Q 004042 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALN 185 (777)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~vaii~~~~~~g~~~~~~~~ 185 (777)
..+.+++++++..++|+|++.+.++ ...++|+||+.|++..++.++++++ ++++.+++++|+.++++|....+.++
T Consensus 80 ~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~ 156 (343)
T PF13458_consen 80 AQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFR 156 (343)
T ss_dssp HHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHH
Confidence 9999999999999999999654332 2556999999999999999999985 56899999999999999999999999
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (777)
+.+++.|++++....++.+ ..|+..+++++++.++|+|++.+.+.++..+++++.++|+..+.+.......+....
T Consensus 157 ~~~~~~G~~vv~~~~~~~~----~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 232 (343)
T PF13458_consen 157 KALEAAGGKVVGEIRYPPG----DTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDASL 232 (343)
T ss_dssp HHHHHTTCEEEEEEEE-TT----SSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHHH
T ss_pred HHHhhcCceeccceecccc----cccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHHH
Confidence 9999999999888888876 799999999999999999999999999999999999999875434444333222211
Q ss_pred cCCCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccC
Q 004042 266 DSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (777)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~ 343 (777)
. .......+|++...++.+ ..+..++|.++|++.++...+++.++..+||++.++++|++++.. .
T Consensus 233 ~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~al~~~g~----~---- 299 (343)
T PF13458_consen 233 Q-----QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEPPPSLYAAQGYDAARLLAQALERAGS----L---- 299 (343)
T ss_dssp H-----HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTGGTCHHHHHHHHHHHHHHHHHHHHTS----H----
T ss_pred H-----HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHHHhCC----C----
Confidence 1 122246788888887665 457889999999999932224888999999999999999999721 1
Q ss_pred CccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEee-cC
Q 004042 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GT 406 (777)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~-~~ 406 (777)
+++.+.++|++.+|+|+.|++.|++.++.....+.|++++ +|
T Consensus 300 ---------------------~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~~G 342 (343)
T PF13458_consen 300 ---------------------DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKSDG 342 (343)
T ss_dssp ---------------------HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEETTT
T ss_pred ---------------------CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEecCC
Confidence 4899999999999999999999987666678889999998 44
No 60
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.7e-33 Score=301.41 Aligned_cols=323 Identities=18% Similarity=0.202 Sum_probs=269.0
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCC-CC--CEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSIL-HG--TKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil-~g--~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~ 105 (777)
+||++.|++ +..|.....++++|++++|++||++ +| ++|+++++|++++|..+.+.+.+|+++ +|.+|+|+.+
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 699999999 4567889999999999999999986 46 489999999999999999999999987 9999999999
Q ss_pred hhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHH
Q 004042 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (777)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~ 185 (777)
+.++.. +++++..++|+|++.+.++.++...++++||+.|++..++.++++++++.+|++|++|+.|+.||++..+.++
T Consensus 81 s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~ 159 (347)
T cd06336 81 GGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPNDAYGQPWVAAYK 159 (347)
T ss_pred Cchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCCchhHHHHHHHH
Confidence 999988 9999999999999988888877556799999999999999999999888999999999999999999999999
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHHHHHHHHcCCCCCCeEEEEeCcchhc
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMGNGYVWIATDWLAYM 264 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~ 264 (777)
+.+++.|++++....++.+ ..|+++++.+++++++|+|++.+... +...++++++++|+..+ ..++........
T Consensus 160 ~~l~~~G~~vv~~~~~~~~----~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~ 234 (347)
T cd06336 160 AAWEAAGGKVVSEEPYDPG----TTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG-FLSCTGDKYDEL 234 (347)
T ss_pred HHHHHcCCEEeeecccCCC----CcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc-EEeccCCCchHH
Confidence 9999999999988888866 89999999999999999999999998 99999999999998653 222222111110
Q ss_pred ccCCCCCchhhhhccceEEEEeecC----CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCccc
Q 004042 265 LDSASLPSETLESMQGVLVLRQHIP----ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKIS 340 (777)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~ 340 (777)
.. ....+...|++...+..+ ..+..++|.++|++++ +..++.+...+||++.++++|++++...
T Consensus 235 ~~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~~~~~~~~Al~~ag~~----- 302 (347)
T cd06336 235 LV-----ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRY--GEPPNSEAAVSYDAVYILKAAMEAAGSV----- 302 (347)
T ss_pred HH-----HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHH--CCCCcHHHHHHHHHHHHHHHHHHhcCCC-----
Confidence 10 112245678887776544 4677899999999998 4557888999999999999999986321
Q ss_pred ccCCccccccCCCCcccCCccccCchhHHHHHHHc-------ccccCceeeEEEecCCCcccc
Q 004042 341 FSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQ-------SNLVGLTGPLKFNSDRSLIHA 396 (777)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-------~~f~G~tG~v~fd~~g~r~~~ 396 (777)
+..+.+.+.|+. ..|.++.|.+.||++|++..+
T Consensus 303 -----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 342 (347)
T cd06336 303 -----------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGP 342 (347)
T ss_pred -----------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccC
Confidence 113333333332 568899999999999996543
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=3.7e-33 Score=299.37 Aligned_cols=325 Identities=19% Similarity=0.169 Sum_probs=269.9
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s~---~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
+||++.|+++ ..|.....|+++|++++|+++|+ +|++|++++.|+++++..+.+.+++|+++ +|.+|+||.++..
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 6999999994 45788999999999999999998 59999999999999999999999999997 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeCccccchHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEYGRNGVSALN 185 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~~~g~~~~~~~~ 185 (777)
+.+++++++..++|+|++.+.++.+.+ ..++++||+.|++..+..++++++++. +|++|++|+.++.+|....+.++
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~ 159 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFK 159 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHH
Confidence 999999999999999998888777776 578999999999999999999998876 49999999999999999999999
Q ss_pred HHHhhcc--eEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchh
Q 004042 186 DKLAERR--CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (777)
Q Consensus 186 ~~~~~~g--~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 263 (777)
+.+++.| ++++....++.. ..|+..++.+++..++|+|++.+.+.+...++++++++|+.. +..|+.+.+...
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 9999984 566655444433 789999999999999999999999999999999999999864 566776654322
Q ss_pred cccCCCCCchhhhhccceEEEEe--e--cCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcc
Q 004042 264 MLDSASLPSETLESMQGVLVLRQ--H--IPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (777)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~--~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~ 339 (777)
... .......+|++.... + .+..+..++|.++|++++ +..++.++..+||++.++++|++++......
T Consensus 235 ~~~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~y~a~~~l~~a~~~a~~~~~~- 306 (346)
T cd06330 235 ELA-----PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKY--GDYPTYGAYGAYQAVMALAAAVEKAGATDGG- 306 (346)
T ss_pred hhh-----hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHH--CCCCChHHHHHHHHHHHHHHHHHHhcCCCCC-
Confidence 211 112234566654432 1 114678899999999998 5677888999999999999999987543211
Q ss_pred cccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCccc
Q 004042 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIH 395 (777)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~ 395 (777)
.+ .+.+.++|++.+|.|+.|++.|+++.++..
T Consensus 307 -----------------------~~-~~~v~~al~~~~~~~~~G~~~f~~~~~~~~ 338 (346)
T cd06330 307 -----------------------AP-PEQIAAALEGLSFETPGGPITMRAADHQAT 338 (346)
T ss_pred -----------------------Cc-HHHHHHHHcCCCccCCCCceeeecCCCccc
Confidence 11 257999999999999999999988544333
No 62
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=4.4e-33 Score=295.43 Aligned_cols=304 Identities=18% Similarity=0.220 Sum_probs=237.5
Q ss_pred CCCChHHHHHHHHHHHhc-CcEEEE-cCCChh--HHHHHHHhhccCCceEEecccCCC-CCCC-CCCCceEEecCCchHH
Q 004042 78 SNCSGFIGMVEALRFMET-DIVAII-GPQCST--VAHIVSYVSNELQVPLLSFGVTDP-TLSS-LQYPFFVRTTQSDSYQ 151 (777)
Q Consensus 78 ~~~~~~~a~~~a~~l~~~-~v~avi-Gp~~s~--~~~~va~~~~~~~iP~Is~~a~~~-~l~~-~~~~~~~r~~p~~~~~ 151 (777)
...||...++.+|+++.+ +|.|+| ||.++. .+..++.+++++++|+|++++.++ .+++ ..+|+|+|+.|++..+
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 456899999999999987 699755 999986 446678888889999999876554 4566 6789999999999999
Q ss_pred HHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec
Q 004042 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (777)
Q Consensus 152 ~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~ 231 (777)
++++++++++|+|++|++||++++.+.+..+.+++.+.+.++++.....++... ....+....++++++.++++||+.|
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 999999999999999999999888777777788887776666554433333221 1233578899999999999999999
Q ss_pred ChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCCCC
Q 004042 232 SPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGM 311 (777)
Q Consensus 232 ~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 311 (777)
+.+.+..++++|+++||++++|+||++++.....+. ...+...|++++.. ++|++
T Consensus 202 s~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~-----~~~~~~~G~i~v~~------------~~w~~-------- 256 (362)
T cd06378 202 SKEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDL-----GPSEFPVGLISVSY------------DGWRY-------- 256 (362)
T ss_pred CHHHHHHHHHHHHHcCCcCCCeEEEecccccCCCcc-----ccccCCcceEeecc------------ccccc--------
Confidence 999999999999999999999999999976544221 11134466666542 12221
Q ss_pred CchhhhHhhHHHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCC-cc-ccCchhHHHHHHHcccccCceeeEEEec
Q 004042 312 NSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGA-MS-IFDDGMLLLGNILQSNLVGLTGPLKFNS 389 (777)
Q Consensus 312 ~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~l~~~l~~~~f~G~tG~v~fd~ 389 (777)
...+..||||+++|+|++.+.+++..++. ....|.. .. .|..|..|.++|++++|+|+ +|+|++
T Consensus 257 -~~~a~~~DaV~vva~Al~~l~~~~~~~~~-----------~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~ 322 (362)
T cd06378 257 -SLRARVRDGVAIIATGASAMLRQHGFIPE-----------AKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTE 322 (362)
T ss_pred -cHHHHHHHHHHHHHHHHHHHHhccCCCCC-----------CCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECC
Confidence 13567899999999999988764444321 2224543 33 48889999999999999997 999999
Q ss_pred CCCcccceEEEEEeec-CceEEEEEEeCCCCCcc
Q 004042 390 DRSLIHAAYDIINVIG-TGFRMIGYWSNYSGLSK 422 (777)
Q Consensus 390 ~g~r~~~~~~I~~~~~-~~~~~vg~w~~~~gl~~ 422 (777)
+|+|.++.|+|+++++ .+|++||.|++. +|.|
T Consensus 323 ~G~r~~~~ldIinl~~~~g~~kVG~W~~~-~L~~ 355 (362)
T cd06378 323 DGYLVNPKLVVISLNKERVWEEVGKWENG-SLRL 355 (362)
T ss_pred CCeEccceEEEEEecCCCCceEEEEEcCC-eEEE
Confidence 9999999999999997 589999999843 4443
No 63
>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=7.3e-33 Score=294.45 Aligned_cols=316 Identities=13% Similarity=0.137 Sum_probs=261.4
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHh-ccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVN-SNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN-~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~ 107 (777)
|||++.|++ +..|....+|+++|++++| ..+|+ +|++|++++.|++++|..+++.+.+|+++ +|.+|+||.+|.
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi-~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~ 79 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQV-DGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSG 79 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCc-CCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcH
Confidence 699999999 4568899999999999995 45777 69999999999999999999999999998 999999999999
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 186 (777)
.+.++++++++.++|+|++.++++.++. ..++|+||+.+++..+...+++++... +++|++|+.+++||++..+.+++
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 9999999999999999998888888876 346899999988888888888887666 89999999999999999999999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (777)
.+++.|++++....++++ ..|+++++.+++++++|+|++...+. +...+++++...|+..+ ...........
T Consensus 159 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~ 231 (333)
T cd06328 159 ALEKLGAAIVTEEYAPTD----TTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIE---ITLAGDILANL 231 (333)
T ss_pred HHHhCCCEEeeeeeCCCC----CcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCe---EEecccccCcc
Confidence 999999999998888876 88999999999999999998876555 56677888887776532 12222111111
Q ss_pred cCCCCCchhhhhccceEEEEeec-CCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCC
Q 004042 266 DSASLPSETLESMQGVLVLRQHI-PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (777)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~ 344 (777)
.. ........+++....+. +.++..+.|.++|+++| +..|+.++..+||++.++++|++++..
T Consensus 232 ~~----~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--g~~p~~~~~~~y~a~~~l~~Ai~~ag~---------- 295 (333)
T cd06328 232 TM----YKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARF--GSPPDLFTAGGMSAAIAVVEALEETGD---------- 295 (333)
T ss_pred cc----ccccccccceeeeecCCCCCCHHHHHHHHHHHHHh--CCCcchhhHHHHHHHHHHHHHHHHhCC----------
Confidence 00 11223345555544444 56778899999999998 566788899999999999999998631
Q ss_pred ccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCC
Q 004042 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRS 392 (777)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~ 392 (777)
.+++.+.++|++.+|+++.|+++|+++++
T Consensus 296 -------------------~~~~~v~~aL~~~~~~~~~g~~~f~~~~~ 324 (333)
T cd06328 296 -------------------TDTEALIAAMEGMSFETPKGTMTFRKEDH 324 (333)
T ss_pred -------------------CCHHHHHHHHhCCeeecCCCceEECcccc
Confidence 14889999999999999999999996443
No 64
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=100.00 E-value=1.3e-32 Score=294.09 Aligned_cols=324 Identities=16% Similarity=0.243 Sum_probs=276.1
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s~---~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||++.|++. ..|.....++++|++++| +++ +|++|+++++|+++++..+.+.+.+|+.+ +|.+||||.++..
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 6999999994 445789999999999986 455 79999999999999999999999999975 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 187 (777)
+.++++.++..++|+|++++.++.+++ ..+|++||+.+++..++..+++++.+.+|+++++++.++.||++..+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~ 157 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEA 157 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999999999999888888876 4479999999999999999999999889999999999999999999999999
Q ss_pred HhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 004042 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (777)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (777)
+++.|++++....++.. ..|+++++.++++.++|+|++.+.+.++..++++++++|+.. +..++.++++......
T Consensus 158 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~ 232 (336)
T cd06360 158 FTEAGGKIVKELWVPFG----TSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTDGTTL 232 (336)
T ss_pred HHHcCCEEEEEEecCCC----CcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccCHHHH
Confidence 99999999888777765 789999999999999999999999999999999999999853 3345655543322111
Q ss_pred CCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCc
Q 004042 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (777)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~ 345 (777)
....+..+|++...++.+ +.+..++|.++|++++ +..++.++..+||+++++++|++++....
T Consensus 233 ----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~--~~~~~~~~~~~yda~~~~~~A~~~a~~~~--------- 297 (336)
T cd06360 233 ----GAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAY--PDTPSVYAVQGYDAGQALILALEAVGGDL--------- 297 (336)
T ss_pred ----HhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHh--CCCccHHHHHHHHHHHHHHHHHHHhCCCC---------
Confidence 233456788877766544 4678899999999998 56788899999999999999999973221
Q ss_pred cccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccce
Q 004042 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAA 397 (777)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~ 397 (777)
.+++.+.++|++.+|+|+.|+++|+++|++....
T Consensus 298 ------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~ 331 (336)
T cd06360 298 ------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDN 331 (336)
T ss_pred ------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccce
Confidence 1377899999999999999999999999875543
No 65
>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=9.9e-32 Score=279.56 Aligned_cols=337 Identities=15% Similarity=0.148 Sum_probs=247.0
Q ss_pred CCceEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCC-CChHHHHHHHHHH-HhcCcEEEEcC-C
Q 004042 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRF-METDIVAIIGP-Q 104 (777)
Q Consensus 28 ~~~~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~-~~~~~a~~~a~~l-~~~~v~aviGp-~ 104 (777)
-+..|+||++|+.. .+.+.|+++|++.+|.+..++++.+|+..+.... .|+..+.+.+|++ +.+||.||+|| .
T Consensus 15 ~~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg~p~ 90 (382)
T cd06377 15 IGHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLAFPQ 90 (382)
T ss_pred cCCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEecCC
Confidence 35579999999976 2579999999999999988878889999877765 4999999999999 59999999994 7
Q ss_pred ChhHHHHHHHhhccCCceEEecccCCCCC-CCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHH
Q 004042 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTL-SSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSA 183 (777)
Q Consensus 105 ~s~~~~~va~~~~~~~iP~Is~~a~~~~l-~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~ 183 (777)
++..+..+..+|+.++||+|++....... ++..+....++.|+...++.|+++++++|+|++|++||+.+.... .
T Consensus 91 s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl~----~ 166 (382)
T cd06377 91 TRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDPT----G 166 (382)
T ss_pred CHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCHH----H
Confidence 77888999999999999999986654332 223322234669999999999999999999999999998776332 3
Q ss_pred HHHHHhhcce----EEEEeeecCCCCCCChhhH-HHHHHHHhcCC-CeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 184 LNDKLAERRC----RISYKSGIPPESGVNTGYV-MDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 184 ~~~~~~~~g~----~v~~~~~~~~~~~~~~~d~-~~~l~~l~~~~-~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
|++.++..+. .+......+.. +.+..++ +++|++++++. .++|++.|+.+.+..+++++.+ .|+||+
T Consensus 167 lq~l~~~~~~~~~~~~i~v~~~~~~-~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~------~y~wIv 239 (382)
T cd06377 167 LLLLWTNHARFHLGSVLNLSRNDPS-TADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP------GPHWIL 239 (382)
T ss_pred HHHHHHHhcccccCceEEEEeccCc-cCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc------ceEEEE
Confidence 4444333321 12222223211 0124455 99999999999 9999999999999999988764 499999
Q ss_pred eCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHh--c
Q 004042 258 TDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFN--Q 335 (777)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~--~ 335 (777)
++. .+..... .....-|++.. .+ .......+++||||+++++|++.+.. .
T Consensus 240 ~~~----~~le~~~--~~g~nigLl~~-----------------~~-----~~~~~l~ali~DAV~lvA~a~~~l~~~~~ 291 (382)
T cd06377 240 GDP----LPPEALR--TEGLPPGLLAH-----------------GE-----TTQPPLEAYVQDALELVARAVGSATLVQP 291 (382)
T ss_pred cCC----cChhhcc--CCCCCceEEEE-----------------ee-----cccccHHHHHHHHHHHHHHHHHHhhhccc
Confidence 872 1120000 01222333321 10 11113488999999999999998631 1
Q ss_pred CCcccccCCccccccCCCCcccCCc--c-ccCchhHHHHHHHcccccCceeeEEEecCCCc--ccceEEEEEee--cCc-
Q 004042 336 GGKISFSNDSRLKTMEGGNLHLGAM--S-IFDDGMLLLGNILQSNLVGLTGPLKFNSDRSL--IHAAYDIINVI--GTG- 407 (777)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r--~~~~~~I~~~~--~~~- 407 (777)
.... ......|... . +|++|..|.++|++++|+|.||+|.| +.|.| .+..++|++++ ..+
T Consensus 292 ~~~l-----------~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F-~~g~R~~~~~~l~I~~L~~~~~G~ 359 (382)
T cd06377 292 ELAL-----------IPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWV-TGSSQVHSSRHFKVWSLRRDPVGQ 359 (382)
T ss_pred cccc-----------CCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEE-ccCeeecccceEEEEEeccccCCC
Confidence 1111 1123467654 5 89999999999999999999999999 45888 78999999998 333
Q ss_pred --eEEEEEEeCCCC
Q 004042 408 --FRMIGYWSNYSG 419 (777)
Q Consensus 408 --~~~vg~w~~~~g 419 (777)
|++||.|++...
T Consensus 360 ~~W~kVG~W~~~~~ 373 (382)
T cd06377 360 PTWTTVGSWQGGRK 373 (382)
T ss_pred ccceEEEEecCCCc
Confidence 599999998643
No 66
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=100.00 E-value=2.4e-32 Score=290.64 Aligned_cols=316 Identities=12% Similarity=0.094 Sum_probs=260.6
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
+||++.|+| +..|.....++++|+++||+.+|+ +|++|+++++|++++|..+.+.+++|+++ +|.+|+|+.+|..
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi-~Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~ 79 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGI-LGREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSAS 79 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCC-CCceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHH
Confidence 699999999 566899999999999999999999 59999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 188 (777)
+.++.+++++.++|+|....... +...+++||+.+++..++.++++++...+-+++++|+.|++||.+..+.+++.+
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 99999999999999998533221 223489999999999999999999876555899999999999999999999999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCC-CCCCeEEEEeCcchhcccC
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM-MGNGYVWIATDWLAYMLDS 267 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl-~~~~~~~i~~~~~~~~~~~ 267 (777)
++.|++++....++.+ ..|++.++.++++.++|+|++...+.+...+++++++.|+ ..+ .+...........
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~---~~~~~~~~~~~~~ 229 (334)
T cd06356 157 EENGGEVVGEEFIPLD----VSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGLGNIP---MASSTLGAQGYEH 229 (334)
T ss_pred HHcCCEEEeeeecCCC----chhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCCccCc---eeeeecccchhHH
Confidence 9999999999889876 8999999999999999999999888889999999999998 222 2221111010000
Q ss_pred CCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCC-CCchhhhHhhHHHHHHHHHHHHHhcCCcccccCC
Q 004042 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLG-MNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (777)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~ 344 (777)
. .......+|++....+.+ ..+..++|.++|++++ +..+ ++.++..+||+++++++|++++.+.
T Consensus 230 ~---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~-~~~p~~~~~~~~~y~a~~~~~~A~~~ag~~--------- 296 (334)
T cd06356 230 K---RLKPPALKDMYATANYIEELDTPANKAFVERFRAKF-PDAPYINEEAENNYEAIYLYKEAVEKAGTT--------- 296 (334)
T ss_pred h---ccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHc-CCCCCCCchhHHHHHHHHHHHHHHHHHCCC---------
Confidence 0 011245677776665443 3567899999999999 3322 3678999999999999999986321
Q ss_pred ccccccCCCCcccCCccccCchhHHHHHHHc-ccccCceeeEEEecCCC
Q 004042 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQ-SNLVGLTGPLKFNSDRS 392 (777)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~G~tG~v~fd~~g~ 392 (777)
+++.|.++|++ ..|+|+.|+++|+++++
T Consensus 297 --------------------~~~~v~~aL~~~~~~~~~~g~~~~~~~~h 325 (334)
T cd06356 297 --------------------DRDAVIEALESGLVCDGPEGKVCIDGKTH 325 (334)
T ss_pred --------------------CHHHHHHHHHhCCceeCCCceEEEecCCC
Confidence 38889999997 56899999999997654
No 67
>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Probab=100.00 E-value=4.6e-33 Score=296.34 Aligned_cols=334 Identities=16% Similarity=0.144 Sum_probs=244.7
Q ss_pred CCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccC------CC-ChHHHHHHHHHHHhcCc--EEEEcCCChhHHHH
Q 004042 41 DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSS------NC-SGFIGMVEALRFMETDI--VAIIGPQCSTVAHI 111 (777)
Q Consensus 41 s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~------~~-~~~~a~~~a~~l~~~~v--~aviGp~~s~~~~~ 111 (777)
+...|...+.|+++|++++|++. |.++.....+. .+ +...+.+++|+++++|+ .|||||.++..+..
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 34467889999999999999985 66777777776 55 56667777999999988 89999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHH-HHHHHhh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSA-LNDKLAE 190 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~-~~~~~~~ 190 (777)
++.+++.++||+|+++.. ..++.++|+++|+.|++..+.+|+++++++|+|++|++||+++......... +++...+
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 999999999999997543 2233578999999999999999999999999999999999666543223333 3333334
Q ss_pred cceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC-hhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCC
Q 004042 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (777)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~-~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~ 269 (777)
.+.++. +.. ..+++..++++++++.+.||+.+. ++.+..++++|.++||++.+|+||++++.....+.
T Consensus 161 ~~~~v~-----~~~----~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl-- 229 (368)
T cd06383 161 HVITII-----NSI----IDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDD-- 229 (368)
T ss_pred CCEEEE-----ecc----chhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhh--
Confidence 455543 112 457889999999998856666566 59999999999999999999999999986554333
Q ss_pred CCchhhhhccceEEEEeecCCchhHHHHHHHHHhhc-C--CCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCcc
Q 004042 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLT-G--GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (777)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~-~--~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~ 346 (777)
+.......++.++++..+.....+.+.++|.+.. . ...+....++++||||+++++|++.+........ +
T Consensus 230 --~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~---~-- 302 (368)
T cd06383 230 --LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPTLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDG---S-- 302 (368)
T ss_pred --hhhccccCcEEEeeccccchhhhccceeeccCCccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCC---C--
Confidence 2344455678899886555555577776653311 0 0112234689999999999999997632111110 0
Q ss_pred ccccCCCCcccCCc---ccc-CchhHHHHHHHcccccCceeeEEEecCCCcccceEEEE
Q 004042 347 LKTMEGGNLHLGAM---SIF-DDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDII 401 (777)
Q Consensus 347 ~~~~~~~~~~~~~~---~~~-~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~ 401 (777)
. ......|... .+| .+|..+.++|+.++|+|+||+|.||++|+|.+..+.++
T Consensus 303 ~---~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~l~~~ 358 (368)
T cd06383 303 T---GTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKTIGSW 358 (368)
T ss_pred c---CccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeeeeeeE
Confidence 0 0011123332 256 66779999999999999999999999999876654443
No 68
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=100.00 E-value=5.3e-32 Score=288.31 Aligned_cols=315 Identities=18% Similarity=0.197 Sum_probs=261.1
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s~---~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||++.|+|+ ..|.....|+++|++++|+.||+ .|++|+++++|++++|..+++.+.+|+++ +|.+|||+.+|..
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 6999999994 46889999999999999999999 59999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEeCccccchHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~vaii~~~~~~g~~~~~~~~~~ 187 (777)
+.++.++++ .++|+|++.+.+. ....+++||+.+++..++.++++++ +..+|++|++++.++.||++..+.+++.
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 9999998754332 1245899999999888888788875 5579999999999999999999999999
Q ss_pred HhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEe-Ccchhccc
Q 004042 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT-DWLAYMLD 266 (777)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~-~~~~~~~~ 266 (777)
+++.|++|+....++.+ ..|+++++.++++.++|+|++.+.+.+...++++++++|+..+ ++.. ..+.....
T Consensus 156 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~ 228 (333)
T cd06358 156 IAELGGEVVGEEYVPLG----TTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENML 228 (333)
T ss_pred HHHcCCEEeeeeeecCC----hHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHHH
Confidence 99999999988888876 8999999999999999999999988888899999999999754 2222 12211111
Q ss_pred CCCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCC-CCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccC
Q 004042 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGS-LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (777)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~ 343 (777)
. .......+|++....+.+ ..+..++|.++|+++|+.. ..++.++..+||+++++++|++++..
T Consensus 229 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~~~~~~~~~~yda~~~~~~A~~~ag~--------- 295 (333)
T cd06358 229 L----ASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDAPPLNSLSESCYEAVHALAAAAERAGS--------- 295 (333)
T ss_pred H----hcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHhCC---------
Confidence 0 011134577766554433 5678999999999998311 23667888999999999999997521
Q ss_pred CccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCC
Q 004042 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRS 392 (777)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~ 392 (777)
. +++.|.++|++.+|+|++|.+.|++++.
T Consensus 296 -------------------~-~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 296 -------------------L-DPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred -------------------C-CHHHHHHHhccCeeeCCCcceEEccccc
Confidence 1 3789999999999999999999998854
No 69
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.7e-32 Score=291.02 Aligned_cols=325 Identities=15% Similarity=0.147 Sum_probs=265.6
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||++.|+| +..|..+.+|+++|+++||+.||| +|++|+++++|++++|..+++.+.+|+++ +|.+|+ +.+|..
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 689999999 566889999999999999999999 59999999999999999999999999988 777765 578899
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcC-----CcEEEEEEEeCccccchHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYG-----WNAVSVIFVDNEYGRNGVS 182 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~-----w~~vaii~~~~~~g~~~~~ 182 (777)
+.++++++++.++|+|+++++++.+++ ..++|+||+.|++..++.++++++.+.+ .++|++|+.++.||.+..+
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~ 158 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIE 158 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHH
Confidence 999999999999999998777766664 5689999999999999999999987654 7999999999999999999
Q ss_pred HHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 004042 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (777)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 262 (777)
.+++.+++.|++++....++.+ .+|+++++.+++++++|+|++.+.+.+...++++++++|+..+ ++..++..
T Consensus 159 ~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~ 231 (351)
T cd06334 159 ALKALAEKLGFEVVLEPVPPPG----PNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDDK---FIGNWWSG 231 (351)
T ss_pred HHHHHHHHcCCeeeeeccCCCC----cccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCce---EEEeeccC
Confidence 9999999999999988888876 7899999999999999999999999999999999999998432 44443221
Q ss_pred hcccCCCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCC----CCCCchhhhHhhHHHHHHHHHHHHHhcC
Q 004042 263 YMLDSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGS----LGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (777)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~----~~~~~~~~~~yDAv~lla~Al~~~~~~~ 336 (777)
..... ....+..+|++...++.+ +++..++|.+.|+++++.. .+++.++..+||+++++++|++++.+..
T Consensus 232 ~~~~~----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~~~~~~~~~~~gy~a~~~l~~Al~~ag~~~ 307 (351)
T cd06334 232 DEEDV----KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGNDKEIGSVYYNRGVVNAMIMVEAIRRAQEKG 307 (351)
T ss_pred cHHHH----HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHhc
Confidence 11111 223355688777766544 5688999999999998311 1346789999999999999999997654
Q ss_pred CcccccCCccccccCCCCcccCCccccCc------hhHHHHHHHcccccCceeeEEEecCCC
Q 004042 337 GKISFSNDSRLKTMEGGNLHLGAMSIFDD------GMLLLGNILQSNLVGLTGPLKFNSDRS 392 (777)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~l~~~l~~~~f~G~tG~v~fd~~g~ 392 (777)
... .... -+.-.+.+++....|+.|+++|....+
T Consensus 308 ~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~ 347 (351)
T cd06334 308 GET----------------------TIAGEEQLENLKLDAARLEELGAEGLGPPVSVSCDDH 347 (351)
T ss_pred CCC----------------------CCcHHHHHHhhhhhhhhhhhcCcccccCCceeccccC
Confidence 321 0111 122345566667788999999976544
No 70
>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=5.9e-32 Score=289.41 Aligned_cols=318 Identities=18% Similarity=0.204 Sum_probs=260.9
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||++.|+| +..|....+|+++|++++|+++|+ .|++|+++++|++++|..+.+.+.+|+++ +|.+|+||.++..
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 699999999 466888999999999999999999 59999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC--CCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEeCccccchHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALN 185 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~--~~~~~~~r~~p~~~~~~~a~~~~l-~~~~w~~vaii~~~~~~g~~~~~~~~ 185 (777)
+.+++++++..++|+|++.++.+.+++ ..++++||+.+++..++.++++++ ++.+|++|+++|.+++||....+.++
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 999999999999999998877766665 346899999999999999999986 45679999999999999999999999
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (777)
+.+++.|++++....+++. ..|++++++++++.++++|++.+.+.+...++++++++|+..+ ++........
T Consensus 160 ~~~~~~G~~v~~~~~~~~~----~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~- 231 (347)
T cd06335 160 AALAARGLKPVAVEWFNWG----DKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVP---IISHWGLSGG- 231 (347)
T ss_pred HHHHHcCCeeEEEeeecCC----CccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCc---EecccCCcCc-
Confidence 9999999999988888876 7899999999999999999999999999999999999998543 2222111111
Q ss_pred cCCCCCchhhhhccceEEEEeec---CCchhHHHHHHHHHhhcCCCC-----CCCchhhhHhhHHHHHHHHHHHHHhcCC
Q 004042 266 DSASLPSETLESMQGVLVLRQHI---PESDRKKNFLSRWKNLTGGSL-----GMNSYGLYAYDSVWLLAHAIESFFNQGG 337 (777)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~-----~~~~~~~~~yDAv~lla~Al~~~~~~~~ 337 (777)
.. .....+...|++....+. +..+..++|.++|+++++ .. .++..+..+||+++++++|++++...
T Consensus 232 ~~---~~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~-~~~~~~~~~~~~~~~aYd~~~~l~~A~~~ag~~-- 305 (347)
T cd06335 232 NF---IEGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYP-EKKPADIPAPVGAAHAYDAVHLLAAAIKQAGST-- 305 (347)
T ss_pred hh---hhccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhC-CCcccccCcchhHHHHHHHHHHHHHHHHHhcCC--
Confidence 11 011223456766554322 256788999999999983 22 34556788999999999999986321
Q ss_pred cccccCCccccccCCCCcccCCccccCchhHHHHHHHccc--ccCceee--EEEecCCC
Q 004042 338 KISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN--LVGLTGP--LKFNSDRS 392 (777)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~--f~G~tG~--v~fd~~g~ 392 (777)
..+.+.++|+++. +.|+.|. +.|++..+
T Consensus 306 ---------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h 337 (347)
T cd06335 306 ---------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSKEDH 337 (347)
T ss_pred ---------------------------CHHHHHHHHHhccCCceeeecccCCCCChhhc
Confidence 2478999998764 6777774 45765443
No 71
>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=3.6e-33 Score=296.65 Aligned_cols=371 Identities=21% Similarity=0.319 Sum_probs=302.9
Q ss_pred CCCceEEEEEEeeCC-----CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc--CcEE
Q 004042 27 ARPAVVNVGALFTLD-----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET--DIVA 99 (777)
Q Consensus 27 ~~~~~i~IG~l~~~s-----~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~--~v~a 99 (777)
+...+..+++++|+. ..-|+.+..|+++|++++|+.+.||||++|+++..|++|++.++.+...+++.. ....
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 334568888899987 234688999999999999999999999999999999999999999999999887 4556
Q ss_pred EEcCCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCcccc
Q 004042 100 IIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGR 178 (777)
Q Consensus 100 viGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~ 178 (777)
++|+ |++.+..++.-+..|+..+++|++++|.+++ +.||++||+.|++.......++++++++|++|+.++++..-..
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 9999999999999999999999999999999 7899999999999999999999999999999999999888777
Q ss_pred chHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 179 NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 179 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
...+.+...+.+.+++++....+. .|....+.+++..+.++|+-..+...++.+++++++.+|.+..|+|++.
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 888889999999999999877663 4566778999999999999999999999999999999999999999998
Q ss_pred Ccchhcc-----cC-CCCCchhhhhccceEEEEe--ecCC------chhHHHHHHHHHhhcC---CCCCCCchhhhHhhH
Q 004042 259 DWLAYML-----DS-ASLPSETLESMQGVLVLRQ--HIPE------SDRKKNFLSRWKNLTG---GSLGMNSYGLYAYDS 321 (777)
Q Consensus 259 ~~~~~~~-----~~-~~~~~~~~~~~~g~~~~~~--~~~~------~~~~~~f~~~~~~~~~---~~~~~~~~~~~~yDA 321 (777)
.+..... +. .|.-+++..+.+|.+++.. .++. ....+.|+..+.++.. ........+.++|||
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 7544332 22 4666788889999877753 2221 1234566666655432 123456678999999
Q ss_pred HHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEE
Q 004042 322 VWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDII 401 (777)
Q Consensus 322 v~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~ 401 (777)
++++|+|+++++.....-.. ..... +.......+.|.++|.+++|+|++|+|.|.. |+| .....|-
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 IWALALALNKTMEGLGRSHV---------RLEDF---NYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GER-MALTLIE 414 (865)
T ss_pred HHHHHHHHHHHHhcCCccce---------ecccc---chhhhHHHHHHHHHhhcccccccccceEecc-hhh-HHHHHHH
Confidence 99999999999875432110 01111 1111224678999999999999999999987 987 5666889
Q ss_pred EeecCceEEEEEEeCCCC
Q 004042 402 NVIGTGFRMIGYWSNYSG 419 (777)
Q Consensus 402 ~~~~~~~~~vg~w~~~~g 419 (777)
|+++|+++++|.|+...+
T Consensus 415 Q~qdg~y~k~g~Yds~~D 432 (865)
T KOG1055|consen 415 QFQDGKYKKIGYYDSTKD 432 (865)
T ss_pred HHhCCceEeecccccccc
Confidence 999999999999987643
No 72
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=100.00 E-value=2.7e-31 Score=269.40 Aligned_cols=318 Identities=15% Similarity=0.150 Sum_probs=232.8
Q ss_pred EEEEEEeeCCCcc---hhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHh-cCcEEEEcCCChh
Q 004042 32 VNVGALFTLDSTI---GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-TDIVAIIGPQCST 107 (777)
Q Consensus 32 i~IG~l~~~s~~~---g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~-~~v~aviGp~~s~ 107 (777)
||||+++++++.. +.....|..+|+++||++||++ |++|+.+++|.++|+....+.+.+|+. ++|.+|+|.++|.
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 7999999999544 5678999999999999999997 999999999999999999999999986 5999999999999
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHH-HHhcCCcEEEEEEEeCccccchHHHHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEM-VSYYGWNAVSVIFVDNEYGRNGVSALND 186 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~-l~~~~w~~vaii~~~~~~g~~~~~~~~~ 186 (777)
+.+++.++.++++-.+..+..-. .+ ...+++|-+.....++..-++++ ++++|.+|+.+|.+|+.|+.+.-.-+++
T Consensus 80 sRKaVlPvvE~~~~LL~Yp~~YE-G~--E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~r~ 156 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYPTQYE-GF--ECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRIIRD 156 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE-S-----------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCceEEeccccc-cc--cCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHHHH
Confidence 99999999999999998643211 11 34589999999888888888887 6788999999999999999999999999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~ 266 (777)
.+++.|++++.+..+|.+ .+|+..++.+|++.+||+|+-...++....|+++.+++|+... .+-|.+........
T Consensus 157 ~l~~~GgevvgE~Y~plg----~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~-~~Pi~S~~~~E~E~ 231 (363)
T PF13433_consen 157 LLEARGGEVVGERYLPLG----ATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPE-RIPIASLSTSEAEL 231 (363)
T ss_dssp HHHHTT-EEEEEEEE-S-----HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HHHH
T ss_pred HHHHcCCEEEEEEEecCC----chhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcc-cCeEEEEecCHHHH
Confidence 999999999999999987 8999999999999999999999999999999999999999754 45555443222211
Q ss_pred CCCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCC
Q 004042 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (777)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~ 344 (777)
. ....+...|.++..++.. +++..++|+++|+++|+.+..++.....+|.+|+++++|++++.+.
T Consensus 232 ~----~~g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~v~s~~~eaaY~~v~l~a~Av~~ags~--------- 298 (363)
T PF13433_consen 232 A----AMGAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDRVTSDPMEAAYFQVHLWAQAVEKAGSD--------- 298 (363)
T ss_dssp T----TS-HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----HHHHHHHHHHHHHHHHHHHHTS----------
T ss_pred h----hcChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 1 122357788888877654 5789999999999999655556777888999999999999997332
Q ss_pred ccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCC
Q 004042 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDR 391 (777)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g 391 (777)
+.+.++++|.+.+|+++.|.|++|++.
T Consensus 299 --------------------d~~~vr~al~g~~~~aP~G~v~id~~n 325 (363)
T PF13433_consen 299 --------------------DPEAVREALAGQSFDAPQGRVRIDPDN 325 (363)
T ss_dssp ---------------------HHHHHHHHTT--EEETTEEEEE-TTT
T ss_pred --------------------CHHHHHHHhcCCeecCCCcceEEcCCC
Confidence 489999999999999999999999844
No 73
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=100.00 E-value=4.7e-31 Score=281.82 Aligned_cols=323 Identities=18% Similarity=0.249 Sum_probs=267.8
Q ss_pred EEEEEeeCCCc---chhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLDST---IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s~~---~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
+||+++|+++. .|....+|+++|++++| +++ +|++|+++++|+.+++..+.+.+.+|+++ +|.+||||.++..
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 69999999944 56789999999999997 566 69999999999999999999999999987 9999999999988
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCC-CCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSL-QYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~-~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 187 (777)
+.++.+.++..++|+|++++..+.+++. .+|++||+.|++..++..+++++...+|+++++|+.++.++.+..+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~ 157 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRT 157 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHh
Confidence 8899999999999999998877777764 479999999999999999999999999999999999999999999999888
Q ss_pred HhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 004042 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (777)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (777)
++ ..+.....++.. ..|+.++++++++.++|+|++...+..+..++++++++|+.. ...++.++.+......
T Consensus 158 ~~---~~~~~~~~~~~~----~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~ 229 (333)
T cd06332 158 FK---GEVVEEVYTPLG----QLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQDTL 229 (333)
T ss_pred hc---EEEeeEEecCCC----CcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCHHHH
Confidence 87 355555566554 678999999999999999999888888999999999999843 3446665543322111
Q ss_pred CCCCchhhhhccceEEEEeecC--CchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCc
Q 004042 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (777)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~ 345 (777)
+......+|++...++.+ ..+..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 230 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~a~~~ag~~---------- 293 (333)
T cd06332 230 ----PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAY--GRVPSVYAAQGYDAAQLLDAALRAVGGD---------- 293 (333)
T ss_pred ----HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHHhcCC----------
Confidence 223356778887777655 3577899999999998 4567888999999999999999996321
Q ss_pred cccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEE
Q 004042 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDI 400 (777)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I 400 (777)
..+++.+.++|++.+|+|++|++.|+++|+.. ..+.+
T Consensus 294 -----------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~-~~~~~ 330 (333)
T cd06332 294 -----------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPI-QDFYL 330 (333)
T ss_pred -----------------CCCHHHHHHHHhcCceecCccceeECCCCCcc-cceeE
Confidence 11367899999999999999999999998853 33444
No 74
>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=5.2e-31 Score=280.91 Aligned_cols=315 Identities=24% Similarity=0.353 Sum_probs=251.2
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCC-CChHHHHHHHHHHH-hcCcEEEEcCCChhHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFM-ETDIVAIIGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~-~~~~~a~~~a~~l~-~~~v~aviGp~~s~~~~ 110 (777)
+||++++... ...+.|+++|++++|.+++++++.++.+.+.+.+ ++|..+++.+|+++ .++|.+|+||.++..+.
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 4899998875 5689999999999999998877766666655554 79999999999999 77999999999999999
Q ss_pred HHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHh
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~ 189 (777)
+++++++.+++|+|++++..+.+++ ..+++++|+.|++..+++++++++.+++|++|++||+++.+.... +.+.+...
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~~~l-~~~~~~~~ 156 (328)
T cd06351 78 AVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGLSRL-QELLDESG 156 (328)
T ss_pred HHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHHHHH-HHHHHhhc
Confidence 9999999999999999888887776 578999999999999999999999999999999999888744332 23333333
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCC-eEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMES-RVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~-~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (777)
..+..+.. ..+... ..+++..++++++.++ ++|++++....+..++++|.++||.+++|+||+++......+.
T Consensus 157 ~~~~~v~~-~~~~~~----~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~- 230 (328)
T cd06351 157 IKGIQVTV-RRLDLD----DDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDIDL- 230 (328)
T ss_pred ccCceEEE-EEecCC----chhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCccccch-
Confidence 33434443 345444 3489999999999988 6666555558999999999999999999999999876544333
Q ss_pred CCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcC--CCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCcc
Q 004042 269 SLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG--GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (777)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~ 346 (777)
........|+++++...+..+..++|..+|..... ....+...++.+||+++++
T Consensus 231 ---~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~--------------------- 286 (328)
T cd06351 231 ---EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEESPGVNLRAPIYDAALLYDAVLLL--------------------- 286 (328)
T ss_pred ---hhhccCCcceEEEEEeCCCchHHHHHHHhhhhccCCCCcCccchhhHhhhcEEEEE---------------------
Confidence 34456678999999999998889999998844331 1222233444445543221
Q ss_pred ccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEee-cCceEEEEEEeC
Q 004042 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGYWSN 416 (777)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~-~~~~~~vg~w~~ 416 (777)
||.+.|+++|+|.++.++|++++ +.++++||.|+.
T Consensus 287 -----------------------------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 287 -----------------------------------TGTVSFDEDGVRSNFTLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred -----------------------------------EeeEEECCCCcccceEEEEEEecCCCCceEEEEecC
Confidence 89999999999999999999999 889999999984
No 75
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.98 E-value=8.5e-31 Score=281.23 Aligned_cols=331 Identities=12% Similarity=0.084 Sum_probs=260.0
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCC--CEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCCh
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHG--TKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCS 106 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g--~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s 106 (777)
|||++.|+| +.+|.....+++++++++|..+++ +| ++|+++++|++++|.++++.+.+|+++ +|.+|||+.+|
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 599999999 456888899999999999955444 46 489999999999999999999999987 99999999999
Q ss_pred hHHHHHHHhhccCCceEEecccCCCCC--C-----CCCCCceEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEeCcccc
Q 004042 107 TVAHIVSYVSNELQVPLLSFGVTDPTL--S-----SLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGR 178 (777)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~a~~~~l--~-----~~~~~~~~r~~p~~~~~~~a~~~~l~~~~-w~~vaii~~~~~~g~ 178 (777)
..+.++++++++.++|+|++.+..+.+ + ...++|+||+.+++..+..+++++++..+ ++++++++.++.||.
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~ 159 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGN 159 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhH
Confidence 999999999999999999865432211 1 12368999999988888889998888877 999999999999999
Q ss_pred chHHHHH---HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEE
Q 004042 179 NGVSALN---DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (777)
Q Consensus 179 ~~~~~~~---~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~ 255 (777)
...+.+. +.+++.|++++..+.++++ .+|+++++++|+++++|+|++.+.+.++..++++++++|+..+ +
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 5667789999998889877 8899999999999999999999999999999999999998654 3
Q ss_pred EEeC-cchhcccCCCCCchhhhhccceEEEEeecCC--------chhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHH
Q 004042 256 IATD-WLAYMLDSASLPSETLESMQGVLVLRQHIPE--------SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLA 326 (777)
Q Consensus 256 i~~~-~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--------~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla 326 (777)
+... ........ ....+..+|++....+.+. ++..++|.++|+++| +..+.....++||++++++
T Consensus 233 ~~~~~~~~~~~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~--g~~~~~~~~~~~~~~~~l~ 306 (357)
T cd06337 233 VTIAKALLFPEDV----EALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAAT--GRQWTQPLGYAHALFEVGV 306 (357)
T ss_pred EEEeccccCHHHH----HHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHh--CCCccCcchHHHHHHHHHH
Confidence 3322 11111000 1112234565544333332 234789999999998 4555666788999999999
Q ss_pred HHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeecC
Q 004042 327 HAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGT 406 (777)
Q Consensus 327 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~~ 406 (777)
+|++++... .+++.|.++|++++++++.|+++|+++ . .....|..+.++
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 999986321 137789999999999999999999866 2 334566666665
Q ss_pred ce
Q 004042 407 GF 408 (777)
Q Consensus 407 ~~ 408 (777)
+|
T Consensus 356 ~~ 357 (357)
T cd06337 356 QW 357 (357)
T ss_pred CC
Confidence 53
No 76
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.97 E-value=3.4e-29 Score=267.74 Aligned_cols=320 Identities=13% Similarity=0.150 Sum_probs=259.7
Q ss_pred EEEEEEeeCCC---cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 004042 32 VNVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (777)
Q Consensus 32 i~IG~l~~~s~---~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~ 107 (777)
|+||++.|+|+ ..|.....|+++|+++||+.+|+ .|++|+++..|+++++..+.+.+++|+++ +|.+|||+.++.
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 68999999994 55788999999999999999998 69999999999999999999999999996 999999998888
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 187 (777)
.+.++.+++...++|+|++.+.++.++....+++||+.++....+..+++++.+.||+++++|+.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~ 159 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKA 159 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHH
Confidence 88888899999999999986665555543468999999999999999999999999999999999888999999999999
Q ss_pred HhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 004042 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (777)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (777)
+++.|+++.....++.. ..|+..++.++++.++++|++..+...+..++++++++|+..+ . +..+........
T Consensus 160 ~~~~G~~~~~~~~~~~~----~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~-~--~~~~~~~~~~~~ 232 (336)
T cd06326 160 LAARGLKPVATASYERN----TADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQ-F--YNLSFVGADALA 232 (336)
T ss_pred HHHcCCCeEEEEeecCC----cccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCc-E--EEEeccCHHHHH
Confidence 99999998777777654 6789999999999999999999988889999999999998543 2 222222111001
Q ss_pred CCCCchhhhhccceEEEEe----ecCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccC
Q 004042 268 ASLPSETLESMQGVLVLRQ----HIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (777)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~----~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~ 343 (777)
.......+|++.... .....+..++|.+.|++++ +..+++.+...+||+++++++|++++.. +
T Consensus 233 ----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~-~~~~~~~~~~~~y~~~~~~~~a~~~~g~---~----- 299 (336)
T cd06326 233 ----RLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYG-PGAPPSYVSLEGYIAAKVLVEALRRAGP---D----- 299 (336)
T ss_pred ----HHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhC-CCCCCCeeeehhHHHHHHHHHHHHHcCC---C-----
Confidence 122344567654321 2234577899999999987 3346788889999999999999998522 1
Q ss_pred CccccccCCCCcccCCccccCchhHHHHHHHccccc-CceeeEEEecCCC
Q 004042 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLV-GLTGPLKFNSDRS 392 (777)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~-G~tG~v~fd~~g~ 392 (777)
.+++.|+++|++++.. +..|.++|++..+
T Consensus 300 --------------------~~~~~v~~al~~~~~~~~~g~~~~~~~~~h 329 (336)
T cd06326 300 --------------------PTRESLLAALEAMGKFDLGGFRLDFSPGNH 329 (336)
T ss_pred --------------------CCHHHHHHHHHhcCCCCCCCeEEecCcccc
Confidence 1488999999998864 4445899976433
No 77
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=99.97 E-value=2.1e-29 Score=267.72 Aligned_cols=302 Identities=15% Similarity=0.154 Sum_probs=245.5
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 004042 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (777)
Q Consensus 33 ~IG~l~~~s~---~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~ 109 (777)
+||++.|+++ .+|.....|+++|++++| |++++++++|+.+ |..+.+.+.+|++++|.+||||.+|..+
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 5999999995 468889999999999999 7889999999999 9999999999998899999999999999
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHh
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~ 189 (777)
.++++++...++|+|++++... +.. .+++||+.+++..++.++++++.+.|+++|++++.++.||.+..+.|++.++
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 9999999999999998764433 222 5889999999999999999998888999999999999999999999999999
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcC---------------------CCeEEEEecChh-HHHHHHHHHHHcC
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---------------------ESRVIVLHVSPS-LGFQVFSVAKYLG 247 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~---------------------~~~vIvl~~~~~-~~~~~l~~a~~~g 247 (777)
+.|++++..+.++.+ ..|++.++++|++. ++|+|++.+.+. ++..+.++++..+
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 999999999899876 89999999999998 999999988886 7777777777655
Q ss_pred CCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCCCC-CchhhhHhhHHHHHH
Q 004042 248 MMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGM-NSYGLYAYDSVWLLA 326 (777)
Q Consensus 248 l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~yDAv~lla 326 (777)
....+..+++++.|...... ....+..+|++...+.. ....+|.++|+++| +..| +.+++.+|||+.+++
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 31123347777766543211 12234567776554421 12238999999998 5567 889999999999998
Q ss_pred HHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHH-cccccCceeeEEEecCCCc
Q 004042 327 HAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNIL-QSNLVGLTGPLKFNSDRSL 393 (777)
Q Consensus 327 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~-~~~f~G~tG~v~fd~~g~r 393 (777)
.++++... .. +|. ...|+|++|+++|+++|+.
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 87775311 01 333 3469999999999999973
No 78
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=99.96 E-value=1.4e-28 Score=259.36 Aligned_cols=300 Identities=13% Similarity=0.083 Sum_probs=233.4
Q ss_pred hhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHHHHhhccCCceEE
Q 004042 45 GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLL 124 (777)
Q Consensus 45 g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~va~~~~~~~iP~I 124 (777)
+....+|+++|+|+||+.||++ |++|+++..|. ++|..+++.+.+|++++|.+|+|+.+|+++.++.+++.+.++|+|
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 4578999999999999999996 89999999975 789999999999998899999999999999999999999999999
Q ss_pred ecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCC
Q 004042 125 SFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPP 203 (777)
Q Consensus 125 s~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~ 203 (777)
+++++++.++. ..++|+||+.|++..++.++++++...+.+++++|+.|++||....+.+++.+++.|++|+..+.++.
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 99998988887 56799999999999999999999887799999999999999999999999999999999999888875
Q ss_pred CCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEE
Q 004042 204 ESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLV 283 (777)
Q Consensus 204 ~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~ 283 (777)
.......|++......+.+++|+|++.....+....+.... +.. . .. ....|+..
T Consensus 168 ~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~--~~~-~--~~--------------------~g~~G~~~ 222 (347)
T TIGR03863 168 SGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT--WLP-R--PV--------------------AGSAGLVP 222 (347)
T ss_pred CCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--ccc-c--cc--------------------ccccCccc
Confidence 52222345543223334478999999765544322111100 000 0 00 01122221
Q ss_pred EEe-ecCCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCccc
Q 004042 284 LRQ-HIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSI 362 (777)
Q Consensus 284 ~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 362 (777)
... +..+.+..++|.++|+++| +..|+..+..+||+++++++|++++.+.
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 1223466789999999998 5667888999999999999999997432
Q ss_pred cCchhHHHHHHHcccc--cCcee-eEEEec-CCCcccceEEEEEe
Q 004042 363 FDDGMLLLGNILQSNL--VGLTG-PLKFNS-DRSLIHAAYDIINV 403 (777)
Q Consensus 363 ~~~~~~l~~~l~~~~f--~G~tG-~v~fd~-~g~r~~~~~~I~~~ 403 (777)
+++.|+++|+++++ .+..| +++|++ +|+ ...+..+.+.
T Consensus 274 --d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq-~~~~~~~~~~ 315 (347)
T TIGR03863 274 --DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQ-LRQPVLLVHP 315 (347)
T ss_pred --CHHHHHHHHcCCCceecccCCCcceeeCCCcc-cccceEeccc
Confidence 48999999999887 47777 699996 665 3444444443
No 79
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.96 E-value=2.5e-27 Score=253.65 Aligned_cols=308 Identities=11% Similarity=0.046 Sum_probs=249.1
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||+++|++ +..|....+++++|++++|+.||+ +|++|++++.|+++++..+.+.+.+|+++ +|.+|||+.++..
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 699999999 466889999999999999999999 59999999999999999999999999998 9999999998877
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc-cccchHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALNDK 187 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~-~g~~~~~~~~~~ 187 (777)
..++ +.+...++|+|++.+.++.+.. .+++|++.+++..++..+++++...+.+++++++.++. +|......+++.
T Consensus 80 ~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~ 156 (341)
T cd06341 80 GSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARS 156 (341)
T ss_pred hhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHH
Confidence 7666 8889999999998766655543 47789999998889999999999889999999986665 999999999999
Q ss_pred HhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 004042 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (777)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (777)
+++.|+++.....++.. ..|+..++.++++.++|+|++..+...+..++++++++|+..+. +...........
T Consensus 157 ~~~~G~~v~~~~~~~~~----~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~---~~~~~~~~~~~~ 229 (341)
T cd06341 157 LAAAGVSVAGIVVITAT----APDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPKV---VLSGTCYDPALL 229 (341)
T ss_pred HHHcCCccccccccCCC----CCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCCE---EEecCCCCHHHH
Confidence 99999998877666654 67899999999999999999999888999999999999997652 222211111001
Q ss_pred CCCCchhhhhccceEEEEeecC---CchhHHHHHHHHHhhcC-CCCCCCchhhhHhhHHHHHHHHHHHHHhcCCcccccC
Q 004042 268 ASLPSETLESMQGVLVLRQHIP---ESDRKKNFLSRWKNLTG-GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (777)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~f~~~~~~~~~-~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~~ 343 (777)
....+..+|++....+.| ..+..+.|.+.+++... .+.+++.++..+||+++++++|++++...
T Consensus 230 ----~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~yda~~~~~~a~~~ag~~-------- 297 (341)
T cd06341 230 ----AAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQLDPPEQGFALIGYIAADLFLRGLSGAGGC-------- 297 (341)
T ss_pred ----HhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHHHHhcCCC--------
Confidence 223356788887776655 45677788776654431 13468889999999999999999996321
Q ss_pred CccccccCCCCcccCCccccCchhH-HHHHHHcccccCcee
Q 004042 344 DSRLKTMEGGNLHLGAMSIFDDGML-LLGNILQSNLVGLTG 383 (777)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~l~~~~f~G~tG 383 (777)
.+++. ++++|++++.....|
T Consensus 298 --------------------~~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 298 --------------------PTRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred --------------------CChHHHHHHHhhcCCCCCCCC
Confidence 13666 999999998554444
No 80
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.95 E-value=2.1e-26 Score=243.20 Aligned_cols=278 Identities=19% Similarity=0.279 Sum_probs=228.9
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
|||+++|+| +..|.....|+++|+++||+ +|+ +|+++++++.|+++++..+.+.+.+|+++ +|.+|||+.++..
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 699999999 55678899999999999999 888 69999999999999999999999999986 9999999988888
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 188 (777)
+.++.+.+...++|+|++.+..+... ...+++||+.+++...+..+++++.+.||++|++++.++.++.+..+.+++.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~ 157 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALA 157 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHH
Confidence 88888999999999999876554333 34578999999999999999999999999999999988889999999999999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (777)
++.|+++.....++.. ..|+...+.++++.++|+|++......+..++++++++|+..+ ++..+........
T Consensus 158 ~~~G~~v~~~~~~~~~----~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~~~~~~~- 229 (312)
T cd06333 158 PKYGIEVVADERYGRT----DTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP---IYQTHGVASPDFL- 229 (312)
T ss_pred HHcCCEEEEEEeeCCC----CcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---EEeecCcCcHHHH-
Confidence 9999999877777655 5688999999988899999999888888889999999998654 3333322211111
Q ss_pred CCCchhhhhccceEEEEe------ecC----CchhHHHHHHHHHhhcCCCCC-CCchhhhHhhHHHHHH
Q 004042 269 SLPSETLESMQGVLVLRQ------HIP----ESDRKKNFLSRWKNLTGGSLG-MNSYGLYAYDSVWLLA 326 (777)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~------~~~----~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~yDAv~lla 326 (777)
....+..+|++.... ..| ..+..++|.++|+++| +.+ ++.++..+||++++++
T Consensus 230 ---~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~--g~~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 230 ---RLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKY--GAGSVSTFGGHAYDALLLLA 293 (312)
T ss_pred ---HHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHh--CCCCCCchhHHHHHHHHHHH
Confidence 223345677765432 122 2457899999999998 444 8889999999999998
No 81
>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=99.95 E-value=2.3e-26 Score=241.44 Aligned_cols=224 Identities=32% Similarity=0.531 Sum_probs=206.2
Q ss_pred EEEEEeeCCC-----cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-----CcEEEEc
Q 004042 33 NVGALFTLDS-----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-----DIVAIIG 102 (777)
Q Consensus 33 ~IG~l~~~s~-----~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-----~v~aviG 102 (777)
+||++++.+. ..+.....++..|++++|+. ++|+++++.+.|++|++..+...+.+++++ ++.+|+|
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~---~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG 77 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINND---LPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIG 77 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhcc---CCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEEC
Confidence 4899999875 34567789999999999988 479999999999999999999999999874 8999999
Q ss_pred CCChhHHHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchH
Q 004042 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGV 181 (777)
Q Consensus 103 p~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~ 181 (777)
|.++..+.+++++++.+++|+|++++.++.+++ ..+|+++|+.|++..++.++++++++++|++|+++|++++++....
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 999999999999999999999999998888887 5789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 004042 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWL 261 (777)
Q Consensus 182 ~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~ 261 (777)
+.+++.+++.|+++.....++.. ..++...++++++.++++||+++.+.++..++++++++|+. .+++||+++.|
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 99999999999999998888765 58999999999999999999999999999999999999998 88999999987
Q ss_pred hhc
Q 004042 262 AYM 264 (777)
Q Consensus 262 ~~~ 264 (777)
...
T Consensus 233 ~~~ 235 (298)
T cd06269 233 LTS 235 (298)
T ss_pred hcc
Confidence 653
No 82
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=99.95 E-value=2.1e-26 Score=241.76 Aligned_cols=280 Identities=26% Similarity=0.383 Sum_probs=237.1
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 004042 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s~---~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~~ 108 (777)
+||+++|+++ ..|.....|+++|++++|+++|+ +|+++++++.|+++++..+.+.+.+++++ +|.+||||.++..
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 5999999994 56788999999999999999987 69999999999999999999999999998 9999999999999
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~-~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 187 (777)
+.+++.+++.+++|+|++.+..+.+.+ ..++++|++.|++..++..+++++.+++|+++++++.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~ 159 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAA 159 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHH
Confidence 999999999999999999887776665 4679999999999999999999999999999999999888999999999999
Q ss_pred HhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 004042 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (777)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~ 267 (777)
+++.|+++.....++.. ..++...++++++.++++|++++++..+..++++++++|+. .++.|++.+.+......
T Consensus 160 ~~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~ 234 (299)
T cd04509 160 FKKKGGTVVGEEYYPLG----TTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLSDVLL 234 (299)
T ss_pred HHHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccCHHHH
Confidence 99999998876666654 47899999999988899999999889999999999999998 77899998876543221
Q ss_pred CCCCchhhhhccceEEEEeecCCc--hhHHHHH---HHHHhhcCCCCCCCchhhhHhhHHHH
Q 004042 268 ASLPSETLESMQGVLVLRQHIPES--DRKKNFL---SRWKNLTGGSLGMNSYGLYAYDSVWL 324 (777)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~~--~~~~~f~---~~~~~~~~~~~~~~~~~~~~yDAv~l 324 (777)
....+...|+++..++.+.. +..+.|. ..+++.+ +.+++.++.++||++++
T Consensus 235 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~yda~~~ 290 (299)
T cd04509 235 ----EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKY--EDQPDYFAALAYDAVLL 290 (299)
T ss_pred ----HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHh--CCCCChhhhhhcceeee
Confidence 12335677888877765533 2333333 3444444 67788899999999988
No 83
>cd06369 PBP1_GC_C_enterotoxin_receptor Ligand-binding domain of the membrane guanylyl cyclase C. Ligand-binding domain of the membrane guanylyl cyclase C (GC-C or StaR). StaR is a key receptor for the STa (Escherichia coli Heat Stable enterotoxin), a potent stimulant of intestinal chloride and bicarbonate secretion that cause acute secretory diarrhea. The catalytic domain of the STa/guanylin receptor type membrane GC is highly similar to those of the natriuretic peptide receptor (NPR) type and sensory organ-specific type membrane GCs (GC-D, GC-E and GC-F). The GC-C receptor is mainly expressed in the intestine of most vertebrates, but is also found in the kidney and other organs. Moreover, GC-C is activated by guanylin and uroguanylin, endogenous peptide ligands synthesized in the intestine and kidney. Consequently, the receptor activation results in increased cGMP levels and phosphorylation of the CFTR chloride channel and secretion.
Probab=99.95 E-value=9.7e-26 Score=227.83 Aligned_cols=324 Identities=16% Similarity=0.225 Sum_probs=246.7
Q ss_pred hhHHHHHHHHHHHHhccCCCCCCCEEEE----------EEccCCC--ChHHHHHHHHHHHhc--CcEEEEcCCChhHHHH
Q 004042 46 RVAKIAIEEAVKDVNSNSSILHGTKLNI----------TMQSSNC--SGFIGMVEALRFMET--DIVAIIGPQCSTVAHI 111 (777)
Q Consensus 46 ~~~~~a~~lAve~iN~~~gil~g~~i~~----------~~~D~~~--~~~~a~~~a~~l~~~--~v~aviGp~~s~~~~~ 111 (777)
...+.|++.|++.+++.. ...|.++.+ ++.+.+| +.=++++...+|..+ .-++++||.|+.++.+
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 457899999999887754 335777777 6666666 445677777788765 6789999999999999
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHH------HhcCCcEEEEEEEeCccccch---HH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV------SYYGWNAVSVIFVDNEYGRNG---VS 182 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l------~~~~w~~vaii~~~~~~g~~~---~~ 182 (777)
++.+...|++|+||.++-. ++-+..+++.|+.|+....+..+.++. ++++|++.. ||.++...++. .+
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 9999999999999866633 443445689999999999999999999 489998665 99776544433 34
Q ss_pred HHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 004042 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (777)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 262 (777)
++....+..+..+...+... ..+++..++++++ .+.||||+++++.+.+.++.+ ++...+|++|..+...
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 45554555444554433332 2578999998876 469999999999999999886 4445699999998765
Q ss_pred hcccCCCCCchhhhhccceEEEEeecCCchhHHHHHHHHHhhcCCCCCCC-chhhhHhhHHHHHHHHHHHHHhcCCcccc
Q 004042 263 YMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMN-SYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (777)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~yDAv~lla~Al~~~~~~~~~~~~ 341 (777)
..... +....++++.++.+++..|+.+.+++. ..+ +.+.. .+++..||||+++++||+++++.+++.
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 44321 234556789999998877765544431 111 23332 789999999999999999999887653
Q ss_pred cCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEee--cCceEEEEEEeCCCC
Q 004042 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI--GTGFRMIGYWSNYSG 419 (777)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~--~~~~~~vg~w~~~~g 419 (777)
.+..|.+.|+|.+|.|++|+|++|++||| ..+|.++.+. .++++.||.|+..++
T Consensus 312 -----------------------~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~t~~n 367 (380)
T cd06369 312 -----------------------QTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFDTSTN 367 (380)
T ss_pred -----------------------CcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEECCCC
Confidence 24889999999999999999999999997 8899998875 478999999987653
No 84
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=99.94 E-value=1.3e-24 Score=227.89 Aligned_cols=280 Identities=25% Similarity=0.341 Sum_probs=236.7
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 004042 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (777)
Q Consensus 33 ~IG~l~~~s---~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~ 109 (777)
+||+++|++ +..|.....|++.|++++|+.+|+ +|++++++++|+++++..+.+.+.+++++++.+||||.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~-~g~~v~~~~~d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGI-LGRKIELVVEDTQGDPEAAAAAARELVDDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCCHHHHHHHHHHHHhCCceEEEcCCcchhH
Confidence 589999998 466889999999999999999988 6999999999999999999999999999999999999999888
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEeCccccchHHHHHHHH
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGRNGVSALNDKL 188 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~-w~~vaii~~~~~~g~~~~~~~~~~~ 188 (777)
.++.+.+...++|+|++.+..+.+.+..++++|++.|++..++..+++++.+.+ |++|++++.++.++....+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 899999999999999988777665544578999999999999999999998887 9999999998889999999999999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 268 (777)
++.|+++.....++.. ..++.+.+++++..++++|++.+.+..+..+++++++.|+ +..|+..+.+......
T Consensus 160 ~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~~~~~- 231 (298)
T cd06268 160 KKLGGEVVAEETYPPG----ATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---KVPIVGGDGAAAPALL- 231 (298)
T ss_pred HHcCCEEEEEeccCCC----CccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---CCcEEecCccCCHHHH-
Confidence 9999998877666654 5789999999999999999999888899999999999997 3457776655432111
Q ss_pred CCCchhhhhccceEEEEeecCC--chhHHHHH-HHHHhhcCCCCCCCchhhhHhhHHHHHH
Q 004042 269 SLPSETLESMQGVLVLRQHIPE--SDRKKNFL-SRWKNLTGGSLGMNSYGLYAYDSVWLLA 326 (777)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~-~~~~~~~~~~~~~~~~~~~~yDAv~lla 326 (777)
....+...|++...++.+. .+....|. +.|++.+ +.+++.++..+||++.+++
T Consensus 232 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 232 ---ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKY--GRPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred ---HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHh--CCCcccchHHHHHHHHHHc
Confidence 1233556788887776543 33444555 7788777 6788999999999999998
No 85
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.78 E-value=6e-18 Score=172.27 Aligned_cols=191 Identities=18% Similarity=0.278 Sum_probs=155.7
Q ss_pred CCCceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHC-CCeecEEEEecCCCCCCCChhHHHHHHhcCceeEE
Q 004042 462 NNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAV 540 (777)
Q Consensus 462 ~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l-~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~ 540 (777)
.+.++|+|++.. +++||.+.++.++.+.||++|+++++++++ |.++++++... +|...+..|.+|++|++
T Consensus 35 ~~~g~l~vg~~~--~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~~-------~~~~~~~~l~~g~~D~~ 105 (259)
T PRK11917 35 KSKGQLIVGVKN--DVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVAV-------NAKTRGPLLDNGSVDAV 105 (259)
T ss_pred HhCCEEEEEECC--CCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEEc-------ChhhHHHHHHCCCccEE
Confidence 345789999986 577887754445789999999999999995 76555666553 47778899999999999
Q ss_pred EeeEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcc
Q 004042 541 VGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPK 620 (777)
Q Consensus 541 ~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 620 (777)
++++++|++|.+.++||.||+.++..+++++..
T Consensus 106 ~~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~----------------------------------------------- 138 (259)
T PRK11917 106 IATFTITPERKRIYNFSEPYYQDAIGLLVLKEK----------------------------------------------- 138 (259)
T ss_pred EecccCChhhhheeeeccCceeeceEEEEECCC-----------------------------------------------
Confidence 999999999999999999999999999998876
Q ss_pred cchhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeC
Q 004042 621 RQVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEG 700 (777)
Q Consensus 621 ~~~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~ 700 (777)
++++++||. |++||+..|
T Consensus 139 ------------------------------------------------------------~~~s~~dL~--g~~V~v~~g 156 (259)
T PRK11917 139 ------------------------------------------------------------NYKSLADMK--GANIGVAQA 156 (259)
T ss_pred ------------------------------------------------------------CCCCHHHhC--CCeEEEecC
Confidence 588999999 999999999
Q ss_pred chHHHHHHhhhcc--ccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCCCeEEecccccccceEEEe
Q 004042 701 SFAEYYLSQELNI--SKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEFTKSGWGFVS 776 (777)
Q Consensus 701 ~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~g~~~ 776 (777)
+..++.+.+.... ...++..+++..+++++|.+ |++||++.|...+.++.++ +..+++..+...+||+|+
T Consensus 157 s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~----GrvDa~~~d~~~~~~~~~~--~~~~~~~~~~~~~~~~a~ 228 (259)
T PRK11917 157 ATTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDA----KRVDAFSVDKSILLGYVDD--KSEILPDSFEPQSYGIVT 228 (259)
T ss_pred CcHHHHHHHhhHhcCCceeEEecCCHHHHHHHHHc----CCCcEEEecHHHHHHhhhc--CCeecCCcCCCCceEEEE
Confidence 9888776432211 11245567899999999999 9999999999887766554 345677888888999986
No 86
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.77 E-value=1.1e-17 Score=170.10 Aligned_cols=186 Identities=24% Similarity=0.403 Sum_probs=156.3
Q ss_pred CceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEee
Q 004042 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (777)
Q Consensus 464 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 543 (777)
.++|+|++.. +|+||.+.+ ++...|+++|+++.+++++|.++++. + ..|.+++..+.+|++|+++++
T Consensus 24 ~~~l~v~~~~--~~~P~~~~~--~g~~~G~~vdl~~~ia~~lg~~~~~~--~-------~~~~~~~~~l~~G~vDi~~~~ 90 (247)
T PRK09495 24 DKKLVVATDT--AFVPFEFKQ--GDKYVGFDIDLWAAIAKELKLDYTLK--P-------MDFSGIIPALQTKNVDLALAG 90 (247)
T ss_pred CCeEEEEeCC--CCCCeeecC--CCceEEEeHHHHHHHHHHhCCceEEE--e-------CCHHHHHHHHhCCCcCEEEec
Confidence 4679999764 466776653 46689999999999999999885554 3 249999999999999999888
Q ss_pred EEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccch
Q 004042 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (777)
Q Consensus 544 ~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (777)
++.+++|.+.++||.||+.....+++++..
T Consensus 91 ~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~-------------------------------------------------- 120 (247)
T PRK09495 91 ITITDERKKAIDFSDGYYKSGLLVMVKANN-------------------------------------------------- 120 (247)
T ss_pred CccCHHHHhhccccchheecceEEEEECCC--------------------------------------------------
Confidence 999999999999999999999999998766
Q ss_pred hhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCchH
Q 004042 624 ITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFA 703 (777)
Q Consensus 624 ~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~~~ 703 (777)
.++++++||. |++||+..|+..
T Consensus 121 --------------------------------------------------------~~~~~~~dL~--g~~I~v~~g~~~ 142 (247)
T PRK09495 121 --------------------------------------------------------NDIKSVKDLD--GKVVAVKSGTGS 142 (247)
T ss_pred --------------------------------------------------------CCCCChHHhC--CCEEEEecCchH
Confidence 4689999999 999999999988
Q ss_pred HHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCC--CeEEecccccccceEEEe
Q 004042 704 EYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SFRIVGQEFTKSGWGFVS 776 (777)
Q Consensus 704 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~--~l~~~~~~~~~~~~g~~~ 776 (777)
.+++.+ ..+..++..+++.++++.+|.+ |++|+++.+...+.|++++.. +++.++.......|++||
T Consensus 143 ~~~l~~--~~~~~~i~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~ 211 (247)
T PRK09495 143 VDYAKA--NIKTKDLRQFPNIDNAYLELGT----GRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAF 211 (247)
T ss_pred HHHHHh--cCCCCceEEcCCHHHHHHHHHc----CceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEE
Confidence 888843 2333466678899999999999 999999999999999887743 577777777777888886
No 87
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.76 E-value=1.5e-17 Score=172.93 Aligned_cols=191 Identities=17% Similarity=0.234 Sum_probs=154.7
Q ss_pred CCceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHH----HCCC-eecEEEEecCCCCCCCChhHHHHHHhcCce
Q 004042 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVN----LLPY-AVPYQFVAFGDGHKNPSYTQLVDSITTGVF 537 (777)
Q Consensus 463 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~----~l~f-~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~ 537 (777)
+.+.|+||+.. .|+||.+.++ ++...||++|+++.|++ ++|- .+++++++. +|..++..|..|++
T Consensus 38 ~~g~L~Vg~~~--~~pP~~f~~~-~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~-------~~~~~i~~L~~G~~ 107 (302)
T PRK10797 38 KNGVIVVGHRE--SSVPFSYYDN-QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPI-------TSQNRIPLLQNGTF 107 (302)
T ss_pred hCCeEEEEEcC--CCCCcceECC-CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEEc-------ChHhHHHHHHCCCc
Confidence 34679999876 5667777654 56799999998777665 6653 244777764 48889999999999
Q ss_pred eEEEeeEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCC
Q 004042 538 DAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRG 617 (777)
Q Consensus 538 Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~ 617 (777)
|++++++++|++|.+.++||.||+..+..+++++..
T Consensus 108 Di~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~-------------------------------------------- 143 (302)
T PRK10797 108 DFECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG-------------------------------------------- 143 (302)
T ss_pred cEEecCCccCcchhhcceecccEeeccEEEEEECCC--------------------------------------------
Confidence 999999999999999999999999999999998865
Q ss_pred CcccchhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEE
Q 004042 618 PPKRQVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGY 697 (777)
Q Consensus 618 ~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~ 697 (777)
.|++++||. |++||+
T Consensus 144 ---------------------------------------------------------------~i~sl~dL~--Gk~V~v 158 (302)
T PRK10797 144 ---------------------------------------------------------------DIKDFADLK--GKAVVV 158 (302)
T ss_pred ---------------------------------------------------------------CCCChHHcC--CCEEEE
Confidence 578999999 999999
Q ss_pred eeCchHHHHHHhhhcc--ccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhC--CC-CeEEecccccccce
Q 004042 698 QEGSFAEYYLSQELNI--SKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSS--QC-SFRIVGQEFTKSGW 772 (777)
Q Consensus 698 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~--~~-~l~~~~~~~~~~~~ 772 (777)
..|+..+.++.+.... +..++..+.+.++++++|.+ |++||++.|...+.+.+.+ .. .++++++.+....|
T Consensus 159 ~~gs~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~----GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~ 234 (302)
T PRK10797 159 TSGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLES----GRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAY 234 (302)
T ss_pred eCCCcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHc----CCceEEEccHHHHHHHHHcCCCCcceEECCccCCcCce
Confidence 9999988888532211 22467778999999999999 9999999998887765443 23 48888888888889
Q ss_pred EEEe
Q 004042 773 GFVS 776 (777)
Q Consensus 773 g~~~ 776 (777)
|+++
T Consensus 235 ~~a~ 238 (302)
T PRK10797 235 GCML 238 (302)
T ss_pred eEEE
Confidence 9886
No 88
>PRK11260 cystine transporter subunit; Provisional
Probab=99.71 E-value=1.7e-16 Score=163.01 Aligned_cols=190 Identities=20% Similarity=0.326 Sum_probs=158.5
Q ss_pred CCCceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEE
Q 004042 462 NNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (777)
Q Consensus 462 ~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~ 541 (777)
...++|+|++.. .++||.+.++ ++...|+.+|+++.+++++|.++++.. ..|..++..+.+|++|+++
T Consensus 38 ~~~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~e~~~---------~~~~~~~~~l~~G~~D~~~ 105 (266)
T PRK11260 38 KERGTLLVGLEG--TYPPFSFQGE-DGKLTGFEVEFAEALAKHLGVKASLKP---------TKWDGMLASLDSKRIDVVI 105 (266)
T ss_pred hcCCeEEEEeCC--CcCCceEECC-CCCEEEehHHHHHHHHHHHCCeEEEEe---------CCHHHHHHHHhcCCCCEEE
Confidence 456789999865 4667776543 577999999999999999999865544 2499999999999999998
Q ss_pred eeEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCccc
Q 004042 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (777)
Q Consensus 542 ~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (777)
++++.+++|.+.+.||.|++..+..+++++...
T Consensus 106 ~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~----------------------------------------------- 138 (266)
T PRK11260 106 NQVTISDERKKKYDFSTPYTVSGIQALVKKGNE----------------------------------------------- 138 (266)
T ss_pred eccccCHHHHhccccCCceeecceEEEEEcCCc-----------------------------------------------
Confidence 888999999999999999999999999887651
Q ss_pred chhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCc
Q 004042 622 QVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGS 701 (777)
Q Consensus 622 ~~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~ 701 (777)
..+++++||. +++||+..|+
T Consensus 139 ----------------------------------------------------------~~~~~~~dL~--g~~Igv~~G~ 158 (266)
T PRK11260 139 ----------------------------------------------------------GTIKTAADLK--GKKVGVGLGT 158 (266)
T ss_pred ----------------------------------------------------------CCCCCHHHcC--CCEEEEecCC
Confidence 3688999998 9999999999
Q ss_pred hHHHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCCC-eEEecccccccceEEEe
Q 004042 702 FAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCS-FRIVGQEFTKSGWGFVS 776 (777)
Q Consensus 702 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~~-l~~~~~~~~~~~~g~~~ 776 (777)
....++.+ ..+...+..+++..+++++|.+ |++|+++.+...+.+++++..+ +.+....+...++++++
T Consensus 159 ~~~~~l~~--~~~~~~i~~~~~~~~~l~~L~~----GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v 228 (266)
T PRK11260 159 NYEQWLRQ--NVQGVDVRTYDDDPTKYQDLRV----GRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVAL 228 (266)
T ss_pred cHHHHHHH--hCCCCceEecCCHHHHHHHHHc----CCCCEEEechHHHHHHHHhCCCcceecCCccccCceEEEE
Confidence 88888843 3344567778999999999999 9999999999998888887664 56666677788888876
No 89
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.70 E-value=4e-16 Score=159.70 Aligned_cols=179 Identities=20% Similarity=0.309 Sum_probs=142.1
Q ss_pred CCceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEe
Q 004042 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (777)
Q Consensus 463 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 542 (777)
..++|+|++.. .|+||.+.++ ++.+.|+++|+++.+++++|.++++.. ..|..++.++.+|++|++++
T Consensus 24 ~~~~l~v~~~~--~~pPf~~~~~-~g~~~G~~vdl~~~ia~~lg~~~~~~~---------~~~~~~~~~l~~g~~Di~~~ 91 (260)
T PRK15010 24 LPETVRIGTDT--TYAPFSSKDA-KGDFVGFDIDLGNEMCKRMQVKCTWVA---------SDFDALIPSLKAKKIDAIIS 91 (260)
T ss_pred cCCeEEEEecC--CcCCceeECC-CCCEEeeeHHHHHHHHHHhCCceEEEe---------CCHHHHHHHHHCCCCCEEEe
Confidence 34779998874 4667877654 568999999999999999999866554 24999999999999999988
Q ss_pred eEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccc
Q 004042 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (777)
Q Consensus 543 ~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (777)
++..|++|.+.++||.||+.....+++++..
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 122 (260)
T PRK15010 92 SLSITDKRQQEIAFSDKLYAADSRLIAAKGS------------------------------------------------- 122 (260)
T ss_pred cCcCCHHHHhhcccccceEeccEEEEEECCC-------------------------------------------------
Confidence 8999999999999999999999999998876
Q ss_pred hhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCch
Q 004042 623 VITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSF 702 (777)
Q Consensus 623 ~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~~ 702 (777)
+...+++||. |++||+.+|+.
T Consensus 123 ---------------------------------------------------------~~~~~~~dl~--g~~Igv~~gs~ 143 (260)
T PRK15010 123 ---------------------------------------------------------PIQPTLDSLK--GKHVGVLQGST 143 (260)
T ss_pred ---------------------------------------------------------CCCCChhHcC--CCEEEEecCch
Confidence 2233789998 99999999998
Q ss_pred HHHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHH-HhhCC-C-CeEEecc
Q 004042 703 AEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVEL-FLSSQ-C-SFRIVGQ 765 (777)
Q Consensus 703 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~-~~~~~-~-~l~~~~~ 765 (777)
.+.++.+.......++..+.+.++++++|.+ |++|+++.|...+.+ +.++. . ++.+++.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----griDa~i~d~~~~~~~~~~~~~~~~~~~~~~ 205 (260)
T PRK15010 144 QEAYANETWRSKGVDVVAYANQDLVYSDLAA----GRLDAALQDEVAASEGFLKQPAGKDFAFAGP 205 (260)
T ss_pred HHHHHHHhcccCCceEEecCCHHHHHHHHHc----CCccEEEeCcHHHHHHHHhCCCCCceEEecC
Confidence 8777743222222345567889999999999 999999999888765 33432 2 4555544
No 90
>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=99.70 E-value=1.3e-16 Score=159.87 Aligned_cols=189 Identities=24% Similarity=0.390 Sum_probs=151.0
Q ss_pred eEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEE
Q 004042 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (777)
Q Consensus 467 l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~ 546 (777)
|+|++.. .++||.+.++ ++...|+++|+++++++++|+++++... .|..++..|.+|++|+++++++.
T Consensus 1 l~V~~~~--~~~P~~~~~~-~~~~~G~~~dl~~~i~~~~g~~~~~~~~---------~~~~~~~~l~~g~~D~~~~~~~~ 68 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDE-DGEPSGIDVDLLRAIAKRLGIKIEFVPM---------PWSRLLEMLENGKADIIIGGLSI 68 (225)
T ss_dssp EEEEEES--EBTTTBEEET-TSEEESHHHHHHHHHHHHHTCEEEEEEE---------EGGGHHHHHHTTSSSEEESSEB-
T ss_pred CEEEEcC--CCCCeEEECC-CCCEEEEhHHHHHHHHhhcccccceeec---------ccccccccccccccccccccccc
Confidence 6788854 4567777664 6789999999999999999999666664 39999999999999999999999
Q ss_pred eecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccchhhH
Q 004042 547 VTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITI 626 (777)
Q Consensus 547 t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (777)
+++|.+.++||.|++.....+++++.+..
T Consensus 69 ~~~r~~~~~~s~p~~~~~~~~~~~~~~~~--------------------------------------------------- 97 (225)
T PF00497_consen 69 TPERAKKFDFSDPYYSSPYVLVVRKGDAP--------------------------------------------------- 97 (225)
T ss_dssp BHHHHTTEEEESESEEEEEEEEEETTSTC---------------------------------------------------
T ss_pred cccccccccccccccchhheeeecccccc---------------------------------------------------
Confidence 99999999999999999999999975310
Q ss_pred HHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCchHHHH
Q 004042 627 LWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFAEYY 706 (777)
Q Consensus 627 ~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~~~~~~ 706 (777)
....+++++||. +++||+.+++...++
T Consensus 98 ---------------------------------------------------~~~~~~~~~dl~--~~~i~~~~g~~~~~~ 124 (225)
T PF00497_consen 98 ---------------------------------------------------PIKTIKSLDDLK--GKRIGVVRGSSYADY 124 (225)
T ss_dssp ---------------------------------------------------STSSHSSGGGGT--TSEEEEETTSHHHHH
T ss_pred ---------------------------------------------------ccccccchhhhc--CcccccccchhHHHH
Confidence 013667788997 889999999998888
Q ss_pred HHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCCC--eEEecccccccceEEEe
Q 004042 707 LSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCS--FRIVGQEFTKSGWGFVS 776 (777)
Q Consensus 707 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~~--l~~~~~~~~~~~~g~~~ 776 (777)
+.+... ...++..+.+.++++++|++ |++|+++.+...+.|++++... ...........++++++
T Consensus 125 l~~~~~-~~~~~~~~~~~~~~~~~l~~----g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 191 (225)
T PF00497_consen 125 LKQQYP-SNINIVEVDSPEEALEALLS----GRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAV 191 (225)
T ss_dssp HHHHTH-HTSEEEEESSHHHHHHHHHT----TSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEE
T ss_pred hhhhcc-chhhhcccccHHHHHHHHhc----CCeeeeeccchhhhhhhhhcccccccccccccccceeEEee
Confidence 854221 13466678999999999999 9999999999999999988652 33324445555555543
No 91
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.68 E-value=8e-16 Score=156.08 Aligned_cols=174 Identities=19% Similarity=0.327 Sum_probs=143.1
Q ss_pred CceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEee
Q 004042 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (777)
Q Consensus 464 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 543 (777)
..+|+|++.. .++||.+.+. ++.+.|+++|+++.+++++|.++++.. ..|..++..+.+|++|+++++
T Consensus 20 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~---------~~~~~~~~~l~~g~~D~~~~~ 87 (243)
T PRK15007 20 AETIRFATEA--SYPPFESIDA-NNQIVGFDVDLAQALCKEIDATCTFSN---------QAFDSLIPSLKFRRVEAVMAG 87 (243)
T ss_pred CCcEEEEeCC--CCCCceeeCC-CCCEEeeeHHHHHHHHHHhCCcEEEEe---------CCHHHHhHHHhCCCcCEEEEc
Confidence 4679999863 4567776553 578999999999999999999966643 259999999999999998888
Q ss_pred EEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccch
Q 004042 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (777)
Q Consensus 544 ~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (777)
++.+++|.+.++||.||+..+..++.++ .
T Consensus 88 ~~~~~~r~~~~~fs~p~~~~~~~~v~~~-~-------------------------------------------------- 116 (243)
T PRK15007 88 MDITPEREKQVLFTTPYYDNSALFVGQQ-G-------------------------------------------------- 116 (243)
T ss_pred CccCHHHhcccceecCccccceEEEEeC-C--------------------------------------------------
Confidence 8899999999999999999887666543 2
Q ss_pred hhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCchH
Q 004042 624 ITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFA 703 (777)
Q Consensus 624 ~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~~~ 703 (777)
.+++++||. +++||+..|+..
T Consensus 117 ---------------------------------------------------------~~~~~~dL~--g~~Igv~~g~~~ 137 (243)
T PRK15007 117 ---------------------------------------------------------KYTSVDQLK--GKKVGVQNGTTH 137 (243)
T ss_pred ---------------------------------------------------------CCCCHHHhC--CCeEEEecCcHH
Confidence 467899998 999999999988
Q ss_pred HHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCCCeEEecc
Q 004042 704 EYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQ 765 (777)
Q Consensus 704 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~~l~~~~~ 765 (777)
.+++.+ ..+..++..+++.++++++|.+ |++|+++.+...+.+++++..++..++.
T Consensus 138 ~~~l~~--~~~~~~~~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~~~~~~~~~~ 193 (243)
T PRK15007 138 QKFIMD--KHPEITTVPYDSYQNAKLDLQN----GRIDAVFGDTAVVTEWLKDNPKLAAVGD 193 (243)
T ss_pred HHHHHH--hCCCCeEEEcCCHHHHHHHHHc----CCCCEEEeCHHHHHHHHhcCCCceeecC
Confidence 888853 2333456678899999999999 9999999999999998887777766654
No 92
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.68 E-value=8.8e-16 Score=156.57 Aligned_cols=187 Identities=25% Similarity=0.387 Sum_probs=152.3
Q ss_pred ceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeE
Q 004042 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (777)
Q Consensus 465 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~ 544 (777)
++|+|++.. .++||.+.++ ++..+|+++|+++.+++++|.++++. + ..|..++..+.+|++|++++++
T Consensus 24 ~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~--~-------~~~~~~~~~l~~G~~D~~~~~~ 91 (250)
T TIGR01096 24 GSVRIGTET--GYPPFESKDA-NGKLVGFDVDLAKALCKRMKAKCKFV--E-------QNFDGLIPSLKAKKVDAIMATM 91 (250)
T ss_pred CeEEEEECC--CCCCceEECC-CCCEEeehHHHHHHHHHHhCCeEEEE--e-------CCHHHHHHHHhCCCcCEEEecC
Confidence 789999864 5667777654 57899999999999999999885554 3 2599999999999999998888
Q ss_pred EEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccchh
Q 004042 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVI 624 (777)
Q Consensus 545 ~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 624 (777)
..+++|.+.+.||.|++..+..+++++..
T Consensus 92 ~~~~~r~~~~~~s~p~~~~~~~~~~~~~~--------------------------------------------------- 120 (250)
T TIGR01096 92 SITPKRQKQIDFSDPYYATGQGFVVKKGS--------------------------------------------------- 120 (250)
T ss_pred ccCHHHhhccccccchhcCCeEEEEECCC---------------------------------------------------
Confidence 88999999999999999999999998776
Q ss_pred hHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCchHH
Q 004042 625 TILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFAE 704 (777)
Q Consensus 625 ~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~~~~ 704 (777)
+.+.+++||. |++||+..|+...
T Consensus 121 -------------------------------------------------------~~~~~~~dl~--g~~i~~~~g~~~~ 143 (250)
T TIGR01096 121 -------------------------------------------------------DLAKTLEDLD--GKTVGVQSGTTHE 143 (250)
T ss_pred -------------------------------------------------------CcCCChHHcC--CCEEEEecCchHH
Confidence 3456899998 9999999999988
Q ss_pred HHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCC---CeEEeccccccc-----ceEEEe
Q 004042 705 YYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC---SFRIVGQEFTKS-----GWGFVS 776 (777)
Q Consensus 705 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~---~l~~~~~~~~~~-----~~g~~~ 776 (777)
.++.+.... ..++..+.+.++++++|.+ |++|+++.+...+.+++++.. ++.+++..+... .+++++
T Consensus 144 ~~l~~~~~~-~~~~~~~~s~~~~~~~L~~----g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 218 (250)
T TIGR01096 144 QYLKDYFKP-GVDIVEYDSYDNANMDLKA----GRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGL 218 (250)
T ss_pred HHHHHhccC-CcEEEEcCCHHHHHHHHHc----CCCCEEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEE
Confidence 888543221 3356678899999999999 999999999999999887754 377776554432 356654
No 93
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.67 E-value=1.3e-15 Score=155.73 Aligned_cols=165 Identities=18% Similarity=0.275 Sum_probs=136.4
Q ss_pred CceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEee
Q 004042 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (777)
Q Consensus 464 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 543 (777)
.++|++++.. .++||.+.++ ++.+.|+++|+++++++++|.++++... .|..++.++.+|++|+++++
T Consensus 25 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~vdi~~~ia~~lg~~i~~~~~---------pw~~~~~~l~~g~~D~~~~~ 92 (259)
T PRK15437 25 PQNIRIGTDP--TYAPFESKNS-QGELVGFDIDLAKELCKRINTQCTFVEN---------PLDALIPSLKAKKIDAIMSS 92 (259)
T ss_pred CCeEEEEeCC--CCCCcceeCC-CCCEEeeeHHHHHHHHHHcCCceEEEeC---------CHHHHHHHHHCCCCCEEEec
Confidence 4678998864 4567777554 5789999999999999999998666542 49999999999999999989
Q ss_pred EEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccch
Q 004042 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (777)
Q Consensus 544 ~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (777)
++.|++|.+.++||.|++..+..+++++..
T Consensus 93 ~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~-------------------------------------------------- 122 (259)
T PRK15437 93 LSITEKRQQEIAFTDKLYAADSRLVVAKNS-------------------------------------------------- 122 (259)
T ss_pred CCCCHHHhhhccccchhhcCceEEEEECCC--------------------------------------------------
Confidence 999999999999999999999999998876
Q ss_pred hhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCchH
Q 004042 624 ITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFA 703 (777)
Q Consensus 624 ~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~~~ 703 (777)
+...+++||. |++||+.+|+..
T Consensus 123 --------------------------------------------------------~~~~~~~dl~--g~~Igv~~g~~~ 144 (259)
T PRK15437 123 --------------------------------------------------------DIQPTVESLK--GKRVGVLQGTTQ 144 (259)
T ss_pred --------------------------------------------------------CCCCChHHhC--CCEEEEecCcHH
Confidence 2234789998 999999999988
Q ss_pred HHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHH
Q 004042 704 EYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVEL 752 (777)
Q Consensus 704 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~ 752 (777)
+.++.+.......++..+.+.++++++|.+ |++|+++.+...+.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~----grvD~~v~~~~~~~~ 189 (259)
T PRK15437 145 ETFGNEHWAPKGIEIVSYQGQDNIYSDLTA----GRIDAAFQDEVAASE 189 (259)
T ss_pred HHHHHhhccccCceEEecCCHHHHHHHHHc----CCccEEEechHHHHH
Confidence 888853222122456678899999999999 999999999887764
No 94
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein. Members of this family are the extracellular solute-binding proteins of ABC transporters that closely resemble amino acid transporters. The member from Sinorhizobium meliloti is involved in ectoine uptake, both for osmoprotection and for catabolism. All other members of the seed alignment are found associated with ectoine catabolic genes.
Probab=99.66 E-value=1.5e-15 Score=156.61 Aligned_cols=178 Identities=19% Similarity=0.253 Sum_probs=145.0
Q ss_pred CCceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCe-ecEEEEecCCCCCCCChhHHHHHHhcCceeEEE
Q 004042 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYA-VPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (777)
Q Consensus 463 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~-~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~ 541 (777)
..++|+|++.. ++||.+.++ ++.+.|+++|+++++++++|.+ +++.. -.|+.++..+.+|++|+++
T Consensus 31 ~~~~l~v~~~~---~pP~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~~---------~~w~~~~~~l~~G~~Di~~ 97 (275)
T TIGR02995 31 EQGFARIAIAN---EPPFTYVGA-DGKVSGAAPDVARAIFKRLGIADVNASI---------TEYGALIPGLQAGRFDAIA 97 (275)
T ss_pred hCCcEEEEccC---CCCceeECC-CCceecchHHHHHHHHHHhCCCceeecc---------CCHHHHHHHHHCCCcCEEe
Confidence 45779999864 556666543 5678999999999999999986 44443 3599999999999999988
Q ss_pred eeEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCccc
Q 004042 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (777)
Q Consensus 542 ~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (777)
.++++|++|.+.++||.||+.....+++++...
T Consensus 98 ~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~----------------------------------------------- 130 (275)
T TIGR02995 98 AGLFIKPERCKQVAFTQPILCDAEALLVKKGNP----------------------------------------------- 130 (275)
T ss_pred ecccCCHHHHhccccccceeecceeEEEECCCC-----------------------------------------------
Confidence 889999999999999999999999999988761
Q ss_pred chhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhh-CCCCeEEeeC
Q 004042 622 QVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRK-SDDPIGYQEG 700 (777)
Q Consensus 622 ~~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~-~~~~i~~~~~ 700 (777)
..+++++||.+ .+++||+..|
T Consensus 131 ----------------------------------------------------------~~i~~~~dl~~~~g~~Igv~~g 152 (275)
T TIGR02995 131 ----------------------------------------------------------KGLKSYKDIAKNPDAKIAAPGG 152 (275)
T ss_pred ----------------------------------------------------------CCCCCHHHhccCCCceEEEeCC
Confidence 25778888864 2688999999
Q ss_pred chHHHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCC--CeEEe
Q 004042 701 SFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SFRIV 763 (777)
Q Consensus 701 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~--~l~~~ 763 (777)
+...+++++ .+.+..++..+++.++++++|.+ |++|+++.+...+.+++++.. +++.+
T Consensus 153 ~~~~~~l~~-~~~~~~~i~~~~~~~~~i~~L~~----grvDa~i~d~~~~~~~~~~~~~~~~~~~ 212 (275)
T TIGR02995 153 GTEEKLARE-AGVKREQIIVVPDGQSGLKMVQD----GRADAYSLTVLTINDLASKAGDPNVEVL 212 (275)
T ss_pred cHHHHHHHH-cCCChhhEEEeCCHHHHHHHHHc----CCCCEEecChHHHHHHHHhCCCCCceee
Confidence 998888853 33333456678999999999999 999999999999999887632 45444
No 95
>PF00060 Lig_chan: Ligand-gated ion channel; InterPro: IPR001320 The ability of synapses to modify their synaptic strength in response to activity is a fundamental property of the nervous system and may be an essential component of learning and memory. There are three classes of ionotropic glutamate receptor, namely NMDA (N-methyl-D-aspartate), AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazole-4-propionic acid) and kainate receptors. They are believed to play critical roles in synaptic plasticity. At many synapses in the brain, transient activation of NMDA receptors leads to a persistent modification in the strength of synaptic transmission mediated by AMPA receptors and kainate receptors can act as the induction trigger for long-term changes in synaptic transmission [].; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 3FAT_A 3KFM_A 3KEI_A 3EN3_A 3EPE_B 3FAS_A 2F34_A 3C34_B 3S2V_A 3GBB_B ....
Probab=99.65 E-value=5.8e-17 Score=150.53 Aligned_cols=107 Identities=31% Similarity=0.531 Sum_probs=84.4
Q ss_pred chhHHHHHHHHHHHHHhhheeeecccCCCCCC-------CcccchhhHHHHHhhhhhccCcC-cccCchhHHHHHHHHHH
Q 004042 586 SPLMWTVTACFFVVVGIVVWILEHRINDEFRG-------PPKRQVITILWFSLSTLFFAHKE-NTVSTLGRLVLIIWLFV 657 (777)
Q Consensus 586 ~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~-~p~~~~~R~~~~~~~~~ 657 (777)
+++||++++++++++++++|++++..+++++. +...++.+++|++++.+++|+.. .|++.++|++.++|+++
T Consensus 1 s~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~s~s~Ril~~~w~l~ 80 (148)
T PF00060_consen 1 SWSVWLLILLSILLVSLVLWLFERFSPYEWRKNQSSPPRRWRFSLSNSFWYTFGTLLQQGSSIRPRSWSGRILLAFWWLF 80 (148)
T ss_dssp -HHHHHHHHHHHHHHHTTGGGT------------------HHHHHHHHHHHCCCCCHHHHH------HHHHHHHHHHHHH
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccccccCcccHHHHHHHHHHhhccccccccccchHHHHHHHHHHHH
Confidence 58999999999999999999999988877665 23467999999999999988755 89999999999999999
Q ss_pred HHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCC
Q 004042 658 VLIINSSYTASLTSILTVQQLYSPINGIESLRKSD 692 (777)
Q Consensus 658 ~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~ 692 (777)
+++++++|+|+|+|+||.|+.+.+|+|++||.+++
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 115 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKYEPPIDSLEDLANSG 115 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHHTHS
T ss_pred HHHHHHHHHHHHHHHhcccCcCCCCCCHHHHHHCC
Confidence 99999999999999999999999999999999877
No 96
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.63 E-value=2.6e-15 Score=166.28 Aligned_cols=190 Identities=13% Similarity=0.153 Sum_probs=150.5
Q ss_pred CCCceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEE
Q 004042 462 NNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (777)
Q Consensus 462 ~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~ 541 (777)
.+.++|+|++... |+ .+..++++ ..||++||++.+++++|.++++... .+|+.++..|.+|++|+++
T Consensus 40 ~~~g~LrVg~~~~-P~---~~~~~~~~-~~G~~~DLl~~ia~~LGv~~e~v~~--------~~~~~ll~aL~~G~iDi~~ 106 (482)
T PRK10859 40 QERGELRVGTINS-PL---TYYIGNDG-PTGFEYELAKRFADYLGVKLEIKVR--------DNISQLFDALDKGKADLAA 106 (482)
T ss_pred HhCCEEEEEEecC-CC---eeEecCCC-cccHHHHHHHHHHHHhCCcEEEEec--------CCHHHHHHHHhCCCCCEEe
Confidence 4567899999753 32 22222223 4999999999999999999665532 4699999999999999998
Q ss_pred eeEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCccc
Q 004042 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (777)
Q Consensus 542 ~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (777)
+++++|++|.+.++||.||+.....+++++..
T Consensus 107 ~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~------------------------------------------------ 138 (482)
T PRK10859 107 AGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQ------------------------------------------------ 138 (482)
T ss_pred ccCcCChhhhccCcccCCceeeeEEEEEeCCC------------------------------------------------
Confidence 89999999999999999999999999998776
Q ss_pred chhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCc
Q 004042 622 QVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGS 701 (777)
Q Consensus 622 ~~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~ 701 (777)
..+++++||. |++||+.+|+
T Consensus 139 ----------------------------------------------------------~~i~~l~dL~--Gk~I~V~~gS 158 (482)
T PRK10859 139 ----------------------------------------------------------PRPRSLGDLK--GGTLTVAAGS 158 (482)
T ss_pred ----------------------------------------------------------CCCCCHHHhC--CCeEEEECCC
Confidence 4788999999 9999999999
Q ss_pred hHHHHHHhhhc-ccccc--ccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCCCeEEecccccccceEEEe
Q 004042 702 FAEYYLSQELN-ISKSR--LVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEFTKSGWGFVS 776 (777)
Q Consensus 702 ~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~g~~~ 776 (777)
..++.+++... .+... ...+.+.++++++|.+ |++|+++.|...+.+..+.+.++.+........++++||
T Consensus 159 ~~~~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~----G~iDa~v~d~~~~~~~~~~~p~l~v~~~l~~~~~~~~av 232 (482)
T PRK10859 159 SHVETLQELKKKYPELSWEESDDKDSEELLEQVAE----GKIDYTIADSVEISLNQRYHPELAVAFDLTDEQPVAWAL 232 (482)
T ss_pred cHHHHHHHHHHhCCCceEEecCCCCHHHHHHHHHC----CCCCEEEECcHHHHHHHHhCCCceeeeecCCCceeEEEE
Confidence 98888853221 12222 2345789999999999 999999999988877655567787665554566778776
No 97
>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=99.61 E-value=1.1e-13 Score=142.06 Aligned_cols=216 Identities=20% Similarity=0.316 Sum_probs=177.0
Q ss_pred EEEEEeeCC--CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 004042 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s--~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~ 110 (777)
+||+++|.+ ..++.....+++.+++++ |..+++.+.|+++++....+.+.++..++++++||+.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI--------GRGLEVILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh--------CCceEEEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHH
Confidence 589999988 556677788888888887 4667888999999998888889999998999999999887776
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC-ccccchHHHHHHHHh
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKLA 189 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~-~~g~~~~~~~~~~~~ 189 (777)
.+...+...++|+|.+....+... .+++++++.++....++.+++++.+.+|+++++++.+. ..+....+.+++.++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 688888999999999877655444 56889999999999999999999999999999999776 677788889999999
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcC-CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM-ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~-~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 262 (777)
+.|.++......+.. ...+++...+.+++. ++++|++.++ ..+..+++++.+.|+.+.++.|++.+.+.
T Consensus 151 ~~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~ 220 (269)
T cd01391 151 KAGIEVVAIEYGDLD---TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSP 220 (269)
T ss_pred hcCcEEEeccccCCC---ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEeccccc
Confidence 998776644444322 235778888888776 7888888877 88899999999999975567777766543
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=99.59 E-value=1.3e-14 Score=146.85 Aligned_cols=161 Identities=20% Similarity=0.261 Sum_probs=123.7
Q ss_pred eeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHH---HHHhcCceeEEEe
Q 004042 466 LLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLV---DSITTGVFDAVVG 542 (777)
Q Consensus 466 ~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~---~~l~~g~~Di~~~ 542 (777)
+|+||+.. .|+||.+.+ + .||++||+++|++++|+++++... .|.+++ ..|.+|++|+++
T Consensus 1 ~l~vg~~~--~~pPf~~~~-~----~Gfdvdl~~~ia~~lg~~~~~~~~---------~~~~~~~~~~~L~~g~~Dii~- 63 (246)
T TIGR03870 1 TLRVCAAT--KEAPYSTKD-G----SGFENKIAAALAAAMGRKVVFVWL---------AKPAIYLVRDGLDKKLCDVVL- 63 (246)
T ss_pred CeEEEeCC--CCCCCccCC-C----CcchHHHHHHHHHHhCCCeEEEEe---------ccchhhHHHHHHhcCCccEEE-
Confidence 37888876 677888753 2 699999999999999999655532 477766 699999999987
Q ss_pred eEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccc
Q 004042 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (777)
Q Consensus 543 ~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (777)
+++++++| ++||.||+.++.++++++.+.
T Consensus 64 ~~~~t~~r---~~fS~PY~~~~~~~v~~k~~~------------------------------------------------ 92 (246)
T TIGR03870 64 GLDTGDPR---VLTTKPYYRSSYVFLTRKDRN------------------------------------------------ 92 (246)
T ss_pred eCCCChHH---HhcccCcEEeeeEEEEeCCCC------------------------------------------------
Confidence 58888777 679999999999999998761
Q ss_pred hhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhh--hhhCCC-CeEEee
Q 004042 623 VITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIES--LRKSDD-PIGYQE 699 (777)
Q Consensus 623 ~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~d--l~~~~~-~i~~~~ 699 (777)
..+++++| |. |+ +||+..
T Consensus 93 ---------------------------------------------------------~~~~~~~d~~L~--g~~~vgv~~ 113 (246)
T TIGR03870 93 ---------------------------------------------------------LDIKSWNDPRLK--KVSKIGVIF 113 (246)
T ss_pred ---------------------------------------------------------CCCCCccchhhc--cCceEEEec
Confidence 25778765 77 98 999999
Q ss_pred CchHHHHHHhhhccc-----cccccccC---------CHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCC
Q 004042 700 GSFAEYYLSQELNIS-----KSRLVALR---------TPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ 757 (777)
Q Consensus 700 ~~~~~~~~~~~~~~~-----~~~~~~~~---------~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~ 757 (777)
|+..+.++++..... ..++..+. +.++++++|++ |++||++.+.+.+.+++++.
T Consensus 114 gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~----GrvDa~i~~~~~~~~~~~~~ 181 (246)
T TIGR03870 114 GSPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVAT----GKADLAVAFAPEVARYVKAS 181 (246)
T ss_pred CChHHHHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHc----CCCCEEEeeHHhHHHHHHhC
Confidence 999999985421110 01122221 46789999999 99999999988887777653
No 99
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.53 E-value=4.3e-14 Score=176.47 Aligned_cols=181 Identities=12% Similarity=0.148 Sum_probs=150.8
Q ss_pred eecCCCceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCcee
Q 004042 459 VFPNNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFD 538 (777)
Q Consensus 459 ~~~~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D 538 (777)
.+..+.++|+||+.. ++.|+.+..+.++.+.||.+|+++.|++++|.+ +++++. .+|.+++.++++|++|
T Consensus 50 ~~l~~~~~l~vgv~~--~~~p~~~~~~~~g~~~G~~~D~l~~ia~~lG~~--~e~v~~------~~~~~~l~~l~~g~iD 119 (1197)
T PRK09959 50 RWLASKKNLVIAVHK--SQTATLLHTDSQQRVRGINADYLNLLKRALNIK--LTLREY------ADHQKAMDALEEGEVD 119 (1197)
T ss_pred HHHhhCCeEEEEecC--CCCCCceeecCCCccceecHHHHHHHHHhcCCc--eEEEeC------CCHHHHHHHHHcCCCc
Confidence 344566789999986 333433332236789999999999999999988 555543 4799999999999999
Q ss_pred EEEeeEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCC
Q 004042 539 AVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGP 618 (777)
Q Consensus 539 i~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~ 618 (777)
++++.++.+++|.+.++||.||+.....+++++..
T Consensus 120 l~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~--------------------------------------------- 154 (1197)
T PRK09959 120 IVLSHLVASPPLNDDIAATKPLIITFPALVTTLHD--------------------------------------------- 154 (1197)
T ss_pred EecCccccccccccchhcCCCccCCCceEEEeCCC---------------------------------------------
Confidence 99888999999999999999999999999998866
Q ss_pred cccchhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEe
Q 004042 619 PKRQVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQ 698 (777)
Q Consensus 619 ~~~~~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~ 698 (777)
.+++++|+. +++++++
T Consensus 155 --------------------------------------------------------------~~~~~~~l~--~~~i~~~ 170 (1197)
T PRK09959 155 --------------------------------------------------------------SMRPLTSSK--PVNIARV 170 (1197)
T ss_pred --------------------------------------------------------------CCCCccccc--CeEEEEe
Confidence 567788887 8999999
Q ss_pred eCchHHHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCC--CeEEec
Q 004042 699 EGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SFRIVG 764 (777)
Q Consensus 699 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~--~l~~~~ 764 (777)
.|+..++++++ ..+..+++.|++.++++++|.+ |++||++.+..++.|+++++- ++.+++
T Consensus 171 ~g~~~~~~~~~--~~p~~~i~~~~s~~~al~av~~----G~~Da~i~~~~~~~~~i~~~~~~~l~~~~ 232 (1197)
T PRK09959 171 ANYPPDEVIHQ--SFPKATIISFTNLYQALASVSA----GQNDYFIGSNIITSSMISRYFTHSLNVVK 232 (1197)
T ss_pred CCCCCHHHHHH--hCCCCEEEeCCCHHHHHHHHHc----CCCCEEEccHHHHHHHHhcccccceEEEe
Confidence 99999988843 4555688899999999999999 999999999999999998743 566654
No 100
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.52 E-value=2.9e-13 Score=140.16 Aligned_cols=192 Identities=24% Similarity=0.293 Sum_probs=149.7
Q ss_pred CceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEee
Q 004042 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (777)
Q Consensus 464 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 543 (777)
...++|++... ...||.+.+.+.+.+.||++|+++.++++++......+.. ..|++++..+..|++|+++++
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 46788888753 3347777765335899999999999999988753233333 369999999999999999999
Q ss_pred EEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccch
Q 004042 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (777)
Q Consensus 544 ~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (777)
+++|++|.+.++||.||+..+..+++++.+.
T Consensus 105 ~~~t~er~~~~~fs~py~~~~~~~~~~~~~~------------------------------------------------- 135 (275)
T COG0834 105 MTITPERKKKVDFSDPYYYSGQVLLVKKDSD------------------------------------------------- 135 (275)
T ss_pred cccCHHHhccccccccccccCeEEEEECCCC-------------------------------------------------
Confidence 9999999999999999999999999998882
Q ss_pred hhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCch-
Q 004042 624 ITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSF- 702 (777)
Q Consensus 624 ~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~~- 702 (777)
..+.+++||. |+++|+..|++
T Consensus 136 --------------------------------------------------------~~~~~~~DL~--gk~v~v~~gt~~ 157 (275)
T COG0834 136 --------------------------------------------------------IGIKSLEDLK--GKKVGVQLGTTD 157 (275)
T ss_pred --------------------------------------------------------cCcCCHHHhC--CCEEEEEcCcch
Confidence 2378999999 99999999998
Q ss_pred -HHHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHH--HhhCCCCeE-Eecccccc-cceEEEe
Q 004042 703 -AEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVEL--FLSSQCSFR-IVGQEFTK-SGWGFVS 776 (777)
Q Consensus 703 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~--~~~~~~~l~-~~~~~~~~-~~~g~~~ 776 (777)
...+. ....+...++.+++..+++.+|++ |++||++.|.+.+.+ +..+..+.. .....+.. ..||+++
T Consensus 158 ~~~~~~--~~~~~~~~~~~~~~~~~~~~al~~----Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 230 (275)
T COG0834 158 EAEEKA--KKPGPNAKIVAYDSNAEALLALKN----GRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIAL 230 (275)
T ss_pred hHHHHH--hhccCCceEEeeCCHHHHHHHHHc----CCccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEe
Confidence 44444 222233567788999999999999 999999999999999 444443332 33333333 6788775
No 101
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.47 E-value=4.3e-13 Score=167.53 Aligned_cols=186 Identities=9% Similarity=0.090 Sum_probs=147.7
Q ss_pred CCceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEe
Q 004042 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (777)
Q Consensus 463 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 542 (777)
+.++++|++.. .|+||.+.++ ++.+.||++|+++.|++++|.+ +++++. ..|..+...|.+|++|++.
T Consensus 300 ~~~~l~v~~~~--~~pP~~~~d~-~g~~~G~~~Dll~~i~~~~g~~--~~~v~~------~~~~~~~~~l~~g~~D~i~- 367 (1197)
T PRK09959 300 QHPDLKVLENP--YSPPYSMTDE-NGSVRGVMGDILNIITLQTGLN--FSPITV------SHNIHAGTQLNPGGWDIIP- 367 (1197)
T ss_pred HCCceEEEcCC--CCCCeeEECC-CCcEeeehHHHHHHHHHHHCCe--EEEEec------CCHHHHHHHHHCCCceEee-
Confidence 34568888765 6778988764 5789999999999999999988 555543 4588888999999999865
Q ss_pred eEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccc
Q 004042 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (777)
Q Consensus 543 ~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (777)
++..|++|.+.++||.||+..+..+++++..
T Consensus 368 ~~~~t~~r~~~~~fs~py~~~~~~~v~~~~~------------------------------------------------- 398 (1197)
T PRK09959 368 GAIYSEDRENNVLFAEAFITTPYVFVMQKAP------------------------------------------------- 398 (1197)
T ss_pred cccCCccccccceeccccccCCEEEEEecCC-------------------------------------------------
Confidence 5668999999999999999999999987654
Q ss_pred hhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCch
Q 004042 623 VITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSF 702 (777)
Q Consensus 623 ~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~~ 702 (777)
..+.++ . .|++||+..++.
T Consensus 399 ---------------------------------------------------------~~~~~~---~-~g~~vav~~g~~ 417 (1197)
T PRK09959 399 ---------------------------------------------------------DSEQTL---K-KGMKVAIPYYYE 417 (1197)
T ss_pred ---------------------------------------------------------CCcccc---c-cCCEEEEeCCcc
Confidence 122222 2 489999999998
Q ss_pred HHHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCC--Ce-EEecccccccceEEEe
Q 004042 703 AEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SF-RIVGQEFTKSGWGFVS 776 (777)
Q Consensus 703 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~--~l-~~~~~~~~~~~~g~~~ 776 (777)
..+++.+ ..+..++..+++.++++++|.+ |++||++.+...+.|+++++. ++ ......+....+|||+
T Consensus 418 ~~~~~~~--~~p~~~~~~~~~~~~~l~av~~----G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av 488 (1197)
T PRK09959 418 LHSQLKE--MYPEVEWIKVDNASAAFHKVKE----GELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAF 488 (1197)
T ss_pred hHHHHHH--HCCCcEEEEcCCHHHHHHHHHc----CCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEee
Confidence 8888843 3444678889999999999999 999999999999999998742 33 3334445566788876
No 102
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=99.46 E-value=1.3e-12 Score=131.41 Aligned_cols=167 Identities=18% Similarity=0.269 Sum_probs=127.6
Q ss_pred eEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEE
Q 004042 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (777)
Q Consensus 467 l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~ 546 (777)
|+|++.. .|+||.+. ...|+++||++.+++++|.++++...++ .+..++..+.+|++|++++
T Consensus 2 l~v~~~~--~~~P~~~~-----~~~G~~~el~~~i~~~~g~~i~~~~~~~-------~~~~~~~~l~~g~~Di~~~---- 63 (232)
T TIGR03871 2 LRVCADP--NNLPFSNE-----KGEGFENKIAQLLADDLGLPLEYTWFPQ-------RRGFVRNTLNAGRCDVVIG---- 63 (232)
T ss_pred eEEEeCC--CCCCccCC-----CCCchHHHHHHHHHHHcCCceEEEecCc-------chhhHHHHHhcCCccEEEe----
Confidence 6777765 45666552 2369999999999999999977765442 2444577999999999765
Q ss_pred eecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccchhhH
Q 004042 547 VTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITI 626 (777)
Q Consensus 547 t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (777)
+++|.+.++||.||+..+..+++++...
T Consensus 64 ~~~r~~~~~fs~py~~~~~~lv~~~~~~---------------------------------------------------- 91 (232)
T TIGR03871 64 VPAGYEMVLTTRPYYRSTYVFVTRKDSL---------------------------------------------------- 91 (232)
T ss_pred ccCccccccccCCcEeeeEEEEEeCCCc----------------------------------------------------
Confidence 5778899999999999999999988751
Q ss_pred HHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhh--hhhCCCCeEEeeCchHH
Q 004042 627 LWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIES--LRKSDDPIGYQEGSFAE 704 (777)
Q Consensus 627 ~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~d--l~~~~~~i~~~~~~~~~ 704 (777)
..+++++| |. +++||+..|+..+
T Consensus 92 -----------------------------------------------------~~~~~~~d~~l~--g~~V~v~~g~~~~ 116 (232)
T TIGR03871 92 -----------------------------------------------------LDVKSLDDPRLK--KLRIGVFAGTPPA 116 (232)
T ss_pred -----------------------------------------------------ccccchhhhhhc--CCeEEEEcCChHH
Confidence 36788988 66 8999999999999
Q ss_pred HHHHhhhcccccccc---------ccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCC-CCeEEec
Q 004042 705 YYLSQELNISKSRLV---------ALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ-CSFRIVG 764 (777)
Q Consensus 705 ~~~~~~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~-~~l~~~~ 764 (777)
+++.+ .+.. .++. ...+.++++.+|.+ |++||++.+...+.|++++. .++++..
T Consensus 117 ~~l~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~----G~~Da~i~~~~~~~~~~~~~~~~~~~~~ 180 (232)
T TIGR03871 117 HWLAR-HGLV-ENVVGYSLFGDYRPESPPGRMVEDLAA----GEIDVAIVWGPIAGYFAKQAGPPLVVVP 180 (232)
T ss_pred HHHHh-cCcc-cccccccccccccccCCHHHHHHHHHc----CCcCEEEeccHHHHHHHHhCCCCceeec
Confidence 98853 2211 1111 13478899999999 99999999999998888754 2455544
No 103
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=99.45 E-value=1.1e-12 Score=134.85 Aligned_cols=195 Identities=11% Similarity=0.106 Sum_probs=133.4
Q ss_pred CceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHC-CCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEe
Q 004042 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (777)
Q Consensus 464 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l-~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 542 (777)
.++|++.+.. |+||.+.+ +++...|+..++++++++++ ++++++... .|..++..+ +|+.|.++.
T Consensus 17 ~~~l~~~~~~---~pPf~~~~-~~~~~~G~~~~i~~~i~~~~~~~~~~~~~~---------pw~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 17 KEAITWIVND---FPPFFIFS-GPSKGRGVFDVILQEIRRALPQYEHRFVRV---------SFARSLKEL-QGKGGVCTV 82 (268)
T ss_pred cceeEEEecc---cCCeeEeC-CCCCCCChHHHHHHHHHHHcCCCceeEEEC---------CHHHHHHHH-hcCCCeEEe
Confidence 4678887764 56666654 35677999999999999998 877656553 499999999 788888777
Q ss_pred eEEEeecccceeeecccccc-cceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCccc
Q 004042 543 DITIVTNRTKIVDFSQPYAA-SGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (777)
Q Consensus 543 ~~~~t~~r~~~~dfs~p~~~-~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (777)
++++|++|++.++||.||+. ....+++++..... +.
T Consensus 83 ~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~-~~------------------------------------------ 119 (268)
T TIGR02285 83 NLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAG-VR------------------------------------------ 119 (268)
T ss_pred eccCCcchhhceeecCCccccCCceEEEccchhhh-cc------------------------------------------
Confidence 89999999999999999975 57888888765100 00
Q ss_pred chhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccC---CCCChhhhhhCCCCeEEe
Q 004042 622 QVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYS---PINGIESLRKSDDPIGYQ 698 (777)
Q Consensus 622 ~~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~---~i~s~~dl~~~~~~i~~~ 698 (777)
.... .+.++.||. |+++|++
T Consensus 120 -------------------------------------------------------~~~d~~~~~~~l~~l~--g~~vgv~ 142 (268)
T TIGR02285 120 -------------------------------------------------------DEQDGDVDLKKLLASK--KKRLGVI 142 (268)
T ss_pred -------------------------------------------------------ccCCCCccHHHHhcCC--CeEEEEe
Confidence 0000 112223344 7889999
Q ss_pred eCchHHHHHHh---hhcc-ccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCC----CCeEEecccc--c
Q 004042 699 EGSFAEYYLSQ---ELNI-SKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ----CSFRIVGQEF--T 768 (777)
Q Consensus 699 ~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~----~~l~~~~~~~--~ 768 (777)
.|+.....+.+ .... ...++..+++.++++++|.+ |++|+++.+..++.|++++. ..++.+.... .
T Consensus 143 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~----GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (268)
T TIGR02285 143 ASRSYGQQIDDILSDSGYQHNTRIIGNAAMGNLFKMLEK----GRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPA 218 (268)
T ss_pred cceeccHHHHHHHHhCCcccceeeeccchHHHHHHHHHc----CCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCcc
Confidence 98765433321 1111 11235556778889999999 99999999999999988742 2455543221 2
Q ss_pred ccceEEEe
Q 004042 769 KSGWGFVS 776 (777)
Q Consensus 769 ~~~~g~~~ 776 (777)
...++||+
T Consensus 219 ~~~~~i~~ 226 (268)
T TIGR02285 219 HISVWVAC 226 (268)
T ss_pred ceEEEEEe
Confidence 23466665
No 104
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=99.44 E-value=2.7e-12 Score=127.13 Aligned_cols=179 Identities=28% Similarity=0.481 Sum_probs=145.2
Q ss_pred eEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEE
Q 004042 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (777)
Q Consensus 467 l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~ 546 (777)
|+|++.. .++||.+.+ .++...|+..++++.+++++|.++ ++... .|..++..|.+|++|+++.....
T Consensus 1 l~i~~~~--~~~p~~~~~-~~g~~~G~~~~~~~~~~~~~g~~~--~~~~~-------~~~~~~~~l~~g~~D~~~~~~~~ 68 (218)
T cd00134 1 LTVGTAG--TYPPFSFRD-ANGELTGFDVDLAKAIAKELGVKV--KFVEV-------DWDGLITALKSGKVDLIAAGMTI 68 (218)
T ss_pred CEEecCC--CCCCeeEEC-CCCCEEeeeHHHHHHHHHHhCCeE--EEEeC-------CHHHHHHHHhcCCcCEEeecCcC
Confidence 4566665 566777764 468899999999999999999774 44443 39999999999999999887777
Q ss_pred eecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccchhhH
Q 004042 547 VTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITI 626 (777)
Q Consensus 547 t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (777)
+.+|.+.+.|+.|+......+++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------------------------- 95 (218)
T cd00134 69 TPERAKQVDFSDPYYKSGQVILVKKGS----------------------------------------------------- 95 (218)
T ss_pred CHHHHhhccCcccceeccEEEEEECCC-----------------------------------------------------
Confidence 889999999999999999999998877
Q ss_pred HHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCchHHHH
Q 004042 627 LWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFAEYY 706 (777)
Q Consensus 627 ~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~~~~~~ 706 (777)
++.+++||. |+++++..++....+
T Consensus 96 ------------------------------------------------------~~~~~~dl~--g~~i~~~~~~~~~~~ 119 (218)
T cd00134 96 ------------------------------------------------------PIKSVKDLK--GKKVAVQKGSTAEKY 119 (218)
T ss_pred ------------------------------------------------------CCCChHHhC--CCEEEEEcCchHHHH
Confidence 566899998 999999988888887
Q ss_pred HHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCC-CCeEEecccccccce
Q 004042 707 LSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ-CSFRIVGQEFTKSGW 772 (777)
Q Consensus 707 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~-~~l~~~~~~~~~~~~ 772 (777)
+.+... ...+..+++.++++++|.+ |++|+++.+...+.+..++. ++++++........+
T Consensus 120 ~~~~~~--~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 180 (218)
T cd00134 120 LKKALP--EAKVVSYDDNAEALAALEN----GRADAVIVDEIALAALLKKHPPELKIVGPSIDLEPL 180 (218)
T ss_pred HHHhCC--cccEEEeCCHHHHHHHHHc----CCccEEEeccHHHHHHHHhcCCCcEEeccccCCCcc
Confidence 744322 2355667889999999999 99999999999999987765 788877764333333
No 105
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=99.43 E-value=1.1e-11 Score=137.52 Aligned_cols=309 Identities=14% Similarity=0.153 Sum_probs=171.9
Q ss_pred eEEEEEEeeCCCcc---hhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChh
Q 004042 31 VVNVGALFTLDSTI---GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST 107 (777)
Q Consensus 31 ~i~IG~l~~~s~~~---g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~ 107 (777)
+-+|++++|+|+.+ |...+.|+..|. +.. .+.+.++.++|+..+.. .....+.+.+|+.+||||..-.
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 45899999999544 677788888888 111 13456778889887633 3346667788999999999998
Q ss_pred HHHHHHHhhcc--CCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHH
Q 004042 108 VAHIVSYVSNE--LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (777)
Q Consensus 108 ~~~~va~~~~~--~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~ 185 (777)
....++..-.. ..+|++.....+.. . .-+.++.++-+.++.++.+++++..-|+++..||++++++|....+.|.
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 88888776553 58999987665543 1 1356777777778889999999999999999999999999999999999
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 265 (777)
+.+++.|..+.....+. . ..++...++.-...+.|.|++.+.+.+++.+--...-. ...+.-.+.++......
T Consensus 367 ~~W~~~gg~~~~~~~~~-~----~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~--~a~~lPvyatS~~~~g~ 439 (536)
T PF04348_consen 367 QQWQALGGQVAEVSYYG-S----PADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH--FAGDLPVYATSRSYSGS 439 (536)
T ss_dssp HHHHHHHSS--EEEEES-S----TTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT---T-TT-EEEE-GGG--HH
T ss_pred HHHHHcCCCceeeEecC-C----HHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc--cCCCCCEEEeccccCCC
Confidence 99999998886666664 2 56888888866666899999999999988776665432 12222334443322111
Q ss_pred cCCCCCchhhhhccceEEEEe-ec--CCchhHHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHHHhcCCccccc
Q 004042 266 DSASLPSETLESMQGVLVLRQ-HI--PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (777)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~-~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDAv~lla~Al~~~~~~~~~~~~~ 342 (777)
.+......+.|+..+.. +. +..+..+.+...|.+. .....-..+.+|||..++. -+.++
T Consensus 440 ----~~~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~---~~~~~RL~AlG~DA~~L~~-~l~~l---------- 501 (536)
T PF04348_consen 440 ----PNPSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNA---SNSLQRLYALGIDAYRLAP-RLPQL---------- 501 (536)
T ss_dssp ----T-HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT----HHHHHHHHHHHHHHHHHH-THHHH----------
T ss_pred ----CCcchhhhhcCCEEeccccccCCCchHHHHHHhhccCC---ccHHHHHHHHHHHHHHHHH-HHHHH----------
Confidence 12345577899887764 22 2233333333333211 0111223466777754432 22222
Q ss_pred CCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEEEEEeec
Q 004042 343 NDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIG 405 (777)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~I~~~~~ 405 (777)
+.+....+.|.||.+++|++|. +.....-.++++
T Consensus 502 ----------------------------~~~~~~~~~G~TG~L~~~~~g~-i~R~l~wa~f~~ 535 (536)
T PF04348_consen 502 ----------------------------RQFPGYRLDGLTGQLSLDEDGR-IERQLSWAQFRN 535 (536)
T ss_dssp ----------------------------HHSTT--EEETTEEEEE-TT-B-EEEE-EEEEEET
T ss_pred ----------------------------hhCCCCcccCCceeEEECCCCe-EEEeecceeecC
Confidence 2233456899999999999996 566665555544
No 106
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.42 E-value=4.7e-12 Score=125.36 Aligned_cols=184 Identities=27% Similarity=0.468 Sum_probs=148.8
Q ss_pred eeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEE
Q 004042 466 LLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDIT 545 (777)
Q Consensus 466 ~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~ 545 (777)
+|+|++. +.++||...+. ++...|+.+|+++.+.+++|+++++.. ..|..++..+.+|++|+++.+..
T Consensus 1 ~l~v~~~--~~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~~~~~~---------~~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 1 TLRVGTN--GDYPPFSFADE-DGELTGFDVDLAKAIAKELGLKVEFVE---------VSFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred CEEEEec--CCCCCcEEECC-CCCcccchHHHHHHHHHHhCCeEEEEe---------ccHHHHHHHHHCCcccEEecccc
Confidence 3778886 36677777653 567999999999999999998855544 24999999999999999998777
Q ss_pred EeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccchhh
Q 004042 546 IVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVIT 625 (777)
Q Consensus 546 ~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 625 (777)
.+.+|.+.+.++.|+......+++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------------------------------------- 96 (219)
T smart00062 69 ITPERAKQVDFSDPYYKSGQVILVRKDS---------------------------------------------------- 96 (219)
T ss_pred CCHHHHhheeeccceeeceeEEEEecCC----------------------------------------------------
Confidence 7888888899999999999999988766
Q ss_pred HHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCchHHH
Q 004042 626 ILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFAEY 705 (777)
Q Consensus 626 ~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~~~~~ 705 (777)
++++++||. |++|++..++....
T Consensus 97 -------------------------------------------------------~~~~~~dL~--g~~i~~~~g~~~~~ 119 (219)
T smart00062 97 -------------------------------------------------------PIKSLEDLK--GKKVAVVAGTTGEE 119 (219)
T ss_pred -------------------------------------------------------CCCChHHhC--CCEEEEecCccHHH
Confidence 688999998 99999999988888
Q ss_pred HHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCC--CCeEEecccccc-cceEEEe
Q 004042 706 YLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ--CSFRIVGQEFTK-SGWGFVS 776 (777)
Q Consensus 706 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~--~~l~~~~~~~~~-~~~g~~~ 776 (777)
++... ....++..+.+..+++++|.+ |++|+.+.+.+.+.+..++. +++.++...... ..+++++
T Consensus 120 ~~~~~--~~~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 187 (219)
T smart00062 120 LLKKL--YPEAKIVSYDSQAEALAALKA----GRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAV 187 (219)
T ss_pred HHHHh--CCCceEEEcCCHHHHHHHhhc----CcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEE
Confidence 88432 222355567888999999999 99999999999988887765 677777665554 6667664
No 107
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.01 E-value=2e-09 Score=107.10 Aligned_cols=178 Identities=13% Similarity=0.114 Sum_probs=142.3
Q ss_pred CCCceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEE
Q 004042 462 NNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (777)
Q Consensus 462 ~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~ 541 (777)
+..+.|+|++.++| ..+.. .++.-+|+++++.+.+++.||.+ .+..+. .+.+.++.+|.+|++|+++
T Consensus 20 q~rGvLrV~tinsp----~sy~~-~~~~p~G~eYelak~Fa~yLgV~--Lki~~~------~n~dqLf~aL~ng~~DL~A 86 (473)
T COG4623 20 QARGVLRVSTINSP----LSYFE-DKGGPTGLEYELAKAFADYLGVK--LKIIPA------DNIDQLFDALDNGNADLAA 86 (473)
T ss_pred HhcCeEEEEeecCc----cceec-cCCCccchhHHHHHHHHHHhCCe--EEEEec------CCHHHHHHHHhCCCcceec
Confidence 34578999999863 23322 24556799999999999999988 555443 4689999999999999999
Q ss_pred eeEEEeecccceeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCccc
Q 004042 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (777)
Q Consensus 542 ~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (777)
+++...++|.+.+-..+.|+..+..++.++.+
T Consensus 87 agl~~~~~~l~~~~~gP~y~svs~qlVyRkG~------------------------------------------------ 118 (473)
T COG4623 87 AGLLYNSERLKNFQPGPTYYSVSQQLVYRKGQ------------------------------------------------ 118 (473)
T ss_pred ccccCChhHhcccCCCCceecccHHHHhhcCC------------------------------------------------
Confidence 99999999999988888899999999998888
Q ss_pred chhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEeeCc
Q 004042 622 QVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGS 701 (777)
Q Consensus 622 ~~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~~~ 701 (777)
...+++++|. |+.+-+..|+
T Consensus 119 ----------------------------------------------------------~Rp~~l~~L~--g~~i~v~~gs 138 (473)
T COG4623 119 ----------------------------------------------------------YRPRSLGQLK--GRQITVAKGS 138 (473)
T ss_pred ----------------------------------------------------------CCCCCHHHcc--CceeeccCCc
Confidence 4567899999 9999999999
Q ss_pred hHHHHHHhhhc-ccccccccc---CCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCCCeEEec
Q 004042 702 FAEYYLSQELN-ISKSRLVAL---RTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVG 764 (777)
Q Consensus 702 ~~~~~~~~~~~-~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~~l~~~~ 764 (777)
...+-++..++ ..+..++.. .+.++.+++|.. |++|..|.|++.+.-+.+-+++|.+.=
T Consensus 139 ~~~~~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~~----Gkldytiads~~is~~q~i~P~laVaf 201 (473)
T COG4623 139 AHVEDLKLLKETKYPELIWKVDDKLGVEDLLEMVAE----GKLDYTIADSVEISLFQRVHPELAVAF 201 (473)
T ss_pred HHHHHHHHHHHhhcchhhhhhcccccHHHHHHHHhc----CCcceeeeccHHHHHHHHhCccceeee
Confidence 86666643333 223344443 478999999999 999999999999988877788876553
No 108
>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=98.93 E-value=6.5e-08 Score=99.09 Aligned_cols=205 Identities=12% Similarity=0.081 Sum_probs=145.5
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||+++|.+ .........+++.+.++. | +++.+.|+.+++....+.+.+++.++++++|+...+.....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~--------g--~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA--------G--YQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc--------C--CeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh
Confidence 589999986 445566677777777661 3 35667788888877888888888889999998766555444
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc--cccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 189 (777)
....+...++|+|.+....+. ..+++++.+++...+..+++++...+-++|+++..+.. ++....+.+++.++
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 577788899999987665432 24567788888889999999998889999999986443 56667888999998
Q ss_pred hcc-eEEEEeeecCCCCCCChhhHHHHHHHHhcCC--CeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 190 ERR-CRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 190 ~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
+.| ..+....... .+..+....+.++.+.+ +++|+...+ ..+..+++++++.|+..+..+-+.
T Consensus 146 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~i~~~i~i~ 211 (264)
T cd01537 146 EAGPIEIVLVQEGD----WDAEKGYQAAEELLTAHPDPTAIFAAND-DMALGALRALREAGLRVPDDISVI 211 (264)
T ss_pred HcCCcChhhhccCC----CCHHHHHHHHHHHHhcCCCCCEEEEcCc-HHHHHHHHHHHHhCCCCCCCeEEE
Confidence 887 4433222222 23566777788877766 455554433 456668899999888544433333
No 109
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=98.85 E-value=2.5e-09 Score=80.43 Aligned_cols=50 Identities=24% Similarity=0.544 Sum_probs=39.0
Q ss_pred cCCcceeeeeHHHHHHHHHHCCCeecEEEEecC-CCC--CCCChhHHHHHHhc
Q 004042 485 RGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFG-DGH--KNPSYTQLVDSITT 534 (777)
Q Consensus 485 ~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~-~~~--~~~~~~~~~~~l~~ 534 (777)
.++.+++|||+||+++|++.|||++++..++.+ .|. +|++|+|||++|++
T Consensus 13 ~g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 13 TGNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp BGGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CCCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 367899999999999999999999666665543 233 67899999999975
No 110
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=98.83 E-value=3.7e-08 Score=100.55 Aligned_cols=181 Identities=15% Similarity=0.149 Sum_probs=128.4
Q ss_pred ceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeE
Q 004042 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (777)
Q Consensus 465 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~ 544 (777)
.+|+||+.. .+.|+ .+.+...++.+.+++++|.++++.. . .+|+.++..+.+|++|+++.+.
T Consensus 32 ~~l~vg~~~--~~~~~--------~~~~~~~~l~~~l~~~~g~~v~~~~--~------~~~~~~~~~l~~g~~Di~~~~~ 93 (254)
T TIGR01098 32 KELNFGILP--GENAS--------NLTRRWEPLADYLEKKLGIKVQLFV--A------TDYSAVIEAMRFGRVDIAWFGP 93 (254)
T ss_pred CceEEEECC--CCCHH--------HHHHHHHHHHHHHHHHhCCcEEEEe--C------CCHHHHHHHHHcCCccEEEECc
Confidence 569999975 33332 2334457899999999998855543 2 4699999999999999998665
Q ss_pred EEee---cccceeeeccccccc------ceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCC
Q 004042 545 TIVT---NRTKIVDFSQPYAAS------GLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEF 615 (777)
Q Consensus 545 ~~t~---~r~~~~dfs~p~~~~------~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~ 615 (777)
.... +|.+..+|+.|+... ...+++++..
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~------------------------------------------ 131 (254)
T TIGR01098 94 SSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADS------------------------------------------ 131 (254)
T ss_pred HHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCC------------------------------------------
Confidence 4433 566678888876643 2467776655
Q ss_pred CCCcccchhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCe
Q 004042 616 RGPPKRQVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPI 695 (777)
Q Consensus 616 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i 695 (777)
+|++++||. |++|
T Consensus 132 -----------------------------------------------------------------~i~~~~dL~--gk~I 144 (254)
T TIGR01098 132 -----------------------------------------------------------------PIKSLKDLK--GKTF 144 (254)
T ss_pred -----------------------------------------------------------------CCCChHHhc--CCEE
Confidence 789999998 9999
Q ss_pred EEee-CchH-----HHHHHhhhcccc----ccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCC----CeE
Q 004042 696 GYQE-GSFA-----EYYLSQELNISK----SRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC----SFR 761 (777)
Q Consensus 696 ~~~~-~~~~-----~~~~~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~----~l~ 761 (777)
++.. ++.. ..++.+..+.+. .++....+..+++++|.+ |++|+.+.+.+.+.++.++.. ++.
T Consensus 145 ~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~----G~~Da~~~~~~~~~~~~~~~~~~~~~~~ 220 (254)
T TIGR01098 145 AFGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVAN----GKVDAATNNSSAIGRLKKRGPSDMKKVR 220 (254)
T ss_pred EeeCCCCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHc----CCCCeEEecHHHHHHHHHhCccchhheE
Confidence 9875 3322 223433222111 234445567889999999 999999999999988776643 688
Q ss_pred EecccccccceEEEe
Q 004042 762 IVGQEFTKSGWGFVS 776 (777)
Q Consensus 762 ~~~~~~~~~~~g~~~ 776 (777)
+++..+...++|+++
T Consensus 221 ~~~~~~~~~~~~~~~ 235 (254)
T TIGR01098 221 VIWKSPLIPNDPIAV 235 (254)
T ss_pred EEEecCCCCCCCEEE
Confidence 888777777788876
No 111
>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=98.82 E-value=6.6e-07 Score=91.88 Aligned_cols=205 Identities=10% Similarity=0.083 Sum_probs=139.2
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s-~~~~ 110 (777)
+||++.|.. ..+......+++.+.++. |+ ++.+.++..++......+.+++.+++++||+...+ ....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~--------g~--~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL--------GV--ELIVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc--------Cc--eEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 589999875 555566778888777772 34 45556777788888888888888899988864433 3333
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeC--ccccchHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~--~~g~~~~~~~~~ 186 (777)
.....+...++|+|......+. .+.+....+++...+..+++++... |-+++++++.+. .++....+.+++
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 3556667789999987554321 1345566777788888899987766 889999998543 477778889999
Q ss_pred HHhhc-ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeE-EEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 187 ~~~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v-Ivl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
.+++. |.++....... ....+..+.+.++.+..++. ++++++...+..+++++++.|+. .+...++
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 99988 46654332222 22456667777776554433 33344446677799999999875 3443343
No 112
>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=98.77 E-value=5.1e-07 Score=92.49 Aligned_cols=204 Identities=10% Similarity=0.019 Sum_probs=140.1
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++.|.. ..+......+++.+.++. |+++ .+.|...++.+..+....++++++.+++....+.....
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~--------g~~~--~~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~ 70 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA--------GYSV--LLCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL 70 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc--------CCEE--EEEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH
Confidence 489999985 444455666666666552 4444 45677778888888898999989998887666555544
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~~~~ 189 (777)
...+...++|+|......+. +.+....++....++.+++++...|.+++++++.+. .++....+.+++.++
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 66688999999987654332 345566677788888888998888999999998554 366677788889998
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcCC--CeEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i 256 (777)
+.+..+......... .+..+....+.++..+. +++|+.. +...+..+++++++.|+..++.+.+
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~~~~i~i 209 (264)
T cd06267 144 EAGIPLDEELIVEGD--FSEESGYEAARELLASGERPTAIFAA-NDLMAIGALRALRELGLRVPEDVSV 209 (264)
T ss_pred HcCCCCCcceEEecc--cchhhHHHHHHHHHhcCCCCcEEEEc-CcHHHHHHHHHHHHhCCCCCCceEE
Confidence 887543222222222 22456677777777665 5666644 4456677888889988854443333
No 113
>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=1.7e-06 Score=89.20 Aligned_cols=202 Identities=13% Similarity=0.028 Sum_probs=138.9
Q ss_pred EEEEEeeCCC-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChh-HHH
Q 004042 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST-VAH 110 (777)
Q Consensus 33 ~IG~l~~~s~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~-~~~ 110 (777)
|||++.|... ++-.....+++.+.++. +. .|+++++.+.|+..++....+...+++.+++++||....+. ...
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 6899998653 22234455555555442 12 36788899999999998888889999999999988854432 233
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEe--CccccchHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD--NEYGRNGVSALND 186 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~--~~~g~~~~~~~~~ 186 (777)
.....+...++|+|......+ . +.+.++.+++...+..+++++... +-++++++..+ ...+....+.+++
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 344566778999998754321 1 346778888999999999987766 88899999742 3345567788999
Q ss_pred HHhhcc-eEEEEeeecCCCCCCChhhHHHHHHHHhcCCC--eEEEEecChhHHHHHHHHHHHcCCCCC
Q 004042 187 KLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMES--RVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (777)
Q Consensus 187 ~~~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~--~vIvl~~~~~~~~~~l~~a~~~gl~~~ 251 (777)
.+++.+ +.+......+ .+..+..+.+.++.++.+ ++|+...+. +..+++++++.|+..+
T Consensus 150 a~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~~d~--A~g~~~al~~~g~~~p 211 (272)
T cd06300 150 VLKEYPGIKIVGEVYGD----WDQAVAQKAVADFLASNPDVDGIWTQGGD--AVGAVQAFEQAGRDIP 211 (272)
T ss_pred HHHHCCCcEEEeecCCC----CCHHHHHHHHHHHHHhCCCcCEEEecCCC--cHHHHHHHHHcCCCCc
Confidence 998887 7765332222 234566777788766554 544444333 8889999999998433
No 114
>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=98.72 E-value=1e-06 Score=91.39 Aligned_cols=201 Identities=15% Similarity=0.113 Sum_probs=136.1
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
|||++.+.+..+-.....+++ +++++.++.+ |.++++.+.|+..++....+...++.++++.++|+..++. ....
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~---~~~~~~g~~~-g~~v~l~~~~~~~~~~~~~~~~~~l~~~~vd~iI~~~~~~-~~~~ 75 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFK---DGLKEAGYKE-GKNVKIDYQNAQGDQSNLPTIARKFVADKPDLIVAIATPA-AQAA 75 (281)
T ss_pred CeEEecCCCCcchHHHHHHHH---HHHHHhCccC-CceEEEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCcHH-HHHH
Confidence 589999876544333444444 5566666664 8999999999999999998889999988999999865432 2222
Q ss_pred HHhhccCCceEEecccCCCCCC---C-CCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeC-ccccchHHHHH
Q 004042 113 SYVSNELQVPLLSFGVTDPTLS---S-LQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALN 185 (777)
Q Consensus 113 a~~~~~~~iP~Is~~a~~~~l~---~-~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~-~~g~~~~~~~~ 185 (777)
.....++|+|.++...+... + ...+....+..++...+..+++++... |.+++++++.+. .++....+.++
T Consensus 76 --~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 --ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred --HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 25677999998764433111 1 111122223445556677888887765 999999997543 36667778899
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCC
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl 248 (777)
+.+++.|+++.... . . ...++...++++.+. +++|++..+ ..+..+++++++.++
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 99999998876532 2 1 256677788888753 677776544 456677888887765
No 115
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.70 E-value=6.2e-06 Score=82.24 Aligned_cols=204 Identities=15% Similarity=0.134 Sum_probs=139.7
Q ss_pred CCceEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCC-EEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh
Q 004042 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGT-KLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS 106 (777)
Q Consensus 28 ~~~~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~-~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s 106 (777)
..+.++||+..+.+.+.=...+.+++-|+++. |+ .+++.+...++++..+.+.++.+..++.++|++ ..+
T Consensus 27 ~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~--------G~~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~-i~t 97 (322)
T COG2984 27 AADQITVAITQFVEHPALDAAREGVKEALKDA--------GYKNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVA-IAT 97 (322)
T ss_pred cccceeEEEEEeecchhHHHHHHHHHHHHHhc--------CccCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEe-cCC
Confidence 35667788888887543345677777777665 23 678888899999999999999999998887777 444
Q ss_pred hHHHHHHHhhccCCceEEecccCCCC---CCCC-CCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEE-eCccccc
Q 004042 107 TVAHIVSYVSNELQVPLLSFGVTDPT---LSSL-QYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFV-DNEYGRN 179 (777)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~a~~~~---l~~~-~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~-~~~~g~~ 179 (777)
..+.++..-. .++|++-.+.+++. +.+. .-|.--=++-+|..-...-++++++. +.++|+++|+ +.+....
T Consensus 98 p~Aq~~~s~~--~~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~~ 175 (322)
T COG2984 98 PAAQALVSAT--KTIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSVS 175 (322)
T ss_pred HHHHHHHHhc--CCCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccHH
Confidence 4454443333 33999987666543 2221 11211222334444455556666664 8999999995 4557788
Q ss_pred hHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh---hHHHHHHHHHHHcCCC
Q 004042 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP---SLGFQVFSVAKYLGMM 249 (777)
Q Consensus 180 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~---~~~~~~l~~a~~~gl~ 249 (777)
..+.+++.+++.|++|... .++ +..|....++.+. .++|+|+..++. .....+++.+.+.+.+
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 LVEELKKEARKAGLEVVEA-AVT-----SVNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAKIP 241 (322)
T ss_pred HHHHHHHHHHHCCCEEEEE-ecC-----cccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhCCC
Confidence 8999999999999998743 332 2456777777776 568999988776 4566678888887763
No 116
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=98.66 E-value=9.3e-08 Score=86.83 Aligned_cols=91 Identities=24% Similarity=0.377 Sum_probs=76.2
Q ss_pred CCCChhhhhhC-CCCeEEeeCchHHHHHHhhhccc------c---ccccccCCHHHHHHHHhcCCCCCCceEEEecchhh
Q 004042 681 PINGIESLRKS-DDPIGYQEGSFAEYYLSQELNIS------K---SRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYV 750 (777)
Q Consensus 681 ~i~s~~dl~~~-~~~i~~~~~~~~~~~~~~~~~~~------~---~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~ 750 (777)
+|++++||..+ +++||+..|++.+.++++..... . .++..+++..+++.+|++ |+ ||++.|.+.+
T Consensus 1 ~i~~~~dl~~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----g~-da~v~d~~~~ 75 (134)
T smart00079 1 PITSVEDLAKQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRV----SN-YAFLMESTYL 75 (134)
T ss_pred CCCChHHHhhCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHc----CC-CEEEeehHhH
Confidence 47899999943 27899999999999995432210 0 245678999999999999 99 9999999999
Q ss_pred HHHhhCCCCeEEecccccccceEEEe
Q 004042 751 ELFLSSQCSFRIVGQEFTKSGWGFVS 776 (777)
Q Consensus 751 ~~~~~~~~~l~~~~~~~~~~~~g~~~ 776 (777)
.|++++.|++.+++..+..++|||||
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~ia~ 101 (134)
T smart00079 76 DYELSQNCDLMTVGENFGRKGYGIAF 101 (134)
T ss_pred HHHHhCCCCeEEcCcccCCCceEEEe
Confidence 99998889999999889999999997
No 117
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.61 E-value=3.6e-06 Score=88.26 Aligned_cols=318 Identities=11% Similarity=0.084 Sum_probs=192.0
Q ss_pred ceEEEEEEeeCCC---cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh
Q 004042 30 AVVNVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS 106 (777)
Q Consensus 30 ~~i~IG~l~~~s~---~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s 106 (777)
.+=+|++++|+++ ..|...+.|+..|-. -+... ++-..++.++|+...+..++ ......+|+..|+||...
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 3568999999994 456777888887765 12221 33336788889887665553 223344599999999999
Q ss_pred hHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHH
Q 004042 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (777)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 186 (777)
...+.+..--. ..||++....++.. +..+.++...-+.++.++..++++-.-|.+...++.+.+++|....+.|.+
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 88887654443 67888875443321 133566666666777789999999999999999999999999999999999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHH-----------------------HhcCC-CeEEEEecChhHHHHHHHH
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVK-----------------------VALME-SRVIVLHVSPSLGFQVFSV 242 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~-----------------------l~~~~-~~vIvl~~~~~~~~~~l~~ 242 (777)
.+++.|...+....+.. ..+++..++. +.+.. .|.|++...+.+++.+--.
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 99998874433333321 2222222222 11223 7889999999888866444
Q ss_pred HHHcCCCCCCeEEEEeCcchhcccCCCCCchhhhhccceEEEEe---ecCCchhHHHHHHHHHhhcCCCCCCCchhhhHh
Q 004042 243 AKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQ---HIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAY 319 (777)
Q Consensus 243 a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~---~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y 319 (777)
..-.+.....- -+.++..... ...++....++|+..... ..++.+..+.....|... |
T Consensus 481 ia~~~~~~~~p-~yaSSr~~~g----T~~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~~--------------~ 541 (604)
T COG3107 481 IAMANGSDSPP-LYASSRSSQG----TNGPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPND--------------Y 541 (604)
T ss_pred HHhhcCCCCcc-eeeecccccc----CCCccHHHhccCccccCCchhcCCCchHHHHHHHhcCCc--------------h
Confidence 44333221111 2233221111 122456667788755432 234555666555554432 3
Q ss_pred hHHHHHHHHHHHHHhcCCcccccCCccccccCCCCcccCCccccCchhHHHHHHHcccccCceeeEEEecCCCcccceEE
Q 004042 320 DSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYD 399 (777)
Q Consensus 320 DAv~lla~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~r~~~~~~ 399 (777)
..+.++|.+++.-.=.. +=.. ++.......+|+||.++.|++.. +.....
T Consensus 542 sl~RLyAmGvDAwrLan----------------------------~f~e-lrqV~G~~i~G~TG~Lsad~~c~-I~R~l~ 591 (604)
T COG3107 542 SLARLYAMGVDAWRLAN----------------------------HFSE-LRQVPGYQIDGLTGTLSADPDCV-IERKLS 591 (604)
T ss_pred HHHHHHHhcchHHHHHH----------------------------HhHH-hhcCCCcccccccceeecCCCce-Eeecch
Confidence 34455555544310000 0000 11123345889999999999885 455444
Q ss_pred EEEeecCceEEE
Q 004042 400 IINVIGTGFRMI 411 (777)
Q Consensus 400 I~~~~~~~~~~v 411 (777)
=.++++|..+++
T Consensus 592 Waqy~~G~vvP~ 603 (604)
T COG3107 592 WAQYQQGQVVPV 603 (604)
T ss_pred HHHhcCCCeeeC
Confidence 445556655544
No 118
>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=98.58 E-value=1.2e-05 Score=83.16 Aligned_cols=206 Identities=9% Similarity=0.050 Sum_probs=131.9
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEE-EcCCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAI-IGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~av-iGp~~s~~~~ 110 (777)
|||++.|.. ..+-.....+++.+.++ .|+++.+...|...++....+....++++++.++ +.|..+....
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 33333455566666555 2677777766777777777777888888888875 5555444444
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEe--CccccchHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD--NEYGRNGVSALND 186 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~--~~~g~~~~~~~~~ 186 (777)
+....+...++|+|....... ... ...+.+++...++.+++++... |.++++++... ........+.+.+
T Consensus 73 ~~~~~~~~~~iPvV~~~~~~~---~~~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 73 PAVERAKKKGIPVVNVNDKLI---PNA---TAFVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHHHCCCeEEEECCCCC---Ccc---ceEEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 455667788999998754321 111 2235677787889999987765 88999999743 2333455678999
Q ss_pred HHhhc-ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec-ChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV-SPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 187 ~~~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~-~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
.+++. |+++...... . ....+....++++.+..+++-.+++ +...+..+++++++.|+. .+...++
T Consensus 147 ~~~~~~~~~~~~~~~~--~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~-~di~vig 214 (275)
T cd06320 147 AIKKASGIEVVASQPA--D--WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ-GKVLVVG 214 (275)
T ss_pred HHhhCCCcEEEEecCC--C--ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC-CCeEEEe
Confidence 99998 8887543221 1 2244556667776554444433333 445566788888998875 3333443
No 119
>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=98.46 E-value=1.2e-05 Score=82.51 Aligned_cols=200 Identities=12% Similarity=0.099 Sum_probs=126.8
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++.|.. .++-.....+++.+.++ .|+.+.+ .++..++....+...+++.++++++|....+.....
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 478999864 33333445555555544 2455544 466667777777788888888998886433332333
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe---CccccchHHHHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD---NEYGRNGVSALNDKL 188 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~---~~~g~~~~~~~~~~~ 188 (777)
....+...++|+|....... ...++ ...++...+..+++++...|.++++++..+ ..++.+..+.+++.+
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 55667788999988654322 12233 245677788999999888899999999742 235666788899999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~ 254 (777)
++.|+++......+. ...+....+.++.+. .+++|+. ++...+..+++++++.|+..++-+
T Consensus 144 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di 206 (266)
T cd06282 144 RAAGLAPLPPVEIPF----NTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDL 206 (266)
T ss_pred HHcCCCCCccccCCC----cHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCce
Confidence 998876543222221 233344455554333 4566665 456667789999999998644333
No 120
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.36 E-value=0.00012 Score=76.49 Aligned_cols=208 Identities=8% Similarity=0.074 Sum_probs=125.6
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcE-EEEcCCChh
Q 004042 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIV-AIIGPQCST 107 (777)
Q Consensus 30 ~~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~-aviGp~~s~ 107 (777)
..-+||++.|.. .++-.....+++.+.++. |+++ .+.++..++....+....+.++++. +|++|..+.
T Consensus 25 ~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~--------G~~~--~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~ 94 (295)
T PRK10653 25 AKDTIALVVSTLNNPFFVSLKDGAQKEADKL--------GYNL--VVLDSQNNPAKELANVQDLTVRGTKILLINPTDSD 94 (295)
T ss_pred cCCeEEEEecCCCChHHHHHHHHHHHHHHHc--------CCeE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChH
Confidence 455899999853 333345666777666652 4444 4456677777777777788888776 445555544
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc-CCc-EEEEEEEeC--ccccchHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GWN-AVSVIFVDN--EYGRNGVSA 183 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-~w~-~vaii~~~~--~~g~~~~~~ 183 (777)
........+...++|+|.+..... ....+....+++..-+..+++++... +.+ ++.++..+. .......+.
T Consensus 95 ~~~~~l~~~~~~~ipvV~~~~~~~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~g 169 (295)
T PRK10653 95 AVGNAVKMANQANIPVITLDRGAT-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEG 169 (295)
T ss_pred HHHHHHHHHHHCCCCEEEEccCCC-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHH
Confidence 444455677778999998753221 11234456677777778888886654 543 666665322 234466788
Q ss_pred HHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEe-cChhHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-VSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~-~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
+++.+++.|+.+...... . .+..+....+.++.+..++.-.++ .+...+..+++++++.|+ .+...++.
T Consensus 170 f~~al~~~g~~~~~~~~~--~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~--~dv~vig~ 239 (295)
T PRK10653 170 FKQAVAAHKFNVLASQPA--D--FDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK--SDVMVVGF 239 (295)
T ss_pred HHHHHhhCCCEEEEecCC--C--CCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC--CceEEEEe
Confidence 999999999876432111 1 123344455666655444333333 334445568999999997 24444443
No 121
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.34 E-value=2.1e-06 Score=88.49 Aligned_cols=133 Identities=19% Similarity=0.225 Sum_probs=103.5
Q ss_pred CChhHHHHHHhcCceeEEEeeEEEeecccceeeeccc--ccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHH
Q 004042 523 PSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQP--YAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVV 600 (777)
Q Consensus 523 ~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p--~~~~~~~~~v~~~~~~~~~~~~~~pf~~~vWl~~~~~~~~~ 600 (777)
..|.+++..|.+|++|++++++.++.+|.+.++|+.| |....+.+++|+..
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 3589999999999999999999999999999999988 67777888887766
Q ss_pred HhhheeeecccCCCCCCCcccchhhHHHHHhhhhhccCcCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccC
Q 004042 601 GIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYS 680 (777)
Q Consensus 601 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~ 680 (777)
T Consensus 104 -------------------------------------------------------------------------------- 103 (287)
T PRK00489 104 -------------------------------------------------------------------------------- 103 (287)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCChhhhhhCCCCeEEeeCchHHHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCCCe
Q 004042 681 PINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSF 760 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~~l 760 (777)
+|++++||. |+++++..+.....||.+ .+.. .++..+.+..|+ .+.. |..||++.+..+...+.++ ++
T Consensus 104 ~i~sl~DL~--Gk~ia~~~~~~~~~~l~~-~gi~-~~iv~~~gs~ea--a~~~----G~aDaivd~~~~~~~l~~~--~L 171 (287)
T PRK00489 104 DWQGVEDLA--GKRIATSYPNLTRRYLAE-KGID-AEVVELSGAVEV--APRL----GLADAIVDVVSTGTTLRAN--GL 171 (287)
T ss_pred CCCChHHhC--CCEEEEcCcHHHHHHHHH-cCCc-eEEEECCCchhh--hhcC----CcccEEEeeHHHHHHHHHC--CC
Confidence 788999999 999999988888899953 3332 344556655554 5666 9999999877777776553 68
Q ss_pred EEecccccccceEEE
Q 004042 761 RIVGQEFTKSGWGFV 775 (777)
Q Consensus 761 ~~~~~~~~~~~~g~~ 775 (777)
+++ +......++++
T Consensus 172 ~~v-~~~~~~~~~li 185 (287)
T PRK00489 172 KIV-EVILRSEAVLI 185 (287)
T ss_pred EEE-EeeeeeeEEEE
Confidence 777 45555556665
No 122
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=98.33 E-value=9.1e-05 Score=76.05 Aligned_cols=204 Identities=10% Similarity=0.096 Sum_probs=127.4
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEE-EEcCCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVA-IIGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~a-viGp~~s~~~~ 110 (777)
.||++.|.. ..+-.....+++.+.++. |+.+ .+.++..++....+...+++.+++++ |+++..+....
T Consensus 1 ~I~vv~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~ 70 (268)
T cd06323 1 TIGLSVSTLNNPFFVTLKDGAQKEAKEL--------GYEL--TVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVV 70 (268)
T ss_pred CeeEecccccCHHHHHHHHHHHHHHHHc--------CceE--EecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHH
Confidence 378888853 444456667777776662 4444 45666778877777888888888887 55555544334
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEe--CccccchHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD--NEYGRNGVSALND 186 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~--~~~g~~~~~~~~~ 186 (777)
.....+...++|+|......+ ....+-....+....+..+++++... |-+++++++.+ ...+....+.+++
T Consensus 71 ~~l~~l~~~~ipvv~~~~~~~-----~~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 145 (268)
T cd06323 71 PAVKAANEAGIPVFTIDREAN-----GGEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHE 145 (268)
T ss_pred HHHHHHHHCCCcEEEEccCCC-----CCceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 444555678999998754322 11223345666777788888887776 78999999753 3356667788899
Q ss_pred HHhhc-ceEEEEeeecCCCCCCChhhHHHHHHHHhcCC--CeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 187 ~~~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
.+++. |+++....... .+..+....+.++.+.. +++| ++.+...+..+++++++.|+ .+...++.
T Consensus 146 ~l~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~--~di~iig~ 213 (268)
T cd06323 146 VVDKYPGLKVVASQPAD----FDRAKGLNVMENILQAHPDIKGV-FAQNDEMALGAIEALKAAGK--DDVKVVGF 213 (268)
T ss_pred HHHhCCCcEEEecccCC----CCHHHHHHHHHHHHHHCCCcCEE-EEcCCchHHHHHHHHHHcCC--CCcEEEEe
Confidence 99884 77765322211 12334444555554433 4443 33444455568899999988 34444543
No 123
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=98.28 E-value=6.5e-05 Score=77.15 Aligned_cols=201 Identities=15% Similarity=0.099 Sum_probs=126.8
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++.|.. ..+-.....+++.++++. |+.+. +.|+..++....+....+++++++++|--.... ...
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~ 69 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH--------GYTLL--VASSGYDLDREYAQARKLLERGVDGLALIGLDH-SPA 69 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEE--EecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHH
Confidence 489999864 333344555665555552 44444 467788888888888888888777655321111 223
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe---CccccchHHHHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD---NEYGRNGVSALNDKL 188 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~---~~~g~~~~~~~~~~~ 188 (777)
....+...++|++......+ ....+ ....++...+..+++++...|.++|++|... ..++....+.|.+.+
T Consensus 70 ~~~~l~~~~iPvv~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (268)
T cd06273 70 LLDLLARRGVPYVATWNYSP---DSPYP---CVGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRAAL 143 (268)
T ss_pred HHHHHHhCCCCEEEEcCCCC---CCCCC---EEEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHHHH
Confidence 34456778999998754322 11223 2446778888999998887899999999742 224556788899999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhc--CCCeEEEEecChhHHHHHHHHHHHcCCCCCCe
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY 253 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~ 253 (777)
++.++.+.....+... .+..+....+.++.+ ..+++|+. ++...+..+++++++.|+..++.
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~ 207 (268)
T cd06273 144 AEAGLELPELWQVEAP--YSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPED 207 (268)
T ss_pred HHcCCCCCHHHeeeCC--CcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCc
Confidence 9988654322222211 123344455666654 34677665 55566777899999999865443
No 124
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.24 E-value=0.00012 Score=75.48 Aligned_cols=208 Identities=13% Similarity=0.086 Sum_probs=125.6
Q ss_pred EEEEEeeCC--CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHH
Q 004042 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVA 109 (777)
Q Consensus 33 ~IG~l~~~s--~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~ 109 (777)
.||++.|.. ..+...+..+++.+.++. |+. +.+.++..++....+....++.++++++|. +..+...
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~--------g~~--~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED--------GVE--VIVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAY 70 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc--------CCE--EEEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCcccc
Confidence 378899863 455566777777777762 444 445677778888887888888888887755 4333333
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCceEE-ecCCchHHHHHHHHHHHhc--CCcEEEEEEEeCc--cccchHHHH
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVR-TTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSAL 184 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r-~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~~--~g~~~~~~~ 184 (777)
......+...++|+|......+ ....++++. ..+++...+...++++.+. |-++|+++..+.. .+....+.+
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 4444556788999997654321 122233322 2345556677777776554 7789999975333 344556788
Q ss_pred HHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhc---CCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL---MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 185 ~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~---~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
++.+++.|..+......... ....+....+.++-+ ..+++|+. ++...+..+++++++.|+. .+...++
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 89998886433222222111 112333334444432 23677764 4444577899999999986 3444443
No 125
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.23 E-value=0.00017 Score=74.52 Aligned_cols=206 Identities=9% Similarity=0.105 Sum_probs=124.8
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEE-EcCCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAI-IGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~av-iGp~~s~~~~ 110 (777)
+||++.|.. ..+-.....+++.+.++. |+++ .+.++..++....+...+++.++++++ ++|..+....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~--------g~~~--~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL--------GYDA--VELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAV 70 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc--------CCeE--EEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhH
Confidence 478888864 222223344444444431 4444 456777788777777778888888877 4565554445
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc------CCcEEEEEEEe--CccccchHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVD--NEYGRNGVS 182 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~------~w~~vaii~~~--~~~g~~~~~ 182 (777)
.....+...++|+|.+.... .+ ..++..+.+++...+..+++++.+. |-++++++... ...+....+
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 56677778899999864321 11 1234455666666677777765443 66899999742 345667788
Q ss_pred HHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCe--EEEEecChhHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESR--VIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~--vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
.+++.+++.|+.+.... ...+ .+..+....++++.++.++ +|+. .+...+.-+++++++.|+. .+...++.
T Consensus 146 gf~~~l~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~-~di~vvg~ 218 (277)
T cd06319 146 GFKEAMKEAGCDLAGIR-QQKD--FSYQETFDYTNDLLTANPDIRAIWL-QGSDRYQGALDAIATAGKT-GKVLLICF 218 (277)
T ss_pred HHHHHHHhcCCceEeec-cCCC--CCHHHHHHHHHHHHHhCCCCCEEEE-CCCccchHHHHHHHHcCCC-CCEEEEEc
Confidence 99999999987754221 1111 2234445566666544444 4433 3444456789999999986 34444443
No 126
>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=98.20 E-value=0.00026 Score=72.86 Aligned_cols=209 Identities=12% Similarity=0.108 Sum_probs=127.9
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~avi-Gp~~s~~~~ 110 (777)
+||++.|.. .++-.....+++.+.++. .|+ ++.+.++..++..-.+....+++.+++++| .|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-------~~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 71 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL-------GGV--ELQFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATA 71 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc-------CCc--EEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhH
Confidence 589999864 333334445555555441 244 445567777887777778888888888776 455544444
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeC--ccccchHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~--~~g~~~~~~~~~ 186 (777)
.+...+...++|+|......+.. .+.+..+..++...+..+++++.+. +-++++++.... .......+.|++
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 55566788999999865432111 1234556778888888888887655 456999997432 334556688899
Q ss_pred HHhhcc-eEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 187 KLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 187 ~~~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
.+++.| +.+... .... .+.......++++.+. .+++| ++.+...+..+++.+++.|+.+.+...++.+
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 998887 444321 1111 1223333455554433 35654 3445556667899999999874355555543
No 127
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.17 E-value=0.00084 Score=71.66 Aligned_cols=201 Identities=10% Similarity=-0.027 Sum_probs=118.3
Q ss_pred CceEEEEEEeeCCC-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCCh
Q 004042 29 PAVVNVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCS 106 (777)
Q Consensus 29 ~~~i~IG~l~~~s~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s 106 (777)
..+-+||++.|... .+-.....+++-+.++. |+++.+...+...+...-.+....++++++.+||= |...
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 34789999998753 22234455666555542 55555543322334444455667777888887664 4333
Q ss_pred hHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc-----CCcEEEEEEEeC--ccccc
Q 004042 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-----GWNAVSVIFVDN--EYGRN 179 (777)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-----~w~~vaii~~~~--~~g~~ 179 (777)
....... .+...++|++.+..... .+ ........++...++..++++... |-.+++++..+. .....
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 45678999997633211 11 112345677777888888886654 478999997432 23334
Q ss_pred hHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCC
Q 004042 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (777)
Q Consensus 180 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~ 249 (777)
..+.+++.+++.|+++.... .. . .+.......++++.+. ++++|+ ++...+..+++++++.|+.
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 56788888888888775421 11 1 1233334455555332 467776 3445677788999999973
No 128
>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=98.16 E-value=0.00044 Score=71.17 Aligned_cols=208 Identities=12% Similarity=0.039 Sum_probs=131.9
Q ss_pred EEEEEeeCC--CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hHH
Q 004042 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVA 109 (777)
Q Consensus 33 ~IG~l~~~s--~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s-~~~ 109 (777)
|||++.|.. ..+-.....+++.+.++. |+.+.+...+. .++....+....++.+++.++|..... ...
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 688999875 344456677777777762 56665543333 377777777888888888887763333 223
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEe--CccccchHHHHHH
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVD--NEYGRNGVSALND 186 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w~~vaii~~~--~~~g~~~~~~~~~ 186 (777)
......+...++|++......+... ..+.+..+..++...+..+++++.+ .|-++++++..+ ...+....+.+++
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 3344555678999998754322111 1245567778888899999999888 899999998743 3445667888999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
.+++.++.+.. +... .+..+....++++.+. ++++|+.. +...+.-+++++++.|+. .+...++.
T Consensus 150 ~~~~~~~~~~~---~~~~--~~~~~~~~~~~~~l~~~~~~~aI~~~-~d~~a~g~~~al~~~g~~-~di~vvg~ 216 (271)
T cd06312 150 GLGGAGITEEV---IETG--ADPTEVASRIAAYLRANPDVDAVLTL-GAPSAAPAAKALKQAGLK-GKVKLGGF 216 (271)
T ss_pred HHHhcCceeeE---eecC--CCHHHHHHHHHHHHHhCCCccEEEEe-CCccchHHHHHHHhcCCC-CCeEEEEe
Confidence 98888875432 1111 1233444555555433 35655444 344566788888888876 34444443
No 129
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.14 E-value=0.0007 Score=69.71 Aligned_cols=209 Identities=11% Similarity=-0.004 Sum_probs=123.7
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChh-HHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST-VAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~-~~~ 110 (777)
|||++.|.- ..+-.....+++.+.++ .|+++.+...+...++....+....++.+++.++|--.+.. ...
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE--------LGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH--------cCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhH
Confidence 689998863 22222334444444433 26766666444456777777777788888888777533332 223
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeCc--cccchHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALND 186 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~~--~g~~~~~~~~~ 186 (777)
.....+...++|+|......+ +. ..+-....++...+..+++++... |.++++++..... ......+.+++
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~---~~--~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLN---SD--IAVSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCC---CC--cceEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 344555678999998753221 10 112334566667778888887666 8999999964332 33445678888
Q ss_pred HHhhc-ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeE-EEEecChhHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 187 ~~~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v-Ivl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
.+++. |+.+... .... .+..+....+.++.+..+++ .|.+.+...+..+++++++.|+. .+...++.+
T Consensus 148 a~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 148 GLKEYPGIEIVAT--QYSD--SDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred HHHhCCCcEEEec--ccCC--cCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 89888 8776432 1111 12234444555654443333 33344455677799999999985 444555443
No 130
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=98.13 E-value=0.00033 Score=71.45 Aligned_cols=202 Identities=9% Similarity=0.077 Sum_probs=138.9
Q ss_pred EEEEeeCCC-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHH
Q 004042 34 VGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHI 111 (777)
Q Consensus 34 IG~l~~~s~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~avi-Gp~~s~~~~~ 111 (777)
||++.|..+ .+-.....+++.+.++.+ ..+.+. .|...++..-.+.+.+++++++++|| .|..+.....
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g--------~~~~~~-~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELG--------YEVEIV-FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHT--------CEEEEE-EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcC--------CEEEEe-CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHH
Confidence 788888873 345567888888888863 445555 78899999999999999999998777 5666666666
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCC-cEEEEEEEeC--ccccchHHHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGW-NAVSVIFVDN--EYGRNGVSALNDK 187 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w-~~vaii~~~~--~~g~~~~~~~~~~ 187 (777)
...-+...+||+|..... .....+......++....+..+++++.. .+- .+++++.... .......+.+.+.
T Consensus 72 ~l~~~~~~gIpvv~~d~~----~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~ 147 (257)
T PF13407_consen 72 FLEKAKAAGIPVVTVDSD----EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDA 147 (257)
T ss_dssp HHHHHHHTTSEEEEESST----HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHH
T ss_pred HHHHHhhcCceEEEEecc----ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHH
Confidence 777788889999987554 1122355667778888899999998654 332 6788775333 3334567788888
Q ss_pred Hhh-cceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCC
Q 004042 188 LAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (777)
Q Consensus 188 ~~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~ 251 (777)
+++ .++++...... .. .+.++....+.++.+.++-..|++++...+..+++++++.|+...
T Consensus 148 l~~~~~~~~~~~~~~-~~--~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPGVEIVDEYEY-TD--WDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTTEEEEEEEEE-CT--TSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTTT
T ss_pred Hhhcceeeeeeeeec-cC--CCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCccc
Confidence 888 46776653222 12 236666666666665554233345666677778999999998543
No 131
>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=98.12 E-value=0.00033 Score=72.10 Aligned_cols=208 Identities=11% Similarity=-0.007 Sum_probs=126.3
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcC-CChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGP-QCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp-~~s~~~~ 110 (777)
+||++.|.. ..+-.....+++.+.++. |+++. +.++..++....+....++.++++++|.. ..+....
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 488888854 333344556665555543 45444 45777788877777888888899988874 3333334
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh--cCCcEEEEEEEe-CccccchHHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWNAVSVIFVD-NEYGRNGVSALNDK 187 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~--~~w~~vaii~~~-~~~g~~~~~~~~~~ 187 (777)
.....+...++|+|......+. +.+..+..++...++.+++++.. .|.++|+++... ..........+.+.
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 4445567789999987543211 22334667778888888888765 588999999743 22233445677888
Q ss_pred Hhhcc-eEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeE---EEEecChhHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 188 LAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMESRV---IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 188 ~~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v---Ivl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
+++.+ +.+......... .+..+....++++....++. .|++.+...+..+++++++.|+.. +...++.+
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 87777 554432211111 12334445566654444433 233334556677888999999863 44445443
No 132
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=98.05 E-value=0.00041 Score=71.29 Aligned_cols=208 Identities=13% Similarity=0.092 Sum_probs=126.2
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHH-hcCcEEEEcCCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFM-ETDIVAIIGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~-~~~v~aviGp~~s~~~~ 110 (777)
.||++.|.. ..+......+++.+.++ .|+.+.+...|... + .....+.+++ ..+++++|.........
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~-~-~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (270)
T cd01545 1 LIGLLYDNPSPGYVSEIQLGALDACRD--------TGYQLVIEPCDSGS-P-DLAERVRALLQRSRVDGVILTPPLSDNP 70 (270)
T ss_pred CEEEEEcCCCcccHHHHHHHHHHHHHh--------CCCeEEEEeCCCCc-h-HHHHHHHHHHHHCCCCEEEEeCCCCCcc
Confidence 378999875 45566777888877764 26777666555432 2 2334455544 56889888754433234
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCcc--ccchHHHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEY--GRNGVSALNDKL 188 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~--g~~~~~~~~~~~ 188 (777)
.....+...++|++......+. ...++ ...+....+..+++++...|.++++++..+..+ .....+.|++.+
T Consensus 71 ~~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 144 (270)
T cd01545 71 ELLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDAL 144 (270)
T ss_pred HHHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHH
Confidence 4455667789999987654321 12222 345677778888888888899999999854433 234467788888
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhc--CCCeEEEEecChhHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIATD 259 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~-~~~i~~~ 259 (777)
++.|+.+......... ....+....+.++.+ .++++|+. .+...+..+++++++.|+..++ ...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~d~~a~~~~~~~~~~g~~~p~~i~vig~d 215 (270)
T cd01545 145 AEAGLPLDPELVAQGD--FTFESGLEAAEALLALPDRPTAIFA-SNDDMAAGVLAVAHRRGLRVPDDLSVVGFD 215 (270)
T ss_pred HHcCCCCChhhEEeCC--CChhhHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 8888765211111111 112222334455443 34676664 4556777899999999985443 4445443
No 133
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=98.03 E-value=0.00075 Score=69.53 Aligned_cols=208 Identities=10% Similarity=0.029 Sum_probs=123.7
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~ 110 (777)
+||++.|.- .++-.....+++.+.++ .|+++. +.+...+...-.+....++.++++++|- |.......
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~--------~g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 70 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEK--------RGFDLK--FADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWD 70 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHh--------cCCEEE--EeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccch
Confidence 489998853 33222334444444433 145444 4566667766667777888888887754 43333323
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeCc--cccchHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALND 186 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~~--~g~~~~~~~~~ 186 (777)
.....+...++|++.+....+.. ...+++.++.+++...+..+++++... +-++++++..+.. ......+.+++
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 44455677899999876532110 112456778888888899999987766 8889999975422 23455678888
Q ss_pred HHhhc-ceEEEEeeecCCCCCCChhhHHHHHHHHhcC---CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 187 ~~~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
.+++. +.++... .... .+..+....+.++.+. .+++|+ +.+...+..+++++++.|+..++-+-+.
T Consensus 149 ~l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~aI~-~~~d~~a~g~~~a~~~~g~~ip~di~ii 218 (273)
T cd06309 149 VIKKYPNMKIVAS--QTGD--FTRAKGKEVMEALLKAHGDDIDAVY-AHNDEMALGAIQAIKAAGKKPGKDIKIV 218 (273)
T ss_pred HHHHCCCCEEeec--cCCc--ccHHHHHHHHHHHHHhCCCCccEEE-ECCcHHHHHHHHHHHHcCCCCCCCeEEE
Confidence 88876 4554321 1111 1233444455555433 355443 3344555668899999998755444333
No 134
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.99 E-value=0.0039 Score=65.60 Aligned_cols=212 Identities=11% Similarity=0.032 Sum_probs=123.2
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~ 110 (777)
+||++.|.. .++-.....+++-+.++ .|+++.+...+...+...-.+....++.+++++||- +..+....
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 33323445555554443 256666654444556666666777788888887764 33332222
Q ss_pred HHHHhhccCCceEEecccCCCC--CCCCCCCceEEecCCchHHHHHHHHHHHh-cCC--cEEEEEEEeC--ccccchHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPT--LSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGW--NAVSVIFVDN--EYGRNGVSA 183 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~--l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w--~~vaii~~~~--~~g~~~~~~ 183 (777)
.....+...++|++.+....+. +..........+..+....+...++++.. .|- ++++++.... .......+.
T Consensus 98 ~~l~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~G 177 (311)
T PRK09701 98 MPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNG 177 (311)
T ss_pred HHHHHHHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHH
Confidence 2223345689999987643221 11011122344677778888889998654 454 7999886432 334566778
Q ss_pred HHHHHhhcc-eEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 184 LNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 184 ~~~~~~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
+++.+++.| +++..... .. ....+....++++.+. .+++| ++.+...+..+++++++.|.. .+...++.
T Consensus 178 f~~al~~~~~~~~~~~~~--~~--~~~~~~~~~~~~ll~~~~~~~~I-~~~~d~~A~g~~~al~~~G~~-~dv~vvg~ 249 (311)
T PRK09701 178 ATEAFKKASQIKLVASQP--AD--WDRIKALDVATNVLQRNPNIKAI-YCANDTMAMGVAQAVANAGKT-GKVLVVGT 249 (311)
T ss_pred HHHHHHhCCCcEEEEecC--CC--CCHHHHHHHHHHHHHhCCCCCEE-EECCcchHHHHHHHHHHcCCC-CCEEEEEe
Confidence 899998887 76543221 11 1233334555565433 35554 455556677789999998885 34444443
No 135
>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=97.92 E-value=0.00078 Score=69.06 Aligned_cols=206 Identities=11% Similarity=0.053 Sum_probs=124.5
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++.|.. ..+-.....+++.+.++. |+++. +.++..++..-.+....+.++++.++|...+......
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 378999864 333345667777666653 45553 3455556666666777788888988887554433333
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe--CccccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~--~~~g~~~~~~~~~~~~ 189 (777)
....+...++|+|......+ +.. +....++....+..+++++...|-++|+++..+ ........+.|.+.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~---~~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVA---GAP---FDYVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCC---CCC---CCEEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 45566778999998753321 111 223456667778888888877898999998743 2345566788999998
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCC-eEEEE
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIA 257 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~-~~~i~ 257 (777)
+.|..+.....+... .+.......++++... .+++|+.. +...+..+++++++.|+..++ ...++
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~p~di~iig 212 (268)
T cd06289 145 EAGLPFDSELVVEGP--PSRQGGAEAVAQLLDLPPRPTAIVCF-NDLVAFGAMSGLRRAGLTPGRDIAVVG 212 (268)
T ss_pred HcCCCCCchhEEecC--cchhhHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 887542211111111 1123334445554433 45665543 444566789999999886543 33444
No 136
>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=97.91 E-value=0.001 Score=68.06 Aligned_cols=198 Identities=11% Similarity=0.007 Sum_probs=119.5
Q ss_pred EEEEeeCCC-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 34 VGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 34 IG~l~~~s~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
||++.|... .+-.....+++-|.++ .|+.+ .+.|+..++....+....+..++|+++|......... .
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 788888753 3323455555555555 25555 4557777777666666677777898877633322222 2
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe--CccccchHHHHHHHHhh
Q 004042 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLAE 190 (777)
Q Consensus 113 a~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~--~~~g~~~~~~~~~~~~~ 190 (777)
.... ..++|+|......+ . +.+.....+....++.+++++...|.++++++..+ +..+....+.|.+.+++
T Consensus 71 ~~~~-~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~ 143 (267)
T cd06284 71 LTAL-AKLPPIVQACEYIP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLARDRLEGYRQALAE 143 (267)
T ss_pred HHHH-hcCCCEEEEecccC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhHHHHHHHHHHHHHH
Confidence 2233 34999997642211 1 22334566777788889999888899999999753 34566677889999998
Q ss_pred cceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004042 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~ 252 (777)
.|+++......... .+..+....++++.+. .+++|+.. +...+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~p~ 204 (267)
T cd06284 144 AGLPADEELIQEGD--FSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLRVPE 204 (267)
T ss_pred cCCCCCcceEEeCC--CChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCcc
Confidence 88543221111111 1133344455555433 45666654 444567788999999986433
No 137
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.90 E-value=0.004 Score=66.08 Aligned_cols=209 Identities=11% Similarity=0.043 Sum_probs=113.4
Q ss_pred CCceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCC
Q 004042 28 RPAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQC 105 (777)
Q Consensus 28 ~~~~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~ 105 (777)
...+.+||++.|.. ..+-.....+++-+.++. + +. .++..++..++....+....+..++|.++|= +..
T Consensus 21 ~~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~---g----~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~ 91 (330)
T PRK15395 21 AAADTRIGVTIYKYDDNFMSVVRKAIEKDAKAA---P----DV--QLLMNDSQNDQSKQNDQIDVLLAKGVKALAINLVD 91 (330)
T ss_pred hcCCceEEEEEecCcchHHHHHHHHHHHHHHhc---C----Ce--EEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeccC
Confidence 34568899999853 323234445555444442 2 23 3344565556655555666777778887774 223
Q ss_pred hhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-c-----------CCcEEEEEEEe
Q 004042 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-Y-----------GWNAVSVIFVD 173 (777)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~-----------~w~~vaii~~~ 173 (777)
+.........+...++|+|.+....+.-.-...+....+..+....++.+++++.+ . |-.++++|...
T Consensus 92 ~~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~ 171 (330)
T PRK15395 92 PAAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGE 171 (330)
T ss_pred HHHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecC
Confidence 33233333456678999998865321100011122334566677667665555432 1 32334555432
Q ss_pred --CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC----CCeEEEEecChhHHHHHHHHHHHcC
Q 004042 174 --NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM----ESRVIVLHVSPSLGFQVFSVAKYLG 247 (777)
Q Consensus 174 --~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~----~~~vIvl~~~~~~~~~~l~~a~~~g 247 (777)
........+.+++.+++.|+.+.... ..... .+..+....+.++.++ ++++|+ +++...+..+++++++.|
T Consensus 172 ~~~~~~~~R~~G~~~al~~~g~~~~~~~-~~~~~-~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~A~gvl~al~~~G 248 (330)
T PRK15395 172 PGHPDAEARTTYVIKELNDKGIKTEQLQ-LDTAM-WDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAMAMGAVEALKAHN 248 (330)
T ss_pred CCCchHHHHHHHHHHHHHhcCCCeeeee-cccCC-cCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchHHHHHHHHHHhcC
Confidence 22334567788899988887654322 21110 1223333455555432 355555 445566777899999998
Q ss_pred C
Q 004042 248 M 248 (777)
Q Consensus 248 l 248 (777)
+
T Consensus 249 l 249 (330)
T PRK15395 249 K 249 (330)
T ss_pred C
Confidence 7
No 138
>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=97.89 E-value=0.0011 Score=68.03 Aligned_cols=207 Identities=10% Similarity=0.046 Sum_probs=125.1
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||+++|.. ..+-.....+++-+.++. |+.+.+. .+..++..-.+....+++++++++|-..+. ....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~-~~~~ 69 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY--------KYNIILS--NSDNDKEKELKVLNNLLAKQVDGIIFMGGK-ISEE 69 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc--------CCeEEEE--eCCCCHHHHHHHHHHHHHhcCCEEEEeCCC-CcHH
Confidence 478888864 333234455555554442 5555554 344456655666677777788877742221 1223
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC---ccccchHHHHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSALNDKL 188 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~---~~g~~~~~~~~~~~ 188 (777)
+...+...++|+|......+ ... +....++....+..+++++...|-++++++..+. .++....+.+++.+
T Consensus 70 ~~~~l~~~~ipvV~~~~~~~---~~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~gf~~~~ 143 (268)
T cd06298 70 HREEFKRSPTPVVLAGSVDE---DNE---LPSVNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSINGDERLAGYKEAL 143 (268)
T ss_pred HHHHHhcCCCCEEEEccccC---CCC---CCEEEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccchhHHHHHHHHHH
Confidence 44556667999998754321 111 2234667777888888988888999999997433 35667788899999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCC-CeEEEEecChhHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIATD 259 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vIvl~~~~~~~~~~l~~a~~~gl~~~~-~~~i~~~ 259 (777)
++.|+++.....+... .+.......++++.+.. +++|+. .+...+..+++++++.|+..++ ..+++.+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~vvg~d 213 (268)
T cd06298 144 SEANIEFDESLIFEGD--YTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDFEIIGFN 213 (268)
T ss_pred HHcCCCCCHHHeEeCC--CChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEeec
Confidence 9988664321111111 11233445566665544 677665 4445577899999999986543 4444443
No 139
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=97.88 E-value=0.0026 Score=65.76 Aligned_cols=211 Identities=8% Similarity=0.005 Sum_probs=117.8
Q ss_pred EEEEEeeCC--CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCC--CChHHHHHHHHHHHhcCcEEEEcCCChh-
Q 004042 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN--CSGFIGMVEALRFMETDIVAIIGPQCST- 107 (777)
Q Consensus 33 ~IG~l~~~s--~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~--~~~~~a~~~a~~l~~~~v~aviGp~~s~- 107 (777)
|||+++|.. .++-.....+++. ...+ .|+.+.+...++. .++..-.+....++++++++||=...+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~---~~~~-----~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~ 72 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTA---RLEE-----LNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLR 72 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHH---HHHH-----cCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchh
Confidence 589999873 2221222233322 2332 2566666544433 3455555566677888888777533322
Q ss_pred HHHHHHHhhccCCceEEeccc-CCCCCCCCCCCceEEecCCchHHHHHHHHHHHh--cCCcEEEEEEEe-CccccchHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGV-TDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWNAVSVIFVD-NEYGRNGVSA 183 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a-~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~--~~w~~vaii~~~-~~~g~~~~~~ 183 (777)
....+.. +...++|.+.... ..+.......+......+++...+..++++|.. .|.+++++|... .....+..+.
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 3345666665422 221100000122344567777788888898777 799999999643 2334456778
Q ss_pred HHHHHhhc-ceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 184 LNDKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 184 ~~~~~~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
|++.+++. |+++... +... .+..+....+.++.+. ++++|+ +.+...+.-+++++++.|+. .+...++.
T Consensus 152 f~~al~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~l~al~~~G~~-~dv~vvg~ 223 (280)
T cd06303 152 FIDCVHARNNWTLTSE--FYTD--ATRQKAYQATSDILSNNPDVDFIY-ACSTDIALGASDALKELGRE-DDILINGW 223 (280)
T ss_pred HHHHHHhCCCceEEEe--ecCC--CCHHHHHHHHHHHHHhCCCCcEEE-ECCcHHHHHHHHHHHHcCCC-CCcEEEec
Confidence 88999887 7664322 2222 2233444555665443 355554 45556677799999999985 44444543
No 140
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=97.83 E-value=0.00013 Score=75.90 Aligned_cols=70 Identities=21% Similarity=0.415 Sum_probs=47.2
Q ss_pred CCCChhhhhhCCCCeEEee-CchHHH-----HHHhhhccccc---cccccC-CHHHHHHHHhcCCCCCCceEEEecchhh
Q 004042 681 PINGIESLRKSDDPIGYQE-GSFAEY-----YLSQELNISKS---RLVALR-TPEDYAKALKDGPGKGGVAAVVDERPYV 750 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~~-~~~~~~-----~~~~~~~~~~~---~~~~~~-~~~~~~~~l~~~~~~~~~~a~i~~~~~~ 750 (777)
+|++++||. |++|++.. ++.... ++.+..+.... +.+.+. +..+.+..|.+ |++|+.+.+.+.+
T Consensus 126 ~i~sl~DL~--Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~----G~vDa~~~~~~~~ 199 (288)
T TIGR03431 126 PIKSLEDLK--GKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVAN----GTVDAATTNDENL 199 (288)
T ss_pred CCCcHHHhC--CCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHc----CCCCeEeccHHHH
Confidence 789999998 99999863 333221 22122222211 123444 67889999999 9999999998888
Q ss_pred HHHhhC
Q 004042 751 ELFLSS 756 (777)
Q Consensus 751 ~~~~~~ 756 (777)
..+.++
T Consensus 200 ~~~~~~ 205 (288)
T TIGR03431 200 DRMIRK 205 (288)
T ss_pred HHHHHc
Confidence 777753
No 141
>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=97.83 E-value=0.005 Score=63.40 Aligned_cols=202 Identities=10% Similarity=0.025 Sum_probs=119.8
Q ss_pred EEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHHH
Q 004042 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHI 111 (777)
Q Consensus 34 IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~~ 111 (777)
||++.|.. ..+-.....+++.+.++..... .| +++.+.+...++....+....++.+++.+||- |........
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~---~g--~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~ 76 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAY---PD--VEFILVTASNDTEQQNAQQDLLINRKIDALVILPFESAPLTQ 76 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhC---CC--eEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHH
Confidence 78888753 3333456677777777665432 23 45555676666665555566677777776663 333333223
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeC-ccccchHHHHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDKL 188 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~-~~g~~~~~~~~~~~ 188 (777)
....+...++|++......+ ... .......++....+...++++... +.++|+++.... ....+..+.+.+.+
T Consensus 77 ~i~~~~~~gIpvV~~d~~~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~l 152 (274)
T cd06311 77 PVAKAKKAGIFVVVVDRGLS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAAI 152 (274)
T ss_pred HHHHHHHCCCeEEEEcCCCC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHHH
Confidence 33445678999998754321 110 112345677777788888887665 788999997432 33345567889999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCC
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~ 249 (777)
++.++++... .... .+.......+.++.+. ++++|+.. +...+..+++++++.|+.
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 8888766532 2111 1223334445554333 35665443 344566788889888875
No 142
>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=97.78 E-value=0.0047 Score=64.67 Aligned_cols=208 Identities=8% Similarity=0.037 Sum_probs=117.4
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~avi-Gp~~s~~~~ 110 (777)
+||++.|.. ..+-.....+++.+.++.+ .|+ ++.+.+...++..-.+....++.+++.++| .|..+....
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~------~g~--~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~ 72 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENG------GKV--EFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQ 72 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhC------CCe--eEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHH
Confidence 589999864 2332345566666666541 134 455557777777777777788888888665 344443334
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CC---------cE--EEEEEEeC--c
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GW---------NA--VSVIFVDN--E 175 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w---------~~--vaii~~~~--~ 175 (777)
.+...+...++|+|......+...-.....+..+.++....+..+++++... +- .+ ++++..+. .
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 4555567789999987643221100111224456677777777777776543 22 12 34454332 2
Q ss_pred cccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC---CCeEEEEecChhHHHHHHHHHHHcCCCCC
Q 004042 176 YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (777)
Q Consensus 176 ~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIvl~~~~~~~~~~l~~a~~~gl~~~ 251 (777)
......+.+++.+++.+..+......... .+.......+.++... .+++|+. .+...+..+++++++.|...+
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 23445677888998888765332222211 1233333445554332 2565544 344445568888888887654
No 143
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.78 E-value=0.0082 Score=63.50 Aligned_cols=205 Identities=12% Similarity=0.124 Sum_probs=132.3
Q ss_pred ceEEEEEEeeCCCc-chhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChh
Q 004042 30 AVVNVGALFTLDST-IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCST 107 (777)
Q Consensus 30 ~~i~IG~l~~~s~~-~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~avi-Gp~~s~ 107 (777)
...+||++.+.... +-..+..+++.+.++. |....+...|...++.+-++.+.+++.+++.+|+ .|..+.
T Consensus 32 ~~~~i~~~~~~~~~~f~~~~~~g~~~~a~~~--------g~~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~ 103 (322)
T COG1879 32 AGKTIGVVVPTLGNPFFQAVRKGAEAAAKKL--------GVVVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPD 103 (322)
T ss_pred cCceEEEEeccCCChHHHHHHHHHHHHHHHc--------CCcEEEEecccccChHHHHHHHHHHHHcCCCEEEEcCCChh
Confidence 34789999987642 3334445544444443 2256677778888999888899999989887555 678888
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCC-cEEEEEEEe--CccccchHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGW-NAVSVIFVD--NEYGRNGVSA 183 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w-~~vaii~~~--~~~g~~~~~~ 183 (777)
.......-+...+||+|.+....+.- .........+....++..++++.+ ++- -++.++... .....+....
T Consensus 104 ~~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G 179 (322)
T COG1879 104 ALTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKG 179 (322)
T ss_pred hhHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhh
Confidence 88888999999999999876543322 123344444666667777777543 332 446666632 3445567788
Q ss_pred HHHHHhhcce--EEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHHHHHHHHcCCCC
Q 004042 184 LNDKLAERRC--RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMG 250 (777)
Q Consensus 184 ~~~~~~~~g~--~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~l~~a~~~gl~~ 250 (777)
+++.+.+.+. .+... ...+ .+.+.-......+..+.|++-.+++... .+.-..+++++.|...
T Consensus 180 ~~~~l~~~~~~~~v~~~--~~~~--~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~ 245 (322)
T COG1879 180 FRDALKEHPPDIEVVDV--QTGD--WDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG 245 (322)
T ss_pred HHHHHHhCCCcEEEeec--cCCc--ccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC
Confidence 9999998874 44432 2222 2355555667777777777766655543 3445556777778754
No 144
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.75 E-value=0.007 Score=61.99 Aligned_cols=194 Identities=13% Similarity=0.130 Sum_probs=117.3
Q ss_pred EEEEeeCCCc-chhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHHH
Q 004042 34 VGALFTLDST-IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHI 111 (777)
Q Consensus 34 IG~l~~~s~~-~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~~ 111 (777)
||++.|.... +-.....+++.+.++ .|+.+ .+.++..++....+....+++++++++|- |..+.....
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 7888887532 222334444444443 24544 44566667777777777888888887776 443333233
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeC-ccccchHHHHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDKL 188 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~-~~g~~~~~~~~~~~ 188 (777)
....+...++|+|.+....+ ....+....++....+...++++... |-+++++++..+ .......+.+++.+
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 33446678999998753211 11223456677777788888887665 788999997432 23345567888899
Q ss_pred hhc-ceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCC
Q 004042 189 AER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGM 248 (777)
Q Consensus 189 ~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl 248 (777)
++. |+++.... .. .........+.++... ++++|+. .+...+..+++++++.|+
T Consensus 147 ~~~~~~~~~~~~---~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 147 ADYPNIKIVAVQ---PG--ITRAEALTAAQNILQANPDLDGIFA-FGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HhCCCcEEEEec---CC--CChHHHHHHHHHHHHhCCCCCEEEE-cCCcHHHHHHHHHHHCCC
Confidence 888 88764321 11 1123333445554433 3565443 444556678899999897
No 145
>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=97.74 E-value=0.0052 Score=63.80 Aligned_cols=215 Identities=8% Similarity=0.031 Sum_probs=122.3
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcC-CChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGP-QCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp-~~s~~~~ 110 (777)
+||++.|.. .++-.....+++.+.++. |+++. +.+.. ++..-.+....++..++.+||=. ..+....
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 69 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK--------GFTVV--KIDVP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGP 69 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc--------CCEEE--EccCC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhH
Confidence 588888864 333345566666666652 55554 44555 56555566667777788777653 2233345
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHH----hcCC--cEEEEEE-E--eCccccchH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVS----YYGW--NAVSVIF-V--DNEYGRNGV 181 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~----~~~w--~~vaii~-~--~~~~g~~~~ 181 (777)
.....+...++|+|...........+..+.+-....+....+...++++. ..|+ +++++|. . +........
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 55566778999999865432211100112233455666666666666543 4577 7888875 2 223456678
Q ss_pred HHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCC--CeE-EEEecChhHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 182 ~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~v-Ivl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
+.+++.+++.|+............ .+.......++++..+. ++. +|++.+...+..+++++++.|+..++...++.
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 889999988886532211111110 11222234455554333 343 45566666788889999999987434444443
Q ss_pred C
Q 004042 259 D 259 (777)
Q Consensus 259 ~ 259 (777)
+
T Consensus 229 d 229 (289)
T cd01540 229 N 229 (289)
T ss_pred C
Confidence 3
No 146
>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=97.74 E-value=0.0021 Score=65.95 Aligned_cols=204 Identities=6% Similarity=0.003 Sum_probs=120.3
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
.||++.|.. ..+-.....+++.+.++. |+++.+ .++..++..-.+....+..+++++||=.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYRQ--------GYNLIL--CNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYDQPL 70 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHHc--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 388998864 334445566666665542 455543 455556666666677777787776664222222222
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe--CccccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~--~~~g~~~~~~~~~~~~ 189 (777)
...+....++|++......+ +..++ ....+....+..+++++...|-++++++... +....+..+.|.+.++
T Consensus 71 ~~~l~~~~~ipvV~i~~~~~---~~~~~---~V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (269)
T cd06275 71 LAMLERYRHIPMVVMDWGPE---DDFAD---KIQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMA 144 (269)
T ss_pred HHHHHhcCCCCEEEEecccC---CCCCC---eEeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHH
Confidence 23333456999998754321 11222 2455667778888888888899999999742 3334456778889998
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEE
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~ 255 (777)
+.|+++......... .+.......++++.+. .+++|+. .+...+..+++++++.|...++-+-
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~di~ 209 (269)
T cd06275 145 EAGLPVNPGWIVEGD--FECEGGYEAMQRLLAQPKRPTAVFC-GNDLMAMGALCAAQEAGLRVPQDLS 209 (269)
T ss_pred HcCCCCCHHHhccCC--CChHHHHHHHHHHHcCCCCCcEEEE-CChHHHHHHHHHHHHcCCCCCcceE
Confidence 888765321111111 1233444556665544 3555444 4455566788999998886544333
No 147
>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=97.73 E-value=0.0018 Score=66.38 Aligned_cols=204 Identities=10% Similarity=0.066 Sum_probs=121.1
Q ss_pred EEEEEeeCC--CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 004042 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s--~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~ 110 (777)
+||+++|.. ..+-.....+++.+.++ .|+.+.+ .++..++..-.+....+...+++++|-.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~- 69 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAARE--------HGYLLLV--VNTGGDDELEAEAVEALLDHRVDGIIYATMYHRE- 69 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-
Confidence 489999874 33334555666665554 2555544 3444455444455666777788877764332211
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKL 188 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~~~ 188 (777)
+.......++|++......+. . .+..+.+++...+..+++++...|-++++++..+. .......+.|.+.+
T Consensus 70 -~~~~~~~~~ipvv~~~~~~~~---~---~~~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 70 -VTLPPELLSVPTVLLNCYDAD---G---ALPSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred -hHHHHHhcCCCEEEEecccCC---C---CCCeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 122234578999986543221 1 12345677888889999988878999999997443 23455678889999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
++.|+++......... .+..+....++++.+. ++++|+. .+...+..+++++++.|+..++-+.+.
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 8888654221111111 1123344455565443 4676654 455556678899999998654444443
No 148
>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=97.72 E-value=0.0036 Score=66.49 Aligned_cols=203 Identities=9% Similarity=0.015 Sum_probs=121.5
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 004042 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (777)
Q Consensus 30 ~~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~ 108 (777)
..-.||+++|.. ..+-.....+++.+.++ .|+++.+. +...++..-.+....+.+++++++|--.. ..
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~--------~g~~~~i~--~~~~~~~~~~~~~~~l~~~~vdGiIi~~~-~~ 126 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATM--------YKYNIILS--NSDEDPEKEVQVLNTLLSKQVDGIIFMGG-TI 126 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHhCCCCEEEEeCC-CC
Confidence 346899999853 33333444555544433 25666544 33344444445556677777877663111 11
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--c-cccchHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--E-YGRNGVSALN 185 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~-~g~~~~~~~~ 185 (777)
...+...+...++|+|......+ ...+ .....++..-+..++++|...|.++|+++.... . .+.+..+.|+
T Consensus 127 ~~~~~~~l~~~~iPvV~~~~~~~---~~~~---~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~Gf~ 200 (329)
T TIGR01481 127 TEKLREEFSRSPVPVVLAGTVDK---ENEL---PSVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEGYK 200 (329)
T ss_pred ChHHHHHHHhcCCCEEEEecCCC---CCCC---CEEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHHHH
Confidence 22334455667999997654221 1112 234566777778888888888999999996432 2 2466778899
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~ 252 (777)
+.+++.|+.+......... ....+....++++.+..+++|+.. +...+..+++++++.|+..|+
T Consensus 201 ~~l~~~g~~~~~~~~~~~~--~~~~~~~~~~~~ll~~~p~ai~~~-~d~~A~g~~~al~~~g~~vP~ 264 (329)
T TIGR01481 201 EALNKAGIQFGEDLVCEGK--YSYDAGYKAFAELKGSLPTAVFVA-SDEMAAGILNAAMDAGIKVPE 264 (329)
T ss_pred HHHHHcCCCCCcceEEecC--CChHHHHHHHHHHhCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCC
Confidence 9999998765322211111 123334455666666678876654 445677899999999986543
No 149
>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=97.69 E-value=0.0034 Score=64.24 Aligned_cols=200 Identities=12% Similarity=0.106 Sum_probs=117.2
Q ss_pred EEEEeeCC-----CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 004042 34 VGALFTLD-----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (777)
Q Consensus 34 IG~l~~~s-----~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~s~ 107 (777)
||+++|.. ..+-.....+++.+.++ .|+.+.+...+.. ....+.+.+++.+ +++++|...+..
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 33333444555444433 2566666654433 2233455666544 688777643322
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~ 185 (777)
... ....+...++|+|.+....+ +..+++ ..++....+..+++++...|-++++++.... ..+....+.|+
T Consensus 71 ~~~-~~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 143 (268)
T cd06271 71 DDP-RVALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYR 143 (268)
T ss_pred CCh-HHHHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHH
Confidence 222 23455678999998754322 122333 3456777788888888888999999997432 23455678899
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~ 254 (777)
+.+++.|..+.....+... .+.......++++.+. .+++|+.. +...+..+++++++.|+..++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i 211 (268)
T cd06271 144 RALAEAGLPLDPALIVSGD--MTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDV 211 (268)
T ss_pred HHHHHhCCCCCCceEEeCC--CChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCcce
Confidence 9999888764222122111 1233344556565433 36666664 45556678999999998655433
No 150
>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=97.69 E-value=0.007 Score=62.10 Aligned_cols=204 Identities=11% Similarity=-0.021 Sum_probs=121.0
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~ 110 (777)
+||++.|.. ..+-.....+++.+.++. |+++.+...+...+...-.+....++++++.+||- |.......
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 589999864 333334556666666543 45554432222224444555677777778887764 32222222
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCC-----cEEEEEEEe--CccccchHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGW-----NAVSVIFVD--NEYGRNGVSA 183 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w-----~~vaii~~~--~~~g~~~~~~ 183 (777)
....+...++|+|....... +. ........+....++.+++++.+.+- ++|+++... ........+.
T Consensus 73 -~~~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g 146 (268)
T cd06306 73 -EILQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVEKG 146 (268)
T ss_pred -HHHHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHHHH
Confidence 23445678999998643211 11 12234567778888888898777665 899999743 2345566788
Q ss_pred HHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
+++.+++.++++... .... .+.......++++.+. ++++|+. ....+..+++.+++.|+. .+...++
T Consensus 147 ~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~p-~di~vig 215 (268)
T cd06306 147 FRDALAGSAIEISAI--KYGD--TGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGLT-DQIKIVS 215 (268)
T ss_pred HHHHHhhcCcEEeee--ccCC--ccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCCC-CCeEEEe
Confidence 999999998876542 1111 1233444555655433 4677764 366677789999999973 3334443
No 151
>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=97.69 E-value=0.0022 Score=65.81 Aligned_cols=199 Identities=11% Similarity=0.020 Sum_probs=119.6
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++.|.. ..+-.....+++.+.++. |+.+ .+.++..++....+....+.+++|.++|--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA--------GYSL--LIANSLNDPERELEILRSFEQRRMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEE--EEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHH
Confidence 489999864 333345566666655552 4554 44466667766666666777778887775333222344
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~~~~ 189 (777)
....+...++|+|......+ . ..+ ....+...-+...++++...|-++++++.... .......+.+.+.++
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 55566678999998765432 1 122 24455666667777877777999999996432 233455678889999
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhc--CCCeEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~ 252 (777)
++|+.+.....+... . .......+.++.+ ..+++|+. .+...+..+++++++.|+..++
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 888754211111111 1 2223344555433 34677764 4555566789999999986544
No 152
>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=97.69 E-value=0.0088 Score=61.39 Aligned_cols=206 Identities=11% Similarity=0.023 Sum_probs=121.9
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~avi-Gp~~s~~~~ 110 (777)
+||+++|.. ..+-.+...+++.+.++.+ ..+.+...++..++..-.+....+..+++.++| .|.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKLN--------PGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHhC--------CCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH
Confidence 489999865 3333455666666666542 234455556666776666666677777777654 343332223
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeC-ccccchHHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDK 187 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~-~~g~~~~~~~~~~ 187 (777)
.....+...++|+|......+ + ....+..++...++.+++++... |.++++++.... .......+.+++.
T Consensus 73 ~~i~~~~~~~ipvv~~~~~~~---~----~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~~~R~~g~~~~ 145 (271)
T cd06321 73 PAVKRAQAAGIVVVAVDVAAE---G----ADATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAVLDRVAGCKAA 145 (271)
T ss_pred HHHHHHHHCCCeEEEecCCCC---C----ccceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchHHHHHHHHHHH
Confidence 333445667999998755322 1 11245677778888888988776 999999997432 2344556788888
Q ss_pred Hhhc-ceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 188 LAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 188 ~~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
+++. +++..... .... .+...-...++++.+. .+++|+. .+...+..+++++++.|+ .+..+++.+
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 8887 56532211 1111 1122223345555433 3566554 345556678899999997 355555543
No 153
>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=97.68 E-value=0.0039 Score=63.82 Aligned_cols=201 Identities=10% Similarity=0.046 Sum_probs=118.5
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
.||++.|.. ..+-.....+++.+.++. |+++.+ .+...++..-.+....++.++++++|--..... ..
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~ 69 (268)
T cd01575 1 LVAVLVPSLSNSVFADVLQGISDVLEAA--------GYQLLL--GNTGYSPEREEELLRTLLSRRPAGLILTGLEHT-ER 69 (268)
T ss_pred CEEEEeCCCcchhHHHHHHHHHHHHHHc--------CCEEEE--ecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCC-HH
Confidence 378999864 322234445555555442 455544 444455555556667777778887765322222 22
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~~~~ 189 (777)
....+...++|++......+ . +.......+....+...++++...|-++++++..+. .......+.+++.++
T Consensus 70 ~~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (268)
T cd01575 70 TRQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALR 143 (268)
T ss_pred HHHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHH
Confidence 33445567999998643211 1 112235566777888888998888999999998543 344556778899998
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCe
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY 253 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~ 253 (777)
+.|............ .........+.++.+. ++++|+. ++...+..+++++++.|...++.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~d 206 (268)
T cd01575 144 AAGLDPPLVVTTPEP--SSFALGRELLAELLARWPDLDAVFC-SNDDLALGALFECQRRGISVPED 206 (268)
T ss_pred HcCCCCCceeEeccC--CCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCCcc
Confidence 888642221111111 1233445556665433 4666654 44455667899999988754443
No 154
>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=97.64 E-value=0.0044 Score=63.12 Aligned_cols=199 Identities=14% Similarity=0.073 Sum_probs=124.6
Q ss_pred EEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 34 IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
||++.|.- ..+-.....+++.+.++. |+++.+ .++..++..-.+...++..++++++|....... ...
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~ 70 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN--------GYQMLL--MNTNFSIEKEIEALELLARQKVDGIILLATTIT-DEH 70 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC--------CCEEEE--EeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHH
Confidence 78888854 333345667777666542 566544 455566776677778888888888886433222 334
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe-C--ccccchHHHHHHHHh
Q 004042 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-N--EYGRNGVSALNDKLA 189 (777)
Q Consensus 113 a~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~-~--~~g~~~~~~~~~~~~ 189 (777)
...+...++|+|......+ .+..+.++....+..+++++.+.|-++++++... . ..+....+.+++.++
T Consensus 71 ~~~~~~~~ipvv~~~~~~~--------~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~ 142 (259)
T cd01542 71 REAIKKLNVPVVVVGQDYP--------GISSVVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVGILRKQGYLDALK 142 (259)
T ss_pred HHHHhcCCCCEEEEeccCC--------CCCEEEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhHHHHHHHHHHHHH
Confidence 4556667899998754221 2223556777788989999888899999998632 2 233456788999998
Q ss_pred hcce-EEEEeeecCCCCCCChhhHHHHHHHHhcCC-CeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 190 ERRC-RISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 190 ~~g~-~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
+.|. .+. . +... .+.......+.++.+.. +++|+... ...+..+++.+++.|+..++-+.+.
T Consensus 143 ~~~~~~~~--~-~~~~--~~~~~~~~~~~~~l~~~~~~~i~~~~-d~~a~g~~~~l~~~g~~vp~di~v~ 206 (259)
T cd01542 143 EHGICPPN--I-VETD--FSYESAYEAAQELLEPQPPDAIVCAT-DTIALGAMKYLQELGRRIPEDISVA 206 (259)
T ss_pred HcCCChHH--e-eecc--CchhhHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8887 211 1 1111 11233444555554444 56665544 5567778999999998755545444
No 155
>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=97.64 E-value=0.0095 Score=61.13 Aligned_cols=208 Identities=9% Similarity=0.045 Sum_probs=121.9
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~ 110 (777)
+||++.|.- .++-.....+++.+.++. .|+++. +.++..++..-.+....++.+++++||= |.......
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~~-------~g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASNY-------PDVELI--IADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHhc-------CCcEEE--EEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 588998853 333233444444443331 155554 4455566666666777777778776654 33322223
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeCc--cccchHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALND 186 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~~--~g~~~~~~~~~ 186 (777)
.....+...++|++.+....+ +. .....+..++...+...++++... |-++++++..... ......+.+++
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 333445568999998754221 11 223446677888888888887764 8899999974332 23455778889
Q ss_pred HHhhc-ceEEEEeeecCCCCCCChhhHHHHHHHHhc--CCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 004042 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW 260 (777)
Q Consensus 187 ~~~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 260 (777)
.++++ |+++.... ... ....+....++++.+ .++++|+. .+...+..+++++++.|+. .+...++.+.
T Consensus 147 ~l~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~aI~~-~~d~~a~g~~~al~~~g~~-~dv~vvg~d~ 217 (270)
T cd06308 147 ALSKYPKIKIVAQQ--DGD--WLKEKAEEKMEELLQANPDIDLVYA-HNDPMALGAYLAAKRAGRE-KEIKFIGIDG 217 (270)
T ss_pred HHHHCCCCEEEEec--CCC--ccHHHHHHHHHHHHHhCCCCcEEEe-CCcHHHHHHHHHHHHcCCC-CCcEEEEecC
Confidence 99988 87765321 111 112233334444432 24565444 4556666789999999987 5555555443
No 156
>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=97.63 E-value=0.0057 Score=62.56 Aligned_cols=202 Identities=10% Similarity=0.028 Sum_probs=120.3
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
.||++.|.. ..+-.....+++.+.++. |+.+. +.+...++..-.+....++..++++||-.........
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 378898865 333345566666666642 45553 3455556665566667788878777664222222222
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc-c--ccchHHHHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-Y--GRNGVSALNDKL 188 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~-~--g~~~~~~~~~~~ 188 (777)
+ ..+...++|+|......+ . +.+.....+....+..+++++...|-++++++..... . .....+.+++.+
T Consensus 71 l-~~~~~~~ipvV~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 71 Y-QRLAKNGKPVVLVDRKIP---E---LGVDTVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred H-HHHhcCCCCEEEEcCCCC---C---CCCCEEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3 445677999998754322 1 1123344566777888899988889999999974332 1 235567888888
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCC--CeEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~ 254 (777)
++.|+........... .+..+....++++.++. +++|+.. +...+..+++++++.|+..++-+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di 208 (267)
T cd06283 144 AEHGIGVNEELIEIDD--EDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDV 208 (267)
T ss_pred HHcCCCCCcceeEecc--cchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccce
Confidence 8887432211111111 12344556666765543 5655554 44556678899999998644333
No 157
>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=97.63 E-value=0.0076 Score=61.61 Aligned_cols=205 Identities=10% Similarity=0.036 Sum_probs=119.3
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
.||+++|.... .....+...+++.-++ .|+.+.+ .++..++..-.+....+..+++++||-.........+
T Consensus 1 ~igvi~~~~~~---~~~~~~~~~~~~~~~~----~g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~ 71 (264)
T cd06274 1 TIGLIIPDLEN---RSFARIAKRLEALARE----RGYQLLI--ACSDDDPETERETVETLIARQVDALIVAGSLPPDDPY 71 (264)
T ss_pred CEEEEeccccC---chHHHHHHHHHHHHHH----CCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHHH
Confidence 38999986421 2333333333333332 2555544 3445566665666777788888877743332222223
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHHHHhh
Q 004042 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLAE 190 (777)
Q Consensus 113 a~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~~~~~ 190 (777)
. .+...++|+|......+ +...++ ...++...+..+++++...|-++++++.... .......+.+++.+++
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 45668899998754332 112232 4456777778888888788999999997532 2345567889999998
Q ss_pred cceEEEEeeecCCCCCCChhhHHHHHHHHhcC---CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004042 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (777)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i 256 (777)
.|+.+......... .+.......+.++.++ .+++|+.. +...+.-+++++++.|+..++-+-+
T Consensus 145 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~ip~dv~v 210 (264)
T cd06274 145 AGLPVQPDWIYAEG--YSPESGYQLMAELLARLGRLPRALFTT-SYTLLEGVLRFLRERPGLAPSDLRI 210 (264)
T ss_pred cCCCCCcceeecCC--CChHHHHHHHHHHHccCCCCCcEEEEc-ChHHHHHHHHHHHHcCCCCCcceEE
Confidence 88643222111111 1223334445555433 36666644 5556777899999999865544444
No 158
>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=97.61 E-value=0.0035 Score=64.65 Aligned_cols=202 Identities=10% Similarity=0.032 Sum_probs=130.6
Q ss_pred EEEEEeeCCC-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++.|.-. ++-.....+++-+.++ .|+.+-+ .++..++..- +....|.+++|+++|=.........
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 6999999974 3223344444444443 3666644 4555555555 6666677778887775433333456
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcE-EEEEEEeCc--cccchHHHHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNA-VSVIFVDNE--YGRNGVSALNDKL 188 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~-vaii~~~~~--~g~~~~~~~~~~~ 188 (777)
+..+.+. ++|+|......... ...+++ ..++..-+..+.++|.+.|-++ |+++..+.. ...+..+.+++++
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 6667766 99999865432111 123333 3456777888888999999999 999986543 3456677899999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCe--EEEEecChhHHHHHHHHHHHcC-CCCCCeE
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESR--VIVLHVSPSLGFQVFSVAKYLG-MMGNGYV 254 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~--vIvl~~~~~~~~~~l~~a~~~g-l~~~~~~ 254 (777)
++.|+++......... .+..+-...++++.+..|+ +|+ +++...+.-+++++++.| +..++-+
T Consensus 146 ~~~Gl~~~~~~i~~~~--~~~~~g~~~~~~ll~~~p~idai~-~~nd~~A~ga~~~l~~~gr~~ip~di 211 (279)
T PF00532_consen 146 KEAGLPIDEEWIFEGD--FDYESGYEAARELLESHPDIDAIF-CANDMMAIGAIRALRERGRLKIPEDI 211 (279)
T ss_dssp HHTTSCEEEEEEEESS--SSHHHHHHHHHHHHHTSTT-SEEE-ESSHHHHHHHHHHHHHTT-TCTTTEE
T ss_pred HHcCCCCCcccccccC--CCHHHHHHHHHHHHhhCCCCEEEE-EeCHHHHHHHHHHHHHcCCcccChhh
Confidence 9999966544443322 2345555667777776666 554 456666778899999999 7666544
No 159
>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=97.61 E-value=0.012 Score=61.66 Aligned_cols=210 Identities=14% Similarity=0.084 Sum_probs=124.0
Q ss_pred EEEEeeCC-C-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc--CcEEEEcCCChhHH
Q 004042 34 VGALFTLD-S-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET--DIVAIIGPQCSTVA 109 (777)
Q Consensus 34 IG~l~~~s-~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~--~v~aviGp~~s~~~ 109 (777)
||+++|.. . .+-.....+++.+.++ .|+.+.+. ++..+...-......++++ +|.+||=-..+...
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~--------~g~~v~~~--~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~ 71 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADD--------LGIELEVL--YAERDRFLMLQQARTILQRPDKPDALIFTNEKSVA 71 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHh--------cCCeEEEE--eCCCCHHHHHHHHHHHHHhccCCCEEEEcCCccch
Confidence 78888864 2 2223445555555543 25655554 5555666666777788888 89877642222223
Q ss_pred HHHHHhhccCCceEEecccCCCCCC-----C--CCC-CceEEecCCchHHHHHHHHHHHhcCCcE--------EEEEEEe
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLS-----S--LQY-PFFVRTTQSDSYQMTAVAEMVSYYGWNA--------VSVIFVD 173 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~-----~--~~~-~~~~r~~p~~~~~~~a~~~~l~~~~w~~--------vaii~~~ 173 (777)
......+...++|+|......+... + ..+ .++-...++....++.+++++.+.+-++ ++++...
T Consensus 72 ~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~ 151 (305)
T cd06324 72 PELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISGD 151 (305)
T ss_pred HHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCC
Confidence 3444566778999998765432111 0 111 2344567788888899999887776653 7777632
Q ss_pred --CccccchHHHHHHHHhhcc-eEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCC
Q 004042 174 --NEYGRNGVSALNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGM 248 (777)
Q Consensus 174 --~~~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl 248 (777)
........+.|++.+++.| ..+... .... ....+....+.++.+. ++++|+ +.+...+..+++++++.|+
T Consensus 152 ~~~~~~~~R~~Gf~~~~~~~g~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~ 226 (305)
T cd06324 152 PTTPAAILREAGLRRALAEHPDVRLRQV--VYAG--WSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAGR 226 (305)
T ss_pred CCChHHHHHHHHHHHHHHHCCCceEeee--ecCC--CCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcCC
Confidence 2334456778899998887 443221 2211 1233444455555433 456554 4455667789999999998
Q ss_pred CCCC-eEEEEe
Q 004042 249 MGNG-YVWIAT 258 (777)
Q Consensus 249 ~~~~-~~~i~~ 258 (777)
..++ ...++.
T Consensus 227 ~vp~di~vig~ 237 (305)
T cd06324 227 KPGRDVLFGGV 237 (305)
T ss_pred CcCCCEEEEec
Confidence 6543 444443
No 160
>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=97.61 E-value=0.0053 Score=62.78 Aligned_cols=204 Identities=13% Similarity=0.066 Sum_probs=120.8
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
.||+++|.. .++-.....++..+.++. |+++. +.++..++..-.+....+..+++++||=..+......
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~--------~~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~ 70 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER--------GYSTF--VANTGDNPDAQRRAIEMLLDRRVDGLILGDARSDDHF 70 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 489999864 333234445555444442 55553 3455556666555666777778886663222222233
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~~~~ 189 (777)
...+...++|++......+ ..+ ....+....+..++++|...|-++++++..+. .......+.|.+.++
T Consensus 71 -~~~~~~~~iPvv~~~~~~~-----~~~---~V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 141 (265)
T cd06285 71 -LDELTRRGVPFVLVLRHAG-----TSP---AVTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAALA 141 (265)
T ss_pred -HHHHHHcCCCEEEEccCCC-----CCC---EEEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3445667999998754321 122 24556777888888998888999999997432 345566788899999
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEEe
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGN-GYVWIAT 258 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~-~~~~i~~ 258 (777)
+.|+.+......... .........++++.+. .+++|+. .+...+..+++++++.|+..+ +...++-
T Consensus 142 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~~p~di~iig~ 210 (265)
T cd06285 142 EAGIEVPPERIVYSG--FDIEGGEAAAEKLLRSDSPPTAIFA-VNDFAAIGVMGAARDRGLRVPDDVALVGY 210 (265)
T ss_pred HcCCCCChhhEEeCC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEEee
Confidence 888765321111111 1233334455565433 3565444 455566779999999998543 3444443
No 161
>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=97.60 E-value=0.0098 Score=60.74 Aligned_cols=198 Identities=11% Similarity=0.054 Sum_probs=116.7
Q ss_pred EEEEEeeCCC-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
.||+++|... ..-.....+++.+.++. |+.+.+...+. .++..-.+....+.+++++++|--........
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~-~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA--------GYAVTLSMLAE-ADEEALRAAVRRLLAQRVDGVIVNAPLDDADA 71 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC--------CCeEEEEeCCC-CchHHHHHHHHHHHhcCCCEEEEeCCCCChHH
Confidence 3889998653 33334555555555552 56665553322 23445555566677778887774222222223
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc--cccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 189 (777)
+.. ....++|+|......+ +.+.....+....++.+++++...|-++|+++..+.. ......+.|.+.++
T Consensus 72 ~~~-~~~~~ipvv~~~~~~~-------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (264)
T cd01574 72 ALA-AAPADVPVVFVDGSPS-------PRVSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAALE 143 (264)
T ss_pred HHH-HHhcCCCEEEEeccCC-------CCCCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHHH
Confidence 333 3467899998754321 1233456677788889999988889999999964332 23345677888888
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcCC-CeEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vIvl~~~~~~~~~~l~~a~~~gl~~~~ 252 (777)
+.|+.+..... .. .+..+....+.++.++. +++|+. ++...+..+++++++.|...++
T Consensus 144 ~~~~~~~~~~~--~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~g~~~~~~~~g~~ip~ 202 (264)
T cd01574 144 AAGIAPPPVLE--GD--WSAESGYRAGRELLREGDPTAVFA-ANDQMALGVLRALHELGLRVPD 202 (264)
T ss_pred HCCCCcceeee--cC--CCHHHHHHHHHHHHhCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCcc
Confidence 88876543221 11 12333344555554433 565544 4555677788999998875443
No 162
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=97.60 E-value=0.0053 Score=62.79 Aligned_cols=204 Identities=12% Similarity=0.041 Sum_probs=119.0
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||+++|.. ..+-.....+++.+.++. |+.+.+ .++..++..-.+....++..++++||--........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~ 70 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA--------GYSTII--GNSDENPETENRYLDNLLSQRVDGIIVVPHEQSAEQ 70 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc--------CCEEEE--EeCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCChHH
Confidence 489999864 333345666766666543 444443 344556655555666777778887775333222223
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~~~~ 189 (777)
...+...++|+|......+ +...+++ ..+....+..+++++...|-++|+++.... .......+.+.+.++
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 4455667999998754322 1222332 334455556666777777999999996432 334455678899998
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i 256 (777)
+.|+++......... ....+....+.++.+..+++|+. .+...+..+++++++.|+..++-+.+
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 888543221111111 11233445566665545776555 44556777889999989865443333
No 163
>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=97.59 E-value=0.0052 Score=63.91 Aligned_cols=185 Identities=12% Similarity=0.117 Sum_probs=110.9
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
+||++-..+.+.-.....|++-++++. |... ..+++.+.+..+++..+.+.+.++..+++++|+- .++..+..+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~----g~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~-~gt~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKEL----GYDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIA-IGTPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHT----T--C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEE-ESHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHc----CCcc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEE-eCcHHHHHH
Confidence 688888887543345566666666554 2323 5688889999999999998888888887777765 334455555
Q ss_pred HHhhccCCceEEecccCCCCCC---C-CCC--CceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeCcc-ccchHHH
Q 004042 113 SYVSNELQVPLLSFGVTDPTLS---S-LQY--PFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEY-GRNGVSA 183 (777)
Q Consensus 113 a~~~~~~~iP~Is~~a~~~~l~---~-~~~--~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~~~-g~~~~~~ 183 (777)
....... +|++-.+..++.-. + ... .++.-+. +.......+++++++ +.++++++|+++.- +....+.
T Consensus 75 ~~~~~~~-iPVVf~~V~dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~ 151 (294)
T PF04392_consen 75 AKHLKDD-IPVVFCGVSDPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNSVAQIEQ 151 (294)
T ss_dssp HHH-SS--S-EEEECES-TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--EEEEEEETT-HHHHHHHHH
T ss_pred HHhcCCC-cEEEEEeccChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCCEEEEEecCCCccHHHHHHH
Confidence 5554443 99987776555432 2 222 3555444 333455666666664 57999999975543 4566778
Q ss_pred HHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh
Q 004042 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (777)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~ 233 (777)
+++.+++.|+++.... ++ +..++...++.+.+ +.|++++..+.
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 8888999999976433 32 36788888888864 57888876554
No 164
>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=97.58 E-value=0.0078 Score=61.66 Aligned_cols=200 Identities=13% Similarity=0.005 Sum_probs=119.5
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
.||+++|.. .++-.....+++.+.++. |+++.+. ++..++..-.+....++++++++||--.+.... .
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~--~~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~ 69 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA--------GKHLIIT--AGHHSAEKEREAIEFLLERRCDALILHSKALSD-D 69 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC--------CCEEEEE--eCCCchHHHHHHHHHHHHcCCCEEEEecCCCCH-H
Confidence 388999875 333345566666666552 4555544 344455555556667778888877753332121 2
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc--cccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 189 (777)
.-..+...++|++......+ +..+++ ...+....++.+++++...|-+++++|..+.. ......+.|++.++
T Consensus 70 ~~~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 70 ELIELAAQVPPLVLINRHIP---GLADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred HHHHHhhCCCCEEEEeccCC---CCCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 13344567999998754332 111222 45677778889999988889999999975322 23455677888898
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~ 252 (777)
+.|+.+.....+... .+..+....++++.++ .+++|+. .+...+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~ 205 (268)
T cd06270 144 EAGIALDESLIIEGD--FTEEGGYAAMQELLARGAPFTAVFC-ANDEMAAGAISALREHGISVPQ 205 (268)
T ss_pred HcCCCCCcceEEECC--CCHHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCC
Confidence 888654211111111 1234455566666544 3565554 4445567788999998886443
No 165
>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=97.58 E-value=0.007 Score=62.31 Aligned_cols=198 Identities=10% Similarity=0.036 Sum_probs=111.8
Q ss_pred EEEEEEeeCC--------CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHH-hcCcEEEEc
Q 004042 32 VNVGALFTLD--------STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFM-ETDIVAIIG 102 (777)
Q Consensus 32 i~IG~l~~~s--------~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~-~~~v~aviG 102 (777)
=.||++.|.. ..+-.....+++.+.++ .|+++.+...+.. . .+.+.+.+ .+++.+||-
T Consensus 4 ~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~v~~~~~~--~---~~~~~~~l~~~~~dgiii 70 (275)
T cd06295 4 DTIALVVPEPHERDQSFSDPFFLSLLGGIADALAE--------RGYDLLLSFVSSP--D---RDWLARYLASGRADGVIL 70 (275)
T ss_pred eEEEEEecCccccccccCCchHHHHHHHHHHHHHH--------cCCEEEEEeCCch--h---HHHHHHHHHhCCCCEEEE
Confidence 3689999963 22222334444433332 2566666544332 1 12333444 457777653
Q ss_pred CCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccch
Q 004042 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNG 180 (777)
Q Consensus 103 p~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~ 180 (777)
-.+.... .....+...++|++.+....+. +.+....+++...+...++++...|.++|+++..+. ..+...
T Consensus 71 ~~~~~~~-~~~~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~r 143 (275)
T cd06295 71 IGQHDQD-PLPERLAETGLPFVVWGRPLPG------QPYCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEER 143 (275)
T ss_pred eCCCCCh-HHHHHHHhCCCCEEEECCccCC------CCCCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHHH
Confidence 2221112 2234556789999987553321 223345667778888888988888999999997533 234456
Q ss_pred HHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004042 181 VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 181 ~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~ 252 (777)
.+.|.+.+++.|+.+......... .+.......+.++.++ .+++|+... ...+..+++++++.|+..++
T Consensus 144 ~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~-~~~a~g~~~~l~~~g~~ip~ 214 (275)
T cd06295 144 LEGYREALAEAGLPLDPRLVAPGD--FTEESGRAAMRALLERGPDFDAVFAAS-DLMALGALRALREAGRRVPE 214 (275)
T ss_pred HHHHHHHHHHcCCCCChhhEEecc--CCHHHHHHHHHHHHhCCCCCCEEEECC-cHHHHHHHHHHHHhCCCCcc
Confidence 788999998887543221111111 1233334455555433 356665553 45566788889888885443
No 166
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.57 E-value=0.0073 Score=61.73 Aligned_cols=190 Identities=10% Similarity=0.022 Sum_probs=112.0
Q ss_pred EEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 34 IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
||++.|.. ..+-.....+++.+.++ .|+++.+...+. +. ...+...+++..+++++|--.+.... ..
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~--~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~ 69 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQA--------RGYQPLLINTDD--DE-DLDAALRQLLQYRVDGVIVTSGTLSS-EL 69 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHH--------CCCeEEEEcCCC--CH-HHHHHHHHHHHcCCCEEEEecCCCCH-HH
Confidence 78888864 33323344444333332 266776665543 22 33345566777788877753332222 23
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHHHHhh
Q 004042 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLAE 190 (777)
Q Consensus 113 a~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~~~~~ 190 (777)
...+...++|+|......+ + ..+....++....+..+++++...|-++|+++..+. .......+.|.+.+++
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 4556678999998754322 1 223456678888889999998888999999997533 3445567788999988
Q ss_pred cceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHc
Q 004042 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYL 246 (777)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~ 246 (777)
.|..+... .... .+..+....+.++.+. .+++|+.. +...+..+++.+++.
T Consensus 144 ~~~~~~~~-~~~~---~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~ 196 (266)
T cd06278 144 AGVPVVVE-EAGD---YSYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQE 196 (266)
T ss_pred cCCChhhh-ccCC---CCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHh
Confidence 88764321 1111 1123334445555433 35655554 344456677777765
No 167
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.57 E-value=0.022 Score=60.39 Aligned_cols=202 Identities=7% Similarity=-0.027 Sum_probs=119.7
Q ss_pred CceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh-
Q 004042 29 PAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS- 106 (777)
Q Consensus 29 ~~~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s- 106 (777)
.+..+||++.|.. ..+-.....+++-+.++. |+.+.+ .++..++..-.+....+++++++++|=....
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 3578999999865 444344555555555442 455544 4666677666666777888888877643332
Q ss_pred hHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC---ccccchHHH
Q 004042 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSA 183 (777)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~---~~g~~~~~~ 183 (777)
.........+...++|+|...... .+. +....+.+++...++.++++|...|-++++++.... .......+.
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 222344455677889999874422 111 112356778888899999998877888877654322 233455677
Q ss_pred HHHHHhhc---c-eEEEEeeecCCCCCCChhhHHHHHHHHhc---CCCeEEEEecChhHHHHHHHHHHHcCCC
Q 004042 184 LNDKLAER---R-CRISYKSGIPPESGVNTGYVMDLLVKVAL---MESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (777)
Q Consensus 184 ~~~~~~~~---g-~~v~~~~~~~~~~~~~~~d~~~~l~~l~~---~~~~vIvl~~~~~~~~~~l~~a~~~gl~ 249 (777)
+++.++++ | +.+....... . .+..+....++++.+ ..+++|+. .+...+..++++++++|+.
T Consensus 168 f~~~l~~~~~~~~i~~~~~~~~~-~--~~~~~~~~~~~~lL~~~~~~~~aI~~-~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 168 QMKVLKPYIDSGKIKVVGDQWVD-G--WLPENALKIMENALTANNNKIDAVVA-SNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHhhhccCCCeEEecccCCC-C--CCHHHHHHHHHHHHHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 77777753 4 5442221111 1 112333445555432 24665444 4555666789999999985
No 168
>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=97.55 E-value=0.012 Score=60.25 Aligned_cols=205 Identities=9% Similarity=0.009 Sum_probs=119.6
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++.|.. ..+-.....+++-+.++ .|+++.+. ++..++..-.+....+...++.++|--.+......
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 488998864 33333445555555443 25666544 33345555555566667778888775332222223
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc--cccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 189 (777)
+..+. ..++|+|......+ +.. +....+++...+..++++|...|-++++++..+.. ......+.|++.++
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~---~~~---~~~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVP---GAK---VPKVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHH-hcCCCEEEECCCCC---CCC---CCEEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 33333 34799998754322 111 22355778888899999988889999999974332 23355788999999
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhc--CCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
+.|..+......... .+..+....+.++.+ ..+++|+.. +...+..+++++++.|+..|+-+-+.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~di~i~ 210 (269)
T cd06293 144 EAHIPEVPEYVCFGD--YTREFGRAAAAQLLARGDPPTAIFAA-SDEIAIGLLEVLRERGLSIPGDMSLV 210 (269)
T ss_pred HcCCCCChheEEecC--CCHHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEEE
Confidence 888653211111111 122333445555543 346765554 55556678899999998655444443
No 169
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.52 E-value=0.019 Score=59.61 Aligned_cols=199 Identities=8% Similarity=0.024 Sum_probs=115.8
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~ 110 (777)
+||+++|.. ..+-.....+++-+.++. |+.+. +.++..++..-.+...+++.+++.+||- |..+....
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 322234445555554442 45444 4566667777667777788888887664 33333233
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc------CCcEEEEEEEeC--ccccchHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVDN--EYGRNGVS 182 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~------~w~~vaii~~~~--~~g~~~~~ 182 (777)
.....+...++|+|......+. .... ..+..+....++.+++++... |-.+++++..+. .......+
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 4444566789999987654321 1112 234456666777777776555 888999987432 33445567
Q ss_pred HHHHHHhhcc----eEEEEeeecCCCCCCChhhHHHHHHHHhcC---CCeEEEEecChhHHHHHHHHHHHcCCCC
Q 004042 183 ALNDKLAERR----CRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMG 250 (777)
Q Consensus 183 ~~~~~~~~~g----~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIvl~~~~~~~~~~l~~a~~~gl~~ 250 (777)
.|++.+++.+ +++... .+... .+..+....+.++.++ ++++|+. .+...+..+++++++.|+..
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 7888888887 554322 11111 1123333445555333 3455544 34556677889999988864
No 170
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.52 E-value=0.0079 Score=64.19 Aligned_cols=207 Identities=8% Similarity=0.035 Sum_probs=119.5
Q ss_pred eEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 004042 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (777)
Q Consensus 31 ~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~ 109 (777)
+-+||+++|.. ..+-.....+++.+.++. |+++. +.++..++..-.+....+..+++++||--......
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 35899999875 333234445555544432 45444 34555566665666667777788877642222222
Q ss_pred HHHHHhhcc-CCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEE--eCccccchHHHHHH
Q 004042 110 HIVSYVSNE-LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFV--DNEYGRNGVSALND 186 (777)
Q Consensus 110 ~~va~~~~~-~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~--~~~~g~~~~~~~~~ 186 (777)
..+ ..+.. .++|++......+ +..+.. ...++....+...++++...|-+++++|.. +........+.|.+
T Consensus 129 ~~~-~~l~~~~~iPvV~~d~~~~---~~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 202 (341)
T PRK10703 129 PLL-AMLEEYRHIPMVVMDWGEA---KADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFMK 202 (341)
T ss_pred HHH-HHHHhcCCCCEEEEecccC---CcCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHHH
Confidence 223 33444 6999998754321 111111 234455556788888887779999999964 23345566788899
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i 256 (777)
.+++.|+++......... ....+....+.++.++ .+++|+. .+...+..+++++++.|...++-+.+
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 999998765432111111 1233444556565433 4566664 45555667899999999765443333
No 171
>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=97.50 E-value=0.02 Score=58.81 Aligned_cols=180 Identities=10% Similarity=0.053 Sum_probs=110.9
Q ss_pred CCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecC
Q 004042 68 GTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ 146 (777)
Q Consensus 68 g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p 146 (777)
|+.+.+ .+...++..-.+....++.+++.+||= |..+......-..+...++|++......+ ....+.+....+
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 466667777777888888888886665 33333333333445567999998755332 111122345667
Q ss_pred CchHHHHHHHHHHHhc--CCcEEEEEEEeC--ccccchHHHHHHHHhhcc-eEEEEeeecCCCCCCChhhHHHHHHHHhc
Q 004042 147 SDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVAL 221 (777)
Q Consensus 147 ~~~~~~~a~~~~l~~~--~w~~vaii~~~~--~~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~l~~ 221 (777)
+....+..+++++... |.++++++..+. .......+.|++.+++.+ .++... .... .+.......++++..
T Consensus 104 d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~ 179 (272)
T cd06313 104 DNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPAN--WDVSKAARIWETWLT 179 (272)
T ss_pred CcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCC--CCHHHHHHHHHHHHH
Confidence 8888889999987766 889999997542 233456788899998875 554431 1111 123344555666544
Q ss_pred CC--CeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 222 ME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 222 ~~--~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
.. +++|+. .+...+..+++++++.|+ .+...++-+
T Consensus 180 ~~~~~~ai~~-~nd~~a~g~~~al~~~g~--~di~vvgfd 216 (272)
T cd06313 180 KYPQLDGAFC-HNDSMALAAYQIMKAAGR--TKIVIGGVD 216 (272)
T ss_pred hCCCCCEEEE-CCCcHHHHHHHHHHHcCC--CceEEEeec
Confidence 33 455444 455566778899999997 444444433
No 172
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.50 E-value=0.046 Score=57.97 Aligned_cols=198 Identities=12% Similarity=-0.008 Sum_probs=109.6
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~ 110 (777)
+|+++.... .++-..+..+++.+.++. |+++.+. ..+..++..-.+....++.+++.+|+- |..+....
T Consensus 25 ~i~~v~k~~~~pf~~~~~~Gi~~aa~~~--------G~~v~~~-~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~ 95 (336)
T PRK15408 25 RIAFIPKLVGVGFFTSGGNGAKEAGKEL--------GVDVTYD-GPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLC 95 (336)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHh--------CCEEEEE-CCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHH
Confidence 799887654 333344556666666542 5666542 233445665567778888898887775 44444445
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecC-CchHHHHHHHHHHHh-c--CCcEEEEEEEeCc--cccchHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ-SDSYQMTAVAEMVSY-Y--GWNAVSVIFVDNE--YGRNGVSAL 184 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p-~~~~~~~a~~~~l~~-~--~w~~vaii~~~~~--~g~~~~~~~ 184 (777)
+...-+...+||+|++.+..+. +. . .+-... ++...+..+++++.+ + +-.+|+++..... ......+.+
T Consensus 96 ~~l~~a~~~gIpVV~~d~~~~~--~~--~-~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g~ 170 (336)
T PRK15408 96 PALKRAMQRGVKVLTWDSDTKP--EC--R-SYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKEA 170 (336)
T ss_pred HHHHHHHHCCCeEEEeCCCCCC--cc--c-eEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHHH
Confidence 5666677889999997654321 11 1 122222 234566666666554 3 4568998874321 122334556
Q ss_pred HHHHhhc--ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCC--eEEEEecChhHHHHHHHHHHHcCCC
Q 004042 185 NDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMES--RVIVLHVSPSLGFQVFSVAKYLGMM 249 (777)
Q Consensus 185 ~~~~~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~--~vIvl~~~~~~~~~~l~~a~~~gl~ 249 (777)
.+.+.+. +++++... +. . .+........+++..+.| +.|+.. +...+.-.++++++.|+.
T Consensus 171 ~~~l~~~~p~~~vv~~~-~~-~--~d~~~a~~~~~~lL~~~pdi~aI~~~-~~~~~~Ga~~Al~~~g~~ 234 (336)
T PRK15408 171 KAKIAKEHPGWEIVTTQ-FG-Y--NDATKSLQTAEGILKAYPDLDAIIAP-DANALPAAAQAAENLKRD 234 (336)
T ss_pred HHHHHhhCCCCEEEeec-CC-C--CcHHHHHHHHHHHHHHCCCCcEEEEC-CCccHHHHHHHHHhCCCC
Confidence 6666443 56665332 21 1 123344445566555445 455443 333344578888888863
No 173
>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=97.47 E-value=0.025 Score=58.94 Aligned_cols=212 Identities=11% Similarity=0.027 Sum_probs=118.4
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~~ 111 (777)
|||++.|.... .+...+..++++.-++ .|+++.+. .+...++..-.+....++.+++++||= |........
T Consensus 1 ~i~~i~~~~~~---~~~~~~~~gi~~~a~~----~g~~~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~ 72 (294)
T cd06316 1 KAAIVMHTSGS---DWSNAQVRGAKDEFAK----LGIEVVAT-TDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAA 72 (294)
T ss_pred CeEEEecCCCC---hHHHHHHHHHHHHHHH----cCCEEEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhH
Confidence 68888875321 2333343344333322 25655432 355667776667777788888876654 333222234
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeCc--cccchHHHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALNDK 187 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~~--~g~~~~~~~~~~ 187 (777)
....+...++|+|.+....+.... ...++..+..+....++.+++++... +-++++++..+.. ......+.+.+.
T Consensus 73 ~i~~~~~~~iPvV~~~~~~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~ 151 (294)
T cd06316 73 AYKKVAEAGIKLVFMDNVPSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKET 151 (294)
T ss_pred HHHHHHHcCCcEEEecCCCccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHH
Confidence 445566789999987543322111 11223445667777788888887765 7889999974332 344556778888
Q ss_pred HhhcceEEEEeeecCCCCCCChhhHHHHHHHHhc--CCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
+++.+..+....... . .........++++.. ..+++|+. .+...+..+++++++.|+ .+...++.+
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 876653221111111 1 111222334455433 24565554 445567789999999997 344455443
No 174
>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=97.46 E-value=0.01 Score=60.48 Aligned_cols=198 Identities=11% Similarity=-0.001 Sum_probs=119.7
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++.|.. ..+-.....+++.+.++. |+.+.+. ++..++....+....+..+++.++|=..+......
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 478898864 444455667777666642 5655443 55556666666667777778886664222222333
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe--CccccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~--~~~g~~~~~~~~~~~~ 189 (777)
+..+.+ .+ |++....... +..-.+.++....+..+++++...|-++++++..+ +.......+.|.+.++
T Consensus 71 ~~~~~~-~~-pvv~~~~~~~-------~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~ 141 (260)
T cd06286 71 IEPYTK-YG-PIVLCEEYDS-------KNISSVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALE 141 (260)
T ss_pred HHHHhc-CC-CEEEEecccC-------CCCCEEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHHH
Confidence 444433 34 8886543221 11223566777788888899888899999999743 2344556788999999
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~ 252 (777)
+.|+++.....+... .+..+....++++.+. .+++|+ +++...+..++++++++|+..++
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 888654321111111 1233334455555443 456554 55666677899999999985443
No 175
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.44 E-value=0.021 Score=60.59 Aligned_cols=202 Identities=11% Similarity=0.025 Sum_probs=118.3
Q ss_pred eEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCC-hhH
Q 004042 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQC-STV 108 (777)
Q Consensus 31 ~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~-s~~ 108 (777)
+-.||+++|.. .++-.....+++.+.++ .|+.+.+. ++..++..-.+....+...+++++|-... ...
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~--------~g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~ 130 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQ--------RGYQLLIA--CSDDQPDNEMRCAEHLLQRQVDALIVSTSLPPE 130 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCCC
Confidence 46899999853 33223344555544443 25666554 33345554445566667778887764322 212
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALND 186 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~ 186 (777)
...+ ..+...++|++......+ ...++ ....++...+..++++|...|-++|+++.... ..+....+.|.+
T Consensus 131 ~~~~-~~l~~~~iPvV~v~~~~~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~~ 203 (328)
T PRK11303 131 HPFY-QRLQNDGLPIIALDRALD---REHFT---SVVSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGFRQ 203 (328)
T ss_pred hHHH-HHHHhcCCCEEEECCCCC---CCCCC---EEEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHHHH
Confidence 2222 334567899998654321 11222 33466777788888888888999999997432 334566788999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~ 254 (777)
.+++.|+.+.... ... .+..+-...++++.+. .+++|+.. +...+..+++++.+.|+..|+-+
T Consensus 204 al~~~g~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~vP~di 268 (328)
T PRK11303 204 ALKDDPREVHYLY--ANS--FEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGELPSDL 268 (328)
T ss_pred HHHHcCCCceEEE--eCC--CChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCce
Confidence 9999887543221 111 1123334455555433 46766655 44556678899999998655433
No 176
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.43 E-value=0.018 Score=61.40 Aligned_cols=203 Identities=6% Similarity=-0.003 Sum_probs=119.8
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 004042 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (777)
Q Consensus 30 ~~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~ 108 (777)
..-.||++.|.. ..+-.....+++.+.++ .|+.+-+ .++..++..-.+....+..+++++||--.....
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 132 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEA--------QGRMVFL--LQGGKDGEQLAQRFSTLLNQGVDGVVIAGAAGS 132 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHH--------cCCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 345799999864 33333445555555443 2454433 344445555555666677778887774222222
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc--cccchHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALND 186 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~ 186 (777)
.......+...++|+|...... .....+ ....++...+..++++|...|.++|++|..+.. ...+..+.+.+
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 2344555677899999864321 111222 245677777888889988889999999964322 23456678899
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCC
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~ 251 (777)
.+++.|+.+.....+... .........+.++.+. .+++|+ +.+...+..+++++++.|+..+
T Consensus 207 al~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 207 TLLKFGLPFHSEWVLECT--SSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHcCCCCCcceEecCC--CChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 999988764322222111 1123333445555433 456655 4455666778899999887544
No 177
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.43 E-value=0.012 Score=60.26 Aligned_cols=207 Identities=13% Similarity=0.054 Sum_probs=121.2
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~ 110 (777)
.||++.|.. ..+-.....+++.+.++ .|+++.+ .++..++..-.+....++.++++++|- +.... .
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~-~- 68 (270)
T cd06296 1 LIGLVFPDLDSPWASEVLRGVEEAAAA--------AGYDVVL--SESGRRTSPERQWVERLSARRTDGVILVTPELT-S- 68 (270)
T ss_pred CeEEEECCCCCccHHHHHHHHHHHHHH--------cCCeEEE--ecCCCchHHHHHHHHHHHHcCCCEEEEecCCCC-h-
Confidence 378898864 44444556666655554 2555544 344444544445566677778887663 33222 2
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe--CccccchHHHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKL 188 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~--~~~g~~~~~~~~~~~ 188 (777)
.....+...++|+|........ ....+ ...++....++..++++...|.++++++... ........+.|.+.+
T Consensus 69 ~~~~~~~~~~ipvV~i~~~~~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 143 (270)
T cd06296 69 AQRAALRRTGIPFVVVDPAGDP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAAL 143 (270)
T ss_pred HHHHHHhcCCCCEEEEecccCC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHH
Confidence 2345566789999987643211 11122 3566777788888888887899999999643 223455678888888
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIATD 259 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~-~~~i~~~ 259 (777)
++.++.+......... .+.......+.++.+. .+++|+ +.+...+..+++++++.|+..++ ...++.+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 144 AEAGIPVDPALVREGD--FSTESGFRAAAELLALPERPTAIF-AGNDLMALGVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HHcCCCCChHHheeCC--CCHHHHHHHHHHHHhCCCCCcEEE-EcCcHHHHHHHHHHHHhCCCCCCceEEEEEC
Confidence 8887654321111111 1233344455555433 345554 34555677789999999986443 4444443
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=97.40 E-value=0.021 Score=58.69 Aligned_cols=205 Identities=14% Similarity=0.077 Sum_probs=120.3
Q ss_pred EEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCC-hh--H
Q 004042 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQC-ST--V 108 (777)
Q Consensus 34 IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~-s~--~ 108 (777)
||++.|.. ..+-.....+++.+.++ .|+.+.+ .++..++..-.+....+..++++++|= |.. +. .
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 33333445555555554 2566543 455556666666777888888887664 222 11 1
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALND 186 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~ 186 (777)
.......+...++|+|......+. ....+ ....++...+..+++++...|-++++++.... .......+.|++
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 122234456789999987653321 01122 35567788888888988888999999986432 234456788888
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i 256 (777)
.+++.|+.......+... .+.......++++....+++|+. .+...+..+++++++.|+..++-+-+
T Consensus 147 ~~~~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~di~i 213 (273)
T cd06292 147 ALEEAGLEPPEALVARGM--FSVEGGQAAAVELLGSGPTAIVA-ASDLMALGAIRAARRRGLRVPEDVSV 213 (273)
T ss_pred HHHHcCCCCChhheEeCC--CCHHHHHHHHHHHhcCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEE
Confidence 998888643111111111 11233344555554444776654 45555667889999998865443333
No 179
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.36 E-value=0.027 Score=59.63 Aligned_cols=205 Identities=8% Similarity=0.031 Sum_probs=116.6
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChh
Q 004042 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (777)
Q Consensus 30 ~~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~ 107 (777)
..-+||+++|.. ..+-.....+++.+.++ .|+++.+ .++..++..-.+....+.+++++++|= |....
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 345799999864 33333455555555554 2566544 344455655555566677777776663 22211
Q ss_pred HHHHHHHhhcc-CCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe--CccccchHHHH
Q 004042 108 VAHIVSYVSNE-LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSAL 184 (777)
Q Consensus 108 ~~~~va~~~~~-~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~--~~~g~~~~~~~ 184 (777)
.. ....... .++|++...... ..... .....+...-+..++++|...|-++|++|... ........+.|
T Consensus 125 -~~-~~~~l~~~~~iPvV~i~~~~---~~~~~---~~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf 196 (327)
T PRK10423 125 -QP-SREIMQRYPSVPTVMMDWAP---FDGDS---DLIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEGY 196 (327)
T ss_pred -hh-hHHHHHhcCCCCEEEECCcc---CCCCC---CEEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHHH
Confidence 11 1122223 489999875321 11111 12344555567888888888999999999642 23445667889
Q ss_pred HHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEE
Q 004042 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (777)
Q Consensus 185 ~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~ 255 (777)
.+.+++.|+.+.....+... .........+.++.+. .+++|+. ++...+..+++++++.|+..|+-+-
T Consensus 197 ~~al~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~~l~~~g~~vP~dvs 266 (327)
T PRK10423 197 RAAMKRAGLNIPDGYEVTGD--FEFNGGFDAMQQLLALPLRPQAVFT-GNDAMAVGVYQALYQAGLSVPQDIA 266 (327)
T ss_pred HHHHHHcCCCCCcceEEeCC--CChHHHHHHHHHHhcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceE
Confidence 99999998764322111111 1122333445555433 3565554 4555667799999999986554333
No 180
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.36 E-value=0.035 Score=58.74 Aligned_cols=201 Identities=10% Similarity=0.033 Sum_probs=130.7
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 004042 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (777)
Q Consensus 30 ~~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~ 108 (777)
.+-.||++.|.- ..+-.....+++.+.++ .|+.+-+. .+..++..-.+....+.+++|+++|=-. ...
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 356799999943 22223444555544444 25555444 4444666666666677777888877533 344
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe--CccccchHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALND 186 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~--~~~g~~~~~~~~~ 186 (777)
.......+...++|++......+ + +.+-....++..-++.++++|...|-+++++|... ...+.+..+.+.+
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 45556666777999998755443 2 23344567788889999999999999999999864 4456777899999
Q ss_pred HHhhcceEE--EEeeecCCCCCCChhhHHHHHHHHhcCC---CeEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004042 187 KLAERRCRI--SYKSGIPPESGVNTGYVMDLLVKVALME---SRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 187 ~~~~~g~~v--~~~~~~~~~~~~~~~d~~~~l~~l~~~~---~~vIvl~~~~~~~~~~l~~a~~~gl~~~~ 252 (777)
.+++.|+.. .....-. .+..+-...+.++.... +++|+. ++...+.-+++++.+.|+..|+
T Consensus 200 al~~~~~~~~~~~i~~~~----~~~~~g~~~~~~ll~~~~~~ptAif~-~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 200 ALREAGLPINPEWIVEGD----FSEESGYEAAERLLARGEPRPTAIFC-ANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHHCCCCCCcceEEecC----CChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCCC
Confidence 999999875 2111111 12344444555555432 566654 5556677799999999987654
No 181
>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=97.35 E-value=0.044 Score=56.55 Aligned_cols=207 Identities=11% Similarity=0.039 Sum_probs=118.7
Q ss_pred EEEEEeeCCC-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 004042 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~ 110 (777)
+||++.|... .+-.....+++.+.++. |+.+ .+.+...++..-.+....++++++++||- +..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL--------GYEL--ISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc--------CCEE--EEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH
Confidence 5899998652 22234455555555542 4544 44555567766666777788888876664 33222222
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCCc--EEEEEEEe--CccccchHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWN--AVSVIFVD--NEYGRNGVSALN 185 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w~--~vaii~~~--~~~g~~~~~~~~ 185 (777)
.....+...++|+|......+ + ..+.+..+..+....+..+++++.. .|-+ +++++..+ ...+....+.|+
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~---~-~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 146 (282)
T cd06318 71 PAVAAAKAAGVPVVVVDSSIN---L-EAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFL 146 (282)
T ss_pred HHHHHHHHCCCCEEEecCCCC---C-CcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHH
Confidence 333455678999998754321 1 0123445667778888889988755 6754 88888643 334566778899
Q ss_pred HHHhhcceE------EEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 186 DKLAERRCR------ISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 186 ~~~~~~g~~------v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
+.+++.|+. +......... ....+....+.++... ++++|+. .+...+..+++++++.|+. .+...++
T Consensus 147 ~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~-~dv~vvg 222 (282)
T cd06318 147 LGVSEAQLRKYGKTNFTIVAQGYGD--WTREGGLKAMEDLLVAHPDINVVYS-ENDDMALGAMRVLAEAGKT-DDVKVAA 222 (282)
T ss_pred HHHhhCcccccccCCeEEEecCCCC--CCHHHHHHHHHHHHHhCCCcCEEEE-CCcchHHHHHHHHHHcCCC-CCeEEEe
Confidence 999888642 1111101111 1123333444554332 3555554 3444566788999999984 3333343
No 182
>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=97.35 E-value=0.02 Score=58.56 Aligned_cols=199 Identities=10% Similarity=0.022 Sum_probs=113.5
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++.|.. ..+-.....+++.+.+ + .|+.+.+ .++..++..-.+....+.+++++++|--.+......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~----~----~gy~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~ 70 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLN----G----SGYSPII--ATGHWNQSRELEALELLKSRRVDALILLGGDLPEEE 70 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHH----H----CCCEEEE--EeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCChHH
Confidence 478898864 2222233344433332 2 2555544 344556655555666777778887764222211222
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe--CccccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~--~~~g~~~~~~~~~~~~ 189 (777)
+..+ . .++|+|......+ +.. +-....+....+..+++++...|-++++++..+ ........+.+.+.+.
T Consensus 71 ~~~~-~-~~iPvV~i~~~~~---~~~---~~~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 142 (265)
T cd06290 71 ILAL-A-EEIPVLAVGRRVP---GPG---AASIAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALE 142 (265)
T ss_pred HHHH-h-cCCCEEEECCCcC---CCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHH
Confidence 2222 2 4899998765322 111 223456777778888888877899999999743 2344456678888888
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~ 252 (777)
+.|+.+.....+... .+.......++++.+. .+++|+. ++...+..+++.+++.|+..++
T Consensus 143 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~aii~-~~~~~a~~~~~~l~~~g~~ip~ 204 (265)
T cd06290 143 EAGLEVQPDLIVQGD--FEEESGLEAVEELLQRGPDFTAIFA-ANDQTAYGARLALYRRGLRVPE 204 (265)
T ss_pred HcCCCCCHHHEEecC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCc
Confidence 887654321111111 1122334455665543 3566554 4556677788999999986543
No 183
>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=97.33 E-value=0.073 Score=54.54 Aligned_cols=204 Identities=9% Similarity=0.075 Sum_probs=113.6
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhH-HH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTV-AH 110 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~-~~ 110 (777)
+||++...+.++-.....+++.+.++ .|+.+.+.. ++..++..-.+....+++++|+++|= |..... ..
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 47888755543333444455444444 245555442 23345555566666777778887764 433322 23
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeC--ccccchHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~--~~g~~~~~~~~~ 186 (777)
.+..+ .. ++|+|......+ +. +.+.....+....++.+++++.+. +-.+++++.... .......+.+++
T Consensus 72 ~l~~~-~~-~ipvV~~~~~~~---~~--~~~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~ 144 (271)
T cd06314 72 ALNKA-AA-GIKLITTDSDAP---DS--GRYVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKD 144 (271)
T ss_pred HHHHH-hc-CCCEEEecCCCC---cc--ceeEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHH
Confidence 33444 45 999998754221 11 112234567777788888887653 334666665432 334566788999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
.+++.|+++.... . .. ....+....++++.+. .+++|+.. +...+..+++++++.|+. .+...++.
T Consensus 145 ~~~~~~~~~~~~~-~-~~--~~~~~~~~~~~~~l~~~~~~~~i~~~-~d~~a~~~~~al~~~g~~-~di~vig~ 212 (271)
T cd06314 145 AIKDSKIEIVDTR-G-DE--EDFAKAKSNAEDALNAHPDLKCMFGL-YAYNGPAIAEAVKAAGKL-GKVKIVGF 212 (271)
T ss_pred HHhcCCcEEEEEe-c-Cc--cCHHHHHHHHHHHHHhCCCccEEEec-CCccHHHHHHHHHHcCCC-CceEEEEe
Confidence 9999998765422 1 11 1233444555565433 35666544 334455578888888876 44444443
No 184
>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=97.32 E-value=0.029 Score=57.42 Aligned_cols=196 Identities=12% Similarity=0.013 Sum_probs=107.0
Q ss_pred EEEEEeeCC----CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 004042 33 NVGALFTLD----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (777)
Q Consensus 33 ~IG~l~~~s----~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~ 108 (777)
|||++.|.+ .++-.....+++.+.++ .|+.+.+. +.. ++..-.+....+.+.+|++||--... .
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~--------~gy~~~i~--~~~-~~~~~~~~i~~l~~~~vdgiI~~~~~-~ 68 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE--------LGIEYKYV--ESK-SDADYEPNLEQLADAGYDLIVGVGFL-L 68 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH--------cCCeEEEE--ecC-CHHHHHHHHHHHHhCCCCEEEEcCcc-h
Confidence 589999863 22223344455544444 25555554 222 33333455666777788888863222 2
Q ss_pred HHHHHHhhccC-CceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEeCccccch-HHHHH
Q 004042 109 AHIVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNG-VSALN 185 (777)
Q Consensus 109 ~~~va~~~~~~-~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~-~~w~~vaii~~~~~~g~~~-~~~~~ 185 (777)
..........+ ++|++......+ + .+.+-+...+...-+.....++.. .|-++++++..+....... .+.++
T Consensus 69 ~~~~~~~~~~~~~~PiV~i~~~~~---~--~~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf~ 143 (265)
T cd06354 69 ADALKEVAKQYPDQKFAIIDAVVD---D--PPNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGFE 143 (265)
T ss_pred HHHHHHHHHHCCCCEEEEEecccC---C--CCcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHHH
Confidence 23445555555 899998654221 1 012223444455445555566654 3999999997432212222 36788
Q ss_pred HHHhhcc---eEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcC
Q 004042 186 DKLAERR---CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (777)
Q Consensus 186 ~~~~~~g---~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~g 247 (777)
+.+++.| ..+......... .....+....++++.++++++|+.. +...+..+++++++.|
T Consensus 144 ~~~~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ll~~~pdaI~~~-nd~~A~gv~~al~~~g 206 (265)
T cd06354 144 AGVKYVNPGVPDIEVLVQYAGS-FNDPAKGKEIAQAMYDQGADVIFAA-AGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHhccCCCceEEEEEcCc-ccCHHHHHHHHHHHHHCCCcEEEEC-CCCCchHHHHHHHhcC
Confidence 8888888 654322212111 0112333455666655568875554 5556667889999888
No 185
>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=97.31 E-value=0.063 Score=55.99 Aligned_cols=207 Identities=7% Similarity=-0.047 Sum_probs=117.8
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~ 110 (777)
+||++.|.. .++-.....+++.+.++ .|+++.+. .+...++....+....++.+++.+||- +.......
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 588888754 33323445555555554 14554432 234456666666777777888887775 33333223
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc-CC-cEEEEEEEeC--ccccchHHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GW-NAVSVIFVDN--EYGRNGVSALND 186 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-~w-~~vaii~~~~--~~g~~~~~~~~~ 186 (777)
.....+...++|++......+. + . ..+....+++...+..+++++.+. +- ++++++..+. .......+.|++
T Consensus 72 ~~~~~~~~~~iPvV~v~~~~~~--~-~-~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 72 PVLKKAREAGIKVVTHDSDVQP--D-N-RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHHHCCCeEEEEcCCCCC--C-c-ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 4444556789999987543211 0 0 123344567777888888887665 44 6999987432 233445678899
Q ss_pred HHhhcc---eEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 187 KLAERR---CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 187 ~~~~~g---~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
.++++| +++.. ..... .+..+....++++.++ ++++|+. .+...+..++++++++|+. .+...++.
T Consensus 148 ~l~~~g~~~~~~~~--~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~~~g~~-~dv~vvG~ 218 (298)
T cd06302 148 YQKEKYYPMLELVD--RQYGD--DDADKSYQTAQELLKAYPDLKGIIG-PTSVGIPGAARAVEEAGLK-GKVAVTGL 218 (298)
T ss_pred HHhhcCCCCeEEeC--cccCC--CCHHHHHHHHHHHHHhCCCceEEEE-CCCcchhHHHHHHHhcCCC-CCEEEEEe
Confidence 998887 33221 11211 1223333445554333 3455444 3456677789999999985 34444443
No 186
>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=97.30 E-value=0.019 Score=58.74 Aligned_cols=205 Identities=11% Similarity=0.083 Sum_probs=115.6
Q ss_pred EEEEEeeCC------CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 004042 33 NVGALFTLD------STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (777)
Q Consensus 33 ~IG~l~~~s------~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~-~v~aviGp~~ 105 (777)
.||++.|.. ..+-.....+++.+.++. |+++.+. +... +..-.+...+++.. ++.++|-...
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~-~~~~~~~~~~~~~~~~~dgiii~~~ 69 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN--------GYDISLA--TGKN-EEELLEEVKKMIQQKRVDGFILLYS 69 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC--------CCEEEEe--cCCC-cHHHHHHHHHHHHHcCcCEEEEecC
Confidence 378899852 233334455555555542 5666543 3332 33334455565544 5776554322
Q ss_pred hhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc--cccchHHH
Q 004042 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSA 183 (777)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~--~g~~~~~~ 183 (777)
... ......+...++|+|......+ . .+.+..+..+....++.+++++...|-++|+++..... ......+.
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 2334445678999998754321 1 01223345567777888888888789999999974433 23445778
Q ss_pred HHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCC-eEEEE
Q 004042 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIA 257 (777)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~-~~~i~ 257 (777)
|++.+++.|+........... .+..+....+.++.++ ++++|+. .+...+..+++++++.|+..++ ...++
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 899999888532111111111 1123444556565443 3666555 4556777889999999986443 33444
No 187
>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=97.29 E-value=0.057 Score=56.24 Aligned_cols=195 Identities=11% Similarity=-0.021 Sum_probs=110.7
Q ss_pred EEEEEeeCCC-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhH-H
Q 004042 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTV-A 109 (777)
Q Consensus 33 ~IG~l~~~s~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~-~ 109 (777)
|||++.|... .+-.....+++.+.++ .|+.+.+...+...+...-.+....++++++++||- |..... .
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~--------~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 72 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKH--------LGVELKVLEAGGYPNLDKQLAQIEQCKSWGADAILLGTVSPEALN 72 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHH--------hCCEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhh
Confidence 5899998642 2212333444444432 256666544333335555556677778888887764 322222 2
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcC-----CcEEEEEEEeC--ccccchHH
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG-----WNAVSVIFVDN--EYGRNGVS 182 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~-----w~~vaii~~~~--~~g~~~~~ 182 (777)
..+.. +. .++|++....... +. ..+..+..+....+..++++|.... -.+|+++.... .......+
T Consensus 73 ~~l~~-~~-~~iPvV~~~~~~~---~~--~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~ 145 (295)
T TIGR02955 73 HDLAQ-LT-KSIPVFALVNQID---SN--QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQ 145 (295)
T ss_pred HHHHH-Hh-cCCCEEEEecCCC---cc--ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHH
Confidence 33333 33 4899987532211 11 1234456677777788888766521 34699997432 34556678
Q ss_pred HHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCC
Q 004042 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGM 248 (777)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl 248 (777)
.+++.+++.|+.+... .... ....+-...++++.+. ++++| +++...+..+++++++.|+
T Consensus 146 Gf~~al~~~g~~~~~~--~~~~--~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~ 207 (295)
T TIGR02955 146 GFRAALEGSDVEISAI--LWAD--NDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM 207 (295)
T ss_pred HHHHHHhcCCcEEEEE--ecCC--CcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc
Confidence 8999999888876532 2111 1233334455555433 45754 4555667778889888876
No 188
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=97.29 E-value=0.0024 Score=67.31 Aligned_cols=70 Identities=24% Similarity=0.364 Sum_probs=50.3
Q ss_pred CCCChhhhhhCCCCeEEeeCchHHHHHHhh---hccccccc-cccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhC
Q 004042 681 PINGIESLRKSDDPIGYQEGSFAEYYLSQE---LNISKSRL-VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSS 756 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~~~~~~~~~~~~~---~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~ 756 (777)
+|++++||. |++|++..++..+.++.+. .+.+...+ ..+.+..+...+|.+ |++||++...+......++
T Consensus 120 ~i~s~~dL~--Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~~~~~~~al~~----G~vDa~~~~ep~~~~~~~~ 193 (314)
T PRK11553 120 PIKTVADLK--GHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLTPADARAAFQQ----GNVDAWAIWDPYYSAALLQ 193 (314)
T ss_pred CCCCHHHhC--CCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecChHHHHHHHHc----CCCCEEEEcCcHHHHHHhc
Confidence 788999999 9999998888776665331 22222222 234567788999999 9999999887777665554
No 189
>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=0.069 Score=54.88 Aligned_cols=210 Identities=11% Similarity=0.027 Sum_probs=115.9
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~ 110 (777)
+||++.|.. ..+-.....+++-+.++.+-. ...+..... ...++..-.+....+.. +++++|= +.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~-----~~~~~~~~~-~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA-----RIRVRIHFV-ESFDPAALAAALLRLGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc-----CceEEEEEc-cCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHH
Confidence 589998864 333334556666555554321 223333322 23445444455555666 7876653 43333323
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc-C--CcEEEEEEEeC--ccccchHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-G--WNAVSVIFVDN--EYGRNGVSALN 185 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-~--w~~vaii~~~~--~~g~~~~~~~~ 185 (777)
.....+...++|+|.+....+ +. ..+..+..+....+...++++.+. | -++++++.... .......+.|+
T Consensus 74 ~~i~~~~~~~ipvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 74 AAVARLAAAGVPVVTLVSDLP---GS--PRAGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHHHCCCcEEEEeCCCC---CC--ceeeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 334555568999998653221 11 112335566666777777776654 4 46999987533 23345567888
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhc--CCCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
+.+++.+..+......... .+..+....++++.+ .++++|+...+. +..+++++++.|+. .+...++.+
T Consensus 149 ~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~-~di~Ivg~d 219 (275)
T cd06307 149 SVLREEFPGLRVLETLEGL--DDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA-GKVVFVGHE 219 (275)
T ss_pred HHHHhhCCCcEEEeeccCC--CChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC-CCcEEEEec
Confidence 8988877544332222211 123334445555533 356777776554 35789999999975 344444433
No 190
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=97.27 E-value=0.023 Score=57.97 Aligned_cols=195 Identities=13% Similarity=0.040 Sum_probs=113.0
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++.|.. ..+-.....+++.+.++ .|+++.+ .++..++.+-.+....+...++.++|--......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~-- 68 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYK--------KGYKLIL--CNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLGI-- 68 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHH--------CCCeEEE--ecCCccHHHHHHHHHHHHHcCCCEEEEecCCcCH--
Confidence 378888853 33333444555444433 2555543 4555556555556666777777766642222221
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC---ccccchHHHHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSALNDKL 188 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~---~~g~~~~~~~~~~~ 188 (777)
..+...++|+|......+ ...+ ...++....+..+++++...|.++++++.... .......+.|.+.+
T Consensus 69 --~~~~~~gipvv~~~~~~~----~~~~---~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 139 (265)
T cd06291 69 --EEYENIDLPIVSFDRYLS----ENIP---IVSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDVL 139 (265)
T ss_pred --HHHhcCCCCEEEEeCCCC----CCCC---eEeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHHH
Confidence 233567999998765432 1122 34566677788888888888999999996432 33455677899999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~ 252 (777)
++.|+.+.... .... .+..+....+.++.+. .+++|+.. +...+..+++++++.|+..++
T Consensus 140 ~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~~~~~al~~~g~~vp~ 201 (265)
T cd06291 140 KENGLEVRIIE-IQEN--FDDAEKKEEIKELLEEYPDIDGIFAS-NDLTAILVLKEAQQRGIRVPE 201 (265)
T ss_pred HHcCCCCChhe-eecc--ccchHHHHHHHHHHhCCCCCCEEEEC-ChHHHHHHHHHHHHcCCCCCc
Confidence 88887643211 1111 1122233445555433 34555543 444567788999998876443
No 191
>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=97.27 E-value=0.018 Score=59.14 Aligned_cols=206 Identities=16% Similarity=0.113 Sum_probs=120.4
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChh---
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST--- 107 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~--- 107 (777)
.||++.|.. +.+-.....+++ +.-++ .|+.+. +.++..++....+....++..+|+++|- |..+.
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~----~~~~~----~g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (273)
T cd01541 1 NIGVITTYISDYIFPSIIRGIE----SVLSE----KGYSLL--LASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPN 70 (273)
T ss_pred CeEEEeCCccchhHHHHHHHHH----HHHHH----cCCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecccccccc
Confidence 378888754 322223344444 33333 255553 4556667777777888888888888763 32221
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC-ccccchHHHHHH
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALND 186 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~-~~g~~~~~~~~~ 186 (777)
........+...++|+|......+. +.+..+..++...+..+++++...|.++++++...+ ..+....+.+.+
T Consensus 71 ~~~~~~~~~~~~~ipvV~~~~~~~~------~~~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~ 144 (273)
T cd01541 71 PNIDLYLKLEKLGIPYVFINASYEE------LNFPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIK 144 (273)
T ss_pred ccHHHHHHHHHCCCCEEEEecCCCC------CCCCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHH
Confidence 1112233456678999987543211 112345677777888899998888999999886432 234455677888
Q ss_pred HHhhcceEEEEe--eecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 187 KLAERRCRISYK--SGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 187 ~~~~~g~~v~~~--~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
.+++.|..+... ...... .........++++.+. .+++|+. .+...+.-+++++++.|+..++-+-+.
T Consensus 145 ~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~av~~-~~d~~a~g~~~al~~~g~~~p~dv~vv 216 (273)
T cd01541 145 AYREHGIPFNPSNVITYTTE--EKEEKLFEKIKEILKRPERPTAIVC-YNDEIALRVIDLLKELGLKIPEDISVV 216 (273)
T ss_pred HHHHcCCCCChHHEEecccc--chhhHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 888888643211 111111 1113344555565443 4566544 455566678999999998655444433
No 192
>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=97.26 E-value=0.027 Score=57.80 Aligned_cols=201 Identities=8% Similarity=-0.017 Sum_probs=115.4
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHH-HHhcCcEEEEcCCChhHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALR-FMETDIVAIIGPQCSTVAH 110 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~-l~~~~v~aviGp~~s~~~~ 110 (777)
.||++.|.. .++-.....+++.+.++ .|+.+.+...+. + ....+...+ +...+|++||=-..... .
T Consensus 1 ~Igvi~p~~~~~~~~~~~~~i~~~~~~--------~gy~~~~~~~~~--~-~~~~~~~~~~l~~~~vdgvi~~~~~~~-~ 68 (269)
T cd06297 1 TISVLLPVVATEFYRRLLEGIEGALLE--------QRYDLALFPLLS--L-ARLKRYLESTTLAYLTDGLLLASYDLT-E 68 (269)
T ss_pred CEEEEeCCCcChhHHHHHHHHHHHHHH--------CCCEEEEEeCCC--c-HHHHHHHHHHHHhcCCCEEEEecCccC-h
Confidence 378898865 33333445555555544 256666654442 2 222233333 45556776664322222 2
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--c------cccchHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--E------YGRNGVS 182 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~------~g~~~~~ 182 (777)
.....+...++|+|......+ ..++ ..++...-+...+++|... .++++++.... . ......+
T Consensus 69 ~~~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~ 139 (269)
T cd06297 69 RLAERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRA 139 (269)
T ss_pred HHHHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHH
Confidence 344455678999998754321 1222 3467777888888887766 79999886432 2 3456678
Q ss_pred HHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
.|++.+++.|+++.....+... .+..+....+.++.+. .+++|+.. +...+..+++++++.|+..++-+-+.
T Consensus 140 gf~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vP~di~vv 213 (269)
T cd06297 140 GFQQALKDAGRPFSPDLLAITD--HSEEGGRLAMRHLLEKASPPLAVFAS-ADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHHcCCCCChhhEEeCC--CChhhHHHHHHHHHcCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8999999988765322111111 1233444566665443 34555544 55567778999999998655444333
No 193
>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=97.25 E-value=0.042 Score=58.18 Aligned_cols=205 Identities=9% Similarity=0.014 Sum_probs=119.1
Q ss_pred eEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhH
Q 004042 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTV 108 (777)
Q Consensus 31 ~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~ 108 (777)
.-.||+++|.. ..+-.....+++-+.++ .|+.+.+. +...++..-.+....+..++++++|- |.....
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~ 129 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCRE--------AGYQLLIA--CSDDNPDQEKVVIENLLARQVDALIVASCMPPE 129 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEeCCCCCC
Confidence 46899999853 33333444555444433 26666544 33445555555566677778887664 332212
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALND 186 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~ 186 (777)
... ...+...++|++......+ +...+ ...+++..-+..++++|...|.++|+++.... ....+..+.+++
T Consensus 130 ~~~-~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~ 202 (327)
T TIGR02417 130 DAY-YQKLQNEGLPVVALDRSLD---DEHFC---SVISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFRQ 202 (327)
T ss_pred hHH-HHHHHhcCCCEEEEccccC---CCCCC---EEEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHHH
Confidence 222 3344567899998754322 11122 24556676777788888888999999997433 234556788899
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC---CCeEEEEecChhHHHHHHHHHHHcCCCCCC-eEEEEe
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIAT 258 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~-~~~i~~ 258 (777)
.+++.|+..... +... ....+-...+.++.+. .+++|+.. +...+..+++++++.| ..|+ ...++.
T Consensus 203 al~~~~~~~~~~--~~~~--~~~~~~~~~~~~ll~~~~~~~~Ai~~~-~D~~A~g~~~al~~~g-~vP~dvsvigf 272 (327)
T TIGR02417 203 ALKQATLEVEWV--YGGN--YSRESGYQMFAKLCARLGRLPQALFTT-SYTLLEGVLDYMLERP-LLDSQLHLATF 272 (327)
T ss_pred HHHHcCCChHhE--EeCC--CChHHHHHHHHHHHhcCCCCCcEEEEc-CcHHHHHHHHHHHHcC-CCCCcceEEEE
Confidence 999888753211 1111 1123334455555433 36766654 4455677899999999 5553 444443
No 194
>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=97.23 E-value=0.029 Score=57.22 Aligned_cols=200 Identities=11% Similarity=0.083 Sum_probs=116.4
Q ss_pred EEEEEeeCCC-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
.||+++|... .+-.....+++.+.++ .|+++.+. +...++..-......+...+++++|=-.+.....
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 4899998763 2333455666665554 25666543 4444555444455566666676555422221111
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC-ccccchHHHHHHHHhh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKLAE 190 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~-~~g~~~~~~~~~~~~~ 190 (777)
.. .....++|+|......+ ...+++ ...+....+..+++++...|-++++++.... .........+++.+++
T Consensus 70 ~~-~~~~~~iPvV~~~~~~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~~ 142 (263)
T cd06280 70 RL-AELRLSFPVVLIDRAGP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMRR 142 (263)
T ss_pred HH-HHHhcCCCEEEECCCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence 12 23456899998754432 122333 3456777788888988888999999987432 2334556788889988
Q ss_pred cceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004042 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (777)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i 256 (777)
.|+..... ..... ..+....+.++... .+++|+ +.+...+..+++.+++.|+..++-+.+
T Consensus 143 ~~~~~~~~-~~~~~----~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~~p~di~i 204 (263)
T cd06280 143 HGLAPDAR-FVAPT----AEAAEAALAAWLAAPERPEALV-ASNGLLLLGALRAVRAAGLRIPQDLAL 204 (263)
T ss_pred cCCCCChh-hcccC----HHHHHHHHHHHhcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCcEEE
Confidence 88764321 11111 33333445554433 456554 455566777999999999865543433
No 195
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=97.23 E-value=0.024 Score=57.77 Aligned_cols=199 Identities=10% Similarity=-0.031 Sum_probs=108.8
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
|||+++|... ....+...+..++++.-++ .|+.+.+ .++. ++....+....+...++++||-.... ....+
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~----~gy~~~~--~~~~-~~~~~~~~~~~l~~~~vdgiii~~~~-~~~~~ 71 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKE----LGVEVKY--VESV-EDADYEPNLRQLAAQGYDLIFGVGFG-FMDAV 71 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHh----cCceEEE--EecC-CHHHHHHHHHHHHHcCCCEEEECCcc-hhHHH
Confidence 6899998521 1123444444455554333 2555444 3444 55554556666777788877653222 22344
Q ss_pred HHhhcc-CCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc-CCcEEEEEEEeC-ccccchHHHHHHHHh
Q 004042 113 SYVSNE-LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GWNAVSVIFVDN-EYGRNGVSALNDKLA 189 (777)
Q Consensus 113 a~~~~~-~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~-~w~~vaii~~~~-~~g~~~~~~~~~~~~ 189 (777)
...... .++|++......+. .. .+-....++..-++..+.++..+ |-+++++|..+. .......+.|.+.++
T Consensus 72 ~~~~~~~~~ipvv~~~~~~~~--~~---~~~~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~ 146 (260)
T cd06304 72 EKVAKEYPDVKFAIIDGVVDA--PP---NVASYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAK 146 (260)
T ss_pred HHHHHHCCCCEEEEecCccCC--CC---CeeeeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHH
Confidence 455543 37898876543211 01 11223344444455555556555 889999997432 233445678888998
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcC
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~g 247 (777)
+.|..+.......... .+..+....++++.+..+++| ++.+...+..++++++++|
T Consensus 147 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 147 SVNPDITVLVIYTGSF-FDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HhCCCcEEEEEEecCc-cCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 8886543221111110 112334455666655567876 4555566667889999888
No 196
>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=97.23 E-value=0.022 Score=58.02 Aligned_cols=195 Identities=16% Similarity=0.107 Sum_probs=111.9
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 33 ~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
+||++.|.. ..+-.....+++.+.++ .|+.+.+...+ +.. +....+..++++++|-..+......
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 478999865 33333445555555543 25666665443 222 2334456667776663322222222
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc--cccchHHHHHHHHh
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 189 (777)
...+...++|+|......+ ..++ .+..++...+..+++++...|-++|+++..... ........+++.++
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 2344578899998654322 1122 245667777888889888889999999974332 33445678888998
Q ss_pred hcceEEEEeeecCCCCCCChhhHHHHHHHHhcCC--CeEEEEecChhHHHHHHHHHHHcCCCCCC
Q 004042 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIvl~~~~~~~~~~l~~a~~~gl~~~~ 252 (777)
+.|+.+......... .+.......+.++.+.. +++|+ +++...+..+++++++.|+..++
T Consensus 139 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~vp~ 200 (261)
T cd06272 139 ENGISISDSHIDVDG--LSAEGGDNAAKKLLKESDLPTAII-CGSYDIALGVLSALNKQGISIPE 200 (261)
T ss_pred HcCCCCCHHHeeeCC--CCHHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHhCCCCCC
Confidence 888643221111111 11233445555654443 55544 44555567788999999986544
No 197
>PRK09526 lacI lac repressor; Reviewed
Probab=97.22 E-value=0.061 Score=57.33 Aligned_cols=200 Identities=11% Similarity=0.072 Sum_probs=115.6
Q ss_pred eEEEEEEeeCCC-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc--CCChh
Q 004042 31 VVNVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG--PQCST 107 (777)
Q Consensus 31 ~i~IG~l~~~s~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG--p~~s~ 107 (777)
+-.||+++|... .+-.....+++.+.++ .|+.+.+...+.. ++..-.+....+.+++++++|- |..+.
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 457999998642 2223445555554443 2676666533322 2333334556677778887764 33322
Q ss_pred HHHHHHHhh-ccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHH
Q 004042 108 VAHIVSYVS-NELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSAL 184 (777)
Q Consensus 108 ~~~~va~~~-~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~ 184 (777)
. +..+. ...++|++..... + +.. +.....++..-+..++++|...|.++|+++.... .......+.|
T Consensus 134 ~---~~~~~~~~~~iPvV~~d~~-~---~~~---~~~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf 203 (342)
T PRK09526 134 D---AEKIVADCADVPCLFLDVS-P---QSP---VNSVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAGW 203 (342)
T ss_pred h---HHHHHhhcCCCCEEEEecc-C---CCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHHH
Confidence 2 22222 2358999976532 1 111 2235567777778888988888999999997432 2334567789
Q ss_pred HHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004042 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (777)
Q Consensus 185 ~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~ 254 (777)
++.+++.|+.+..... .. ....+-...+.++.+. .+++|+. .+...+..+++++++.|+..|+-+
T Consensus 204 ~~al~~~gi~~~~~~~--~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~al~~~g~~vP~di 270 (342)
T PRK09526 204 LEYLTDYQLQPIAVRE--GD--WSAMSGYQQTLQMLREGPVPSAILV-ANDQMALGVLRALHESGLRVPGQI 270 (342)
T ss_pred HHHHHHcCCCcceEEe--CC--CchHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCCCce
Confidence 9999998886432211 11 1122233344555433 4565554 455667779999999998665433
No 198
>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=97.18 E-value=0.047 Score=55.88 Aligned_cols=197 Identities=12% Similarity=0.045 Sum_probs=110.6
Q ss_pred EEEEeeCC----CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 004042 34 VGALFTLD----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (777)
Q Consensus 34 IG~l~~~s----~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~ 109 (777)
||++.|.. ..+-.....+++-+.++ .|+++.+...|.. ...-......+.+.++++||-......
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~- 70 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKK--------YGYNLILKFVSDE--DEEEFELPSFLEDGKVDGIILLGGIST- 70 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHH--------cCCEEEEEeCCCC--hHHHHHHHHHHHHCCCCEEEEeCCCCh-
Confidence 78899872 33323444555444443 2677776665533 222222333456678888775332222
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc--cccchHHHHHHH
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDK 187 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~ 187 (777)
.....+...++|+|......+ +...++ ...+....++.+++++.+.|.++++++..... ......+.|.+.
T Consensus 71 -~~~~~l~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~ 143 (268)
T cd06277 71 -EYIKEIKELGIPFVLVDHYIP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKKA 143 (268)
T ss_pred -HHHHHHhhcCCCEEEEccCCC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHHH
Confidence 224456677999998754322 111222 44566666777778887789999999975433 234566788999
Q ss_pred HhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCCCCC
Q 004042 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (777)
Q Consensus 188 ~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~ 251 (777)
+++.|+++......... ......+...++++. ..+++|+.. +...+..+++++++.|+..+
T Consensus 144 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~-~~~~ai~~~-~d~~a~g~~~a~~~~g~~~p 204 (268)
T cd06277 144 LLDHGIPFNEDYDITEK-EEDEEDIGKFIDELK-PLPTAFFCS-NDGVAFLLIKVLKEMGIRVP 204 (268)
T ss_pred HHHcCCCCCcceEEEcc-hhHHHHHHHHHhcCC-CCCCEEEEC-CcHHHHHHHHHHHHcCCCCC
Confidence 98888764322111100 011233444443322 236655544 45556678888888888544
No 199
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.17 E-value=0.039 Score=58.94 Aligned_cols=204 Identities=11% Similarity=0.054 Sum_probs=114.5
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 004042 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (777)
Q Consensus 30 ~~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~ 108 (777)
.+-+||+++|.- ..+-.....+++.+.++ .|+.+ .+.+...++..-.+....++.++++++|--.....
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 356899999853 33323344445444443 24544 33444455555555566677778877664222111
Q ss_pred HHHHHHhhccCCce-EEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHH
Q 004042 109 AHIVSYVSNELQVP-LLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (777)
Q Consensus 109 ~~~va~~~~~~~iP-~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~ 185 (777)
...+..+.. ++| ++......+ +...+ ...+++..-+..++++|...|.++|++|.... ....+..+.|+
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~---~~~~~---~V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (343)
T PRK10727 128 DAELASLMK--QIPGMVLINRILP---GFENR---CIALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYY 199 (343)
T ss_pred hHHHHHHHh--cCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHH
Confidence 222333333 577 666543211 11112 24556677777788888888999999997433 23456678899
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~ 254 (777)
+.+++.|+.+......... .....-...++++.+. .+++|+. .+...+..++++++++|+..|+-+
T Consensus 200 ~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nD~~A~g~~~al~~~G~~vP~di 267 (343)
T PRK10727 200 DALAESGIPANDRLVTFGE--PDESGGEQAMTELLGRGRNFTAVAC-YNDSMAAGAMGVLNDNGIDVPGEI 267 (343)
T ss_pred HHHHHCCCCCChhhEEeCC--CChhHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcce
Confidence 9999998764321111111 1122223345555433 3566554 455667789999999998655433
No 200
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=97.15 E-value=0.0019 Score=67.62 Aligned_cols=70 Identities=19% Similarity=0.160 Sum_probs=48.9
Q ss_pred CCCChhhhhhCCCCeEEeeCchHHHHHHh---hhccccccccc-cCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhC
Q 004042 681 PINGIESLRKSDDPIGYQEGSFAEYYLSQ---ELNISKSRLVA-LRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSS 756 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~~~~~~~~~~~~---~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~ 756 (777)
.|++++||+ |++||+..++..+.++.. ..+.....+.. .-+..++..++.+ |++||.+...+......+.
T Consensus 91 ~I~s~~DLk--GK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~----G~vDa~~~~~p~~~~~~~~ 164 (300)
T TIGR01729 91 GIEKPEDLK--GKNVAVPFVSTTHYSLLAALKHWKTDPREVNILNLKPPQIVAAWQR----GDIDAAYVWPPALSELLKS 164 (300)
T ss_pred CCCChhHcC--CCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEecCcHHHHHHHHc----CCcCEEEEecHHHHHHHhc
Confidence 799999999 999999887765544322 22332222211 2356789999999 9999999998877665544
No 201
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.15 E-value=0.03 Score=57.24 Aligned_cols=203 Identities=12% Similarity=0.053 Sum_probs=115.7
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
+||++.|.+..+......+++-+.++. + |+.+-+. +. +. .+....+...+|+++|-...+. ..
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~----g~~~~~~--~~--~~---~~~~~~l~~~~vdGiI~~~~~~---~~ 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---G----PWSIYLE--PR--GL---QEPLRWLKDWQGDGIIARIDDP---EM 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---C----CeEEEEe--cc--cc---hhhhhhccccccceEEEECCCH---HH
Confidence 489999966544445556666555553 2 4555442 21 11 3334445556888777533222 22
Q ss_pred HHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc-cccchHHHHHHHHhhc
Q 004042 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALNDKLAER 191 (777)
Q Consensus 113 a~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~-~g~~~~~~~~~~~~~~ 191 (777)
...+...++|+|......+. +.+-++..++...+..+++++...|-++++++..... ......+.+++.+++.
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 2234566778888888889888889999999864332 2334567889999998
Q ss_pred ceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCC-CeEEEEeC
Q 004042 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGN-GYVWIATD 259 (777)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~-~~~~i~~~ 259 (777)
|+.+............+..+....+.++.++ .+++|+. .+...+..+++++++.|+..+ +...++-+
T Consensus 138 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 138 GYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGIFA-CTDARARQLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred CCccccccCccccccccHHHHHHHHHHHHhcCCCCcEEEe-cChHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 8765211111000001112233445554333 3565444 455667778889998888533 44455443
No 202
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.09 E-value=0.047 Score=56.47 Aligned_cols=201 Identities=13% Similarity=0.077 Sum_probs=115.6
Q ss_pred EEEEeeCC------CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChh
Q 004042 34 VGALFTLD------STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST 107 (777)
Q Consensus 34 IG~l~~~s------~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~ 107 (777)
||++.|.. .++-.....+++.+.++ .|+.+.+...+. . .+....+...++.++|--.+..
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 88999863 23323445555544443 256666554332 1 1233455666888777633322
Q ss_pred HHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC-------------
Q 004042 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN------------- 174 (777)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~------------- 174 (777)
.. .....+...++|++......+ +.+-....+....+...+++|...|-++++++..+.
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 334445678999998754321 122345667788888899998889999999996431
Q ss_pred ------ccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHc
Q 004042 175 ------EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYL 246 (777)
Q Consensus 175 ------~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~ 246 (777)
.......+.+.+.+++.|++......+.... .+..+....++++.++ .+++|+ +++...+..+++++++.
T Consensus 140 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~gv~~al~~~ 217 (283)
T cd06279 140 LASATFSVARERLEGYLEALEEAGIDISDVPIWEIPE-NDRASGEEAARELLDASPRPTAIL-CMSDVLALGALQVAREL 217 (283)
T ss_pred ccccccccHHHHHHHHHHHHHHcCCCCChheEEecCC-CchHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHc
Confidence 1233456778888888885432111111110 1234445556666443 345544 44555667789999999
Q ss_pred CCCCCC-eEEEEe
Q 004042 247 GMMGNG-YVWIAT 258 (777)
Q Consensus 247 gl~~~~-~~~i~~ 258 (777)
|+..++ ...++.
T Consensus 218 g~~ip~di~vig~ 230 (283)
T cd06279 218 GLRVPEDLSVVGF 230 (283)
T ss_pred CCCCCCceEEeee
Confidence 986443 334443
No 203
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=97.07 E-value=0.0018 Score=65.70 Aligned_cols=73 Identities=21% Similarity=0.272 Sum_probs=48.1
Q ss_pred CCCChhhhhh-----CCCCeEE-eeCchHHHHHH---hhhcccc---ccccccCCHHHHHHHHhcCCCCCCceEEEecch
Q 004042 681 PINGIESLRK-----SDDPIGY-QEGSFAEYYLS---QELNISK---SRLVALRTPEDYAKALKDGPGKGGVAAVVDERP 748 (777)
Q Consensus 681 ~i~s~~dl~~-----~~~~i~~-~~~~~~~~~~~---~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~ 748 (777)
.+++++||.+ .|++|++ ..++..+..++ +..+.++ .++..+.. .+...++++ |++|+++...|
T Consensus 105 ~~~~~~dl~~~~~~~kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~----g~iDa~~~~eP 179 (252)
T PF13379_consen 105 DIKSLADLIKKRKAQKGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRA----GEIDAAVLWEP 179 (252)
T ss_dssp TTCCGHHHHHTCCSCSTEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHT----TS-SEEEEETT
T ss_pred CccCHHHHHhhhcccCCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhC----CCcCEEEecCC
Confidence 7899999921 2889999 45665544443 2334433 23433444 899999999 99999999999
Q ss_pred hhHHHhhCCC
Q 004042 749 YVELFLSSQC 758 (777)
Q Consensus 749 ~~~~~~~~~~ 758 (777)
......++.-
T Consensus 180 ~~~~~~~~g~ 189 (252)
T PF13379_consen 180 FASQAEAKGI 189 (252)
T ss_dssp HHHHHHHTTS
T ss_pred HHHHHHhccC
Confidence 8877776543
No 204
>PRK09492 treR trehalose repressor; Provisional
Probab=97.07 E-value=0.062 Score=56.51 Aligned_cols=191 Identities=13% Similarity=0.024 Sum_probs=114.1
Q ss_pred eEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 004042 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (777)
Q Consensus 31 ~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~ 109 (777)
.-+||++.|.- ..+-.....++. +++++. |+.+ .+.++..++....+....+..++++++|--..+...
T Consensus 62 ~~~Ig~i~~~~~~~~~~~~~~~i~---~~~~~~-----gy~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~ 131 (315)
T PRK09492 62 DKVVGIIVSRLDSLSENQAVRTML---PAFYEQ-----GYDP--IIMESQFSPEKVNEHLGVLKRRNVDGVILFGFTGIT 131 (315)
T ss_pred CCeEEEEecCCcCcccHHHHHHHH---HHHHHc-----CCeE--EEEecCCChHHHHHHHHHHHhcCCCEEEEeCCCccc
Confidence 45799999853 332223344443 444442 5554 445556666665555666667788877753222111
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEe-C--ccccchHHHHHH
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-N--EYGRNGVSALND 186 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~-~--~~g~~~~~~~~~ 186 (777)
.......++|++...... +.+-...+++..-+..++++|...|-++|+++... . ..+....+.|++
T Consensus 132 ---~~~l~~~~~pvv~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf~~ 200 (315)
T PRK09492 132 ---EEMLAPWQDKLVLLARDA--------KGFSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAYLA 200 (315)
T ss_pred ---HHHHHhcCCCEEEEeccC--------CCCcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHHHH
Confidence 122334567877654321 11234556677777888888888899999999632 2 234567788999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCC
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl 248 (777)
.+++.|+.+... .. . .+.......++++.+.++++|+... ...+..+++++++.|+
T Consensus 201 al~~~g~~~~~~--~~-~--~~~~~~~~~~~~~l~~~~~ai~~~~-D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 201 FCKQHKLTPVAA--LG-G--LSMQSGYELVAKVLTPETTALVCAT-DTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHcCCCceee--cC-C--CCchHHHHHHHHHhhcCCCEEEEcC-cHHHHHHHHHHHHcCC
Confidence 999999875421 11 1 1122333345555445688776544 5667778999999997
No 205
>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=96.94 E-value=0.0068 Score=64.02 Aligned_cols=59 Identities=22% Similarity=0.214 Sum_probs=41.2
Q ss_pred CCCChhhhhhCCCCeEEeeC-chHH----HHHHhhhcccccc--ccccCCHHHHHHHHhcCCCCCCceEEEec
Q 004042 681 PINGIESLRKSDDPIGYQEG-SFAE----YYLSQELNISKSR--LVALRTPEDYAKALKDGPGKGGVAAVVDE 746 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~~~-~~~~----~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~a~i~~ 746 (777)
++++++||. ++++++... +..+ .++ +..+..... ...+.+..+++.+|.+ |++|+++.+
T Consensus 132 ~i~sl~dL~--gk~v~~~~~~s~~~~~~~~~l-~~~G~~~~~~~~v~~~~~~~~~~al~~----G~vDa~~~~ 197 (320)
T TIGR02122 132 GIKTVADLK--GKRVAVGAPGSGTELNARAVL-KAAGLTYDDVKKVEYLGYAEAADALKD----GKIDAAFYT 197 (320)
T ss_pred CCCcHHHcC--CCEEecCCCCcchHHHHHHHH-HHcCCCHHHccchhcCCHHHHHHHHHC----CCccEEEEe
Confidence 788999999 888887643 3332 233 223333222 3456788899999999 999999988
No 206
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.90 E-value=0.12 Score=54.76 Aligned_cols=205 Identities=8% Similarity=0.003 Sum_probs=117.4
Q ss_pred eEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 004042 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (777)
Q Consensus 31 ~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~ 109 (777)
+-.||++.|.- .++-.....+++.+.++ .|+++.+ .+...++..-.+....+.+++++++|-......
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~- 131 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDA--------HGYQTML--AHYGYKPEMEQERLESMLSWNIDGLILTERTHT- 131 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHH--------CCCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCC-
Confidence 45799999853 33333445555555443 2565544 344445544444555667778887774222212
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC-ccccchHHHHHHHH
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKL 188 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~-~~g~~~~~~~~~~~ 188 (777)
......+...++|+|...... .+. .. ....++...-+..++++|...|.++|+++.... .......+.|++.+
T Consensus 132 ~~~~~~l~~~~iPvV~~~~~~---~~~-~~--~~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~al 205 (331)
T PRK14987 132 PRTLKMIEVAGIPVVELMDSQ---SPC-LD--IAVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERTIIKQKGYEQAM 205 (331)
T ss_pred HHHHHHHHhCCCCEEEEecCC---CCC-CC--ceEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccHHHHHHHHHHHH
Confidence 223344567799999753211 111 11 135677777788888998889999999996432 22334567889999
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEE
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i 256 (777)
++.|+.... ..+... ....+-...++++.+. .+++|+. .+...+.-+++++++.|+..|+-+-+
T Consensus 206 ~~~g~~~~~-~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nD~~A~g~~~al~~~g~~vP~disv 271 (331)
T PRK14987 206 LDAGLVPYS-VMVEQS--SSYSSGIELIRQARREYPQLDGVFC-TNDDLAVGAAFECQRLGLKVPDDMAI 271 (331)
T ss_pred HHcCCCccc-eeecCC--CChhhHHHHHHHHHhcCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCccEE
Confidence 998863211 111111 1122223345555433 4566654 45556777899999999876654433
No 207
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.85 E-value=0.12 Score=55.14 Aligned_cols=203 Identities=8% Similarity=-0.043 Sum_probs=113.8
Q ss_pred eEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 004042 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (777)
Q Consensus 31 ~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~ 109 (777)
.-.||+++|.. ..+-.....+++.+.++. |+.+- +.+...++..-.+....+.+++++++|--......
T Consensus 59 ~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~--------gy~~~--~~~~~~~~~~~~~~i~~l~~~~vdGiIi~~~~~~~ 128 (346)
T PRK10401 59 SDTIGVVVMDVSDAFFGALVKAVDLVAQQH--------QKYVL--IGNSYHEAEKERHAIEVLIRQRCNALIVHSKALSD 128 (346)
T ss_pred CCEEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEcCCCChHHHHHHHHHHHhcCCCEEEEeCCCCCh
Confidence 45799999864 333334455555544432 45443 34444455554555666667777766642211112
Q ss_pred HHHHHhhccCCce-EEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC--ccccchHHHHHH
Q 004042 110 HIVSYVSNELQVP-LLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALND 186 (777)
Q Consensus 110 ~~va~~~~~~~iP-~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~ 186 (777)
..+..+.. ++| ++......+ +...+ ....++..-+...+++|...|-+++++|.... ....+..+.|++
T Consensus 129 ~~~~~~~~--~~p~vV~i~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~ 200 (346)
T PRK10401 129 DELAQFMD--QIPGMVLINRVVP---GYAHR---CVCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWMS 200 (346)
T ss_pred HHHHHHHh--cCCCEEEEecccC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHHH
Confidence 22333333 355 665443221 11122 24456666777888888888999999996432 334567788999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeE
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~ 254 (777)
.+++.|+.+......... .....-...+.++.+. .+++|+. .+...+..+++++++.|+..|+-+
T Consensus 201 al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~A~g~~~al~~~G~~vP~di 267 (346)
T PRK10401 201 ALKEQGIIPPESWIGTGT--PDMQGGEAAMVELLGRNLQLTAVFA-YNDNMAAGALTALKDNGIAIPLHL 267 (346)
T ss_pred HHHHcCCCCChhheecCC--CChHHHHHHHHHHHcCCCCCcEEEE-CCcHHHHHHHHHHHHcCCCCCCce
Confidence 999998764321111111 1122223445555433 4676664 456667779999999998765433
No 208
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.72 E-value=0.19 Score=52.66 Aligned_cols=208 Identities=10% Similarity=-0.003 Sum_probs=118.1
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 004042 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (777)
Q Consensus 30 ~~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~ 108 (777)
.+-+||++.|.. ..+-..+..+++.+.++. |+.+.+ .+...+...-.+....+...++++||=-.....
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 346899999864 444445566666666553 455544 344445544445566677778887764222111
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc--cccchHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALND 186 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~ 186 (777)
..... .......|++......+. ...+ ....+....+...++++.+.|-+++++|..... ......+.|++
T Consensus 104 ~~~~~-~~~~~~~pvv~~~~~~~~---~~~~---~V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~~ 176 (309)
T PRK11041 104 FDASK-EEQRNLPPMVMANEFAPE---LELP---TVHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYVQ 176 (309)
T ss_pred hHHHH-HHHhcCCCEEEEccccCC---CCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHHH
Confidence 11111 122223467664432211 1122 345677778888888888889999999974322 33456788999
Q ss_pred HHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 187 ~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
.+++.|+++......... .........+.++.+. .+++|+. ++...+..+++++++.|+..++-+.+.
T Consensus 177 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vv 246 (309)
T PRK11041 177 ALRRCGITVDPQYIARGD--FTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSII 246 (309)
T ss_pred HHHHcCCCCCHHHeEeCC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 999888765322111111 1233444566666543 3677665 455556678899999998644434443
No 209
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=96.64 E-value=0.1 Score=52.94 Aligned_cols=193 Identities=13% Similarity=0.008 Sum_probs=105.5
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
|||+++|-. .....+......+++++.++. |.++. +.+...++....+...+++++++.+||+ .+.....++
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~~----gv~~~--~~e~~~~~~~~~~~i~~~~~~g~dlIi~-~g~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKAL----GVEVT--YVENVPEGADAERVLRELAAQGYDLIFG-TSFGFMDAA 72 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHhc----CCeEE--EEecCCchHhHHHHHHHHHHcCCCEEEE-CchhhhHHH
Confidence 578888743 112234444455555655542 44444 4455546777788888899999999998 344444555
Q ss_pred HHhhccC-CceEEecccCCCCCCCCCCCceEEecCCch---HHHHHHHHHHHhcCCcEEEEEEEeC-ccccchHHHHHHH
Q 004042 113 SYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDS---YQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDK 187 (777)
Q Consensus 113 a~~~~~~-~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~---~~~~a~~~~l~~~~w~~vaii~~~~-~~g~~~~~~~~~~ 187 (777)
..++..+ ++.++...... . .+++........ .++-.++..+.+ -.+|++|...+ +........|.+.
T Consensus 73 ~~vA~~~p~~~F~~~d~~~---~---~~Nv~~~~~~~~e~~ylaG~~Aa~~t~--t~kVG~I~g~~~~~~~~~~~gF~~G 144 (258)
T cd06353 73 LKVAKEYPDVKFEHCSGYK---T---APNVGSYFARIYEGRYLAGVVAGKMTK--TNKVGYVAAFPIPEVVRGINAFALG 144 (258)
T ss_pred HHHHHHCCCCEEEECCCCC---C---CCCeeeEechhhHHHHHHHHHHHHhhc--CCcEEEEcCcccHHHHHHHHHHHHH
Confidence 5555444 44444432211 1 134433333222 233334444443 35899997433 2333445667666
Q ss_pred Hhhc--ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcC
Q 004042 188 LAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (777)
Q Consensus 188 ~~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~g 247 (777)
++.. ++++... +... ..+...-....+.+.+.++|+|+..+.. .-+++++++.|
T Consensus 145 ~~~~~p~~~v~~~--~~g~-~~D~~~a~~~a~~l~~~G~DvI~~~~~~---~g~~~aa~~~g 200 (258)
T cd06353 145 ARSVNPDATVKVI--WTGS-WFDPAKEKEAALALIDQGADVIYQHTDS---PGVIQAAEEKG 200 (258)
T ss_pred HHHHCCCcEEEEE--EecC-CCCcHHHHHHHHHHHHCCCcEEEecCCC---hHHHHHHHHhC
Confidence 6543 3443322 2111 0123444666677778899988887722 35788888876
No 210
>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=96.61 E-value=0.32 Score=51.01 Aligned_cols=190 Identities=12% Similarity=-0.002 Sum_probs=109.7
Q ss_pred eEEEEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hH
Q 004042 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TV 108 (777)
Q Consensus 31 ~i~IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s-~~ 108 (777)
+-.||+++|.- ..+-.....++.-+ ..+ .|+.+-+ .++..++..-.+....+...+++++|--... ..
T Consensus 59 ~~~Ig~i~~~~~~~~~~~~~~~i~~~---~~~-----~gy~~~i--~~~~~~~~~~~~~~~~l~~~~vdGvIi~~~~~~~ 128 (311)
T TIGR02405 59 DKVVAVIVSRLDSPSENLAVSGMLPV---FYT-----AGYDPII--MESQFSPQLTNEHLSVLQKRNVDGVILFGFTGCD 128 (311)
T ss_pred CCEEEEEeCCcccccHHHHHHHHHHH---HHH-----CCCeEEE--ecCCCChHHHHHHHHHHHhcCCCEEEEeCCCCCC
Confidence 34799999853 22222233333333 332 2565544 3444555544444555666677776642111 11
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEE-e--CccccchHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFV-D--NEYGRNGVSALN 185 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~-~--~~~g~~~~~~~~ 185 (777)
.. .....++|++...... +.+-...+++..-+..++++|...|-++|++|.. . ...+....+.++
T Consensus 129 ~~----~l~~~~~p~V~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf~ 196 (311)
T TIGR02405 129 EE----ILESWNHKAVVIARDT--------GGFSSVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAYL 196 (311)
T ss_pred HH----HHHhcCCCEEEEecCC--------CCccEEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHHH
Confidence 11 2344677888765321 1122355677777888888988899999999963 2 224556778899
Q ss_pred HHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCC
Q 004042 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (777)
Q Consensus 186 ~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl 248 (777)
+.+++.|+.... .... .+..+....++++.+.++++|+ +++...+..+++++++.|+
T Consensus 197 ~a~~~~gi~~~~---~~~~--~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 197 AYCESANLEPIY---QTGQ--LSHESGYVLTDKVLKPETTALV-CATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHcCCCcee---eeCC--CCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHHHHHHHHHcCC
Confidence 999999986321 1111 1123333445554444677665 5566667778999999886
No 211
>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=96.58 E-value=0.18 Score=51.70 Aligned_cols=198 Identities=9% Similarity=0.025 Sum_probs=109.2
Q ss_pred EEEEEeeCCC--cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHH
Q 004042 33 NVGALFTLDS--TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVA 109 (777)
Q Consensus 33 ~IG~l~~~s~--~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~ 109 (777)
+||++.+.+. ..+......+...+++..++ .|+.+.+...+ .+. ....+++.++|- +..+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~----~g~~~~~~~~~--~~~--------~~~~~~vdgii~~~~~~~-- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQE----LGIELTKFFRD--DDL--------LEILEDVDGIIAIGKFSQ-- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHH----cCCEEEEEecc--chh--------HHhccCcCEEEEecCCCH--
Confidence 5899999552 22233444444444444443 25666655332 111 123456665542 22222
Q ss_pred HHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCc-------cccchHH
Q 004042 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-------YGRNGVS 182 (777)
Q Consensus 110 ~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~-------~g~~~~~ 182 (777)
.....+...++|++...... .+...+ .+..++...+..+++++.+.|-++++++..... ......+
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 33344556789999864422 122223 355677778888889888889999999975432 3345577
Q ss_pred HHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC----CCeEEEEecChhHHHHHHHHHHHcCCCCCC-eEEEE
Q 004042 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM----ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIA 257 (777)
Q Consensus 183 ~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~----~~~vIvl~~~~~~~~~~l~~a~~~gl~~~~-~~~i~ 257 (777)
.+++.+++.|.. .....+... .+..+....++++.+. .+++|+. ++...+..+++++++.|+..++ ...++
T Consensus 138 gf~~~~~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~di~v~g 213 (270)
T cd01544 138 AFREYMKEKGLY-DPELIYIGD--FTVESGYQLMKEALKSLGDNLPTAFFI-ASDPMAIGALRALQEAGIKVPEDVSVIS 213 (270)
T ss_pred HHHHHHHHcCCC-ChheEeeCC--CCHHHHHHHHHHHHhccCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 888888888741 111111111 1123333444444332 2565444 5666788889999999986554 33343
No 212
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=96.48 E-value=0.013 Score=57.79 Aligned_cols=61 Identities=28% Similarity=0.377 Sum_probs=40.6
Q ss_pred CCCChhhhhhCCCCeEEeeCchHHHHHHh---hhcccccccccc-CCHHHHHHHHhcCCCCCCceEEEecc
Q 004042 681 PINGIESLRKSDDPIGYQEGSFAEYYLSQ---ELNISKSRLVAL-RTPEDYAKALKDGPGKGGVAAVVDER 747 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~~~~~~~~~~~~---~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~a~i~~~ 747 (777)
.|++++||+ ||+||+..++..+.++.. ..+.+..++... .+..+...+|.+ |++||.+...
T Consensus 84 ~i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~----g~vDa~~~~~ 148 (216)
T PF09084_consen 84 GIKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLS----GQVDAAILWY 148 (216)
T ss_dssp S-SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHT----TSSSEEEEEE
T ss_pred CCCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhc----CCCCEEEEcc
Confidence 799999999 999999997765555432 233333333322 346677779999 9999999333
No 213
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=96.41 E-value=0.0095 Score=60.09 Aligned_cols=80 Identities=16% Similarity=0.242 Sum_probs=49.6
Q ss_pred CCCChhhhhhCCCCeEEeeCchHH-----H-HHHhhhccccc---cccccCCHHHHHHHHhcCCCCCCceEEEecchhhH
Q 004042 681 PINGIESLRKSDDPIGYQEGSFAE-----Y-YLSQELNISKS---RLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVE 751 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~~~~~~~-----~-~~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~ 751 (777)
+|++++||. |++|++...+... . +|.+..+.... +.+...+.++.+.+|.+ |++||.+......+
T Consensus 96 ~i~~l~dL~--Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~----G~~Da~~~~~~~~~ 169 (243)
T PF12974_consen 96 PITSLADLK--GKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLN----GKADAAAIPSDAFE 169 (243)
T ss_dssp S--SHHHHG--GSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHT----TSSSEEEEEHHHHH
T ss_pred CCCChhhcC--CCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHc----CCccEEEEechhHH
Confidence 799999999 9999997654322 2 22012233321 22234578889999999 99999999888887
Q ss_pred HHhhCC----CCeEEeccc
Q 004042 752 LFLSSQ----CSFRIVGQE 766 (777)
Q Consensus 752 ~~~~~~----~~l~~~~~~ 766 (777)
.+.... .+++++...
T Consensus 170 ~~~~~~~~~~~~~rvl~~s 188 (243)
T PF12974_consen 170 RLEAEGPDIPSQLRVLWTS 188 (243)
T ss_dssp HHHHH-HHHHTTEEEEEEE
T ss_pred HHHHccCcccccEEEEEEe
Confidence 776542 367777643
No 214
>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=96.37 E-value=0.56 Score=48.96 Aligned_cols=171 Identities=8% Similarity=-0.020 Sum_probs=100.4
Q ss_pred CCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecC
Q 004042 68 GTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ 146 (777)
Q Consensus 68 g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p 146 (777)
|+.+ .+.+...++..-.+....++.+++.+||= |............+...++|+|......+ + .+....+..
T Consensus 28 g~~v--~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~~~---~--~~~~~~V~~ 100 (302)
T TIGR02634 28 GAKV--FVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRLIN---D--ADIDFYLSF 100 (302)
T ss_pred CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCcCC---C--CCccEEEec
Confidence 5555 44566667776667777888888776664 32223334444556778999998754321 1 112234566
Q ss_pred CchHHHHHHHHHHHhcCCc-EEEEEEEeC--ccccchHHHHHHHHhhc----ceEEEEeeecCCCCCCChhhHHHHHHHH
Q 004042 147 SDSYQMTAVAEMVSYYGWN-AVSVIFVDN--EYGRNGVSALNDKLAER----RCRISYKSGIPPESGVNTGYVMDLLVKV 219 (777)
Q Consensus 147 ~~~~~~~a~~~~l~~~~w~-~vaii~~~~--~~g~~~~~~~~~~~~~~----g~~v~~~~~~~~~~~~~~~d~~~~l~~l 219 (777)
+....++.+++++.+.+-+ +++++..+. .......+.+++.+++. ++.+....... . ....+....+.++
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 7788888899988776655 788876432 22333456677777653 35543221111 1 1234445566665
Q ss_pred hc---CCCeEEEEecChhHHHHHHHHHHHcCCC
Q 004042 220 AL---MESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (777)
Q Consensus 220 ~~---~~~~vIvl~~~~~~~~~~l~~a~~~gl~ 249 (777)
.. ..+++|+.. +...+.-+++++++.|+.
T Consensus 178 l~~~~~~~~aI~~~-~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 178 LTANDNKVDAVVAS-NDATAGGAIQALTAQGLA 209 (302)
T ss_pred HHhCCCCccEEEEC-CCchHHHHHHHHHHCCCC
Confidence 43 245665554 444566789999998874
No 215
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=96.29 E-value=1.4 Score=45.98 Aligned_cols=197 Identities=7% Similarity=-0.007 Sum_probs=101.4
Q ss_pred EEEEeeCC-CcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEE-ccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 004042 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITM-QSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (777)
Q Consensus 34 IG~l~~~s-~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~-~D~~~~~~~a~~~a~~l~~~~v~aviG-p~~s~~~~ 110 (777)
||++.|.. .++-.....+++.+.++. |+ ..+++ .+...++..-.+....++++++.+||- |..+....
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~-~~~i~~~~~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~ 71 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKEL--------GS-VYIIYTGPTGTTAEGQIEVVNSLIAQKVDAIAISANDPDALV 71 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHh--------CC-eeEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 56777653 222234455555555543 22 12222 234556766677777888888776554 33333333
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecC-CchHHHHHHHHHH-Hhc-CCcEEEEEEEeCc--cccchHHHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ-SDSYQMTAVAEMV-SYY-GWNAVSVIFVDNE--YGRNGVSALN 185 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p-~~~~~~~a~~~~l-~~~-~w~~vaii~~~~~--~g~~~~~~~~ 185 (777)
.....+...++|+|......+. + ........ +....++..++.+ +++ +-.+|++|..+.. ......+.++
T Consensus 72 ~~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~ 146 (302)
T TIGR02637 72 PALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMK 146 (302)
T ss_pred HHHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHH
Confidence 4445566789999987543211 1 12233333 3334444444443 332 2269999874322 1122346677
Q ss_pred HHHhhcc---eEEEEeeecCCCCCCChhhHHHHHHHHhcCC--CeEEEEecChhHHHHHHHHHHHcCCC
Q 004042 186 DKLAERR---CRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMM 249 (777)
Q Consensus 186 ~~~~~~g---~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIvl~~~~~~~~~~l~~a~~~gl~ 249 (777)
+.++++| .++.... ... ....+....++++.+.. +++|+. .....+...++++++.|..
T Consensus 147 ~~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~L~~~~~~~ai~~-~~d~~a~ga~~al~~~g~~ 210 (302)
T TIGR02637 147 KELKDPKYPKVKLVATV--YGD--DDAQKSYQEAQGLLKSYPNLKGIIA-PTTVGIKAAAQAVSDAKLI 210 (302)
T ss_pred HHHhhccCCCCEEEeee--cCC--chHHHHHHHHHHHHHhCCCccEEEe-CCCchHHHHHHHHHhcCCC
Confidence 7666643 3433221 111 12334445555554444 455554 3455566788888888864
No 216
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.08 E-value=0.98 Score=46.46 Aligned_cols=203 Identities=9% Similarity=-0.012 Sum_probs=105.0
Q ss_pred EEEEEeeCCC-cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hHHH
Q 004042 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAH 110 (777)
Q Consensus 33 ~IG~l~~~s~-~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s-~~~~ 110 (777)
+||++.|... ++-.....+++.+.++. |+.+ .+.+...++..-.+....++.+++++||=.... ....
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~--------gy~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI--------GWNL--RILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc--------CcEE--EEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 5888888642 22223444444444332 4544 334555566666666677777788766653222 2112
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCC-ceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEeCc-ccc---chHHH
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYP-FFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE-YGR---NGVSA 183 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~-~~~r~~p~~~~~~~a~~~~l~~~--~w~~vaii~~~~~-~g~---~~~~~ 183 (777)
.....+...++|++........ .....+ .+-....++...++.++++|... |-++++++..... ... ...+.
T Consensus 72 ~~~~~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~~ 150 (280)
T cd06315 72 AELELAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIAKAKANAMKE 150 (280)
T ss_pred HHHHHHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHHH
Confidence 2223345679999987542111 000011 13456677788888899987766 8899998863321 111 23333
Q ss_pred HHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC---CCeEEEEecChhHHHHHHHHHHHcCCCCC
Q 004042 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (777)
Q Consensus 184 ~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIvl~~~~~~~~~~l~~a~~~gl~~~ 251 (777)
+.+.+++.++ ......... .........++++.+. .+++|+ +++...+..+++.+++.|+..+
T Consensus 151 ~~~a~~~~~~--~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~-~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 151 IIEACKGCTV--LSIEDVPIS--RTATRMPALTARLLQRYGDKWTHSL-AINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHhCCCCEE--EEecccCcc--hhhhhhHHHHHHHHHhcCcccceec-ccchhhhHHhHHHHHHhcccCC
Confidence 3333333333 111111111 1111111334444332 356544 4455566778899999998644
No 217
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family. Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins.
Probab=96.08 E-value=0.031 Score=57.89 Aligned_cols=71 Identities=21% Similarity=0.300 Sum_probs=49.6
Q ss_pred CCCCChhhhhhCCCCeEEeeCchHHHHHHh---hhccccccc-cccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhh
Q 004042 680 SPINGIESLRKSDDPIGYQEGSFAEYYLSQ---ELNISKSRL-VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLS 755 (777)
Q Consensus 680 ~~i~s~~dl~~~~~~i~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~ 755 (777)
++|++++||. |++|++..++.....+.. ..+.+...+ ..+.+..+...++++ |++|+++...+....+..
T Consensus 91 ~~i~s~~dL~--Gk~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~~~~~~~al~~----g~vda~~~~~p~~~~~~~ 164 (288)
T TIGR01728 91 SPIRTVADLK--GKRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLGPSDARAAFAA----GQVDAWAIWEPWGSALVE 164 (288)
T ss_pred CCCCCHHHcC--CCEEEecCCccHHHHHHHHHHHcCCCccceeEEecCcHHHHHHHHC----CCCCEEEeccchHhHHhh
Confidence 3899999999 999999887765554432 223332222 223456788999999 999999998887766554
Q ss_pred C
Q 004042 756 S 756 (777)
Q Consensus 756 ~ 756 (777)
+
T Consensus 165 ~ 165 (288)
T TIGR01728 165 E 165 (288)
T ss_pred c
Confidence 4
No 218
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=96.00 E-value=0.043 Score=57.57 Aligned_cols=69 Identities=20% Similarity=0.298 Sum_probs=49.5
Q ss_pred CCCChhhhhhCCCCeEEeeCchHHHHHHh---hhccccc--cccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhh
Q 004042 681 PINGIESLRKSDDPIGYQEGSFAEYYLSQ---ELNISKS--RLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLS 755 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~~~~~~~~~~~~---~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~ 755 (777)
+|+|++||+ ||+||+..++..+-++.+ ..+.... +++. -++.++..++.+ |++||.+...|.+....+
T Consensus 97 ~i~svaDLK--GKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~-~~~~d~~aAl~~----G~VDAa~~~eP~~s~~~~ 169 (328)
T TIGR03427 97 GGKSLADLK--GQKVNLVELSVSHYLLARALESVGLSEKDVKVVN-TSDADIVAAFIT----KDVTAVVTWNPQLSEIKA 169 (328)
T ss_pred CCCCHHHcC--CCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEe-CChHHHHHHHhc----CCCcEEEEcCchHHHHHh
Confidence 389999999 999999999877755543 2223222 2222 356788999999 999999988888665444
Q ss_pred C
Q 004042 756 S 756 (777)
Q Consensus 756 ~ 756 (777)
+
T Consensus 170 ~ 170 (328)
T TIGR03427 170 Q 170 (328)
T ss_pred C
Confidence 3
No 219
>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=95.74 E-value=0.21 Score=49.53 Aligned_cols=93 Identities=9% Similarity=0.081 Sum_probs=74.0
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCC-----CCChhhHHHHHHHHhcCCCe
Q 004042 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-----GVNTGYVMDLLVKVALMESR 225 (777)
Q Consensus 151 ~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~-----~~~~~d~~~~l~~l~~~~~~ 225 (777)
-+.++.+.++++|.+||+++. +|-.+.-+.+.+.+++.|++|.....+.... ..+...+.+.+.++...++|
T Consensus 107 ~~~A~~~AL~alg~~RIalvT---PY~~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aD 183 (239)
T TIGR02990 107 PSSAAVDGLAALGVRRISLLT---PYTPETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDAD 183 (239)
T ss_pred HHHHHHHHHHHcCCCEEEEEC---CCcHHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCC
Confidence 468899999999999999995 4777788999999999999998765544321 12355666677777678999
Q ss_pred EEEEecChhHHHHHHHHHHHc
Q 004042 226 VIVLHVSPSLGFQVFSVAKYL 246 (777)
Q Consensus 226 vIvl~~~~~~~~~~l~~a~~~ 246 (777)
+|++.|..-....++.++++.
T Consensus 184 AifisCTnLrt~~vi~~lE~~ 204 (239)
T TIGR02990 184 ALFLSCTALRAATCAQRIEQA 204 (239)
T ss_pred EEEEeCCCchhHHHHHHHHHH
Confidence 999999998888899988753
No 220
>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []. ; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....
Probab=95.63 E-value=0.069 Score=42.91 Aligned_cols=55 Identities=25% Similarity=0.410 Sum_probs=47.6
Q ss_pred ccchhhHHHHHhhhhhccCc--CcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhh
Q 004042 620 KRQVITILWFSLSTLFFAHK--ENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILT 674 (777)
Q Consensus 620 ~~~~~~~~~~~~~~~~~~~~--~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~ 674 (777)
..+..+++|++..++...|. -.|.+..+|++..++.+.++.+.+...+.+++.++
T Consensus 22 ~~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l~ 78 (79)
T PF07885_consen 22 KWSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVLT 78 (79)
T ss_dssp TTSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 55789999999999998873 38998899999999999999999999999998875
No 221
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=95.14 E-value=3.1 Score=41.93 Aligned_cols=209 Identities=11% Similarity=0.087 Sum_probs=116.9
Q ss_pred CCCceEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcE-EEEcCCC
Q 004042 27 ARPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIV-AIIGPQC 105 (777)
Q Consensus 27 ~~~~~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~-aviGp~~ 105 (777)
+..++..||+..|.-.. .++..-=...+...+.- |.+. .+.+-.++...-......++++|+. .||+|..
T Consensus 21 a~~~d~~IGis~~d~~~--eRW~~D~~~~~~~~e~~-----g~k~--~~q~A~~~~~~Q~~qien~i~qg~~vlvi~a~d 91 (341)
T COG4213 21 AAAKDGVIGISMPDLRS--ERWIKDRDAFVKKAEAL-----GAKV--DVQSADGDEEKQLAQIENMINQGVKVLVIGAID 91 (341)
T ss_pred hhccCCeEEEEcCChhH--hhhhhhhHHHHHHHHhc-----cchh--hhhhhccChhHHHHHHHHHHhcCCCEEEEEecc
Confidence 34566789999887521 12222222233333332 3333 4445566677777889999999765 4678999
Q ss_pred hhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEec--CCchHHHHHHHHHHHhcC---CcEEEEEE-E-eCc---
Q 004042 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTT--QSDSYQMTAVAEMVSYYG---WNAVSVIF-V-DNE--- 175 (777)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~--p~~~~~~~a~~~~l~~~~---w~~vaii~-~-~~~--- 175 (777)
+.+...+-.-+...+||+|++ +....+..+.+...+- ---..|+.++++.++... -..+.++- + +|.
T Consensus 92 ~~~l~~~i~~A~~~gikViaY---DRlI~n~dvd~YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~DnNA~ 168 (341)
T COG4213 92 GGVLSNAVEKAKSEGIKVIAY---DRLINNADVDFYVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDNNAK 168 (341)
T ss_pred chhHHHHHHHHHHcCCeEEEe---ecccccCCccEEEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCcchH
Confidence 999999999999999999987 4444443333332221 222345666666555433 22344443 3 222
Q ss_pred cccch-HHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhc---CCCeEEEEecChhHHHHHHHHHHHcCCCCC
Q 004042 176 YGRNG-VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL---MESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (777)
Q Consensus 176 ~g~~~-~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~---~~~~vIvl~~~~~~~~~~l~~a~~~gl~~~ 251 (777)
+...+ ..-++..+..-.+.++.+...+ + ...+.....+..+.. .+.+.|+...+ ..+.-.+.+++.+|+.++
T Consensus 169 lf~~G~m~VLkp~idsGkik~~Ge~~~d-~--W~ps~Aq~~men~lta~~~~vdaVvA~nD-gtagGaI~aL~a~Gl~g~ 244 (341)
T COG4213 169 LFFAGAMKVLKPLIDSGKIKVVGEQWTD-G--WLPSNAQQIMENLLTANYNDIDAVVAPND-GTAGGAIAALKAQGLAGK 244 (341)
T ss_pred HHHhcHHHHHHHHhhCCceEEeeecccc-c--cCHHHHHHHHHHHHhcccCceeEEEcCCC-chhHHHHHHHHhcccCCC
Confidence 11222 2333434333345664444443 2 234444444444433 34666666555 446667888888898643
No 222
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=95.14 E-value=2.4 Score=44.87 Aligned_cols=208 Identities=13% Similarity=-0.040 Sum_probs=101.1
Q ss_pred CceEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEcc-CCC-ChHHHHHHHHHHHhcCcEEEEcCCCh
Q 004042 29 PAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQS-SNC-SGFIGMVEALRFMETDIVAIIGPQCS 106 (777)
Q Consensus 29 ~~~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D-~~~-~~~~a~~~a~~l~~~~v~aviGp~~s 106 (777)
....+++++.+-. .....+-...-.+++.+-++. |.+++..... ... +.....+...++.+++..+|+|...
T Consensus 33 ~~~~~~~~~~~g~-~~D~s~n~~~~~g~~~~~~~~----g~~~~~~~~~~~~~~~~~~~~~~~~~~a~~g~~lI~~~gf- 106 (345)
T COG1744 33 GKKKKVAVIDVGG-IDDKSFNQSAYEGLLKAKKEL----GLKVETYYWEYVQSDSEADYERALRALAEDGYDLIFGTGF- 106 (345)
T ss_pred ccceEEEEEecCC-CCccchhHHHHHHHHHHHHHh----CCceEeeeeeecCCcchhHHHHHHHHHHhcCCCEEEEecc-
Confidence 3345555555433 222223333333444443332 3444543333 222 3556666777788888888887444
Q ss_pred hHHHHHHHhhccC-CceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEE-eCccccchHHHH
Q 004042 107 TVAHIVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFV-DNEYGRNGVSAL 184 (777)
Q Consensus 107 ~~~~~va~~~~~~-~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~-~~~~g~~~~~~~ 184 (777)
....++..++.++ ++.++-..+.-..-. +...+.||..-... ++-.++..+.+ -.+++.|.. +-+--......|
T Consensus 107 ~~~d~~~~va~~~Pd~~F~iid~~~~~~~-Nv~s~~f~~~egay-L~G~~AA~~sk--~~~vG~vgg~~~p~v~~f~~gF 182 (345)
T COG1744 107 AFSDALEKVAAEYPDVKFVIIDGVVKKED-NVASYVFREYEGAY-LAGVAAAKMSK--SGKVGFVGGMDIPEVNRFINGF 182 (345)
T ss_pred chhhHHHHHHHHCCCCEEEEecCccCCCC-ceEEEEeccccHHH-HHHHHHHHhhc--CCceeEEecccchhhHHHHHHH
Confidence 3444455555544 444443222111110 22345556433222 33333333332 345665553 333334455566
Q ss_pred HHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCC
Q 004042 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (777)
Q Consensus 185 ~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl 248 (777)
..-++..+-.+.....+-.. -.+...-....+.+.++++|||+-.+.+.... ++.+|++.+.
T Consensus 183 ~~Gak~~np~i~v~v~~~gs-f~D~~k~k~~a~~li~~GaDVI~~~ag~~~~g-v~~~A~~~~~ 244 (345)
T COG1744 183 LAGAKSVNPDIKVKVVYVGS-FSDPAKGKEAANALIDQGADVIYPAAGGTGVG-VFQAAKELGA 244 (345)
T ss_pred HHHHHhhCCCccEEEEEecC-ccChHHHHHHHHHHHhcCCCEEEecCCCCcch-HHHHHHHhCC
Confidence 66665543322222222111 02234455588888999999999887765444 3336777674
No 223
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=95.12 E-value=0.2 Score=51.52 Aligned_cols=90 Identities=18% Similarity=0.242 Sum_probs=56.6
Q ss_pred CCCCChhhhhhCCCCeEEeeCchHH------HHHHhhhccccc---cccccCC-HHHHHHHHhcCCCCCCceEEEecchh
Q 004042 680 SPINGIESLRKSDDPIGYQEGSFAE------YYLSQELNISKS---RLVALRT-PEDYAKALKDGPGKGGVAAVVDERPY 749 (777)
Q Consensus 680 ~~i~s~~dl~~~~~~i~~~~~~~~~------~~~~~~~~~~~~---~~~~~~~-~~~~~~~l~~~~~~~~~~a~i~~~~~ 749 (777)
++|++++||+ |++++...-+++- .+|.++-+.+.. .-+.+.. -+.++..|.+ |++|+-......
T Consensus 134 s~i~sl~dlk--gk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~n----G~vDva~~~~~~ 207 (299)
T COG3221 134 SPIKSLEDLK--GKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVAN----GQVDVAAVNSSA 207 (299)
T ss_pred CCcchHHHhc--CCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHc----CCceEEeccHHH
Confidence 5999999999 9999997533222 223222212211 1122344 7789999999 999999988887
Q ss_pred hHHHhhCCC-----CeEEecccccccceEEE
Q 004042 750 VELFLSSQC-----SFRIVGQEFTKSGWGFV 775 (777)
Q Consensus 750 ~~~~~~~~~-----~l~~~~~~~~~~~~g~~ 775 (777)
......... +++++...-...+..|+
T Consensus 208 ~~~~~~~~~~~~~~~l~vi~~S~~iP~~pi~ 238 (299)
T COG3221 208 RGLLKKAAPEGVAEKLRVIWKSPLIPNDPIA 238 (299)
T ss_pred HhhhhhcccccchhhceEEEecCCCCCCCEE
Confidence 777655432 57777654444444443
No 224
>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=94.83 E-value=3.1 Score=42.50 Aligned_cols=155 Identities=11% Similarity=0.017 Sum_probs=90.5
Q ss_pred HHhcCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEE
Q 004042 92 FMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIF 171 (777)
Q Consensus 92 l~~~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~ 171 (777)
+...+++++|-.........+ ..+...++|+|........ ....+ ....++...+..+++++...|-+++++|.
T Consensus 52 l~~~~vdgiIi~~~~~~~~~~-~~l~~~~iPvV~i~~~~~~--~~~~~---~V~~d~~~~~~~a~~~L~~~G~~~I~~i~ 125 (269)
T cd06287 52 LDALDIDGAILVEPMADDPQV-ARLRQRGIPVVSIGRPPGD--RTDVP---YVDLQSAATARMLLEHLRAQGARQIALIV 125 (269)
T ss_pred hhccCcCeEEEecCCCCCHHH-HHHHHcCCCEEEeCCCCCC--CCCCC---eEeeCcHHHHHHHHHHHHHcCCCcEEEEe
Confidence 335577765532111111223 3345569999987543210 11123 23456777778888888888999999996
Q ss_pred Ee--CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcC
Q 004042 172 VD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLG 247 (777)
Q Consensus 172 ~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~g 247 (777)
.. .....+..+.+++.+++.|+..... ..... .+..+....++++.+. .+++|+. .+...+..+++++++.|
T Consensus 126 ~~~~~~~~~~R~~gf~~a~~~~g~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~gvl~al~~~g 201 (269)
T cd06287 126 GSARRNSYLEAEAAYRAFAAEHGMPPVVL-RVDEA--GGEEAGYAACAQLLAQHPDLDALCV-PVDAFAVGAVRAATELG 201 (269)
T ss_pred CCcccccHHHHHHHHHHHHHHcCCCccee-EecCC--CChHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcC
Confidence 42 2334456778899999888754321 11111 1123334455565433 4566654 45666778999999999
Q ss_pred CCCCCeEEE
Q 004042 248 MMGNGYVWI 256 (777)
Q Consensus 248 l~~~~~~~i 256 (777)
+..++-+=+
T Consensus 202 l~vP~dvsv 210 (269)
T cd06287 202 RAVPDQLRV 210 (269)
T ss_pred CCCCCceEE
Confidence 876654433
No 225
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=94.17 E-value=0.3 Score=51.50 Aligned_cols=67 Identities=19% Similarity=0.179 Sum_probs=45.8
Q ss_pred CCCChhhhhhCCCCeEEeeCchHHHHHH---hhhcccccccccc-CCHHHHHHHHhcCCCCCCceEEEecchhhHHH
Q 004042 681 PINGIESLRKSDDPIGYQEGSFAEYYLS---QELNISKSRLVAL-RTPEDYAKALKDGPGKGGVAAVVDERPYVELF 753 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~~~~~~~~~~~---~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~ 753 (777)
.|++++||+ ||+||+..++..+.++. +..+.+...+... -+..+...++.+ |++||.....+...-.
T Consensus 113 ~I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~Al~~----G~VDAa~~~~p~~~~~ 183 (320)
T PRK11480 113 TISKPEDLI--GKRIAVPFISTTHYSLLAALKHWGIKPGQVEIVNLQPPAIIAAWQR----GDIDGAYVWAPAVNAL 183 (320)
T ss_pred CCCChHHcC--CCEEecCCCCchHHHHHHHHHHcCCCHhheEEEECCcHHHHHHHHc----CCcCEEEEcchHHHHH
Confidence 689999999 99999987765544332 2334433333221 346788999999 9999988777765443
No 226
>PF02608 Bmp: Basic membrane protein; InterPro: IPR003760 This is a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. All of these proteins are outer membrane proteins and are thus antigenic in nature when possessed by the pathogenic members of the family []. The Bacillus subtilis degR, a positive regulator of the production of degradative enzymes, is also a member of this group [].; GO: 0005886 plasma membrane; PDB: 2HQB_A 3S99_A 2FQW_A 2FQY_A 2FQX_A.
Probab=93.32 E-value=7 Score=40.76 Aligned_cols=200 Identities=12% Similarity=-0.023 Sum_probs=104.1
Q ss_pred EEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCC-ChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 004042 32 VNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC-SGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (777)
Q Consensus 32 i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~-~~~~a~~~a~~l~~~~v~aviGp~~s~~~~ 110 (777)
.+++++.|-.-.. ..+-.++-.+++++.++. +|. ++.+.+... ++....+...++.+++...||++. .....
T Consensus 2 ~~v~~~~~g~~~D-~g~n~~~~~G~~~~~~~~---~~i--~~~~~e~~~~~~~~~~~~~~~~~~~g~dlIi~~g-~~~~~ 74 (306)
T PF02608_consen 2 KKVALLDPGGIND-KGFNQSAYEGLKRAEKEL---DGI--EIIYVENVPETDADYEEAIRQLADQGYDLIIGHG-FEYSD 74 (306)
T ss_dssp EEEEEESSS-CCC-SSHHHHHHHHHHHHHHHC---TTE--EEEEEES-S-TCHHHHHHHHHHHHTT-SEEEEES-GGGHH
T ss_pred eEEEEEECCCCCC-ccHHHHHHHHHHHHHHHc---CCc--eEEEEecCCccHHHHHHHHHHHHHcCCCEEEEcc-HHHHH
Confidence 4677777765111 123333344444444432 233 444444444 456667777888888988888844 34445
Q ss_pred HHHHhhccC-CceEEecccCCCCCCCCCCCceEEecCCchH---HHHHHHHHHHhcCCcEEEEEE---E-eCccccchHH
Q 004042 111 IVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSY---QMTAVAEMVSYYGWNAVSVIF---V-DNEYGRNGVS 182 (777)
Q Consensus 111 ~va~~~~~~-~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~---~~~a~~~~l~~~~w~~vaii~---~-~~~~g~~~~~ 182 (777)
++..++..+ ++-++........- .+++........+ ++-.++.++.+. .+++.+. . +.+.-.....
T Consensus 75 ~~~~vA~~yPd~~F~~~d~~~~~~----~~Nv~~~~f~~~e~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~~~~~~ 148 (306)
T PF02608_consen 75 ALQEVAKEYPDTKFIIIDGYIDAP----EPNVISITFREEEASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPVNRFIN 148 (306)
T ss_dssp HHHHHHTC-TTSEEEEESS---ST-----TTEEEEEE-HHHHHHHHHHHHHHHHSS--TEEEEEEEEES--SCTTHHHHH
T ss_pred HHHHHHHHCCCCEEEEEecCcCCC----CCcEEEEEccccchhHHHHHHHHHHhcc--CcccccccccCCCcHhHHHHHH
Confidence 666667665 55555543322111 1455554443332 344444444443 4788887 3 3333344566
Q ss_pred HHHHHHhhc--ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCC
Q 004042 183 ALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (777)
Q Consensus 183 ~~~~~~~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl 248 (777)
.|..-++.. .+++... +-.. -.+...-+..-+.+.+.++|+|+..+.... ..+++++++.|.
T Consensus 149 gF~~Ga~~~np~i~v~~~--~~gs-~~D~~~~~~~a~~li~~GaDvI~~~ag~~~-~gv~~aa~e~g~ 212 (306)
T PF02608_consen 149 GFIAGAKYVNPDIKVNVS--YTGS-FNDPAKAKEAAEALIDQGADVIFPVAGGSG-QGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHHHHTTTT-EEEEE--E-SS-SS-HHHHHHHHHHHHHTT-SEEEEE-CCCH-HHHHHHHHHHTH
T ss_pred HHHHHHHHhCcCceEEEE--EcCC-cCchHHHHHHHHHHhhcCCeEEEECCCCCc-hHHHHHHHHcCC
Confidence 677766654 3444332 2211 123455666677777899999998666554 447888888775
No 227
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=92.95 E-value=7.1 Score=41.11 Aligned_cols=146 Identities=9% Similarity=0.028 Sum_probs=83.3
Q ss_pred cCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeC
Q 004042 95 TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN 174 (777)
Q Consensus 95 ~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~ 174 (777)
.+|+++|--... . ......+...++|++......+ +..++ ....+....+..+++++...|.++++++....
T Consensus 113 ~~vDgiI~~~~~-~-~~~~~~l~~~~~pvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~~ 184 (327)
T PRK10339 113 KNVTGILIVGKP-T-PALRAAASALTDNICFIDFHEP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGED 184 (327)
T ss_pred ccCCEEEEeCCC-C-HHHHHHHHhcCCCEEEEeCCCC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCcc
Confidence 466665542121 1 1233445567899987643221 11223 35566777778888888888999999996432
Q ss_pred --ccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHHHHHHcCCCC
Q 004042 175 --EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMG 250 (777)
Q Consensus 175 --~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~~a~~~gl~~ 250 (777)
.........+.+.+++.|+. .....+... ....+....++++.+. .+++|+. .+...+..++++++++|+..
T Consensus 185 ~~~~~~~R~~gf~~~~~~~g~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~~~g~~v 260 (327)
T PRK10339 185 EPGKADIREVAFAEYGRLKQVV-REEDIWRGG--FSSSSGYELAKQMLAREDYPKALFV-ASDSIAIGVLRAIHERGLNI 260 (327)
T ss_pred ccchhhHHHHHHHHHHHHcCCC-ChhheeecC--cChhHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCC
Confidence 23445566788888877761 111111111 1122333445555432 3565444 45566778999999999865
Q ss_pred CC
Q 004042 251 NG 252 (777)
Q Consensus 251 ~~ 252 (777)
|+
T Consensus 261 P~ 262 (327)
T PRK10339 261 PQ 262 (327)
T ss_pred CC
Confidence 54
No 228
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=92.37 E-value=0.21 Score=53.52 Aligned_cols=88 Identities=16% Similarity=0.232 Sum_probs=75.2
Q ss_pred hHHHHHHHHHHHHHhhheeeecccCCCCCCCcccchhhHHHHHhhhhhccC--cCcccCchhHHHHHHHHHHHHHHHhHh
Q 004042 588 LMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAH--KENTVSTLGRLVLIIWLFVVLIINSSY 665 (777)
Q Consensus 588 ~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~p~~~~~R~~~~~~~~~~lv~~~~Y 665 (777)
..|..-++.++..++++|+.|.-...+-.+....+..+++||...+++..| ...|+.+.+|+++.+.-++++-+-+.=
T Consensus 235 Tt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fsligiSFFALP 314 (654)
T KOG1419|consen 235 TTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIGISFFALP 314 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHHHHHHhcc
Confidence 578888899999999999999886666666667789999999999999776 459999999999999999999888888
Q ss_pred hHhHHHhhhh
Q 004042 666 TASLTSILTV 675 (777)
Q Consensus 666 ~a~L~s~l~~ 675 (777)
.+.|-|-|+.
T Consensus 315 AGILGSGfAL 324 (654)
T KOG1419|consen 315 AGILGSGFAL 324 (654)
T ss_pred cccccchhhh
Confidence 8888777764
No 229
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=91.82 E-value=0.66 Score=49.25 Aligned_cols=72 Identities=21% Similarity=0.280 Sum_probs=50.4
Q ss_pred CCCCChhhhhhCCCCeEEeeCch-HHHHHHh---hhcccccccc-ccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHh
Q 004042 680 SPINGIESLRKSDDPIGYQEGSF-AEYYLSQ---ELNISKSRLV-ALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFL 754 (777)
Q Consensus 680 ~~i~s~~dl~~~~~~i~~~~~~~-~~~~~~~---~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~ 754 (777)
..|++++||+ |++||+..++. ...++.. ..+.++.++. ..-.+.+...++++ |++||+....+......
T Consensus 126 ~~i~~~adlk--Gk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~----g~vda~~~~ep~~~~~~ 199 (335)
T COG0715 126 SGIKSVADLK--GKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAA----GQVDAFVVWEPWNAAAE 199 (335)
T ss_pred CCcccccCCC--CceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhc----CCcceEEecCCchhhhh
Confidence 3899999999 99999999885 4434322 3344333332 23355588889999 99999888888776665
Q ss_pred hCC
Q 004042 755 SSQ 757 (777)
Q Consensus 755 ~~~ 757 (777)
.+.
T Consensus 200 ~~~ 202 (335)
T COG0715 200 GEG 202 (335)
T ss_pred ccC
Confidence 543
No 230
>TIGR00787 dctP tripartite ATP-independent periplasmic transporter solute receptor, DctP family. TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family.
Probab=91.74 E-value=1.5 Score=44.57 Aligned_cols=60 Identities=20% Similarity=0.153 Sum_probs=47.1
Q ss_pred CCCCChhhhhhCCCCeEEeeCchHHHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhh
Q 004042 680 SPINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYV 750 (777)
Q Consensus 680 ~~i~s~~dl~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~ 750 (777)
.+|++++||+ |+++.+..++...+.++ ..+. ..+ ..+..|.+.+|++ |.+|+.+.....+
T Consensus 126 ~~i~s~~Dl~--G~kir~~~~~~~~~~~~-~~Ga---~~v-~~~~~e~~~aL~~----G~vDg~~~~~~~~ 185 (257)
T TIGR00787 126 KPITKPEDLK--GLKIRIPNSPMNEAQFK-ALGA---NPE-PMAFSEVYTALQT----GVVDGQENPLSNV 185 (257)
T ss_pred CccCChHHhC--CCEEecCCCHHHHHHHH-HcCC---ccc-ccCHHHHHHHHHc----CCcccccCCHHHH
Confidence 4799999999 99999988777777884 3332 222 5678899999999 9999998875543
No 231
>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=91.27 E-value=13 Score=37.19 Aligned_cols=143 Identities=7% Similarity=-0.008 Sum_probs=84.4
Q ss_pred HHHHHhcCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh--cCCcE
Q 004042 89 ALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWNA 166 (777)
Q Consensus 89 a~~l~~~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~--~~w~~ 166 (777)
..++.+.++.++|=-................++|++......+. ...++ ....++..-+..+++.+.. .|-++
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 33444556665553111111122344555578999986543211 11122 3456777778888888888 89999
Q ss_pred EEEEEEeC-ccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHH
Q 004042 167 VSVIFVDN-EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKY 245 (777)
Q Consensus 167 vaii~~~~-~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~ 245 (777)
+++|.... ..+....+.+++.+++.|+.... .. . ..+ ..+ .++++ |++.+...+.-+++++++
T Consensus 120 Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~---~~-~----~~~-----~~~--~~~~a-i~~~~d~~A~g~~~~l~~ 183 (247)
T cd06276 120 LILVFPNKTAIPKEIKRGFERFCKDYNIETEI---IN-D----YEN-----REI--EKGDL-YIILSDTDLVFLIKKARE 183 (247)
T ss_pred EEEEecCccHhHHHHHHHHHHHHHHcCCCccc---cc-c----cch-----hhc--cCCcE-EEEeCHHHHHHHHHHHHH
Confidence 99997433 34556678899999999976432 11 1 000 001 12354 445566777889999999
Q ss_pred cCCCCCC
Q 004042 246 LGMMGNG 252 (777)
Q Consensus 246 ~gl~~~~ 252 (777)
.|+..|+
T Consensus 184 ~g~~iP~ 190 (247)
T cd06276 184 SGLLLGK 190 (247)
T ss_pred cCCcCCc
Confidence 9986554
No 232
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=91.21 E-value=0.5 Score=46.10 Aligned_cols=77 Identities=9% Similarity=0.170 Sum_probs=43.4
Q ss_pred cceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEE-------Eeecccceeeecccc
Q 004042 488 DMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDIT-------IVTNRTKIVDFSQPY 560 (777)
Q Consensus 488 ~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~-------~t~~r~~~~dfs~p~ 560 (777)
.+++|+.--|.+.+.+ .++.+.+.+.+. -..-++.|.+|++|+++.+.. -..+..-.++|..--
T Consensus 24 r~YEGLATGl~~~f~~-~~ip~~~aymRG--------a~~Rie~l~~g~yDfaVvS~lAA~~~i~~~~~l~i~~~fG~~s 94 (232)
T PF14503_consen 24 RRYEGLATGLYEQFEE-SGIPLNFAYMRG--------AENRIEALKNGRYDFAVVSKLAAEHYIEEGEDLEIVLEFGPGS 94 (232)
T ss_dssp HHHHHHHHHHHCTTT---TS-EEEEE-S---------HHHHHHHHHTTS-SEEEEEHHHHCCCCCC-SSEEEEEE--TTS
T ss_pred hhhHHHHHHHHHHhcc-CCCceEEEeecc--------chHHHHHHHhCCcceEeehHHHHHHHHhhccCeEEEEeeCCCC
Confidence 4577877666555554 677766777662 566799999999999986521 112334456776655
Q ss_pred cccceEEEEeccC
Q 004042 561 AASGLVVVVPFRK 573 (777)
Q Consensus 561 ~~~~~~~~v~~~~ 573 (777)
+.+.-.++++++.
T Consensus 95 Yvs~Hvli~~~~~ 107 (232)
T PF14503_consen 95 YVSEHVLIFRDGE 107 (232)
T ss_dssp SS--EEEEEETT-
T ss_pred cccceEEEEecCC
Confidence 6666666666655
No 233
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=91.09 E-value=7.6 Score=36.78 Aligned_cols=91 Identities=18% Similarity=0.115 Sum_probs=66.1
Q ss_pred HHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCC-----CChhhHHHHHHHHhcCCCeE
Q 004042 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESG-----VNTGYVMDLLVKVALMESRV 226 (777)
Q Consensus 152 ~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-----~~~~d~~~~l~~l~~~~~~v 226 (777)
+.++++-|+.++.+|+.++. +|-.+.-+.-.+.++++|++|+........++ ...-..-+.-+++..-++|.
T Consensus 106 s~Avv~aL~al~a~ri~vlT---PY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Da 182 (238)
T COG3473 106 STAVVEALNALGAQRISVLT---PYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADA 182 (238)
T ss_pred hHHHHHHHHhhCcceEEEec---cchhhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCe
Confidence 35778889999999999996 45556777788899999999987655543210 12233444566667778999
Q ss_pred EEEecChhHHHHHHHHHHH
Q 004042 227 IVLHVSPSLGFQVFSVAKY 245 (777)
Q Consensus 227 Ivl~~~~~~~~~~l~~a~~ 245 (777)
|++.|..-....++...++
T Consensus 183 iFiSCTnlRt~eii~~lE~ 201 (238)
T COG3473 183 IFISCTNLRTFEIIEKLER 201 (238)
T ss_pred EEEEeeccccHHHHHHHHH
Confidence 9999888777777777765
No 234
>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=90.91 E-value=3.2 Score=42.07 Aligned_cols=86 Identities=14% Similarity=0.033 Sum_probs=67.9
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 004042 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (777)
Q Consensus 33 ~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~v 112 (777)
+||++.+...+.-.....|+...++..| |+.++...+..+-.|+.++.+.+..|+++|+++|++.. ....+
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~------p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~ 192 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVN------PDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHT---DSPGV 192 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHC------CCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecC---CChHH
Confidence 7999999876555567789999999888 56677777777778999999999999999999887755 22345
Q ss_pred HHhhccCCceEEecc
Q 004042 113 SYVSNELQVPLLSFG 127 (777)
Q Consensus 113 a~~~~~~~iP~Is~~ 127 (777)
...+.+.++..|.+.
T Consensus 193 ~~aa~~~g~~~IG~d 207 (258)
T cd06353 193 IQAAEEKGVYAIGYV 207 (258)
T ss_pred HHHHHHhCCEEEeec
Confidence 666677889999765
No 235
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=90.81 E-value=1 Score=41.71 Aligned_cols=93 Identities=11% Similarity=0.132 Sum_probs=62.6
Q ss_pred HHHHHhcCCcEEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHH-HHhcCCCeEEEEecC
Q 004042 156 AEMVSYYGWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLV-KVALMESRVIVLHVS 232 (777)
Q Consensus 156 ~~~l~~~~w~~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~-~l~~~~~~vIvl~~~ 232 (777)
+++|.+.|.+++++|.. +..+.....+.|++.+++.|+........... ...+...... .+++..+++||. .+
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~pdaii~-~~ 76 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDD---DSEDAREAQLLWLRRLRPDAIIC-SN 76 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESS---SHHHHHHHHHHHHHTCSSSEEEE-SS
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCC---cchhHHHHHHHHHhcCCCcEEEE-cC
Confidence 46788899999999993 34456667788999999999986544433322 2333333222 344346776655 77
Q ss_pred hhHHHHHHHHHHHcCCCCCC
Q 004042 233 PSLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 233 ~~~~~~~l~~a~~~gl~~~~ 252 (777)
...+..+++++++.|+..++
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 77888899999999996543
No 236
>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=90.63 E-value=19 Score=35.80 Aligned_cols=208 Identities=9% Similarity=0.027 Sum_probs=112.7
Q ss_pred eEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCC--CChHHHHHHHHHHHhc-CcEEEEcC-CCh
Q 004042 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN--CSGFIGMVEALRFMET-DIVAIIGP-QCS 106 (777)
Q Consensus 31 ~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~--~~~~~a~~~a~~l~~~-~v~aviGp-~~s 106 (777)
.++||++.+-.+. +....+|++..+++--+. .|.-+++-+. ......+.....|.++ .+.+||-. .-.
T Consensus 2 ~~kIGivTgtvSq-~ed~~r~Ae~l~~~Yg~~-------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vp 73 (275)
T PF12683_consen 2 DYKIGIVTGTVSQ-SEDEYRGAEELIKKYGDV-------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVP 73 (275)
T ss_dssp -EEEEEEE--TTT--HHHHHHHHHHHHHHHHH-------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS-
T ss_pred ceEEEEEeCCccc-ChHHHHHHHHHHHHhCcc-------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCc
Confidence 5899999877654 345566666666655332 5666666444 3556667777777777 66666643 224
Q ss_pred hHHHHHHHhhc-cCCceEEecccCCC-CCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccch----
Q 004042 107 TVAHIVSYVSN-ELQVPLLSFGVTDP-TLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG---- 180 (777)
Q Consensus 107 ~~~~~va~~~~-~~~iP~Is~~a~~~-~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~---- 180 (777)
+++.+...+=+ +-.|..|+-....+ ..-...-. +-+.++....+..++...+++|.+.+..+.....-+...
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 45555555443 45677776433221 11111112 334477788899999999999999999886544333333
Q ss_pred HHHHHHHHhhcceEEEEeeecCCCCCCChhhH-----HHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCC
Q 004042 181 VSALNDKLAERRCRISYKSGIPPESGVNTGYV-----MDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (777)
Q Consensus 181 ~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~-----~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl 248 (777)
.+.+++.+++.|++.+....-.+......... ...-+.+++-+.++-+.+.+......+++++-+.|.
T Consensus 152 r~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 152 RDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcCC
Confidence 34567788889999886654443311111111 223344556689999999999999999999988764
No 237
>TIGR00035 asp_race aspartate racemase.
Probab=89.13 E-value=4 Score=40.48 Aligned_cols=86 Identities=13% Similarity=0.156 Sum_probs=47.0
Q ss_pred hHHHHHHHH-HHHhcCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHH
Q 004042 82 GFIGMVEAL-RFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVS 160 (777)
Q Consensus 82 ~~~a~~~a~-~l~~~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~ 160 (777)
+...+..+. +|.+.|+.+++=|-++.... +..+-+..++|+|+. .++.++.++
T Consensus 60 ~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------~~~~~~~~~ 113 (229)
T TIGR00035 60 PRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISM-------------------------IEETAEAVK 113 (229)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEech-------------------------HHHHHHHHH
Confidence 444444333 44445898888755554443 445555678898863 233334445
Q ss_pred hcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEE
Q 004042 161 YYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRIS 196 (777)
Q Consensus 161 ~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~ 196 (777)
..+.++|+++.+.... ....+++.+++.|+++.
T Consensus 114 ~~~~~~VgvLaT~~T~---~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 114 EDGVKKAGLLGTKGTM---KDGVYEREMKKHGIEIV 146 (229)
T ss_pred HcCCCEEEEEecHHHH---HhHHHHHHHHHCCCEEE
Confidence 5567777777533221 12335566666666543
No 238
>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=89.08 E-value=6.5 Score=36.97 Aligned_cols=100 Identities=10% Similarity=0.001 Sum_probs=67.1
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhc--ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeE
Q 004042 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV 226 (777)
Q Consensus 149 ~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 226 (777)
.+....+.+.+...++ ++.++..++. ..+.+.+.+++. |+.++.... +. .+..+...+++.|++++||+
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 3445666666655554 7888876654 455666666666 666665432 22 24678899999999999999
Q ss_pred EEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 004042 227 IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW 260 (777)
Q Consensus 227 Ivl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 260 (777)
|++.+..+.-..++.+.++.- . .. +|+..+.
T Consensus 105 v~vglG~PkQE~~~~~~~~~l-~-~~-v~i~vG~ 135 (172)
T PF03808_consen 105 VFVGLGAPKQERWIARHRQRL-P-AG-VIIGVGG 135 (172)
T ss_pred EEEECCCCHHHHHHHHHHHHC-C-CC-EEEEECc
Confidence 999888877777777766532 2 22 6777654
No 239
>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=88.87 E-value=12 Score=34.84 Aligned_cols=70 Identities=20% Similarity=0.310 Sum_probs=44.4
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. .....++..+.+|++|+++..... ..+.++ ..++....+++++++
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 345667777777653 23355443 346789999999999999864432 222333 346667777777766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (197)
T cd05466 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 240
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=88.36 E-value=3.6 Score=42.40 Aligned_cols=78 Identities=22% Similarity=0.202 Sum_probs=46.8
Q ss_pred CCCChhhhhhCCCCeEEe-eCchHHHHHH---hhhccccccccc--cCCHHHHHHHHhcCCCCCCceEEEecchh---hH
Q 004042 681 PINGIESLRKSDDPIGYQ-EGSFAEYYLS---QELNISKSRLVA--LRTPEDYAKALKDGPGKGGVAAVVDERPY---VE 751 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~-~~~~~~~~~~---~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~a~i~~~~~---~~ 751 (777)
.|+++.||+ ||+|++- .||.++.-.+ +..+..+..... .-...|..+++++ |.+||.+.-... +-
T Consensus 128 ~Ikti~DL~--GKrV~iG~~gSgt~~~a~~il~a~Gi~~~~~~~~~~~~~a~~~~~l~~----g~iDA~~~~~G~p~~ai 201 (321)
T COG2358 128 GIKTIADLK--GKRVAIGPPGSGTEATARQILEALGITYDDYELDLGLGDAESADALKN----GTIDAAFYVAGVPNPAI 201 (321)
T ss_pred CcceehhcC--CCEEeecCCCCccHHHHHHHHHHcCCCCcchhhhhhcCchhhHHHhhC----CcccEEEEecCCCCccH
Confidence 799999999 9998885 3444333332 233443322211 1233355888888 999998875432 22
Q ss_pred HHhhCCCCeEEec
Q 004042 752 LFLSSQCSFRIVG 764 (777)
Q Consensus 752 ~~~~~~~~l~~~~ 764 (777)
..+...|++.+++
T Consensus 202 ~el~~~~~i~lv~ 214 (321)
T COG2358 202 SELATTCDIVLVP 214 (321)
T ss_pred HHHHhhCCeEEEe
Confidence 3345578877765
No 241
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=88.28 E-value=4.5 Score=42.95 Aligned_cols=92 Identities=10% Similarity=-0.026 Sum_probs=72.1
Q ss_pred HHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec
Q 004042 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (777)
Q Consensus 152 ~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~ 231 (777)
...+.+.++.+|++|+.||.+.........+.+.+.+++.|+++..-..+.++ .+.+.....+..+++.++|.||..+
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 35667778889999999998766666678899999999999877655556665 5678888899999999999999876
Q ss_pred Ch--hHHHHHHHHHHH
Q 004042 232 SP--SLGFQVFSVAKY 245 (777)
Q Consensus 232 ~~--~~~~~~l~~a~~ 245 (777)
.+ -++...+.....
T Consensus 95 GGS~~D~AK~i~~~~~ 110 (377)
T COG1454 95 GGSVIDAAKAIALLAE 110 (377)
T ss_pred CccHHHHHHHHHHHhh
Confidence 55 456666655554
No 242
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=87.86 E-value=4 Score=39.30 Aligned_cols=86 Identities=16% Similarity=0.161 Sum_probs=53.7
Q ss_pred ChHHHHH-HHHHHHhcCcEEEEcCCChhHHHHHHHhh-ccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHH
Q 004042 81 SGFIGMV-EALRFMETDIVAIIGPQCSTVAHIVSYVS-NELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEM 158 (777)
Q Consensus 81 ~~~~a~~-~a~~l~~~~v~aviGp~~s~~~~~va~~~-~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~ 158 (777)
++...+. .+..|-..|...++-|. .++..+++-. ..-++|+|+ ..++.++-
T Consensus 59 ~~~~~L~~~a~~Le~~GAd~i~l~~--NT~H~~~d~iq~~~~iPllh-------------------------IidaTa~~ 111 (230)
T COG1794 59 EAGEILIDAAKKLERAGADFIVLPT--NTMHKVADDIQKAVGIPLLH-------------------------IIDATAKA 111 (230)
T ss_pred cHHHHHHHHHHHHHhcCCCEEEEeC--CcHHHHHHHHHHhcCCCeeh-------------------------HHHHHHHH
Confidence 3444443 34444444888888544 3444555444 477899996 35667777
Q ss_pred HHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEE
Q 004042 159 VSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRIS 196 (777)
Q Consensus 159 l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~ 196 (777)
+++.|.+|++++.....- .....++.+.++|++++
T Consensus 112 ik~~g~kkvgLLgT~~Tm---~~~fY~~~l~~~gievv 146 (230)
T COG1794 112 IKAAGAKKVGLLGTRFTM---EQGFYRKRLEEKGIEVV 146 (230)
T ss_pred HHhcCCceeEEeeccchH---HhHHHHHHHHHCCceEe
Confidence 788888999988754431 12234667888887765
No 243
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=87.34 E-value=2.9 Score=45.13 Aligned_cols=88 Identities=14% Similarity=0.068 Sum_probs=64.3
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.+.++.+|.+++.+++..........+.+.+.+++.|+.+..-..+.++ .+.++.....+..++.++|+||-.+.
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 4567778889999999998544334456788999999999876543344444 45788899999999999999997665
Q ss_pred h--hHHHHHHHH
Q 004042 233 P--SLGFQVFSV 242 (777)
Q Consensus 233 ~--~~~~~~l~~ 242 (777)
+ -|+...+..
T Consensus 98 GS~iD~AK~ia~ 109 (383)
T PRK09860 98 GSPHDCAKGIAL 109 (383)
T ss_pred chHHHHHHHHHH
Confidence 5 355555443
No 244
>PF12727 PBP_like: PBP superfamily domain; InterPro: IPR024370 This entry represents members of the periplasmic binding domain superfamily []. It is often associated with a helix-turn-helix domain.
Probab=87.29 E-value=4.4 Score=38.93 Aligned_cols=68 Identities=24% Similarity=0.190 Sum_probs=47.8
Q ss_pred CCCCChhhhhhCCCCeEE-eeCchHHHHHHhhh---ccccccccc----cCCHHHHHHHHhcCCCCCCceEEEecchhhH
Q 004042 680 SPINGIESLRKSDDPIGY-QEGSFAEYYLSQEL---NISKSRLVA----LRTPEDYAKALKDGPGKGGVAAVVDERPYVE 751 (777)
Q Consensus 680 ~~i~s~~dl~~~~~~i~~-~~~~~~~~~~~~~~---~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~ 751 (777)
..|.+++||.+.+.++.- ..||.+..+|.... +.....+.. ..+-.+....|.. |+.|+-+.....+.
T Consensus 81 ~~i~~~~dL~~~~~r~vnR~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~----G~AD~G~g~~~~A~ 156 (193)
T PF12727_consen 81 KGITSLEDLADPGLRFVNRQPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVAS----GKADAGIGIRAAAE 156 (193)
T ss_pred ccCCCHHHhccCCcEEEECCCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHc----CCCCEEeehHHHHH
Confidence 379999999876777554 46888888885432 223333333 3567788889999 99999998766664
No 245
>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=86.84 E-value=12 Score=35.77 Aligned_cols=70 Identities=14% Similarity=0.195 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
-+..+++..+.++.. .+++++.. +....+++.|.+|++|+++..... ....+. ..|+....+++++++
T Consensus 19 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 86 (209)
T PF03466_consen 19 SLLPPLLAEFRERHP-NIRIEIRE-------GDSDELIEALRSGELDLAITFGPP---PPPGLE-SEPLGEEPLVLVVSP 86 (209)
T ss_dssp HTHHHHHHHHHHHST-TEEEEEEE-------ESHHHHHHHHHTTSSSEEEESSSS---SSTTEE-EEEEEEEEEEEEEET
T ss_pred HHHHHHHHHHHHHCC-CcEEEEEe-------ccchhhhHHHhcccccEEEEEeec---cccccc-cccccceeeeeeeec
Confidence 344677888877764 33355544 357899999999999998764333 222232 357778888888877
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 87 ~~ 88 (209)
T PF03466_consen 87 DH 88 (209)
T ss_dssp TS
T ss_pred cc
Confidence 65
No 246
>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=86.38 E-value=18 Score=33.85 Aligned_cols=70 Identities=16% Similarity=0.130 Sum_probs=44.6
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. +....+++.+.+|++|+++.. .+.....+ -..+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~---~~~~~~~~-~~~~l~~~~~~~v~~~ 80 (193)
T cd08442 13 VRLPPLLAAYHARYP-KVDLSLST-------GTTGALIQAVLEGRLDGAFVA---GPVEHPRL-EQEPVFQEELVLVSPK 80 (193)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEEe---CCCCCCCc-EEEEeecCcEEEEecC
Confidence 445678888888763 23344443 456789999999999998743 22222222 2356677777777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (193)
T cd08442 81 GH 82 (193)
T ss_pred CC
Confidence 44
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=85.91 E-value=12 Score=35.05 Aligned_cols=100 Identities=13% Similarity=0.000 Sum_probs=63.4
Q ss_pred chHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhc--ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCe
Q 004042 148 DSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESR 225 (777)
Q Consensus 148 ~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~ 225 (777)
..+....+.+.+...+ .+|.++.+..+ ..+.+.+.+++. |+.++....-+.+ ..+-...+++|.+++||
T Consensus 31 g~dl~~~ll~~~~~~~-~~v~llG~~~~----~~~~~~~~l~~~yp~l~i~g~~~g~~~----~~~~~~i~~~I~~~~pd 101 (171)
T cd06533 31 GSDLMPALLELAAQKG-LRVFLLGAKPE----VLEKAAERLRARYPGLKIVGYHHGYFG----PEEEEEIIERINASGAD 101 (171)
T ss_pred cHHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCcEEEEecCCCCC----hhhHHHHHHHHHHcCCC
Confidence 3445566666655554 67888876554 344444445544 6777763322222 44555589999999999
Q ss_pred EEEEecChhHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 226 VIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 226 vIvl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
+|++.+..+.-..++.+.++.. +.-+++..+
T Consensus 102 iv~vglG~PkQE~~~~~~~~~l---~~~v~~~vG 132 (171)
T cd06533 102 ILFVGLGAPKQELWIARHKDRL---PVPVAIGVG 132 (171)
T ss_pred EEEEECCCCHHHHHHHHHHHHC---CCCEEEEec
Confidence 9999988887777877766543 233566544
No 248
>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=85.90 E-value=6.5 Score=42.32 Aligned_cols=89 Identities=8% Similarity=-0.046 Sum_probs=64.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.++++.++.+++.+++..........+.+.+.+++.|+++..-..+.++ .+.+.....+...++.++|.||..+.
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 4566778888999999998655444446788999999989887543334444 45778888999999999999997665
Q ss_pred h--hHHHHHHHHH
Q 004042 233 P--SLGFQVFSVA 243 (777)
Q Consensus 233 ~--~~~~~~l~~a 243 (777)
+ -|+..++...
T Consensus 91 GSviD~aK~ia~~ 103 (370)
T cd08192 91 GSALDLAKAVALM 103 (370)
T ss_pred chHHHHHHHHHHH
Confidence 5 4555555444
No 249
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=85.67 E-value=3.9 Score=44.36 Aligned_cols=88 Identities=9% Similarity=-0.031 Sum_probs=63.7
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
+.+.+.++.+|.+++.++...........+.+.+.+++.|+++.....+.++ .+.....+.++..++.++|+||..+.
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 5566778888988888876544444556788999999999887544334444 44677889999999999999999876
Q ss_pred hh--HHHHHHHH
Q 004042 233 PS--LGFQVFSV 242 (777)
Q Consensus 233 ~~--~~~~~l~~ 242 (777)
+. |+...+..
T Consensus 116 GS~iD~AKaia~ 127 (395)
T PRK15454 116 GSVLDAAKAVAL 127 (395)
T ss_pred hHHHHHHHHHHH
Confidence 64 44444433
No 250
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=85.56 E-value=6.9 Score=42.17 Aligned_cols=90 Identities=11% Similarity=0.035 Sum_probs=64.9
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
+.+.+.++.+|-+++.+++..........+.+.+.+++.|+++.....+.++ .+.+.....++.+++.++|+||..+.
T Consensus 15 ~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 92 (374)
T cd08189 15 AQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPD--PTIENVEAGLALYRENGCDAILAVGG 92 (374)
T ss_pred HHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566778888889999998655444446788999999999876544445444 45778889999999999999997665
Q ss_pred h--hHHHHHHHHHH
Q 004042 233 P--SLGFQVFSVAK 244 (777)
Q Consensus 233 ~--~~~~~~l~~a~ 244 (777)
+ -|+..++....
T Consensus 93 GS~~D~aK~ia~~~ 106 (374)
T cd08189 93 GSVIDCAKAIAARA 106 (374)
T ss_pred ccHHHHHHHHHHHH
Confidence 5 45555554443
No 251
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=84.95 E-value=6.5 Score=40.15 Aligned_cols=96 Identities=17% Similarity=0.035 Sum_probs=74.3
Q ss_pred CCCceEEecCCchHHHHHHH----HHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhH
Q 004042 137 QYPFFVRTTQSDSYQMTAVA----EMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYV 212 (777)
Q Consensus 137 ~~~~~~r~~p~~~~~~~a~~----~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~ 212 (777)
..++-|-+.|+....+..+. ..++.+|.+++.++++.+..-....+..++.+++.|+++..-....++ .+..++
T Consensus 39 ~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~e--Ptv~s~ 116 (465)
T KOG3857|consen 39 MMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPE--PTVGSV 116 (465)
T ss_pred cceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCC--CchhhH
Confidence 34666667777666555443 347889999999999777766777888999999999998766556555 457889
Q ss_pred HHHHHHHhcCCCeEEEEecChh
Q 004042 213 MDLLVKVALMESRVIVLHVSPS 234 (777)
Q Consensus 213 ~~~l~~l~~~~~~vIvl~~~~~ 234 (777)
...++-.|+...|.+|..+.+.
T Consensus 117 ~~alefak~~~fDs~vaiGGGS 138 (465)
T KOG3857|consen 117 TAALEFAKKKNFDSFVAIGGGS 138 (465)
T ss_pred HHHHHHHHhcccceEEEEcCcc
Confidence 9999999999999999877664
No 252
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=84.93 E-value=4.7 Score=43.59 Aligned_cols=88 Identities=10% Similarity=0.069 Sum_probs=63.4
Q ss_pred HHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec
Q 004042 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (777)
Q Consensus 152 ~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~ 231 (777)
...+.+.++.+|.+++.+++.....-....+.+.+.+++.|+++..-..+.++ .+.++....++.+++.++|+||..+
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 35566778888999999998655444457888999999999876543334444 4467888888999999999999776
Q ss_pred Ch--hHHHHHHH
Q 004042 232 SP--SLGFQVFS 241 (777)
Q Consensus 232 ~~--~~~~~~l~ 241 (777)
.+ -|+..++.
T Consensus 96 GGS~iD~aK~ia 107 (382)
T PRK10624 96 GGSPQDTCKAIG 107 (382)
T ss_pred ChHHHHHHHHHH
Confidence 55 35554443
No 253
>PRK10537 voltage-gated potassium channel; Provisional
Probab=84.70 E-value=3.8 Score=44.15 Aligned_cols=56 Identities=18% Similarity=0.207 Sum_probs=44.7
Q ss_pred cccchhhHHHHHhhhhhccCc--CcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhh
Q 004042 619 PKRQVITILWFSLSTLFFAHK--ENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILT 674 (777)
Q Consensus 619 ~~~~~~~~~~~~~~~~~~~~~--~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~ 674 (777)
...++.+++|++..++..-|. ..|.+..+|++.+++.++++.+..+..+.++..+.
T Consensus 165 ~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~i 222 (393)
T PRK10537 165 PIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPVI 222 (393)
T ss_pred CCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345799999999999887663 47999999999999999998877666666655443
No 254
>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=84.50 E-value=4.8 Score=43.99 Aligned_cols=87 Identities=13% Similarity=-0.028 Sum_probs=63.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
+.+.++++.++.+++.+|++...+.....+.+.+.+++.|+++..-..+.++ .+.+.....++..++.++|+||..+.
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVE--PTDESFKDAIAFAKKGQFDAFVAVGG 89 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5566778889999999998666555556788999999889877543334444 45778888889999999999998776
Q ss_pred hh--HHHHHHH
Q 004042 233 PS--LGFQVFS 241 (777)
Q Consensus 233 ~~--~~~~~l~ 241 (777)
+. |+...+.
T Consensus 90 GSviD~AKaia 100 (414)
T cd08190 90 GSVIDTAKAAN 100 (414)
T ss_pred ccHHHHHHHHH
Confidence 63 4444443
No 255
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=84.26 E-value=0.98 Score=48.37 Aligned_cols=65 Identities=17% Similarity=0.290 Sum_probs=50.3
Q ss_pred HHHHHHhhheeeecccCCCCCCCcccchhhHHHHHhhhhhccC--cCcccCchhHHHHHHHHHHHHHHHhH
Q 004042 596 FFVVVGIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAH--KENTVSTLGRLVLIIWLFVVLIINSS 664 (777)
Q Consensus 596 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~p~~~~~R~~~~~~~~~~lv~~~~ 664 (777)
.+++++.+++++|+-.+.. ...++--++||+..+|+.-| ...|++..+|+++....++++++.+.
T Consensus 355 GI~iFStlvY~~Ek~~~~~----~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlAl 421 (477)
T KOG3713|consen 355 GIVIFSTLVYFAEKDEPDT----KFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLAL 421 (477)
T ss_pred HHHHHHHHHHHhhhcCCCC----CCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhhc
Confidence 3345566678887765542 25568889999999999775 45999999999999999999887664
No 256
>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=84.10 E-value=6.9 Score=38.32 Aligned_cols=40 Identities=18% Similarity=0.179 Sum_probs=27.8
Q ss_pred HHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCc-eeEEEee
Q 004042 495 IDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGV-FDAVVGD 543 (777)
Q Consensus 495 ~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~-~Di~~~~ 543 (777)
-++++.+.++.|+++++.. +.-..++..+.+|. +|+.++.
T Consensus 9 ~~~~~~f~~~~gi~V~~~~---------~gs~~l~~~l~~~~~aDv~~~~ 49 (216)
T TIGR01256 9 KEIAKQFEKRTGNKVVFSF---------GSSGTLYTQIENGAPADLFISA 49 (216)
T ss_pred HHHHHHHHHhhCCeEEEEe---------CChHHHHHHHHcCCCCcEEEEC
Confidence 3567777788888765543 34556778888774 9998764
No 257
>PF13531 SBP_bac_11: Bacterial extracellular solute-binding protein; PDB: 2HXW_B 3FJG_C 3FJM_B 3FJ7_B 3FIR_B 3AXF_C 1WOD_A 1AMF_A 3R26_A 1SBP_A ....
Probab=83.89 E-value=3.7 Score=40.73 Aligned_cols=74 Identities=23% Similarity=0.189 Sum_probs=47.7
Q ss_pred eeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcC-ceeEEEeeEEEeeccc---ceee--ecccccccc
Q 004042 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTG-VFDAVVGDITIVTNRT---KIVD--FSQPYAASG 564 (777)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g-~~Di~~~~~~~t~~r~---~~~d--fs~p~~~~~ 564 (777)
.+..-++.+...++-|+++++.. +.-..+...|..| +.|+.+..-....++. ..++ -..|+..+.
T Consensus 10 ~~~~~~l~~~f~~~~g~~v~v~~---------~~s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~ 80 (230)
T PF13531_consen 10 APALEELAEAFEKQPGIKVEVSF---------GGSGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARSP 80 (230)
T ss_dssp HHHHHHHHHHHHHHHCEEEEEEE---------ECHHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEEE
T ss_pred HHHHHHHHHHHHhccCCeEEEEE---------CChHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccCc
Confidence 34445677778778888866665 3456788888877 8898765422111111 2333 557888888
Q ss_pred eEEEEeccC
Q 004042 565 LVVVVPFRK 573 (777)
Q Consensus 565 ~~~~v~~~~ 573 (777)
+++++++..
T Consensus 81 ~vl~~~~~~ 89 (230)
T PF13531_consen 81 LVLAVPKGN 89 (230)
T ss_dssp EEEEEETTS
T ss_pred eEEEeccCc
Confidence 999998887
No 258
>cd08193 HVD 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD) is an iron-containing (type III) NAD-dependent alcohol dehydrogenase. It plays a role in the cyclopentanol metabolism biochemical pathway. It catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. This cyclopentanol (cpn) degradation pathway is present in some bacteria which can use cyclopentanol as sole carbon source. In Comamonas sp. strain NCIMB 9872, this enzyme is encoded by the CpnD gene.
Probab=83.69 E-value=5.5 Score=42.94 Aligned_cols=89 Identities=9% Similarity=0.012 Sum_probs=64.5
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.++++.++.+++.+++..........+.+.+.+++.|+++.....+.++ .+.++....++.+++.++|.||..+.
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 4566778888999999988554444456788999999999876543344444 45788999999999999999998776
Q ss_pred h--hHHHHHHHHH
Q 004042 233 P--SLGFQVFSVA 243 (777)
Q Consensus 233 ~--~~~~~~l~~a 243 (777)
+ -|+..++...
T Consensus 93 Gs~iD~aK~ia~~ 105 (376)
T cd08193 93 GSSMDVAKLVAVL 105 (376)
T ss_pred chHHHHHHHHHHH
Confidence 6 3555555443
No 259
>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=83.39 E-value=6.3 Score=42.42 Aligned_cols=89 Identities=9% Similarity=0.020 Sum_probs=64.8
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
+.+.+.++.++.+++.+|+....+.....+.+.+.+++.|+++.....+..+ .+.++....++.+++.++|.||..+.
T Consensus 12 ~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IiaiGG 89 (370)
T cd08551 12 EKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPN--PTLSNVDAAVAAYREEGCDGVIAVGG 89 (370)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5666778888999999998655444466778999999888876533334443 45788999999999999999998766
Q ss_pred h--hHHHHHHHHH
Q 004042 233 P--SLGFQVFSVA 243 (777)
Q Consensus 233 ~--~~~~~~l~~a 243 (777)
+ -++..++...
T Consensus 90 Gs~~D~AK~va~~ 102 (370)
T cd08551 90 GSVLDTAKAIALL 102 (370)
T ss_pred chHHHHHHHHHHH
Confidence 5 4555555443
No 260
>PRK10200 putative racemase; Provisional
Probab=83.26 E-value=12 Score=37.20 Aligned_cols=86 Identities=12% Similarity=0.062 Sum_probs=50.1
Q ss_pred ChHHHHHHHHHHHh-cCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHH
Q 004042 81 SGFIGMVEALRFME-TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV 159 (777)
Q Consensus 81 ~~~~a~~~a~~l~~-~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l 159 (777)
+|........+.+. .|+.+++=|-++...- ...+-+..++|+|+. .++..+.+
T Consensus 59 ~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------i~~~~~~~ 112 (230)
T PRK10200 59 KTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI-------------------------ADATGRAI 112 (230)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh-------------------------HHHHHHHH
Confidence 46666555555544 4899888766655554 455666778998862 23344445
Q ss_pred HhcCCcEEEEEEEeCccccchHHHHHHHHhhc-ceEE
Q 004042 160 SYYGWNAVSVIFVDNEYGRNGVSALNDKLAER-RCRI 195 (777)
Q Consensus 160 ~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~-g~~v 195 (777)
+..+-++|+++.+.... ....+++.+.+. |+++
T Consensus 113 ~~~~~~~VglLaT~~Ti---~s~~Y~~~l~~~~g~~~ 146 (230)
T PRK10200 113 TGAGMTRVALLGTRYTM---EQDFYRGRLTEQFSINC 146 (230)
T ss_pred HHcCCCeEEEeccHHHH---HHhHHHHHHHHhcCCeE
Confidence 55567788888654321 223344454544 6665
No 261
>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=83.18 E-value=22 Score=33.51 Aligned_cols=70 Identities=19% Similarity=0.201 Sum_probs=45.2
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. .+++++.. +..+.+...|.+|++|+++..... ....+ .+.|.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~l-~~~~l~~~~~~~v~~~ 80 (201)
T cd08459 13 YFLPRLLAALREVAP-GVRIETVR-------LPVDELEEALESGEIDLAIGYLPD---LGAGF-FQQRLFRERYVCLVRK 80 (201)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------cCccCHHHHhhCCCceEEEEcCCC---Ccccc-eEEEeecCceEEEEcC
Confidence 344577788887763 33355443 346688999999999999853221 12223 3467788888888776
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (201)
T cd08459 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 262
>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=82.94 E-value=38 Score=31.48 Aligned_cols=70 Identities=17% Similarity=0.215 Sum_probs=45.1
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. +....+.+.+.+|++|+++... +.....+ -+.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 80 (197)
T cd08440 13 TLLPPVLAAFRRRHP-GIRVRLRD-------VSAEQVIEAVRSGEVDFGIGSE---PEADPDL-EFEPLLRDPFVLVCPK 80 (197)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEEe-------CChHHHHHHHHcCCccEEEEeC---CCCCCCe-eEEEeecccEEEEecC
Confidence 455678888887763 33355443 3567899999999999988532 2222222 2356777788888765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (197)
T cd08440 81 DH 82 (197)
T ss_pred CC
Confidence 44
No 263
>TIGR02638 lactal_redase lactaldehyde reductase. This clade of genes encoding iron-containing alcohol dehydrogenase (pfam00465) proteins is generally found in apparent operons for the catabolism of rhamnose or fucose. Catabolism of both of these monosaccharides results in lactaldehyde which is reduced by this enzyme to 1,2 propanediol. This protein is alternatively known by the name 1,2 propanediol oxidoreductase. This enzyme is active under anaerobic conditions in E. coli while being inactivated by reactive oxygen species under aerobic conditions. Under aerobic conditions the lactaldehyde product of rhamnose and fucose catabolism is believed to be oxidized to lactate by a separate enzyme, lactaldehyde dehydrogenase.
Probab=82.88 E-value=6.1 Score=42.66 Aligned_cols=87 Identities=9% Similarity=0.017 Sum_probs=62.7
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.+.++.+|.+++.|++.....-....+.+.+.+++.|+++..-..+.++ .+.+......+.+++.++|.||..+.
T Consensus 18 ~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiaiGG 95 (379)
T TIGR02638 18 EDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPN--PTITVVKAGVAAFKASGADYLIAIGG 95 (379)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566778888999999998654444446788999999999876543334444 45788888999999999999998766
Q ss_pred h--hHHHHHHH
Q 004042 233 P--SLGFQVFS 241 (777)
Q Consensus 233 ~--~~~~~~l~ 241 (777)
+ -|+...+.
T Consensus 96 GSviD~aKaia 106 (379)
T TIGR02638 96 GSPIDTAKAIG 106 (379)
T ss_pred hHHHHHHHHHH
Confidence 5 34554443
No 264
>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=82.69 E-value=42 Score=31.32 Aligned_cols=70 Identities=16% Similarity=0.228 Sum_probs=44.4
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. .+++++.. +....++..|.+|++|+++..... ..+.+ .+.+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~~~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~ 80 (201)
T cd08420 13 YLLPRLLARFRKRYP-EVRVSLTI-------GNTEEIAERVLDGEIDLGLVEGPV---DHPDL-IVEPFAEDELVLVVPP 80 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEecCCC---CCcce-EEEeecCccEEEEecC
Confidence 445677888887763 33344443 346678999999999998853221 22222 2367777788887765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (201)
T cd08420 81 DH 82 (201)
T ss_pred CC
Confidence 44
No 265
>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=82.57 E-value=24 Score=34.37 Aligned_cols=124 Identities=11% Similarity=0.160 Sum_probs=73.7
Q ss_pred HHHhcCcEEEEcCCChhHHHHHHHhh-ccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEE
Q 004042 91 RFMETDIVAIIGPQCSTVAHIVSYVS-NELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSV 169 (777)
Q Consensus 91 ~l~~~~v~aviGp~~s~~~~~va~~~-~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vai 169 (777)
++...++.+|+- .|++....+...- ...++|+++. .++.++.+.+ +-+||++
T Consensus 60 ~l~~~g~d~i~i-~C~s~~~~~~~~~~~~~~iPv~~~-------------------------~~a~~~~~~~-~~~ri~v 112 (216)
T PF01177_consen 60 KLEKAGVDAIVI-ACNSAHPFVDELRKERVGIPVVGI-------------------------VEAALEAAKA-GGKRIGV 112 (216)
T ss_dssp HHHHTTESEEEE-SSHHHHHHHHHHHHHHHSSEEEES-------------------------HHHHHHHHHH-TSSEEEE
T ss_pred HHHhCCCCEEEE-cCCchhhhHHHHhhhcCceEEEec-------------------------cHHHHHHHHh-cCCEEEE
Confidence 334458888886 3444434444444 6678998863 2333555555 9999999
Q ss_pred EEEeCccccchHHHHHHHHhhc-ce--EEEEee------ecCCCCCCChh---hHHHHHHHH-hcCCCeEEEEecChhHH
Q 004042 170 IFVDNEYGRNGVSALNDKLAER-RC--RISYKS------GIPPESGVNTG---YVMDLLVKV-ALMESRVIVLHVSPSLG 236 (777)
Q Consensus 170 i~~~~~~g~~~~~~~~~~~~~~-g~--~v~~~~------~~~~~~~~~~~---d~~~~l~~l-~~~~~~vIvl~~~~~~~ 236 (777)
+.+ ++......+.+.+++. |+ ++.... ....+. .+.. .+...++++ +..++|+|++.|..-..
T Consensus 113 l~t---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~-~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~ 188 (216)
T PF01177_consen 113 LTT---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGD-IPPEQIEILAEAARELIKEDGADAIILGCTHLPL 188 (216)
T ss_dssp EES---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTC-TTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGG
T ss_pred Eec---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhc-CCHHHHHHHHHHHHHHhccCCCCEEEECCCchHH
Confidence 985 3334556677777887 87 554421 111120 1222 355555555 37899999998877543
Q ss_pred H-HHHHHHHH
Q 004042 237 F-QVFSVAKY 245 (777)
Q Consensus 237 ~-~~l~~a~~ 245 (777)
. ...+.+.+
T Consensus 189 ~~~~~~~l~~ 198 (216)
T PF01177_consen 189 LLGAIEALEE 198 (216)
T ss_dssp GHHHHHHHHH
T ss_pred HHHHHHhhcc
Confidence 3 66666654
No 266
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=82.52 E-value=9.2 Score=40.20 Aligned_cols=60 Identities=17% Similarity=0.159 Sum_probs=46.8
Q ss_pred CCCCChhhhhhCCCCeEEeeCchHHHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhh
Q 004042 680 SPINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYV 750 (777)
Q Consensus 680 ~~i~s~~dl~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~ 750 (777)
.+|++.+||+ |.++=+.......++|+ ..+..+.. -...|.+.+|++ |-+|+.-.....+
T Consensus 157 ~PI~~peDlk--GlkiRv~~s~~~~~~~~-a~GA~P~p----m~f~Evy~aLqt----GvVDGqEnp~~~i 216 (332)
T COG1638 157 RPIKTPEDLK--GLKIRVPQSPLLLAMFK-ALGANPTP----MPFAEVYTALQT----GVVDGQENPLSNI 216 (332)
T ss_pred CCCCChHHhC--CCeeecCCCHHHHHHHH-HcCCCCCC----CCHHHHHHHHHc----CCcccccCCHHHH
Confidence 4999999999 99999999888888883 55554333 357899999999 8888877765433
No 267
>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=82.37 E-value=36 Score=32.10 Aligned_cols=127 Identities=19% Similarity=0.176 Sum_probs=75.7
Q ss_pred ChHHHHHHHHHH-HhcCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHH
Q 004042 81 SGFIGMVEALRF-METDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV 159 (777)
Q Consensus 81 ~~~~a~~~a~~l-~~~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l 159 (777)
+-..++..+.++ ..+++.+||.-.. ++.. +-+..++|+|.. .++..+..+++....
T Consensus 18 ~~e~~v~~a~~~~~~~g~dViIsRG~--ta~~---lr~~~~iPVV~I------------------~~s~~Dil~al~~a~ 74 (176)
T PF06506_consen 18 SLEEAVEEARQLLESEGADVIISRGG--TAEL---LRKHVSIPVVEI------------------PISGFDILRALAKAK 74 (176)
T ss_dssp -HHHHHHHHHHHHTTTT-SEEEEEHH--HHHH---HHCC-SS-EEEE---------------------HHHHHHHHHHCC
T ss_pred cHHHHHHHHHHhhHhcCCeEEEECCH--HHHH---HHHhCCCCEEEE------------------CCCHhHHHHHHHHHH
Confidence 456788899999 7789999996322 2222 233448899863 133444455554432
Q ss_pred HhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHH
Q 004042 160 SYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQV 239 (777)
Q Consensus 160 ~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~ 239 (777)
.++ ++++++...+.. .....+.+.+ |+.+.... + .+..|+...+.+++..+.++||-.+. .
T Consensus 75 -~~~-~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~-~-----~~~~e~~~~i~~~~~~G~~viVGg~~------~ 135 (176)
T PF06506_consen 75 -KYG-PKIAVVGYPNII--PGLESIEELL---GVDIKIYP-Y-----DSEEEIEAAIKQAKAEGVDVIVGGGV------V 135 (176)
T ss_dssp -CCT-SEEEEEEESS-S--CCHHHHHHHH---T-EEEEEE-E-----SSHHHHHHHHHHHHHTT--EEEESHH------H
T ss_pred -hcC-CcEEEEeccccc--HHHHHHHHHh---CCceEEEE-E-----CCHHHHHHHHHHHHHcCCcEEECCHH------H
Confidence 333 899999765543 2356666665 55655332 2 13789999999999999998887542 3
Q ss_pred HHHHHHcCCC
Q 004042 240 FSVAKYLGMM 249 (777)
Q Consensus 240 l~~a~~~gl~ 249 (777)
.+.|++.|+.
T Consensus 136 ~~~A~~~gl~ 145 (176)
T PF06506_consen 136 CRLARKLGLP 145 (176)
T ss_dssp HHHHHHTTSE
T ss_pred HHHHHHcCCc
Confidence 5677888874
No 268
>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=82.30 E-value=7.1 Score=42.10 Aligned_cols=87 Identities=10% Similarity=-0.031 Sum_probs=63.4
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.++++.++.+|+.+|+....+.....+.+.+.+++.|+++.....+.++ .+..+....+..+++.++|.||-.+.
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 4455667777889999998655554446788999999999887544445444 45778889999999999999998766
Q ss_pred h--hHHHHHHH
Q 004042 233 P--SLGFQVFS 241 (777)
Q Consensus 233 ~--~~~~~~l~ 241 (777)
+ -|+..++.
T Consensus 90 GS~~D~AKaia 100 (375)
T cd08194 90 GSPIDTAKAIA 100 (375)
T ss_pred chHHHHHHHHH
Confidence 5 35554443
No 269
>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=81.80 E-value=7.5 Score=41.75 Aligned_cols=89 Identities=15% Similarity=0.071 Sum_probs=66.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.+.++.+| |+.+|+..........+.+.+.+++.|+++.....+... .+..+....++.+++.++|.||..+.
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 45566777777 999998663333447889999999999988665555555 56889999999999999999999877
Q ss_pred hh--HHHHHHHHHHH
Q 004042 233 PS--LGFQVFSVAKY 245 (777)
Q Consensus 233 ~~--~~~~~l~~a~~ 245 (777)
+. ++..++..+..
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 74 55556655554
No 270
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=81.78 E-value=3.2 Score=50.00 Aligned_cols=54 Identities=15% Similarity=0.340 Sum_probs=47.4
Q ss_pred chhhHHHHHhhhhhccCc--CcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhh
Q 004042 622 QVITILWFSLSTLFFAHK--ENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTV 675 (777)
Q Consensus 622 ~~~~~~~~~~~~~~~~~~--~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~ 675 (777)
+...++||++.+++.-|. ..|.+...|++.++|+++++.+.++..+++++.+..
T Consensus 250 ~Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~ 305 (823)
T PLN03192 250 RYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVE 305 (823)
T ss_pred HHHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355689999999997763 489999999999999999999999999999998764
No 271
>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=81.46 E-value=42 Score=31.17 Aligned_cols=69 Identities=19% Similarity=0.253 Sum_probs=43.8
Q ss_pred eeeHHHHHHHHHHC-CCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEe
Q 004042 492 GFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (777)
Q Consensus 492 G~~~dl~~~l~~~l-~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~ 570 (777)
.+...++..+.++. +.+ +++.. +....++..+.+|++|+++... ......+. ..++....++++++
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~l~-~~~l~~~~~~~v~~ 79 (195)
T cd08434 13 SLVPDLIRAFRKEYPNVT--FELHQ-------GSTDELLDDLKNGELDLALCSP---VPDEPDIE-WIPLFTEELVLVVP 79 (195)
T ss_pred hhhHHHHHHHHHhCCCeE--EEEec-------CcHHHHHHHHHcCCccEEEEcc---CCCCCCee-EEEeecceEEEEec
Confidence 34556777787776 334 44433 3467789999999999987532 22223333 35677777777776
Q ss_pred ccC
Q 004042 571 FRK 573 (777)
Q Consensus 571 ~~~ 573 (777)
+..
T Consensus 80 ~~~ 82 (195)
T cd08434 80 KDH 82 (195)
T ss_pred CCC
Confidence 554
No 272
>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=81.38 E-value=44 Score=31.08 Aligned_cols=69 Identities=13% Similarity=0.116 Sum_probs=44.2
Q ss_pred eeeHHHHHHHHHHC-CCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEe
Q 004042 492 GFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (777)
Q Consensus 492 G~~~dl~~~l~~~l-~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~ 570 (777)
.+..+++..+.++. +.+ +++.. +....++..+.+|++|+++...... ...+ .+.++....++++++
T Consensus 12 ~~l~~~l~~~~~~~P~i~--l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~~~~ 78 (197)
T cd08419 12 YFAPRLLGAFCRRHPGVE--VSLRV-------GNREQVLERLADNEDDLAIMGRPPE---DLDL-VAEPFLDNPLVVIAP 78 (197)
T ss_pred hHhhHHHHHHHHHCCCce--EEEEE-------CCHHHHHHHHhcCCccEEEecCCCC---CCCe-EEEEeccCCEEEEec
Confidence 34567788888776 444 44443 3467889999999999998532211 1112 346777778888776
Q ss_pred ccC
Q 004042 571 FRK 573 (777)
Q Consensus 571 ~~~ 573 (777)
+..
T Consensus 79 ~~~ 81 (197)
T cd08419 79 PDH 81 (197)
T ss_pred CCC
Confidence 544
No 273
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=81.35 E-value=45 Score=37.19 Aligned_cols=141 Identities=12% Similarity=0.109 Sum_probs=79.8
Q ss_pred EEcCCChhHHHHHHHhhc-cCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEE-eCccc
Q 004042 100 IIGPQCSTVAHIVSYVSN-ELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFV-DNEYG 177 (777)
Q Consensus 100 viGp~~s~~~~~va~~~~-~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~-~~~~g 177 (777)
|++|.+.....++..+.+ ...+=+|.++. .-++|- ......+...++.....-+++.|+|. .....
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~H----------G~i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~S~~GnT 265 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSH----------GVVWRD--NPTQIVELYLKWAADYQEDRITIFYDTMSNNT 265 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC----------CceEeC--CHHHHHHHHHHHhhccCcCcEEEEEECCccHH
Confidence 677777766666666654 23445555433 224452 22222333334444434578999993 34445
Q ss_pred cchHHHHHHHHhhc--ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh------hHHHHHHHHHHHcCCC
Q 004042 178 RNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP------SLGFQVFSVAKYLGMM 249 (777)
Q Consensus 178 ~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~------~~~~~~l~~a~~~gl~ 249 (777)
...++.+.+.+++. |+++... .+. ..+...++..+. +++.|++.+.. +.+..++.......+.
T Consensus 266 e~mA~~ia~gl~~~g~gv~v~~~-~v~------~~~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~ 336 (479)
T PRK05452 266 RMMADAIAQGIAEVDPRVAVKIF-NVA------RSDKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFR 336 (479)
T ss_pred HHHHHHHHHHHHhhCCCceEEEE-ECC------CCCHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCcC
Confidence 67788899998876 4554432 222 334555555554 46677776643 4567777777777665
Q ss_pred CCCeEEEEeCcc
Q 004042 250 GNGYVWIATDWL 261 (777)
Q Consensus 250 ~~~~~~i~~~~~ 261 (777)
+....-+++-.|
T Consensus 337 gK~~~vFGSygw 348 (479)
T PRK05452 337 NKRASAFGSHGW 348 (479)
T ss_pred CCEEEEEECCCc
Confidence 544445555444
No 274
>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein DctP [, ] and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins []. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component [].; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2HZK_C 2HZL_B 2HPG_C 2XWI_A 2XWK_A 2WX9_A 2CEY_A 2WYP_A 3B50_A 2CEX_B ....
Probab=80.85 E-value=10 Score=39.09 Aligned_cols=60 Identities=18% Similarity=0.204 Sum_probs=44.7
Q ss_pred CCCCChhhhhhCCCCeEEeeCchHHHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhh
Q 004042 680 SPINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYV 750 (777)
Q Consensus 680 ~~i~s~~dl~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~ 750 (777)
.+|++++||+ |+++-+..+.....+++ ..+..+.. -...|.+.+|++ |.+|+.......+
T Consensus 126 ~pi~s~~Dlk--G~kiR~~~~~~~~~~~~-~lGa~pv~----ip~~evy~aLq~----G~vDg~~~~~~~~ 185 (286)
T PF03480_consen 126 KPIRSPEDLK--GLKIRVPGSPVMSDFFE-ALGASPVP----IPWSEVYQALQQ----GVVDGAENSASSI 185 (286)
T ss_dssp S--SSGGGGT--TEEEEETSSHHHHHHHH-HCTSEEEE-----TGGGHHHHHHT----TSSSEEEEEHHHH
T ss_pred cCCccHhhHh--hCeEEecCCHHHHHHHH-HcCCeeec----CcHHHHHHHHhc----CCcCeEecCHHHH
Confidence 5899999999 99999986666777773 45543222 346689999999 9999999987766
No 275
>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=80.16 E-value=34 Score=31.95 Aligned_cols=70 Identities=19% Similarity=0.271 Sum_probs=45.7
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++.+.. ++...++..|.+|++|+++..... ....+. ..++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE-------YGGKKVEQAVLNGELDVGITVLPV---DEEEFD-SQPLCNEPLVAVLPR 80 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE-------cCcHHHHHHHHcCCCCEEEEeccc---ccCCce-eEEeccccEEEEecC
Confidence 455778888888763 34455543 356788999999999999853221 122232 346677777777766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (197)
T cd08438 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 276
>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=79.95 E-value=9.1 Score=39.92 Aligned_cols=89 Identities=16% Similarity=0.049 Sum_probs=64.9
Q ss_pred EEEEEe---eCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 004042 33 NVGALF---TLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (777)
Q Consensus 33 ~IG~l~---~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~ 109 (777)
++|.+. ....+.-.....|+...++..| |+.++...+..+-.||.++.+.+..|+++|+++|.. ......
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~n------p~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~-~ag~~~ 200 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVN------PDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFP-VAGGSG 200 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTT------TT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEE-E-CCCH
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhC------cCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEE-CCCCCc
Confidence 567777 6654444577899999999999 677888888887789999999999999999998876 455666
Q ss_pred HHHHHhhccCCce--EEeccc
Q 004042 110 HIVSYVSNELQVP--LLSFGV 128 (777)
Q Consensus 110 ~~va~~~~~~~iP--~Is~~a 128 (777)
..+...+.+.+.. .|....
T Consensus 201 ~gv~~aa~e~g~~~~~IG~d~ 221 (306)
T PF02608_consen 201 QGVIQAAKEAGVYGYVIGVDS 221 (306)
T ss_dssp HHHHHHHHHHTHETEEEEEES
T ss_pred hHHHHHHHHcCCceEEEEecc
Confidence 6777778888877 776544
No 277
>cd08188 Fe-ADH4 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=79.76 E-value=9.8 Score=41.02 Aligned_cols=87 Identities=13% Similarity=-0.032 Sum_probs=61.4
Q ss_pred HHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec
Q 004042 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (777)
Q Consensus 152 ~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~ 231 (777)
...+.++++.++.+++.+|+..........+.+.+.+++.|+.+..-..+.++ .+..+....+..+++.++|.||..+
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 34566778888989999998654433346788999999888876543334333 4467788888899999999999876
Q ss_pred Ch--hHHHHHH
Q 004042 232 SP--SLGFQVF 240 (777)
Q Consensus 232 ~~--~~~~~~l 240 (777)
.+ -|+...+
T Consensus 94 GGsviD~AK~i 104 (377)
T cd08188 94 GGSPIDCAKGI 104 (377)
T ss_pred CchHHHHHHHH
Confidence 65 3455444
No 278
>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=79.57 E-value=43 Score=31.16 Aligned_cols=70 Identities=16% Similarity=0.160 Sum_probs=45.1
Q ss_pred eeeHHHHHHHHHHC-CCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecc-cceeeecccccccceEEEE
Q 004042 492 GFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNR-TKIVDFSQPYAASGLVVVV 569 (777)
Q Consensus 492 G~~~dl~~~l~~~l-~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r-~~~~dfs~p~~~~~~~~~v 569 (777)
.+-.+++..+.++. +.+ +++.. ++.+.+++.+.+|++|+++.... ... .+.+ .+.+.....+.+++
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~--~~~~~~~~-~~~~l~~~~~~~v~ 80 (195)
T cd08427 13 GLLPRALARLRRRHPDLE--VHIVP-------GLSAELLARVDAGELDAAIVVEP--PFPLPKDL-VWTPLVREPLVLIA 80 (195)
T ss_pred HHhHHHHHHHHHHCCCce--EEEEe-------CCcHHHHHHHHCCCCCEEEEcCC--CCccccCc-eEEEcccCcEEEEE
Confidence 45567788887776 344 44443 45788999999999999985321 111 1222 34567777888887
Q ss_pred eccC
Q 004042 570 PFRK 573 (777)
Q Consensus 570 ~~~~ 573 (777)
++..
T Consensus 81 ~~~~ 84 (195)
T cd08427 81 PAEL 84 (195)
T ss_pred CCCC
Confidence 6654
No 279
>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=79.48 E-value=38 Score=32.02 Aligned_cols=73 Identities=14% Similarity=0.192 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++.+.. ++...+++.|.+|++|+++..........+.+.. .+.......+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~ 83 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVH-------AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIEE-RDWWEDTYVVIASR 83 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEE-------CChHhHHHHHHCCCccEEEecccccccCCCCEEE-EEEecCcEEEEEeC
Confidence 455778888888763 23355543 4578899999999999988633211000223333 56777778888766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 84 ~h 85 (202)
T cd08468 84 DH 85 (202)
T ss_pred CC
Confidence 54
No 280
>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=79.31 E-value=55 Score=30.56 Aligned_cols=70 Identities=20% Similarity=0.263 Sum_probs=45.5
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. ++++++.. ++...+++.+.+|++|+++... +.....+. ..+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (198)
T cd08421 13 EFLPEDLASFLAAHP-DVRIDLEE-------RLSADIVRAVAEGRADLGIVAG---NVDAAGLE-TRPYRTDRLVVVVPR 80 (198)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------cCcHHHHHHHhcCCceEEEEec---CCCCCCcE-EEEeecCcEEEEeCC
Confidence 344677888888762 33355443 3567899999999999988532 22223333 357777888888766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (198)
T cd08421 81 DH 82 (198)
T ss_pred CC
Confidence 54
No 281
>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=78.81 E-value=61 Score=30.79 Aligned_cols=71 Identities=11% Similarity=0.208 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. .+++++... ++...+++.|.+|++|+++.... ...+.+++ .|+.+....+++++
T Consensus 13 ~~~~~~l~~~~~~~P-~~~v~~~~~------~~~~~l~~~L~~g~lDl~i~~~~---~~~~~l~~-~~l~~~~~~lv~~~ 81 (203)
T cd08463 13 LFLPELVARFRREAP-GARLEIHPL------GPDFDYERALASGELDLVIGNWP---EPPEHLHL-SPLFSDEIVCLMRA 81 (203)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEeC------CcchhHHHHHhcCCeeEEEeccc---cCCCCcEE-eEeecCceEEEEeC
Confidence 456788888887763 333555431 23578999999999999985321 11122333 56777888888776
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 82 ~h 83 (203)
T cd08463 82 DH 83 (203)
T ss_pred CC
Confidence 65
No 282
>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=78.75 E-value=30 Score=33.07 Aligned_cols=72 Identities=13% Similarity=0.169 Sum_probs=44.0
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. .++++... ++...++..|.+|++|+++.......+-...+ ...|+....+.++++.
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 455677888777763 33355443 56889999999999999884322111100111 2457777777776554
Q ss_pred c
Q 004042 572 R 572 (777)
Q Consensus 572 ~ 572 (777)
+
T Consensus 84 ~ 84 (204)
T cd08429 84 P 84 (204)
T ss_pred C
Confidence 3
No 283
>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=78.69 E-value=58 Score=30.45 Aligned_cols=72 Identities=19% Similarity=0.236 Sum_probs=44.9
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. ++++++.. .....++..|.+|++|+++...... .....+ -+.+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~-~~~~l~~~~~~~v~~~ 82 (201)
T cd08418 13 TLMPAVINRFKEQFP-DVQISIYE-------GQLSSLLPELRDGRLDFAIGTLPDE-MYLKEL-ISEPLFESDFVVVARK 82 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CcHHHHHHHHHcCCCcEEEEecCCC-CCCcce-eEEeecCCceEEEeCC
Confidence 445677788877763 33355543 3567899999999999998532111 111223 2356677777777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 83 ~~ 84 (201)
T cd08418 83 DH 84 (201)
T ss_pred CC
Confidence 44
No 284
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=78.65 E-value=11 Score=40.81 Aligned_cols=88 Identities=9% Similarity=-0.008 Sum_probs=62.3
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCcc-ccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEY-GRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~-g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~ 231 (777)
..+.+.++.++ +|+.||+..... .....+.+.+.+++.|+++..-..+.++ .+.++.......+++.++|+||..+
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 44566677777 899999855432 4566788999999999887543344444 4577888888999999999999766
Q ss_pred Ch--hHHHHHHHHH
Q 004042 232 SP--SLGFQVFSVA 243 (777)
Q Consensus 232 ~~--~~~~~~l~~a 243 (777)
.+ -|+...+...
T Consensus 92 GGS~iD~aK~ia~~ 105 (380)
T cd08185 92 GGSSMDTAKAIAFM 105 (380)
T ss_pred CccHHHHHHHHHHH
Confidence 55 3555555443
No 285
>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=78.57 E-value=19 Score=38.96 Aligned_cols=88 Identities=13% Similarity=0.103 Sum_probs=59.9
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.++++.+| +++.+|+....+.....+.+.+.+++.|+++..-..+.+. ....+....+...++.++|.||..+.
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 44566778888 8999888544433467788999999999876533333322 23566777788888889999998766
Q ss_pred h--hHHHHHHHHH
Q 004042 233 P--SLGFQVFSVA 243 (777)
Q Consensus 233 ~--~~~~~~l~~a 243 (777)
+ -|+..++...
T Consensus 89 GS~iD~aK~ia~~ 101 (386)
T cd08191 89 GSCIDLAKIAGLL 101 (386)
T ss_pred chHHHHHHHHHHH
Confidence 5 3555555443
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=78.14 E-value=53 Score=30.64 Aligned_cols=70 Identities=14% Similarity=0.143 Sum_probs=45.5
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. ++...++..+.+|++|+++... ......+ .+.|+....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 80 (198)
T cd08412 13 YYLPGLLRRFREAYP-GVEVRVVE-------GNQEELEEGLRSGELDLALTYD---LDLPEDI-AFEPLARLPPYVWLPA 80 (198)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEcC---CCCCccc-ceeeeeccceEEEecC
Confidence 556778888887763 22344443 4567889999999999988532 2222222 2467777777777766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (198)
T cd08412 81 DH 82 (198)
T ss_pred CC
Confidence 54
No 287
>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=78.13 E-value=9.9 Score=40.99 Aligned_cols=87 Identities=14% Similarity=0.086 Sum_probs=62.1
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.+.++.++-+++.+++....+.....+.+.+.+++.|+++..-..+.++ .+.+......+.+++.++|.||..+.
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 94 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPN--PTITNVKDGLAVFKKEGCDFIISIGG 94 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566778888888999887544433356788999999888876543334433 45777888999999999999998766
Q ss_pred hh--HHHHHHH
Q 004042 233 PS--LGFQVFS 241 (777)
Q Consensus 233 ~~--~~~~~l~ 241 (777)
+. |+...+.
T Consensus 95 GS~iD~aK~ia 105 (377)
T cd08176 95 GSPHDCAKAIG 105 (377)
T ss_pred cHHHHHHHHHH
Confidence 53 4444443
No 288
>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=78.09 E-value=18 Score=34.23 Aligned_cols=69 Identities=23% Similarity=0.249 Sum_probs=44.5
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. ++++++.. ++. .+++.+.+|++|+++..... ....+. ..|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~l~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 79 (200)
T cd08460 13 AFGPALLAAVAAEAP-GVRLRFVP-------ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVRA 79 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEeC
Confidence 556778888888763 33355533 334 78899999999998853211 122233 367777888888766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
.-
T Consensus 80 ~h 81 (200)
T cd08460 80 GH 81 (200)
T ss_pred CC
Confidence 54
No 289
>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=77.98 E-value=37 Score=31.92 Aligned_cols=70 Identities=13% Similarity=0.212 Sum_probs=43.8
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. ++...+++.+.+|++|+++..-. .....+. ..++....+.+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 81 (200)
T cd08411 14 YLLPRLLPALRQAYP-KLRLYLRE-------DQTERLLEKLRSGELDAALLALP---VDEPGLE-EEPLFDEPFLLAVPK 81 (200)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEe-------CcHHHHHHHHHcCCccEEEEecc---CCCCCce-EEEeeccceEEEecC
Confidence 355677888887763 33355443 35778999999999999985321 1112222 345667777777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 82 ~~ 83 (200)
T cd08411 82 DH 83 (200)
T ss_pred CC
Confidence 44
No 290
>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=77.95 E-value=50 Score=34.44 Aligned_cols=41 Identities=24% Similarity=0.179 Sum_probs=22.9
Q ss_pred CcchhHHHHHHHHHhhhhcccccccCCCCceEEEEEEeeCC
Q 004042 1 MKTIWFLPLVFLYFGLFSFGYCKSVSARPAVVNVGALFTLD 41 (777)
Q Consensus 1 m~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~IG~l~~~s 41 (777)
|||.++++++.++++.+++++|.......+.++||...+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Ig~~~~~~ 41 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAACAGDGGEPTFVTIGTGGTGG 41 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHhhccCCCCCceEEEEeCCCCC
Confidence 77766444333333222334444434556789999886654
No 291
>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=77.84 E-value=50 Score=31.01 Aligned_cols=73 Identities=15% Similarity=0.134 Sum_probs=44.6
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. .+++++.. +....+...+.+|++|+++............+ -+.+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~ 83 (200)
T cd08453 13 SVLPELVRRFREAYP-DVELQLRE-------ATSDVQLEALLAGEIDAGIVIPPPGASAPPAL-AYRPLLSEPLVLAVPA 83 (200)
T ss_pred HHHHHHHHHHHHhCC-CceEEEEe-------CCHHHHHHHHHcCCCCEEEEecCcccCCCcce-eEEEeeeCceEEEEEC
Confidence 355677888877762 33355543 34677899999999999885321111011222 2456677777777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 84 ~h 85 (200)
T cd08453 84 AW 85 (200)
T ss_pred CC
Confidence 54
No 292
>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=77.73 E-value=45 Score=31.22 Aligned_cols=70 Identities=11% Similarity=0.100 Sum_probs=44.5
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. +....++..+.+|++|+++.... .....+. +.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 80 (199)
T cd08426 13 ELLPSLIARFRQRYP-GVFFTVDV-------ASTADVLEAVLSGEADIGLAFSP---PPEPGIR-VHSRQPAPIGAVVPP 80 (199)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEe-------CCcHHHHHHHHCCCccEEEecCC---CCCCCeE-EEeeccCcEEEEecC
Confidence 345677788877753 33344443 34678999999999999985321 1112232 467777888888765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~h 82 (199)
T cd08426 81 GH 82 (199)
T ss_pred CC
Confidence 44
No 293
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=77.33 E-value=33 Score=32.98 Aligned_cols=69 Identities=26% Similarity=0.238 Sum_probs=44.0
Q ss_pred CCCCChhhhhhCCCCeEE-eeCchHHHHHHhh---hcccccccccc----CCHHHHHHHHhcCCCCCCceEEEecchhhH
Q 004042 680 SPINGIESLRKSDDPIGY-QEGSFAEYYLSQE---LNISKSRLVAL----RTPEDYAKALKDGPGKGGVAAVVDERPYVE 751 (777)
Q Consensus 680 ~~i~s~~dl~~~~~~i~~-~~~~~~~~~~~~~---~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~ 751 (777)
..|++++||...+.++.- .+||.+...|.+. .+..++.+.-| .+-.....+|++ |+.|+=+.-+..++
T Consensus 87 k~i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~----G~AD~GvGlr~~A~ 162 (223)
T COG1910 87 KNISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVAS----GRADAGVGLRHAAE 162 (223)
T ss_pred CccccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHc----CCCCccccHHHHHH
Confidence 358999999944444333 3688877777432 33334455555 344456677888 99999998655554
Q ss_pred H
Q 004042 752 L 752 (777)
Q Consensus 752 ~ 752 (777)
-
T Consensus 163 ~ 163 (223)
T COG1910 163 K 163 (223)
T ss_pred H
Confidence 4
No 294
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=77.17 E-value=35 Score=36.17 Aligned_cols=75 Identities=16% Similarity=0.042 Sum_probs=61.5
Q ss_pred eEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 004042 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (777)
Q Consensus 31 ~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~ 110 (777)
.-++|.+.-+..+.-.....|+++.++..|. ..++...+..+=.||.++.+.+..|+++|+++|.....+....
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 4578888888866666788999999999994 5777888878788999999999999999999999866655444
Q ss_pred H
Q 004042 111 I 111 (777)
Q Consensus 111 ~ 111 (777)
.
T Consensus 235 v 235 (345)
T COG1744 235 V 235 (345)
T ss_pred H
Confidence 4
No 295
>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=76.96 E-value=51 Score=30.82 Aligned_cols=70 Identities=14% Similarity=0.078 Sum_probs=44.3
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.+++. ++++++.. ++...++..+.+|++|+++... ......+ -+.++....+.+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~-~~~~l~~~~~~lv~~~ 80 (198)
T cd08461 13 AILPPLLAALRQEAP-GVRVAIRD-------LESDNLEAQLERGEVDLALTTP---EYAPDGL-RSRPLFEERYVCVTRR 80 (198)
T ss_pred HHhHHHHHHHHHHCC-CcEEEEee-------CCcccHHHHHhcCCCcEEEecC---ccCCccc-eeeeeecCcEEEEEcC
Confidence 455677888887763 23344433 3456789999999999988532 1112222 2567777888887766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (198)
T cd08461 81 GH 82 (198)
T ss_pred CC
Confidence 54
No 296
>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=76.93 E-value=43 Score=31.58 Aligned_cols=87 Identities=9% Similarity=-0.028 Sum_probs=57.5
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhc--ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeE
Q 004042 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV 226 (777)
Q Consensus 149 ~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 226 (777)
.+....+.+.....+ .+|.++..... ..+.+.+.+++. |++++... .. .+..+-..++++|.++++|+
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----VLQQLKVKLIKEYPKLKIVGAF---GP--LEPEERKAALAKIARSGAGI 103 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCCEEEEEC---CC--CChHHHHHHHHHHHHcCCCE
Confidence 345566666665566 57888876554 445555555544 67776541 11 23455677899999999999
Q ss_pred EEEecChhHHHHHHHHHHH
Q 004042 227 IVLHVSPSLGFQVFSVAKY 245 (777)
Q Consensus 227 Ivl~~~~~~~~~~l~~a~~ 245 (777)
+++.+..+.-..++.+.++
T Consensus 104 l~VglG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 104 VFVGLGCPKQEIWMRNHRH 122 (177)
T ss_pred EEEEcCCcHhHHHHHHhHH
Confidence 9998888777777766543
No 297
>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=76.84 E-value=6.6 Score=39.51 Aligned_cols=78 Identities=14% Similarity=0.161 Sum_probs=59.4
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEe-cChhHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-VSPSLGFQVFSVA 243 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~-~~~~~~~~~l~~a 243 (777)
|++|.. ++.|.....+.+++.+++.|.++... .+.. .+.......++++.+.++|.||+. .++.....+++++
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~--~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~ 76 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQ--NDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKA 76 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EEST--TTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCC--CCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHH
Confidence 456653 45688888899999999999988765 2222 346677788888888899999986 4555678899999
Q ss_pred HHcCC
Q 004042 244 KYLGM 248 (777)
Q Consensus 244 ~~~gl 248 (777)
.+.|+
T Consensus 77 ~~~gI 81 (257)
T PF13407_consen 77 KAAGI 81 (257)
T ss_dssp HHTTS
T ss_pred hhcCc
Confidence 99887
No 298
>cd08433 PBP2_Nac The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold. The NAC is a LysR-type transcription regulator that activates expression of operons such as hut (histidine utilization) and ure (urea utilization), allowing use of non-preferred (poor) nitrogen sources, and represses expression of operons, such as glutamate dehydrogenase (gdh), allowing assimilation of the preferred nitrogen source. The expression of the nac gene is fully dependent on the nitrogen regulatory system (NTR) and the sigma54-containing RNA polymerase (sigma54-RNAP). In response to nitrogen starvation, NTR system activates the expression of nac, and NAC activates the expression of hut, ure, and put (proline utilization). NAC is not involved in the transcription of Sigma70-RNAP operons such as glnA, which directly respond by the NTR system, but activates the transcription of sigma70-RNAP dependent operons such as hut.
Probab=76.68 E-value=66 Score=30.04 Aligned_cols=70 Identities=14% Similarity=0.170 Sum_probs=44.0
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. ++++++.. .....+...|.+|++|+++.. .+.....+ -+.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~---~~~~~~~~-~~~~l~~~~~~~~~~~ 80 (198)
T cd08433 13 VLAVPLLRAVRRRYP-GIRLRIVE-------GLSGHLLEWLLNGRLDLALLY---GPPPIPGL-STEPLLEEDLFLVGPA 80 (198)
T ss_pred hcchHHHHHHHHHCC-CcEEEEEe-------cCcHHHHHHHhCCCCcEEEEe---CCCCCCCe-eEEEeccccEEEEecC
Confidence 345677888887763 33344433 245688999999999998852 22222222 3456777777777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (198)
T cd08433 81 DA 82 (198)
T ss_pred CC
Confidence 44
No 299
>cd08181 PPD-like 1,3-propanediol dehydrogenase-like (PPD). 1,3-propanediol dehydrogenase-like (PPD). This family is a member of the iron-containing alcohol dehydrogenase superfamily, and exhibits a dehydroquinate synthase-like fold. Protein sequence similarity search and other biochemical evidences suggest that they are close to the iron-containing 1,3-propanediol dehydrogenase (EC 1.1.1.202). 1,3-propanediol dehydrogenase catalyzes the oxidation of propane-1,3-diol to 3-hydroxypropanal with the simultaneous reduction of NADP+ to NADPH. The protein structure of Thermotoga maritima TM0920 gene contains one NADP+ and one iron ion.
Probab=76.31 E-value=14 Score=39.42 Aligned_cols=86 Identities=7% Similarity=0.039 Sum_probs=60.4
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccc-cchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~ 231 (777)
..+.++++.+| +|+.+|+....+- ....+.+.+.+++.|+++..-..+.++ .+.++.....+.+++.++|.||..+
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 34556677778 8998887554433 335678889999999876543344444 4578888999999999999999977
Q ss_pred Chh--HHHHHHH
Q 004042 232 SPS--LGFQVFS 241 (777)
Q Consensus 232 ~~~--~~~~~l~ 241 (777)
.+. |+...+.
T Consensus 92 GGSviD~aK~ia 103 (357)
T cd08181 92 GGSPLDAAKAIA 103 (357)
T ss_pred CchHHHHHHHHH
Confidence 663 4444443
No 300
>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=76.08 E-value=67 Score=29.82 Aligned_cols=69 Identities=14% Similarity=0.177 Sum_probs=43.6
Q ss_pred eeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEecc
Q 004042 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (777)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~ 572 (777)
+..+++..+.++.. ++++++.. +....++..+.+|++|+++... +.....+. ..++....+.+++++.
T Consensus 14 ~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~~ 81 (197)
T cd08414 14 LLPRLLRRFRARYP-DVELELRE-------MTTAEQLEALRAGRLDVGFVRP---PPDPPGLA-SRPLLREPLVVALPAD 81 (197)
T ss_pred HHHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHcCCccEEEEcC---CCCCCCee-EEEEeeccEEEEecCC
Confidence 44567777777653 33355443 3467899999999999988532 22222222 3567777888887654
Q ss_pred C
Q 004042 573 K 573 (777)
Q Consensus 573 ~ 573 (777)
.
T Consensus 82 ~ 82 (197)
T cd08414 82 H 82 (197)
T ss_pred C
Confidence 4
No 301
>PRK07475 hypothetical protein; Provisional
Probab=76.01 E-value=15 Score=36.90 Aligned_cols=122 Identities=15% Similarity=0.122 Sum_probs=66.6
Q ss_pred ChHHHHH-HHHHHHhcCcEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHH
Q 004042 81 SGFIGMV-EALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV 159 (777)
Q Consensus 81 ~~~~a~~-~a~~l~~~~v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l 159 (777)
++..... .+.+|...|+.+|+. .|.........+.+..++|+++. +.+.+..+
T Consensus 62 ~~~~~l~~aa~~L~~~G~d~I~~-~Cgt~~~~~~~l~~~~~VPv~~s-------------------------s~~~v~~l 115 (245)
T PRK07475 62 SLLDAFVAAARELEAEGVRAITT-SCGFLALFQRELAAALGVPVATS-------------------------SLLQVPLI 115 (245)
T ss_pred cHHHHHHHHHHHHHHcCCCEEEe-chHHHHHHHHHHHHHcCCCEecc-------------------------HHHHHHHH
Confidence 4444443 444555559999998 44444444455666779999851 23333444
Q ss_pred Hhc--CCcEEEEEEEeCccccchHHHHHHHHhhcceEE-E---EeeecCC----------C-CCCC----hhhHHHHHHH
Q 004042 160 SYY--GWNAVSVIFVDNEYGRNGVSALNDKLAERRCRI-S---YKSGIPP----------E-SGVN----TGYVMDLLVK 218 (777)
Q Consensus 160 ~~~--~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v-~---~~~~~~~----------~-~~~~----~~d~~~~l~~ 218 (777)
+.. +-+||+++..+... -.++.+++.|++. . ....... . ...+ ..++.+.+++
T Consensus 116 ~~~~~~~~kIGILtt~~t~------l~~~~l~~~Gi~~~~~~~~~~g~e~~~~~~~~I~~~~~~~d~~~~~~~l~~~~~~ 189 (245)
T PRK07475 116 QALLPAGQKVGILTADASS------LTPAHLLAVGVPPDTSSLPIAGLEEGGEFRRNILENRGELDNEAAEQEVVAAARA 189 (245)
T ss_pred HHhccCCCeEEEEeCCchh------hhHHHHHhCCCCCCCccccccCcccchHHHHHHhcccccccHHHHHHHHHHHHHH
Confidence 443 36899999865441 1245677778751 1 0000000 0 0001 2456666676
Q ss_pred Hhc--CCCeEEEEecChh
Q 004042 219 VAL--MESRVIVLHVSPS 234 (777)
Q Consensus 219 l~~--~~~~vIvl~~~~~ 234 (777)
+.+ .++++||+.|..-
T Consensus 190 l~~~~~~~daIvL~CTeL 207 (245)
T PRK07475 190 LLERHPDIGAIVLECTNM 207 (245)
T ss_pred HHhhCCCCCEEEEcCcCh
Confidence 653 3788888877664
No 302
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=75.66 E-value=14 Score=37.08 Aligned_cols=100 Identities=15% Similarity=0.169 Sum_probs=57.5
Q ss_pred HHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh
Q 004042 154 AVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (777)
Q Consensus 154 a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~ 233 (777)
.+.+++++++.+++.+|.....| ....+.+++.+++.|+++......... .+..+......+++..+.|+||-.+.+
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~--~~~~~~~~~~~~~~~~~~d~ii~vGgG 85 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGD--ADEDEVEKLVEALRPKDADLIIGVGGG 85 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE-----BHHHHHHHHTTS--TT--EEEEEESH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCC--CCHHHHHHHHHHhcccCCCEEEEeCCc
Confidence 45677888888999999866543 344567888999999988743322212 235556666777767788999988887
Q ss_pred hHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 234 SLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 234 ~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
.-.-..=-.|.+.++ .|+-+-|.
T Consensus 86 ~i~D~~K~~A~~~~~---p~isVPTa 108 (250)
T PF13685_consen 86 TIIDIAKYAAFELGI---PFISVPTA 108 (250)
T ss_dssp HHHHHHHHHHHHHT-----EEEEES-
T ss_pred HHHHHHHHHHHhcCC---CEEEeccc
Confidence 533322234555564 45555544
No 303
>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=75.44 E-value=43 Score=31.67 Aligned_cols=70 Identities=10% Similarity=0.062 Sum_probs=45.3
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.- ++++++.. ++...++..|.+|++|+++..-. .. ...++ +.++....+.+++++
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~l~~~l~~g~~D~~~~~~~--~~-~~~~~-~~~l~~~~~~lv~~~ 81 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTH-------MTKDEQVEGLLAGTIHVGFSRFF--PR-HPGIE-IVNIAQEDLYLAVHR 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEE-------CCHHHHHHHHHcCCceEEEecCC--CC-CCceE-EEEEeeccEEEEecC
Confidence 455677888877762 33355443 46889999999999999885221 11 12232 356667788888775
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 82 ~h 83 (198)
T cd08486 82 SQ 83 (198)
T ss_pred CC
Confidence 43
No 304
>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=75.22 E-value=59 Score=30.37 Aligned_cols=70 Identities=19% Similarity=0.214 Sum_probs=45.4
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++.+.. ++...+...+.+|++|+++... +.....+ -..++....+.+++++
T Consensus 13 ~~~~~~i~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08417 13 LLLPPLLARLRQEAP-GVRLRFVP-------LDRDDLEEALESGEIDLAIGVF---PELPPGL-RSQPLFEDRFVCVARK 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CeEEEecc-------CCHHHHHHHHHcCCCCEEEeec---ccCCCcc-chhhhhcCceEEEecC
Confidence 445667777777753 33344432 4577899999999999998532 2222223 3467788888888776
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (200)
T cd08417 81 DH 82 (200)
T ss_pred CC
Confidence 54
No 305
>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=75.01 E-value=23 Score=37.35 Aligned_cols=100 Identities=11% Similarity=0.092 Sum_probs=65.2
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.+.++.++.+++.+|+....+. ...+.+.+.+++. +++.......++ .+.++....+..+++.++|.||..+.
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 3455677788889999998544433 6677888888876 555433333332 45778888999999889999998766
Q ss_pred h--hHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 233 P--SLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 233 ~--~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
+ -|+..++......++ .++-|-|.
T Consensus 88 Gs~~D~aK~ia~~~~~~~---p~i~iPTt 113 (332)
T cd07766 88 GSTLDTAKAVAALLNRGL---PIIIVPTT 113 (332)
T ss_pred chHHHHHHHHHHHhcCCC---CEEEEeCC
Confidence 5 455556555443343 34444443
No 306
>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=74.95 E-value=15 Score=37.02 Aligned_cols=67 Identities=13% Similarity=0.168 Sum_probs=42.7
Q ss_pred CCCCChhhhhhCCCCeEEeeCchHHHH----HHhhhccc------------------cc--cccccCCHHHHHHHHhcCC
Q 004042 680 SPINGIESLRKSDDPIGYQEGSFAEYY----LSQELNIS------------------KS--RLVALRTPEDYAKALKDGP 735 (777)
Q Consensus 680 ~~i~s~~dl~~~~~~i~~~~~~~~~~~----~~~~~~~~------------------~~--~~~~~~~~~~~~~~l~~~~ 735 (777)
..|+|++||.+ |++|++.++...... |+ ..+.- ++ ++++ -...+....+.+
T Consensus 106 ~~~~sl~dlk~-G~~IAip~d~~n~~raL~~L~-~aGLi~l~~~~~~~~t~~DI~~n~~~v~~ve-l~~~~~~~al~~-- 180 (258)
T TIGR00363 106 KKIKNVNELQD-GAKVAVPNDPTNLGRALLLLQ-KQGLIKLKDGNGLLPTVLDIVENPKKLNITE-LETSQLPRALDD-- 180 (258)
T ss_pred cCCCCHHHcCC-CCEEEEeCCcchHHHHHHHHH-HcCCceecCCCCCcCChhhhhcCCCCCEEEE-cCHHHHHHHhhc--
Confidence 58999999953 889999977543333 42 22221 11 1222 245567788888
Q ss_pred CCCCceEEEecchhhHHH
Q 004042 736 GKGGVAAVVDERPYVELF 753 (777)
Q Consensus 736 ~~~~~~a~i~~~~~~~~~ 753 (777)
|++|+.+...+.+.-.
T Consensus 181 --g~vDaa~v~~~~~~~a 196 (258)
T TIGR00363 181 --PKVDLAVINTTYAGQV 196 (258)
T ss_pred --ccccEEEEChHHHHHc
Confidence 9999998887766443
No 307
>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=74.70 E-value=12 Score=39.96 Aligned_cols=85 Identities=9% Similarity=-0.006 Sum_probs=60.2
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.+.++.++ +|+.+|+....+. ...+.+.+.+++.|+.+... .+..+ .+.++....++..++.++|.||..+.
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 34556677776 8998888544443 67788899999999887543 34444 45678888889999999999998776
Q ss_pred hh--HHHHHHHH
Q 004042 233 PS--LGFQVFSV 242 (777)
Q Consensus 233 ~~--~~~~~l~~ 242 (777)
+. ++..++..
T Consensus 87 GS~iD~aK~ia~ 98 (351)
T cd08170 87 GKTLDTAKAVAD 98 (351)
T ss_pred chhhHHHHHHHH
Confidence 64 44444443
No 308
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=74.66 E-value=87 Score=32.41 Aligned_cols=72 Identities=17% Similarity=0.239 Sum_probs=45.1
Q ss_pred eeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEecc
Q 004042 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (777)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~ 572 (777)
+..+++..+.++.. ++++.+.. +....++..|.+|++|+++..-....+..+.+ ...++....+.+++++.
T Consensus 109 ~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~~ 179 (305)
T CHL00180 109 LMPRLIGLFRQRYP-QINVQLQV-------HSTRRIAWNVANGQIDIAIVGGEVPTELKKIL-EITPYVEDELALIIPKS 179 (305)
T ss_pred HHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEEcCccCcccccce-eEEEeccCcEEEEECCC
Confidence 44567777777653 23344433 35788999999999999985321111111122 34677888888888775
Q ss_pred C
Q 004042 573 K 573 (777)
Q Consensus 573 ~ 573 (777)
.
T Consensus 180 ~ 180 (305)
T CHL00180 180 H 180 (305)
T ss_pred C
Confidence 5
No 309
>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=74.18 E-value=17 Score=39.11 Aligned_cols=86 Identities=8% Similarity=-0.006 Sum_probs=60.4
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.+.++.++.+|+.+|+....+ ....+.+.+++.|+++..-..+.++ .+.+.....++.+++.++|.||..+.
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 455667788888999999855543 4566777888888766543344444 44677888888899999999998766
Q ss_pred h--hHHHHHHHHH
Q 004042 233 P--SLGFQVFSVA 243 (777)
Q Consensus 233 ~--~~~~~~l~~a 243 (777)
+ -|+..++...
T Consensus 87 Gs~~D~aK~ia~~ 99 (367)
T cd08182 87 GSVLDTAKALAAL 99 (367)
T ss_pred cHHHHHHHHHHHH
Confidence 5 3555555544
No 310
>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=74.10 E-value=48 Score=30.97 Aligned_cols=70 Identities=11% Similarity=0.077 Sum_probs=44.9
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+...++..+.++.. ++++++.. .....+...+.+|++|+++... +.....+ ...++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 81 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLRE-------MPQERIEAALADDRLDLGIAFA---PVRSPDI-DAQPLFDERLALVVGA 81 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE-------CcHHHHHHHHHcCCccEEEEec---CCCCCCc-EEEEeccccEEEEecC
Confidence 344677888887763 33455543 3467889999999999998532 2222223 2356777788888766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 82 ~~ 83 (197)
T cd08425 82 TH 83 (197)
T ss_pred CC
Confidence 54
No 311
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=73.79 E-value=40 Score=33.62 Aligned_cols=88 Identities=9% Similarity=0.038 Sum_probs=56.5
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhh-cceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEE
Q 004042 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVI 227 (777)
Q Consensus 149 ~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vI 227 (777)
.+....+.+.....+ .+|.++..+..- .+.+.+.+++ .|+.++.... .- .+.++-..++++|.++++|++
T Consensus 91 ~dl~~~ll~~~~~~~-~~v~llG~~~~v----~~~a~~~l~~~y~l~i~g~~~--Gy--f~~~e~~~i~~~I~~s~~dil 161 (243)
T PRK03692 91 ADLWEALMARAGKEG-TPVFLVGGKPEV----LAQTEAKLRTQWNVNIVGSQD--GY--FTPEQRQALFERIHASGAKIV 161 (243)
T ss_pred HHHHHHHHHHHHhcC-CeEEEECCCHHH----HHHHHHHHHHHhCCEEEEEeC--CC--CCHHHHHHHHHHHHhcCCCEE
Confidence 344566666666666 688888765543 3334443333 2677664331 11 224566779999999999999
Q ss_pred EEecChhHHHHHHHHHHH
Q 004042 228 VLHVSPSLGFQVFSVAKY 245 (777)
Q Consensus 228 vl~~~~~~~~~~l~~a~~ 245 (777)
++.+..+.-..++...++
T Consensus 162 ~VglG~PkQE~~~~~~~~ 179 (243)
T PRK03692 162 TVAMGSPKQEIFMRDCRL 179 (243)
T ss_pred EEECCCcHHHHHHHHHHH
Confidence 999888777777766554
No 312
>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=73.76 E-value=70 Score=29.85 Aligned_cols=70 Identities=13% Similarity=0.136 Sum_probs=44.7
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. .+++++.. +.+..+...+.+|++|+++.... .....+ -+.++....+.+++++
T Consensus 14 ~~l~~~i~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 81 (198)
T cd08446 14 DTVPRLLRAFLTARP-DVTVSLHN-------MTKDEQIEALRAGRIHIGFGRFY---PVEPDI-AVENVAQERLYLAVPK 81 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEee-------CCHHHHHHHHHCCCccEEEEecC---CCCCCc-eeEEeeeccEEEEEeC
Confidence 345677888887763 33355443 45788999999999999985321 111222 2456677777777766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 82 ~~ 83 (198)
T cd08446 82 SH 83 (198)
T ss_pred CC
Confidence 44
No 313
>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=73.66 E-value=50 Score=30.73 Aligned_cols=70 Identities=17% Similarity=0.170 Sum_probs=45.8
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.+... .+++.+.. +....+...+.+|++|+++.... .....+ .+.|+....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08415 13 SLLPRAIARFRARHP-DVRISLHT-------LSSSTVVEAVLSGQADLGLASLP---LDHPGL-ESEPLASGRAVCVLPP 80 (196)
T ss_pred cccHHHHHHHHHHCC-CcEEEEEe-------cchHHHHHHHHcCCccEEEEeCC---CCCCcc-eeeeecccceEEEEcC
Confidence 455678888887763 23344443 35678999999999999985321 112222 3567788888888765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (196)
T cd08415 81 GH 82 (196)
T ss_pred CC
Confidence 44
No 314
>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=73.36 E-value=77 Score=29.28 Aligned_cols=71 Identities=17% Similarity=0.136 Sum_probs=44.3
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. ++...+.+.+.+|++|+++..... +....+ ...++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~~~~~ 81 (194)
T cd08436 13 VDLPELLARFHRRHP-GVDIRLRQ-------AGSDDLLAAVREGRLDLAFVGLPE--RRPPGL-ASRELAREPLVAVVAP 81 (194)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCHHHHHHHHHcCCccEEEEecCC--CCCCCc-EEEEeecceEEEEecC
Confidence 445677788877763 33355433 346788999999999999853321 122223 2356677777777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 82 ~~ 83 (194)
T cd08436 82 DH 83 (194)
T ss_pred CC
Confidence 54
No 315
>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=73.31 E-value=50 Score=30.76 Aligned_cols=70 Identities=11% Similarity=0.037 Sum_probs=44.2
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. +....+++.+.+|++|+++... ......+ -+.+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~~~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 80 (196)
T cd08456 13 SFLPRAIKAFLQRHP-DVTISIHT-------RDSPTVEQWLSAQQCDLGLVST---LHEPPGI-ERERLLRIDGVCVLPP 80 (196)
T ss_pred hhHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEec---CCCCCCe-eEEEeeccCeEEEecC
Confidence 455678888888863 33355543 3467788999999999988532 1112222 2456667777777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (196)
T cd08456 81 GH 82 (196)
T ss_pred CC
Confidence 43
No 316
>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=73.30 E-value=64 Score=29.96 Aligned_cols=70 Identities=10% Similarity=0.048 Sum_probs=45.0
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. ++..++...+.+|++|+++... ......+ .+.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 80 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHE-------MSSAEQIEALLRGELDLGFVHS---RRLPAGL-SARLLHREPFVCCLPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCcceEEEeC---CCCCcCc-eEEEEecCcEEEEeeC
Confidence 455677888887763 33355443 4578899999999999987522 2222223 2356777777777665
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~h 82 (197)
T cd08448 81 GH 82 (197)
T ss_pred CC
Confidence 43
No 317
>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=73.20 E-value=66 Score=29.99 Aligned_cols=70 Identities=13% Similarity=0.217 Sum_probs=45.0
Q ss_pred eeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEecc
Q 004042 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (777)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~ 572 (777)
+..+++..+.++.. .+++++.. +....++..+.+|++|+++..... .....+ .+.+.....+++++++.
T Consensus 15 ~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~v~~~~ 83 (199)
T cd08451 15 LVPGLIRRFREAYP-DVELTLEE-------ANTAELLEALREGRLDAAFVRPPV--ARSDGL-VLELLLEEPMLVALPAG 83 (199)
T ss_pred ccHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHCCCccEEEEecCC--CCCCce-eEEEeecccEEEEecCC
Confidence 55677888888763 33344443 356788999999999999853221 111222 34677778888887654
Q ss_pred C
Q 004042 573 K 573 (777)
Q Consensus 573 ~ 573 (777)
.
T Consensus 84 ~ 84 (199)
T cd08451 84 H 84 (199)
T ss_pred C
Confidence 4
No 318
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=73.13 E-value=95 Score=32.08 Aligned_cols=70 Identities=10% Similarity=0.165 Sum_probs=45.4
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-..++..+.+... .+++.+.. .+-+.+++.|.+|++|+++..... . ...+ .+.|+....+++++++
T Consensus 104 ~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~-~~~l-~~~~l~~~~~~~~~~~ 171 (305)
T PRK11151 104 YLLPHIIPMLHQTFP-KLEMYLHE-------AQTHQLLAQLDSGKLDCAILALVK--E-SEAF-IEVPLFDEPMLLAVYE 171 (305)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEecCC--C-CCCe-EEEEeccCcEEEEecC
Confidence 344566777776542 33355543 346889999999999999853221 1 1122 4578888888888866
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
.-
T Consensus 172 ~h 173 (305)
T PRK11151 172 DH 173 (305)
T ss_pred CC
Confidence 54
No 319
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=73.07 E-value=13 Score=37.83 Aligned_cols=68 Identities=15% Similarity=0.273 Sum_probs=41.2
Q ss_pred CCCCChhhhhhCCCCeEEeeCc-hHHHHHH--hhhcc------------------ccc--cccccCCHHHHHHHHhcCCC
Q 004042 680 SPINGIESLRKSDDPIGYQEGS-FAEYYLS--QELNI------------------SKS--RLVALRTPEDYAKALKDGPG 736 (777)
Q Consensus 680 ~~i~s~~dl~~~~~~i~~~~~~-~~~~~~~--~~~~~------------------~~~--~~~~~~~~~~~~~~l~~~~~ 736 (777)
..|+|++||.+ |++|++..+. +....+. +..+. .++ ++++ -+..+....+.+
T Consensus 119 ~~i~si~DL~~-Gk~IAip~d~~n~~r~L~lL~~~Gli~l~~~~~~~~t~~di~~n~~~v~~v~-~~~~~~~~al~~--- 193 (271)
T PRK11063 119 KKIKSLDELQD-GSQVAVPNDPTNLGRSLLLLQKVGLIKLKDGVGLLPTVLDIVENPKNLKIVE-LEAPQLPRSLDD--- 193 (271)
T ss_pred cCCCCHHHhcC-CCEEEecCCCccHHHHHHHHHHCCCEEecCCCCCCCCHHHHhcCCCCCEEEE-CcHHHHHHhccc---
Confidence 47999999953 8889998733 3222221 11111 011 1222 245577777877
Q ss_pred CCCceEEEecchhhHHH
Q 004042 737 KGGVAAVVDERPYVELF 753 (777)
Q Consensus 737 ~~~~~a~i~~~~~~~~~ 753 (777)
|++|+.+...+.+...
T Consensus 194 -g~vDaa~i~~~~a~~a 209 (271)
T PRK11063 194 -AQIALAVINTTYASQI 209 (271)
T ss_pred -ccccEEEEChHHHHHc
Confidence 8999999887777543
No 320
>cd08450 PBP2_HcaR The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold. HcaR, a member of the LysR family of transcriptional regulators, controls the expression of the hcA1, A2, B, C, and D operon, encoding for the 3-phenylpropionate dioxygenase complex and 3-phenylpropionate-2',3'-dihydrodiol dehydrogenase, that oxidizes 3-phenylpropionate to 3-(2,3-dihydroxyphenyl) propionate. Dioxygenases play an important role in protecting the cell against the toxic effects of dioxygen. The expression of hcaR is negatively auto-regulated, as for other members of the LysR family, and is strongly repressed in the presence of glucose. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, an
Probab=72.90 E-value=52 Score=30.64 Aligned_cols=70 Identities=17% Similarity=0.186 Sum_probs=44.3
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. .+++++.. +....++..+.+|++|+++..... . ...+ .+.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~-~~~~-~~~~l~~~~~~~~~~~ 80 (196)
T cd08450 13 QWLPEVLPILREEHP-DLDVELSS-------LFSPQLAEALMRGKLDVAFMRPEI--Q-SDGI-DYQLLLKEPLIVVLPA 80 (196)
T ss_pred hhHHHHHHHHHhhCC-CcEEEEEe-------cChHHHHHHHhcCCccEEEEeCCC--C-CCCc-EEEEEEccceEEEecC
Confidence 445677888877763 33355443 346789999999999998853211 1 1222 2356777777877766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (196)
T cd08450 81 DH 82 (196)
T ss_pred CC
Confidence 54
No 321
>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=72.19 E-value=17 Score=36.88 Aligned_cols=78 Identities=6% Similarity=0.046 Sum_probs=55.4
Q ss_pred EEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC-hhHHHHHHHH
Q 004042 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSV 242 (777)
Q Consensus 166 ~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~-~~~~~~~l~~ 242 (777)
+|+++.. ++.|.....+.+.+.+++.|+++..... . .+.......++.+...+.|.||+... .......+++
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~ 75 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYDA---G--GDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKR 75 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHH
Confidence 3667765 5677788889999999999998775321 1 22445566777777788999998643 3345667788
Q ss_pred HHHcCC
Q 004042 243 AKYLGM 248 (777)
Q Consensus 243 a~~~gl 248 (777)
+.+.|+
T Consensus 76 ~~~~~i 81 (273)
T cd06305 76 ALDAGI 81 (273)
T ss_pred HHHcCC
Confidence 888775
No 322
>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=71.82 E-value=87 Score=29.22 Aligned_cols=69 Identities=14% Similarity=0.132 Sum_probs=42.6
Q ss_pred eeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEecc
Q 004042 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (777)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~ 572 (777)
+-..++..+.++.. ++++++.. +....+...|.+|++|+++..-. .....+. ..++....+.++++..
T Consensus 14 ~~~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~~ 81 (198)
T cd08441 14 WLMPVLDQFRERWP-DVELDLSS-------GFHFDPLPALLRGELDLVITSDP---LPLPGIA-YEPLFDYEVVLVVAPD 81 (198)
T ss_pred hhHHHHHHHHHhCC-CeEEEEEe-------CCchhHHHHHHcCCceEEEecCC---cCCCCcE-EEEccCCcEEEEEcCC
Confidence 44567788877763 23344433 34678999999999999985221 1112222 3466777777777654
Q ss_pred C
Q 004042 573 K 573 (777)
Q Consensus 573 ~ 573 (777)
.
T Consensus 82 ~ 82 (198)
T cd08441 82 H 82 (198)
T ss_pred C
Confidence 4
No 323
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=71.77 E-value=25 Score=35.61 Aligned_cols=71 Identities=21% Similarity=0.180 Sum_probs=42.2
Q ss_pred eHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCc-eeEEEeeEEEeeccc---ceee-ec-ccccccceEE
Q 004042 494 CIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGV-FDAVVGDITIVTNRT---KIVD-FS-QPYAASGLVV 567 (777)
Q Consensus 494 ~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~-~Di~~~~~~~t~~r~---~~~d-fs-~p~~~~~~~~ 567 (777)
.-++.+.+.++.|.++++.+ +.-..+..++.+|. +|+.+++=.-..++. ..+. .+ .++....+++
T Consensus 41 ~~~l~~~Fe~~~g~~v~~~~---------~~Sg~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n~lvl 111 (257)
T PRK10677 41 LQDIAAQYKKEKGVDVVSSF---------ASSSTLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGNSLVV 111 (257)
T ss_pred HHHHHHHHHhhhCCeEEEEe---------cccHHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecCEEEE
Confidence 34556666666777765554 33456778888877 999876432212222 2221 11 2567778888
Q ss_pred EEeccC
Q 004042 568 VVPFRK 573 (777)
Q Consensus 568 ~v~~~~ 573 (777)
++++..
T Consensus 112 ~~~~~~ 117 (257)
T PRK10677 112 VAPKAS 117 (257)
T ss_pred EEECCC
Confidence 888765
No 324
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=71.73 E-value=99 Score=32.18 Aligned_cols=85 Identities=20% Similarity=0.149 Sum_probs=51.5
Q ss_pred CceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEee
Q 004042 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (777)
Q Consensus 464 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 543 (777)
.++++||+... . ...+..+++..+.++.. .+++++.. +....++..|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~~--~------------~~~~l~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~L~~g~~D~~i~~ 149 (313)
T PRK12684 92 QGNLTIATTHT--Q------------ARYALPAAIKEFKKRYP-KVRLSILQ-------GSPTQIAEMVLHGQADLAIAT 149 (313)
T ss_pred CCeEEEEechH--H------------HHHHhHHHHHHHHHHCC-CceEEEEe-------CChHHHHHHHHCCCcCEEEee
Confidence 35688888542 1 12344677888877653 33344433 357889999999999998753
Q ss_pred EEEeecccceeeecccccccceEEEEeccC
Q 004042 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (777)
Q Consensus 544 ~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~ 573 (777)
-... . ...+ -+.|+......+++++..
T Consensus 150 ~~~~-~-~~~l-~~~~l~~~~~~~v~~~~~ 176 (313)
T PRK12684 150 EAIA-D-YKEL-VSLPCYQWNHCVVVPPDH 176 (313)
T ss_pred cCCC-C-CCCc-eEEEeccceEEEEeCCCC
Confidence 1111 1 1122 246777777777776554
No 325
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=71.69 E-value=19 Score=38.31 Aligned_cols=87 Identities=17% Similarity=0.089 Sum_probs=59.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.+.++.++ +|+.+|+....+ ....+.+.+.+++.|+++.....+..+ .+.++.....+..++.++|+||..+.
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 44556677777 898888754443 345677888888888876544445444 45777888888888889999998766
Q ss_pred hh--HHHHHHHHH
Q 004042 233 PS--LGFQVFSVA 243 (777)
Q Consensus 233 ~~--~~~~~l~~a 243 (777)
+. |+..++...
T Consensus 88 Gs~~D~aK~ia~~ 100 (345)
T cd08171 88 GKAIDTVKVLADK 100 (345)
T ss_pred cHHHHHHHHHHHH
Confidence 53 555555443
No 326
>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=71.68 E-value=72 Score=29.98 Aligned_cols=71 Identities=15% Similarity=0.141 Sum_probs=45.9
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. .+++++.. +....+.+.+.+|++|+++..... .....+. +.+.....+++++++
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 445677888888764 33355443 457789999999999999852211 1122233 367777888888766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 82 ~h 83 (198)
T cd08413 82 GH 83 (198)
T ss_pred CC
Confidence 54
No 327
>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=71.32 E-value=20 Score=38.71 Aligned_cols=88 Identities=9% Similarity=0.078 Sum_probs=60.9
Q ss_pred HHHHHHHHhc---CCcEEEEEEEeCccc-cchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEE
Q 004042 153 TAVAEMVSYY---GWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (777)
Q Consensus 153 ~a~~~~l~~~---~w~~vaii~~~~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIv 228 (777)
+.+.++++.+ |.+|+.+|+...... ....+.+.+.+++.|+++..-..+.++ .+.++....++.+++.++|+||
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 4455667766 779999998544333 334678889999888876543334444 4578888999999999999999
Q ss_pred EecCh--hHHHHHHHH
Q 004042 229 LHVSP--SLGFQVFSV 242 (777)
Q Consensus 229 l~~~~--~~~~~~l~~ 242 (777)
..+.+ -|+..++..
T Consensus 90 aiGGGS~iD~aK~ia~ 105 (383)
T cd08186 90 AIGGGSPIDSAKSAAI 105 (383)
T ss_pred EeCCccHHHHHHHHHH
Confidence 76655 455555544
No 328
>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=71.11 E-value=79 Score=29.50 Aligned_cols=72 Identities=7% Similarity=0.068 Sum_probs=45.9
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. +....+++.|.+|++|+++.... .......++ ..++....+.+++++
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 345677888888764 34455544 35788999999999999885211 111222333 357777788888766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 83 ~h 84 (198)
T cd08437 83 DH 84 (198)
T ss_pred CC
Confidence 54
No 329
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=71.00 E-value=57 Score=33.84 Aligned_cols=67 Identities=16% Similarity=0.105 Sum_probs=42.0
Q ss_pred eeHHHHHHHHHHC-CCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 493 FCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 493 ~~~dl~~~l~~~l-~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
+...++..+.++. +.+ +.+.. +....+...|.+|++|+++..-. .....+ ...|+....+.+++++
T Consensus 106 ~~~~~l~~~~~~~p~i~--l~~~~-------~~~~~~~~~l~~g~~Di~i~~~~---~~~~~~-~~~~l~~~~~~lv~~~ 172 (305)
T PRK11233 106 LTMPLLQAVRAEFPGIV--LYLHE-------NSGATLNEKLMNGQLDMAVIYEH---SPVAGL-SSQPLLKEDLFLVGTQ 172 (305)
T ss_pred HHHHHHHHHHHHCCCcE--EEEEE-------CCcHHHHHHHHCCCCCEEEEcCC---cCCCCc-EEEEEeeeeEEEEEcC
Confidence 3445778887776 444 44433 34578889999999999985321 111222 2357777777777765
Q ss_pred c
Q 004042 572 R 572 (777)
Q Consensus 572 ~ 572 (777)
.
T Consensus 173 ~ 173 (305)
T PRK11233 173 D 173 (305)
T ss_pred c
Confidence 4
No 330
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=70.66 E-value=42 Score=33.90 Aligned_cols=90 Identities=16% Similarity=0.127 Sum_probs=52.4
Q ss_pred CCCChhhhhhC-CCCeEEee------CchHHHHHHhhhccc---cccccccCCHHHHHHHHhcCCCCCCceEEEecchhh
Q 004042 681 PINGIESLRKS-DDPIGYQE------GSFAEYYLSQELNIS---KSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYV 750 (777)
Q Consensus 681 ~i~s~~dl~~~-~~~i~~~~------~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~ 750 (777)
.+.+.++|.+. ..++++-. |.++++.|++ .+.. ..++....+.++.+..|.+ |+.|+.+.-...+
T Consensus 123 ~~~~~~~l~~~~~~~lai~~p~~~P~G~ya~~~l~~-~g~~~~~~~k~v~~~~v~~~l~~V~~----G~ad~g~vy~sd~ 197 (258)
T COG0725 123 KIESLEDLLERPDVRLAIGDPKTVPAGKYAKEALEL-LGLWYTLKDKLVLATNVRQALAYVET----GEADAGFVYVSDA 197 (258)
T ss_pred CcccHHHHhcCcCcEEEecCCCCCCchHHHHHHHHH-hchhhhccccEEecCcHHHHHHHHHc----CCCCeEEEEEEhh
Confidence 34447777763 55677754 7778888853 3322 2355666788899999999 9998866644322
Q ss_pred HHHhhCCCCeEEeccccc-ccceEEEe
Q 004042 751 ELFLSSQCSFRIVGQEFT-KSGWGFVS 776 (777)
Q Consensus 751 ~~~~~~~~~l~~~~~~~~-~~~~g~~~ 776 (777)
...- +--....+..... ...|.+++
T Consensus 198 ~~~~-~~~~~~~~~~~~~~Pi~y~iav 223 (258)
T COG0725 198 LLSK-KVKIVGVFPEDLHSPIVYPIAV 223 (258)
T ss_pred hccC-CceEEEEcccccCCCeEEEEEE
Confidence 2211 1112333333333 46677765
No 331
>TIGR00070 hisG ATP phosphoribosyltransferase. Members of this family from B. subtilis, Aquifex aeolicus, and Synechocystis PCC6803 (and related taxa) lack the C-terminal third of the sequence. The sole homolog from Archaeoglobus fulgidus lacks the N-terminal 50 residues (as reported) and is otherwise atypical of the rest of the family. This model excludes the C-terminal extension.
Probab=70.54 E-value=27 Score=32.99 Aligned_cols=77 Identities=19% Similarity=0.255 Sum_probs=47.6
Q ss_pred CCCChhhhhhCCCCeEEeeCchHHHHHHhhhccccccccccCCHHHHHHHHhcCCCCCCceEEEecchhhHHHhhCCCCe
Q 004042 681 PINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSF 760 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~~~~~l 760 (777)
++++.+||. +++|++.--..+..||. ..+.+ .++...+..-|.... . |-.|+.++-..+-.-+..+ +|
T Consensus 100 ~~~~~~~l~--~~rIATkyp~i~~~~f~-~~Gi~-v~ii~l~GsvE~aP~--~----GlaD~IvDiv~TG~TL~~N--gL 167 (182)
T TIGR00070 100 DISSVEDLK--GKRIATKYPNLARRYFE-KKGID-VEIIKLNGSVELAPL--L----GLADAIVDIVSTGTTLREN--GL 167 (182)
T ss_pred CCCChHHhC--CCEEEECCHHHHHHHHH-HcCCe-EEEEECcceeecccC--C----CceeEEEEEeCCHHHHHHC--CC
Confidence 678899998 99999987778899994 44543 345444444443222 3 7778887654443333332 56
Q ss_pred EEecccccc
Q 004042 761 RIVGQEFTK 769 (777)
Q Consensus 761 ~~~~~~~~~ 769 (777)
+++...+.+
T Consensus 168 ~~ie~i~~s 176 (182)
T TIGR00070 168 RIIEVILES 176 (182)
T ss_pred EEeeEEEee
Confidence 666554443
No 332
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=70.43 E-value=7.2 Score=45.02 Aligned_cols=68 Identities=15% Similarity=0.221 Sum_probs=53.7
Q ss_pred chhhHHHHHhhhhhccC--cCcccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhh-----ccccCCCCChhhhh
Q 004042 622 QVITILWFSLSTLFFAH--KENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTV-----QQLYSPINGIESLR 689 (777)
Q Consensus 622 ~~~~~~~~~~~~~~~~~--~~~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~-----~~~~~~i~s~~dl~ 689 (777)
...-|+|+++.++..-| ...|.+....++.++.++++++|.++.-||+++++.+ ..+....+.+++-.
T Consensus 294 kY~~aLyw~l~tLstvG~g~~~s~~~~E~iFsi~~mi~GllL~A~lIGNmt~~iqs~tsR~~~~r~k~rd~e~~m 368 (727)
T KOG0498|consen 294 KYVYALYWGLSTLSTVGYGLVHANNMGEKIFSIFIMLFGLLLFAYLIGNMTALLQSLTSRTEEMRDKMRDAEQWM 368 (727)
T ss_pred HHHHHHHHHhhHhhhccCCccCCCCcHHHHHHHHHHHHhHHHHHHHHhhHHHhHHHHhHHHHHHHHHHHHHHHHH
Confidence 35679999999998554 5588999999999999999999999999999999975 23334444444444
No 333
>cd08458 PBP2_NocR The C-terminal substrate-domain of LysR-type transcriptional regulator, NocR, involved in the catabolism of nopaline, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulator NocR, which is involved in the catabolism of nopaline. Opines are low molecular weight compounds found in plant crown gall tumors produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. In Agrobacterium tumefaciens, NocR regulates expression of the divergently transcribed nocB and nocR genes of the nopaline catabolism (noc) region. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, an
Probab=70.41 E-value=75 Score=29.74 Aligned_cols=70 Identities=11% Similarity=0.138 Sum_probs=43.0
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. .+++++.. ++..++...+.+|++|+++..... . ...+ -+.++......++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~-~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08458 13 SFMSGVIQTFIADRP-DVSVYLDT-------VPSQTVLELVSLQHYDLGISILAG--D-YPGL-TTEPVPSFRAVCLLPP 80 (196)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEec-------cChHHHHHHHHcCCCCEEEEeccC--C-CCCc-eEEEeccCceEEEecC
Confidence 344677888887763 33355433 346678999999999999853221 1 1122 2356677777777665
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
.-
T Consensus 81 ~h 82 (196)
T cd08458 81 GH 82 (196)
T ss_pred CC
Confidence 43
No 334
>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=70.36 E-value=87 Score=29.22 Aligned_cols=70 Identities=17% Similarity=0.119 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. .+++++.. ++...++..|.+|++|+++.. .+.....+ -+.++....+.+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~---~~~~~~~~-~~~~l~~~~~~lv~~~ 80 (200)
T cd08466 13 LLLPRLLARLKQLAP-NISLRESP-------SSEEDLFEDLRLQEVDLVIDY---VPFRDPSF-KSELLFEDELVCVARK 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CchHhHHHHHHcCCccEEEec---ccCCCCCc-eeeeecccceEEEEeC
Confidence 445677888877763 33344443 457789999999999999852 12222223 2457778888888876
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (200)
T cd08466 81 DH 82 (200)
T ss_pred CC
Confidence 54
No 335
>cd08187 BDH Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. The butanol dehydrogenase (BDH) is involved in the final step of the butanol formation pathway in anaerobic micro-organism. Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. Activity in the reverse direction was 50-fold lower than that in the forward direction. The NADH-BDH had higher activity with longer chained aldehydes and was inhibited by metabolites containing an adenine moiety. This protein family belongs to the so-called iron-containing alcohol dehydrogenase superfamily. Since members of this superfamily use different divalent ions, preferentially iron or zinc, it has been suggested to be renamed to family III metal-dependent polyol dehydrogenases.
Probab=70.04 E-value=22 Score=38.43 Aligned_cols=85 Identities=12% Similarity=0.096 Sum_probs=58.8
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCcc-ccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEY-GRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~-g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~ 231 (777)
..+.+.++.++ +|+.+|.....+ .....+.+.+.+++.|+++..-..+.++ .+.++....+...++.++|.||..+
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 34556677775 899988754333 2345778999999989876544344444 4567888889999999999999876
Q ss_pred Chh--HHHHHH
Q 004042 232 SPS--LGFQVF 240 (777)
Q Consensus 232 ~~~--~~~~~l 240 (777)
.+. |+..++
T Consensus 95 GGS~iD~aK~i 105 (382)
T cd08187 95 GGSVIDSAKAI 105 (382)
T ss_pred ChHHHHHHHHH
Confidence 653 444444
No 336
>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=69.98 E-value=66 Score=30.24 Aligned_cols=69 Identities=17% Similarity=0.178 Sum_probs=42.3
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-..++..+.++.. ++++++.. ++. .+++.|.+|++|+++..-. .....+. ..|+....+++++++
T Consensus 13 ~~l~~~i~~~~~~~P-~i~l~i~~-------~~~-~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 79 (200)
T cd08462 13 VLLPPVIERVAREAP-GVRFELLP-------PDD-QPHELLERGEVDLLIAPER---FMSDGHP-SEPLFEEEFVCVVWA 79 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CCh-hHHHHHhcCCeeEEEecCC---CCCCCce-eeeeeccceEEEEcC
Confidence 344567777777763 23344433 234 8999999999999985321 1112232 346777777777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 80 ~h 81 (200)
T cd08462 80 DN 81 (200)
T ss_pred CC
Confidence 55
No 337
>cd08423 PBP2_LTTR_like_6 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=69.95 E-value=94 Score=28.85 Aligned_cols=73 Identities=15% Similarity=0.113 Sum_probs=44.8
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEe--ecccceeeecccccccceEEEE
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIV--TNRTKIVDFSQPYAASGLVVVV 569 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t--~~r~~~~dfs~p~~~~~~~~~v 569 (777)
.+-.+++..+.++.. ++++++.. ++...+...+.+|++|+++..-... ....+.+ .+.+.....+.+++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~ 83 (200)
T cd08423 13 ALLPPALAALRARHP-GLEVRLRE-------AEPPESLDALRAGELDLAVVFDYPVTPPPDDPGL-TRVPLLDDPLDLVL 83 (200)
T ss_pred HhhhHHHHHHHHhCC-CCeEEEEe-------CCHHHHHHHHhcCCccEEEEeccccccCCCCCCc-EEEEeccCcEEEEe
Confidence 345677788877763 33355443 3457889999999999988532110 1122222 35667778888887
Q ss_pred eccC
Q 004042 570 PFRK 573 (777)
Q Consensus 570 ~~~~ 573 (777)
++..
T Consensus 84 ~~~~ 87 (200)
T cd08423 84 PADH 87 (200)
T ss_pred cCCC
Confidence 6554
No 338
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=69.92 E-value=21 Score=37.74 Aligned_cols=82 Identities=13% Similarity=0.131 Sum_probs=59.0
Q ss_pred CCcEEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC-hhHHHHH
Q 004042 163 GWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQV 239 (777)
Q Consensus 163 ~w~~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~-~~~~~~~ 239 (777)
.-.+|+++.. +++|.....+.+++.+++.|+++.... +.. .+...-..+++.+...+++.|++... +......
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~--~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~ 97 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTE--PSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPA 97 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCC--CCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHH
Confidence 4468888874 567888888999999999998886432 211 12333446788888889999998653 3445678
Q ss_pred HHHHHHcCC
Q 004042 240 FSVAKYLGM 248 (777)
Q Consensus 240 l~~a~~~gl 248 (777)
++++.+.|+
T Consensus 98 l~~a~~~gI 106 (336)
T PRK15408 98 LKRAMQRGV 106 (336)
T ss_pred HHHHHHCCC
Confidence 899988876
No 339
>cd08457 PBP2_OccR The C-terminal substrate-domain of LysR-type transcriptional regulator, OccR, involved in the catabolism of octopine, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulator OccR, which is involved in the catabolism of octopine. Opines are low molecular weight compounds found in plant crown gall tumors produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. In Agrobacterium tumefaciens, OccR protein activates the occQ operon of the Ti plasmid in response to octopine. This operon encodes proteins required for the uptake and catabolism of octopine, an arginine derivative. The occ operon also encodes the TraR protein, which is a quorum-sensing transcriptional regulator of the Ti plasmid tra regulon. This substrate-binding domain shows significant h
Probab=69.50 E-value=86 Score=29.25 Aligned_cols=69 Identities=20% Similarity=0.231 Sum_probs=43.0
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. .+++++.. +....+...+.+|++|+++... +.....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08457 13 GFLPRFLAAFLRLRP-NLHLSLMG-------LSSSQVLEAVASGRADLGIADG---PLEERQGF-LIETRSLPAVVAVPM 80 (196)
T ss_pred cccHHHHHHHHHHCC-CeEEEEEe-------cCcHHHHHHHHcCCccEEEecc---CCCCCCcE-EEEeccCCeEEEeeC
Confidence 445678888887763 33355443 2356788999999999988532 22222222 345667777777765
Q ss_pred c
Q 004042 572 R 572 (777)
Q Consensus 572 ~ 572 (777)
.
T Consensus 81 ~ 81 (196)
T cd08457 81 G 81 (196)
T ss_pred C
Confidence 4
No 340
>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=69.16 E-value=86 Score=29.10 Aligned_cols=72 Identities=14% Similarity=0.021 Sum_probs=44.5
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+...++..+.++.. ++++++.. +....+++.+.+|++|+++...... .+...+. ..++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~ 82 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHE-------LSPEAQKAALLSKRIDLGFVRFADT-LNDPPLA-SELLWREPMVVALPE 82 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHhCCCccEEEeccccc-CCCCCce-EEEEEEeeEEEEecC
Confidence 445677888887763 33355543 3578899999999999988532211 0122222 356677777777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 83 ~~ 84 (197)
T cd08449 83 EH 84 (197)
T ss_pred CC
Confidence 43
No 341
>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=69.10 E-value=89 Score=29.26 Aligned_cols=70 Identities=14% Similarity=0.151 Sum_probs=43.8
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. +++++... +....+...|.+|++|+++.. .......+. +.++....+.+++++
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 344677788877763 33355443 457789999999999998852 222222333 356667777777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~h 82 (197)
T cd08452 81 QH 82 (197)
T ss_pred CC
Confidence 43
No 342
>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=68.81 E-value=1e+02 Score=28.88 Aligned_cols=71 Identities=18% Similarity=0.144 Sum_probs=45.1
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. ++++++.. +....++..+.+|++|+++..- .......+. +.++....+.+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~~~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~--~~~~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08443 13 YVLPPVIKGFIERYP-RVSLQMHQ-------GSPTQIAEMVSKGLVDFAIATE--ALHDYDDLI-TLPCYHWNRCVVVKR 81 (198)
T ss_pred eECcHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEEec--cccccCCce-EeeeeeceEEEEEcC
Confidence 556778888887763 33344433 3467899999999999998521 111122232 456777788777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 82 ~h 83 (198)
T cd08443 82 DH 83 (198)
T ss_pred CC
Confidence 54
No 343
>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=68.69 E-value=86 Score=31.73 Aligned_cols=69 Identities=12% Similarity=0.135 Sum_probs=43.5
Q ss_pred eeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEecc
Q 004042 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (777)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~ 572 (777)
+-.+++..+.++.. .+++++.. +....++..+.+|++|+++..-..+ ...+ -..|+....+.+++++.
T Consensus 98 ~~~~~l~~~~~~~p-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~lv~s~~ 165 (279)
T TIGR03339 98 YVLDLVARFRQRYP-GIEVSVRI-------GNSQEVLQALQSYRVDVAVSSEVVD---DPRL-DRVVLGNDPLVAVVHRQ 165 (279)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEecccC---CCce-EEEEcCCceEEEEECCC
Confidence 34566777776654 23344433 3467899999999999998532221 1222 23667778888888665
Q ss_pred C
Q 004042 573 K 573 (777)
Q Consensus 573 ~ 573 (777)
.
T Consensus 166 ~ 166 (279)
T TIGR03339 166 H 166 (279)
T ss_pred C
Confidence 4
No 344
>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=68.50 E-value=1.1e+02 Score=28.85 Aligned_cols=70 Identities=10% Similarity=0.107 Sum_probs=44.9
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++.+.. +....+++.|.+|++|+++... ......+. ..+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (200)
T cd08467 13 ALLPRLAPRLRERAP-GLDLRLCP-------IGDDLAERGLEQGTIDLAVGRF---AVPPDGLV-VRRLYDDGFACLVRH 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CCEEEEec-------CCcccHHHHhhCCCcCEEEecC---CCCCccce-eEEeeeccEEEEEcC
Confidence 455677888877753 33355543 3466789999999999988531 11122233 357777888888765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~h 82 (200)
T cd08467 81 GH 82 (200)
T ss_pred CC
Confidence 43
No 345
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=68.23 E-value=23 Score=38.05 Aligned_cols=84 Identities=11% Similarity=0.013 Sum_probs=59.2
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.+.++.+| +++.+|+....+ ....+.+.+.+++.|+++... .+..+ ...+.....++.+++.++|+||..+.
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 44566677888 899988854444 336778888888888876543 34444 44678888888888889999998776
Q ss_pred hh--HHHHHHH
Q 004042 233 PS--LGFQVFS 241 (777)
Q Consensus 233 ~~--~~~~~l~ 241 (777)
+. |+..++.
T Consensus 94 Gsv~D~aK~iA 104 (366)
T PRK09423 94 GKTLDTAKAVA 104 (366)
T ss_pred hHHHHHHHHHH
Confidence 63 4554544
No 346
>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=68.14 E-value=95 Score=28.89 Aligned_cols=72 Identities=13% Similarity=0.121 Sum_probs=44.9
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. +....+...+.+|++|+++..... ......+ -+.+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l-~~~~l~~~~~~~v~~~ 82 (199)
T cd08416 13 NTVPRIIMGLKLRRP-ELDIELTL-------GSNKDLLKKLKDGELDAILVATPE-GLNDPDF-EVVPLFEDDIFLAVPA 82 (199)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEEE-------cCcHHHHHHHhCCCCCEEEEecCC-cCCCCCe-EEEEeecceEEEEECC
Confidence 455677888888773 23344443 346778999999999998853211 0012222 2456777788888766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 83 ~h 84 (199)
T cd08416 83 TS 84 (199)
T ss_pred CC
Confidence 44
No 347
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=67.79 E-value=1e+02 Score=31.58 Aligned_cols=70 Identities=13% Similarity=0.076 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. .....++..+.+|++|+++... +.+.+.+ .+.++....+.+++++
T Consensus 104 ~~l~~~l~~~~~~~p-~~~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~l-~~~~l~~~~~~~~~~~ 171 (296)
T PRK11242 104 YLIGPLIDAFHARYP-GITLTIRE-------MSQERIEALLADDELDVGIAFA---PVHSPEI-EAQPLFTETLALVVGR 171 (296)
T ss_pred hhhHHHHHHHHHHCC-CCEEEEEe-------CCHHHHHHHHHCCCCcEEEEec---CCCCcce-eEEEeeeccEEEEEcC
Confidence 445677888888753 44455543 3467889999999999998532 2222223 3467778888888877
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 172 ~~ 173 (296)
T PRK11242 172 HH 173 (296)
T ss_pred CC
Confidence 54
No 348
>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=67.43 E-value=87 Score=29.37 Aligned_cols=71 Identities=17% Similarity=0.136 Sum_probs=46.0
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
++..+++..+.++.. .+++++.. +....+++.+.+|++|+++..-.. .....+ .+.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~~~~~ 81 (198)
T cd08444 13 YALPWVVQAFKEQFP-NVHLVLHQ-------GSPEEIASMLANGQADIGIATEAL--ENHPEL-VSFPYYDWHHHIIVPV 81 (198)
T ss_pred hhhhHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEecccc--CCCcCc-EEeeccccceeEEecC
Confidence 556778888888863 33344433 456789999999999998853211 112223 3467777788888766
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 82 ~h 83 (198)
T cd08444 82 GH 83 (198)
T ss_pred CC
Confidence 54
No 349
>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=67.16 E-value=21 Score=36.09 Aligned_cols=78 Identities=8% Similarity=0.112 Sum_probs=56.0
Q ss_pred EEEEEEE--eCccccchHHHHHHHHhh-cceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHHHH
Q 004042 166 AVSVIFV--DNEYGRNGVSALNDKLAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFS 241 (777)
Q Consensus 166 ~vaii~~--~~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~l~ 241 (777)
+|++|.+ +++|.....+.+.+.+++ .|+.+...... .+.......++.+.+.+.|.+|+..... .....+.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~ 75 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDAK-----NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVK 75 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCCC-----CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHH
Confidence 4677775 367888888899999999 89888754321 2355666788888888999998865443 3456777
Q ss_pred HHHHcCC
Q 004042 242 VAKYLGM 248 (777)
Q Consensus 242 ~a~~~gl 248 (777)
++.+.++
T Consensus 76 ~l~~~~i 82 (272)
T cd06301 76 AANAAGI 82 (272)
T ss_pred HHHHCCC
Confidence 7777665
No 350
>COG4521 TauA ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=66.70 E-value=19 Score=34.97 Aligned_cols=69 Identities=19% Similarity=0.127 Sum_probs=45.2
Q ss_pred CCCChhhhhhCCCCeEEeeCch-HHHHHH--hhhcccccccccc-CCHHHHHHHHhcCCCCCCceEEEecchhhHHHhh
Q 004042 681 PINGIESLRKSDDPIGYQEGSF-AEYYLS--QELNISKSRLVAL-RTPEDYAKALKDGPGKGGVAAVVDERPYVELFLS 755 (777)
Q Consensus 681 ~i~s~~dl~~~~~~i~~~~~~~-~~~~~~--~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~a~i~~~~~~~~~~~ 755 (777)
.|...+||. ||+|++.--|+ .+.+|. ++.+.++..+... -.+.+...+-++ |.+|+-..-.|.+.-+.+
T Consensus 121 gI~kpeDL~--GK~iavPFvSTtHysLLaaLkhw~idp~~V~IlNl~Pp~IaAAwqR----GDIDgAyVW~PAl~el~k 193 (334)
T COG4521 121 GIEKPEDLI--GKRIAVPFVSTTHYSLLAALKHWGIDPGQVEILNLQPPAIAAAWQR----GDIDGAYVWAPALSELKK 193 (334)
T ss_pred CcCChHHhc--cCeeccceeehhHHHHHHHHHHcCCCccceeEeccCCHHHHHHHHc----CCCCceeeccHhHHHHhh
Confidence 899999999 99999975443 444443 2344444443333 246678888888 888876666666655433
No 351
>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=66.64 E-value=49 Score=28.95 Aligned_cols=68 Identities=15% Similarity=0.119 Sum_probs=44.4
Q ss_pred eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh----hHHHHHHHHHHHcCC
Q 004042 173 DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP----SLGFQVFSVAKYLGM 248 (777)
Q Consensus 173 ~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~----~~~~~~l~~a~~~gl 248 (777)
..+.-.-...-+...++..|+++..-... ......+..+.+.++++|.+++.. ..+..+++++++.+.
T Consensus 8 ~gd~H~lG~~~~~~~l~~~G~~vi~lG~~--------vp~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 8 GLDGHDRGAKVIARALRDAGFEVIYTGLR--------QTPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred CCChhHHHHHHHHHHHHHCCCEEEECCCC--------CCHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 33334445566777888899988754332 223356666677789999997754 456667777777765
No 352
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=66.55 E-value=82 Score=32.35 Aligned_cols=70 Identities=19% Similarity=0.170 Sum_probs=46.8
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. .+++.+.. ....+++..+.+|++|+++.... ...+.+++ .|+....+++++++
T Consensus 103 ~~l~~~~~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~l~~-~~l~~~~~~~v~~~ 170 (296)
T PRK09906 103 NLLPKVLPMFRLRHP-DTLIELVS-------LITTQQEEKLRRGELDVGFMRHP---VYSDEIDY-LELLDEPLVVVLPV 170 (296)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CCcHHHHHHHHcCCeeEEEecCC---CCCCCceE-EEEecccEEEEecC
Confidence 344567777777763 33455543 34678999999999999985332 23333443 68888888888876
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 171 ~~ 172 (296)
T PRK09906 171 DH 172 (296)
T ss_pred CC
Confidence 54
No 353
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=66.17 E-value=15 Score=37.52 Aligned_cols=57 Identities=18% Similarity=0.159 Sum_probs=32.5
Q ss_pred CCceEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE
Q 004042 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII 101 (777)
Q Consensus 28 ~~~~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~avi 101 (777)
..++|+||..-..+. ...+++.+.+-++ .|++++++.+++...+..| +.+..+++..
T Consensus 29 ~~~~I~IG~~~~~~~-------~~~~~~~~~l~~~----~G~~Vel~~f~~~~~~~~A------La~GdID~~~ 85 (271)
T PRK11063 29 DPNHIKVGVIVGAEQ-------QVAEVAQKVAKEK----YGLDVELVTFNDYVLPNEA------LSKGDIDANA 85 (271)
T ss_pred CCCcEEEEeCCCChH-------HHHHHHHHHHHHh----cCCeEEEEEecCcHHHHHH------HHcCCcceec
Confidence 345799999842111 1244444555443 2788999998865444433 3344666643
No 354
>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=66.01 E-value=23 Score=35.89 Aligned_cols=80 Identities=10% Similarity=0.043 Sum_probs=53.9
Q ss_pred EEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHH
Q 004042 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVA 243 (777)
Q Consensus 166 ~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a 243 (777)
+|++|.. ++.|.......+++.+++.|..+.....-. . .+..+-...++.+...++|.||+.....+....++++
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 4677775 366777888899999999998876542211 1 1234455678888888999999876443332256777
Q ss_pred HHcCC
Q 004042 244 KYLGM 248 (777)
Q Consensus 244 ~~~gl 248 (777)
.+.|+
T Consensus 78 ~~~gi 82 (268)
T cd06306 78 VAASI 82 (268)
T ss_pred HHCCC
Confidence 77675
No 355
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=65.86 E-value=20 Score=35.72 Aligned_cols=78 Identities=10% Similarity=0.152 Sum_probs=54.0
Q ss_pred EEEEEEEe--CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHH
Q 004042 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVA 243 (777)
Q Consensus 166 ~vaii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a 243 (777)
+|+++.+. ..+.......+++.+++.|+++..... . .+.......++++.+.+++.||+..........++.+
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 46777753 667888889999999999988764322 1 2245667788888888899888865544333356677
Q ss_pred HHcCC
Q 004042 244 KYLGM 248 (777)
Q Consensus 244 ~~~gl 248 (777)
.+.+.
T Consensus 76 ~~~~i 80 (264)
T cd01537 76 RKAGI 80 (264)
T ss_pred hhcCC
Confidence 66664
No 356
>cd08469 PBP2_PnbR The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold. PnbR is the regulator of one or both of the two pnb genes that encoding enzymes for 4-nitrobenzoate catabolism. In Pseudomonas putida strain, pnbA encodes a 4-nitrobenzoate reductase, which is responsible for catalyzing the direct reduction of 4-nitrobenzoate to 4-hydroxylaminobenzoate, and pnbB encodes a 4-hydroxylaminobenzoate lyase, which catalyzes the conversion of 4-hydroxylaminobenzoate to 3, 4-dihydroxybenzoic acid and ammonium. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft bet
Probab=65.22 E-value=98 Score=29.65 Aligned_cols=70 Identities=11% Similarity=0.092 Sum_probs=45.2
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++.+.. .+...+.+.+.+|++|+++... ....+.+. ..|.....+.+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Di~i~~~---~~~~~~l~-~~~l~~~~~~~v~~~ 80 (221)
T cd08469 13 VLLPALVRRLETEAP-GIDLRIRP-------VTRLDLAEQLDLGRIDLVIGIF---EQIPPRFR-RRTLFDEDEVWVMRK 80 (221)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEee-------CChhhHHHHHHCCCccEEEecC---CCCCccce-eeeeeccceEEEEeC
Confidence 345677777777654 33355443 3467899999999999988632 22223343 457778888888776
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (221)
T cd08469 81 DH 82 (221)
T ss_pred CC
Confidence 54
No 357
>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=65.18 E-value=32 Score=37.01 Aligned_cols=83 Identities=8% Similarity=0.033 Sum_probs=58.1
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.++++.++ +|+.||+..... ..+.+.+.+++.|+++.... +..+ .+.++....++..++.++|+||..+.
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 34556677775 899988854433 67778888999998765332 3333 44678888999999999999998776
Q ss_pred h--hHHHHHHHH
Q 004042 233 P--SLGFQVFSV 242 (777)
Q Consensus 233 ~--~~~~~~l~~ 242 (777)
+ -|+..++..
T Consensus 85 GS~~D~aK~ia~ 96 (374)
T cd08183 85 GSVIDAGKAIAA 96 (374)
T ss_pred chHHHHHHHHHH
Confidence 6 355555543
No 358
>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=65.05 E-value=24 Score=35.70 Aligned_cols=79 Identities=9% Similarity=0.084 Sum_probs=54.7
Q ss_pred EEEEEEE---eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh-hHHHHHHH
Q 004042 166 AVSVIFV---DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFS 241 (777)
Q Consensus 166 ~vaii~~---~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~-~~~~~~l~ 241 (777)
+|++|.. ++.|.....+.+.+.+++.|..+.....-. .+.......++++...+.|.+|+.... ......++
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 4677764 356888888999999999998876532211 124556677888888899999886543 33455677
Q ss_pred HHHHcCC
Q 004042 242 VAKYLGM 248 (777)
Q Consensus 242 ~a~~~gl 248 (777)
.+.+.|.
T Consensus 77 ~~~~~~i 83 (271)
T cd06312 77 RAVAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7777664
No 359
>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=64.18 E-value=25 Score=35.07 Aligned_cols=76 Identities=14% Similarity=0.075 Sum_probs=54.9
Q ss_pred EEEEEEe--CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|+++..+ ++|.....+.+++.+++.|+.+.... . + .+.......++++.+.+++.|++......... ++.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~-~--~--~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~ 75 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLCN-S--D--EDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELA 75 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEEc-C--C--CCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHH
Confidence 5666643 77888888999999999998876432 1 2 22455677788888889999998776655544 77777
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.|+
T Consensus 76 ~~~i 79 (264)
T cd06267 76 ALGI 79 (264)
T ss_pred HcCC
Confidence 7776
No 360
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=62.59 E-value=1.2e+02 Score=31.93 Aligned_cols=84 Identities=13% Similarity=0.064 Sum_probs=53.5
Q ss_pred ceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeE
Q 004042 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (777)
Q Consensus 465 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~ 544 (777)
+.++||+.... ...+-.+++..+.++.. ++++++.. +....++..|.+|++|+++..-
T Consensus 93 g~lrIg~~~~~--------------~~~~l~~~l~~f~~~~P-~v~i~l~~-------~~~~~~~~~l~~g~~Dl~i~~~ 150 (327)
T PRK12680 93 GQLTLTTTHTQ--------------ARFVLPPAVAQIKQAYP-QVSVHLQQ-------AAESAALDLLGQGDADIAIVST 150 (327)
T ss_pred eEEEEEecchh--------------HHHhhHHHHHHHHHHCC-CcEEEEEe-------CChHHHHHHHHCCCCcEEEEec
Confidence 56888886421 12345677888887774 33355443 4578899999999999988431
Q ss_pred EEeecccceeeecccccccceEEEEeccC
Q 004042 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (777)
Q Consensus 545 ~~t~~r~~~~dfs~p~~~~~~~~~v~~~~ 573 (777)
.. ....... ..|++...+.++++...
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 46788888888887654
No 361
>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=62.47 E-value=34 Score=36.44 Aligned_cols=84 Identities=17% Similarity=0.120 Sum_probs=56.3
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.++++.+| +++.+|+....+- ...+.+.+.+++.|+.+.... +... .+.+.....++.+++.++|.||..+.
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~~-~~~~~v~~~l~~~~i~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~d~IIavGG 86 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVLK-KSRPRFEAALAKSIIVVDVIV-FGGE--CSTEEVVKALCGAEEQEADVIIGVGG 86 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHHH-HHHHHHHHHHHhcCCeeEEEE-cCCC--CCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 44566778888 8888887443332 456788888888887653322 3322 24667888888888889999998766
Q ss_pred hh--HHHHHHH
Q 004042 233 PS--LGFQVFS 241 (777)
Q Consensus 233 ~~--~~~~~l~ 241 (777)
+. |+..++.
T Consensus 87 Gs~~D~aK~ia 97 (349)
T cd08550 87 GKTLDTAKAVA 97 (349)
T ss_pred cHHHHHHHHHH
Confidence 53 4444443
No 362
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=61.83 E-value=64 Score=29.78 Aligned_cols=80 Identities=14% Similarity=0.071 Sum_probs=57.2
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHh-hcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEE
Q 004042 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA-ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVL 229 (777)
Q Consensus 151 ~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~-~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl 229 (777)
+++.+..+.++++.++|.++- |........+.+-+.+. -.|+++... +.++....+++ +..+.+++++
T Consensus 17 HGQV~~~W~~~~~~~~IiVvd-D~vA~D~~~k~~lkma~~P~gvk~~i~---------sv~~a~~~l~~-~~~~~~vlvl 85 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVVD-DVVANDDIQQKLMGITAETYGFGIRFF---------TIEKTINVIGK-AAPHQKIFLI 85 (158)
T ss_pred hHHHHHhhhcccCCCEEEEEc-chhcCCHHHHHHHHhcCCCCCCEEEEE---------EHHHHHHHHHh-ccCCceEEEE
Confidence 577888899999999999873 44444445556666555 567776532 14566677777 6667789999
Q ss_pred ecChhHHHHHHH
Q 004042 230 HVSPSLGFQVFS 241 (777)
Q Consensus 230 ~~~~~~~~~~l~ 241 (777)
+-++.++..+++
T Consensus 86 ~~~~~da~~l~~ 97 (158)
T PRK09756 86 CRTPQTVRKLVE 97 (158)
T ss_pred ECCHHHHHHHHH
Confidence 999999987765
No 363
>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=61.80 E-value=32 Score=34.81 Aligned_cols=80 Identities=10% Similarity=0.130 Sum_probs=53.5
Q ss_pred EEEEEEEe--CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhH-HHHHHHH
Q 004042 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFSV 242 (777)
Q Consensus 166 ~vaii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~-~~~~l~~ 242 (777)
||++|.++ ++|.......+++.+++.|..+.....-.. .+.......++++...+.|.||+...... ....++.
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 57777744 667778888999999999998765432111 12445566777777788999888654333 3456777
Q ss_pred HHHcCC
Q 004042 243 AKYLGM 248 (777)
Q Consensus 243 a~~~gl 248 (777)
+.+.++
T Consensus 78 ~~~~~i 83 (273)
T cd06310 78 AKDAGI 83 (273)
T ss_pred HHHCCC
Confidence 776564
No 364
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=61.58 E-value=34 Score=34.17 Aligned_cols=47 Identities=17% Similarity=0.248 Sum_probs=31.3
Q ss_pred ceEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHH
Q 004042 30 AVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMV 87 (777)
Q Consensus 30 ~~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~ 87 (777)
.+|+||+.---++ .-++..++.+.++ .|++|+++.+.+-..|..|+.
T Consensus 29 ~~I~vg~~~~p~a---~ile~~~k~~~~k--------~Gi~l~i~~FtDY~~PN~AL~ 75 (268)
T COG1464 29 KTIKVGATPGPHA---EILEVVVKPALKK--------KGLDLKIVEFTDYVQPNEALA 75 (268)
T ss_pred CcEEEeecCCchH---HHHHHHHHHHHHh--------cCceEEEEEecCCcchhHHHh
Confidence 5899998743332 2233345544443 388999999999888888864
No 365
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=61.56 E-value=1.6e+02 Score=29.92 Aligned_cols=114 Identities=12% Similarity=0.206 Sum_probs=65.9
Q ss_pred hhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hHHHHHHHhhccCCceE
Q 004042 45 GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAHIVSYVSNELQVPL 123 (777)
Q Consensus 45 g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s-~~~~~va~~~~~~~iP~ 123 (777)
|..-..++...+.+|| |..+++.+ +..-++. ...+++..+.+.||-...+ ..-..+..++...++|+
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 4444456666666676 55555543 3332322 2334555567888876665 45566888999999999
Q ss_pred EecccCCCCCCCCCCCceEEecCCch----HHHHHHHHHHHh-cCCc-------EEEEEEEeC
Q 004042 124 LSFGVTDPTLSSLQYPFFVRTTQSDS----YQMTAVAEMVSY-YGWN-------AVSVIFVDN 174 (777)
Q Consensus 124 Is~~a~~~~l~~~~~~~~~r~~p~~~----~~~~a~~~~l~~-~~w~-------~vaii~~~~ 174 (777)
|+.+.....+. |.-+++.--.. -+++.+=+.|++ .|.+ .+-+||+.+
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 98654443332 55555543222 245555555665 5664 367777655
No 366
>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=61.48 E-value=1.5e+02 Score=30.39 Aligned_cols=71 Identities=17% Similarity=0.217 Sum_probs=45.0
Q ss_pred eeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEecc
Q 004042 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (777)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~ 572 (777)
+-.+++..+.++.. ++++.+.. ++...++.++.+|++|++++.... ......+ -..|......++++++.
T Consensus 107 ~~~~~l~~~~~~~P-~~~i~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~-~~~~~~~-~~~~l~~~~~~~~~~~~ 176 (300)
T TIGR02424 107 LMPEVVKRFLARAP-RLRVRIMT-------GPNAYLLDQLRVGALDLVVGRLGA-PETMQGL-SFEHLYNEPVVFVVRAG 176 (300)
T ss_pred hhHHHHHHHHHhCC-CcEEEEEe-------CchHHHHHHHHCCCCCEEEEecCC-cccccce-eeeeecCCceEEEEcCC
Confidence 34566777777764 44455544 356789999999999999853322 1222223 23577778888887654
Q ss_pred C
Q 004042 573 K 573 (777)
Q Consensus 573 ~ 573 (777)
.
T Consensus 177 h 177 (300)
T TIGR02424 177 H 177 (300)
T ss_pred C
Confidence 4
No 367
>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=60.98 E-value=34 Score=35.31 Aligned_cols=78 Identities=9% Similarity=0.037 Sum_probs=53.9
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh-hHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVA 243 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~-~~~~~~l~~a 243 (777)
|++|.. ++.|.......+++.+++.|.++....... .+.......++.+...++|.||+.... ......++++
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 566653 466777888999999999998876421111 124556677888878889999986543 3346677888
Q ss_pred HHcCC
Q 004042 244 KYLGM 248 (777)
Q Consensus 244 ~~~gl 248 (777)
++.++
T Consensus 78 ~~~~i 82 (298)
T cd06302 78 REAGI 82 (298)
T ss_pred HHCCC
Confidence 77665
No 368
>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=60.86 E-value=1.3e+02 Score=28.13 Aligned_cols=70 Identities=16% Similarity=0.246 Sum_probs=44.1
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. .+++++.. +....++..+.+|++|+++.... .....+ .+.++....+.+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 81 (203)
T cd08445 14 GLLPELIRRFRQAAP-DVEIELIE-------MTTVQQIEALKEGRIDVGFGRLR---IEDPAI-RRIVLREEPLVVALPA 81 (203)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHcCCCcEEEecCC---CCCCCc-eeEEEEeccEEEEeeC
Confidence 455677888877763 33344433 34678999999999999885221 111222 2346677777777765
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 82 ~h 83 (203)
T cd08445 82 GH 83 (203)
T ss_pred CC
Confidence 43
No 369
>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=60.84 E-value=40 Score=35.90 Aligned_cols=87 Identities=11% Similarity=0.088 Sum_probs=56.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
..+.++++.++.+++.+|+....+.. ..+.+.+.+++.|+++............+.......++.+++ ++|+||..+.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~~~-~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTYAA-AGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHHHH-HHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 44567777788899998874433322 357788889988886643322322212346777778888877 8999998766
Q ss_pred h--hHHHHHHH
Q 004042 233 P--SLGFQVFS 241 (777)
Q Consensus 233 ~--~~~~~~l~ 241 (777)
+ -|+..++.
T Consensus 90 Gs~~D~aK~vA 100 (348)
T cd08175 90 GTINDITKYVS 100 (348)
T ss_pred cHHHHHHHHHH
Confidence 5 35555554
No 370
>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=60.78 E-value=82 Score=33.57 Aligned_cols=101 Identities=15% Similarity=0.089 Sum_probs=63.9
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCC-CCCChhhHHHHHHHHhcCCCe---EEE
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPE-SGVNTGYVMDLLVKVALMESR---VIV 228 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~~~~d~~~~l~~l~~~~~~---vIv 228 (777)
..+.++++.++-+++.++++...+. ...+.+.+.+++.|+.+... .++.. ...+.+.....+..+++.++| +||
T Consensus 12 ~~l~~~l~~~g~~rvlvVtd~~v~~-~~~~~l~~~L~~~g~~~~~~-~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~II 89 (355)
T cd08197 12 DSVLGYLPELNADKYLLVTDSNVED-LYGHRLLEYLREAGAPVELL-SVPSGEEHKTLSTLSDLVERALALGATRRSVIV 89 (355)
T ss_pred HHHHHHHHhcCCCeEEEEECccHHH-HHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEE
Confidence 3345667777878999888655443 36677888898888765322 23221 113467788888888888887 887
Q ss_pred EecCh--hHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 229 LHVSP--SLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 229 l~~~~--~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
..+.+ .++..++......|+ .++.|-|
T Consensus 90 AvGGGsv~D~ak~~A~~~~rgi---p~I~IPT 118 (355)
T cd08197 90 ALGGGVVGNIAGLLAALLFRGI---RLVHIPT 118 (355)
T ss_pred EECCcHHHHHHHHHHHHhccCC---CEEEecC
Confidence 76655 456656655443343 4555554
No 371
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=60.66 E-value=1e+02 Score=32.11 Aligned_cols=71 Identities=15% Similarity=0.302 Sum_probs=45.4
Q ss_pred eeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEecc
Q 004042 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (777)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~ 572 (777)
+..+++..+.+... ++++.+.. +....++.+|.+|++|+++...... ...+.+ ...|+....+++++++.
T Consensus 111 ~l~~~l~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~l-~~~~l~~~~~~lv~~~~ 180 (312)
T PRK10341 111 FMSDMINKFKEVFP-KAQVSMYE-------AQLSSFLPAIRDGRLDFAIGTLSNE-MKLQDL-HVEPLFESEFVLVASKS 180 (312)
T ss_pred hHHHHHHHHHHhCC-CCEEEEEe-------CCHHHHHHHHHcCCCcEEEecCCcc-cccCCe-eEEEEecccEEEEEcCC
Confidence 34567777777643 33455544 3578899999999999998532211 111222 34678888888888765
Q ss_pred C
Q 004042 573 K 573 (777)
Q Consensus 573 ~ 573 (777)
.
T Consensus 181 ~ 181 (312)
T PRK10341 181 R 181 (312)
T ss_pred C
Confidence 4
No 372
>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=60.59 E-value=27 Score=36.93 Aligned_cols=85 Identities=11% Similarity=0.007 Sum_probs=57.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
+.+.+.++.++.+++.+|+....+.. ..+.+.+.+++.+..+ +. .+.++ .+........+.+++.++|.||..+.
T Consensus 12 ~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~~-~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 86 (337)
T cd08177 12 AALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-FD-GAVMH--TPVEVTEAAVAAAREAGADGIVAIGG 86 (337)
T ss_pred HHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-eC-CCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 55667788899999999985554443 6667888887765433 22 22222 34677888888888889999998766
Q ss_pred h--hHHHHHHHH
Q 004042 233 P--SLGFQVFSV 242 (777)
Q Consensus 233 ~--~~~~~~l~~ 242 (777)
+ -|+..++..
T Consensus 87 Gs~iD~aK~ia~ 98 (337)
T cd08177 87 GSTIDLAKAIAL 98 (337)
T ss_pred cHHHHHHHHHHH
Confidence 5 355555544
No 373
>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=60.57 E-value=61 Score=29.64 Aligned_cols=81 Identities=12% Similarity=0.142 Sum_probs=58.3
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEe
Q 004042 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (777)
Q Consensus 151 ~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~ 230 (777)
+++.+..+.++++.++|.++- |........+.+-+.+.-.|+++... +.++....+++-...+.++++++
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~lkma~P~gvk~~i~---------sve~a~~~l~~~~~~~~~v~vl~ 82 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVN-DDVANDEVRQTLMGIVAPTGFKVRFV---------SLEKTINVIHKPAYHDQTIFLLF 82 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCEEEEE---------EHHHHHHHHhCcCCCCceEEEEE
Confidence 577788889999999999874 44444455666666666678776642 14456666666556677999999
Q ss_pred cChhHHHHHHH
Q 004042 231 VSPSLGFQVFS 241 (777)
Q Consensus 231 ~~~~~~~~~l~ 241 (777)
-++.++..+++
T Consensus 83 k~~~da~~l~~ 93 (151)
T TIGR00854 83 RNPQDVLTLVE 93 (151)
T ss_pred CCHHHHHHHHH
Confidence 99999987765
No 374
>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=60.26 E-value=61 Score=29.64 Aligned_cols=81 Identities=11% Similarity=0.062 Sum_probs=58.5
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEe
Q 004042 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (777)
Q Consensus 151 ~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~ 230 (777)
+++.+..+.++++.++|.++- |........+.+-+.+.-.|+++... +.++....+++-+..+.++++++
T Consensus 12 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~---------sve~a~~~l~~~~~~~~~v~il~ 81 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVN-DEVANDELRKTLLKLAAPPGVKLRIF---------TVEKAIEAINSPKYDKQRVFLLF 81 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCeEEEE---------EHHHHHHHHhCcCCCCceEEEEE
Confidence 578888899999999999773 44444455666666666678776532 14566666666556677999999
Q ss_pred cChhHHHHHHH
Q 004042 231 VSPSLGFQVFS 241 (777)
Q Consensus 231 ~~~~~~~~~l~ 241 (777)
-++.++..+++
T Consensus 82 k~~~~~~~l~~ 92 (151)
T cd00001 82 KNPQDVLRLVE 92 (151)
T ss_pred CCHHHHHHHHH
Confidence 99999887765
No 375
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=60.11 E-value=1.4e+02 Score=30.87 Aligned_cols=71 Identities=15% Similarity=0.094 Sum_probs=45.4
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. +.-+.+++.+.+|++|+++..-. ......++ +.|+......+++++
T Consensus 106 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~--~~~~~~l~-~~~l~~~~~~~~~~~ 174 (309)
T PRK12682 106 YVLPRVVAAFRKRYP-KVNLSLHQ-------GSPDEIARMVISGEADIGIATES--LADDPDLA-TLPCYDWQHAVIVPP 174 (309)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEec-------CCHHHHHHHHHcCCccEEEecCc--ccCCCcce-EEEeeeeeEEEEecC
Confidence 455677888887763 33344433 34578999999999999985321 11122333 357778888888876
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 175 ~~ 176 (309)
T PRK12682 175 DH 176 (309)
T ss_pred CC
Confidence 54
No 376
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=59.88 E-value=1.5e+02 Score=30.72 Aligned_cols=70 Identities=20% Similarity=0.196 Sum_probs=43.6
Q ss_pred eeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEecc
Q 004042 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (777)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~ 572 (777)
+-..++..+.++.. ++++++.. +.+++++..|.+|++|+++..... .....+.+ .|+....+.+++++.
T Consensus 107 ~l~~~i~~f~~~~P-~i~l~~~~-------~~~~~~~~~L~~~~~D~~i~~~~~--~~~~~l~~-~~l~~~~~~~v~~~~ 175 (309)
T PRK12683 107 ALPKVVRQFKEVFP-KVHLALRQ-------GSPQEIAEMLLNGEADIGIATEAL--DREPDLVS-FPYYSWHHVVVVPKG 175 (309)
T ss_pred HHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEecCCC--CCCCCceE-EEcccCeEEEEecCC
Confidence 34567777777653 23344433 468999999999999998752111 11222333 467777777777654
Q ss_pred C
Q 004042 573 K 573 (777)
Q Consensus 573 ~ 573 (777)
.
T Consensus 176 h 176 (309)
T PRK12683 176 H 176 (309)
T ss_pred C
Confidence 4
No 377
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=59.82 E-value=86 Score=33.51 Aligned_cols=92 Identities=5% Similarity=-0.072 Sum_probs=59.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEee--ecCCCCCCChhhHHHHHHHHhcCCC---eEE
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKS--GIPPESGVNTGYVMDLLVKVALMES---RVI 227 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~--~~~~~~~~~~~d~~~~l~~l~~~~~---~vI 227 (777)
..+.+.++.++.+++.+|+....+ ....+.+.+.+++.|+.+.... ...+. .+.+.....++.+++.+. |.|
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~~-~~~~~~v~~~L~~~gi~~~~~~~~~~e~~--~~~~~v~~~~~~~~~~~~~r~d~I 96 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETVA-PLYLEKLRASLEAAGFEVDVVVLPDGEQY--KSLETLEKIYDALLEAGLDRSDTL 96 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCchH-HHHHHHHHHHHHhcCCceEEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCCCCEE
Confidence 345566677788999999854443 3567788888888887664211 12222 346778888888877654 888
Q ss_pred EEecCh--hHHHHHHHHHHHcC
Q 004042 228 VLHVSP--SLGFQVFSVAKYLG 247 (777)
Q Consensus 228 vl~~~~--~~~~~~l~~a~~~g 247 (777)
|..+.+ -++..++......|
T Consensus 97 IavGGGsv~D~aK~iA~~~~~g 118 (358)
T PRK00002 97 IALGGGVIGDLAGFAAATYMRG 118 (358)
T ss_pred EEEcCcHHHHHHHHHHHHhcCC
Confidence 887665 45565655444444
No 378
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=59.51 E-value=37 Score=35.77 Aligned_cols=63 Identities=19% Similarity=0.180 Sum_probs=41.2
Q ss_pred cCCCceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCee-cEEEEecCCCCCCCChhHHHHHHhcCceeE
Q 004042 461 PNNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAV-PYQFVAFGDGHKNPSYTQLVDSITTGVFDA 539 (777)
Q Consensus 461 ~~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~-~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di 539 (777)
|.++++++++... |.- .-+.-.+++.+-+.+|.++ ++.. ..-.-+...|.+|++|+
T Consensus 25 ~~~~~~V~~~~~~---W~~-----------~~~~t~v~~~iLe~~GY~V~e~~~---------~~~~~~~~ala~GdiDv 81 (331)
T PRK11119 25 PGKGITVQPAQST---IAE-----------ETFQTLLVSRALEKLGYDVNKPKE---------VDYNVFYTSIANGDATF 81 (331)
T ss_pred CCCCeEEEEeecC---ccH-----------HHHHHHHHHHHHHHcCCceeeecc---------cCcHHHHHHHHcCCCeE
Confidence 4467888887763 321 1233456777778889875 4443 22467789999999999
Q ss_pred EEeeEEE
Q 004042 540 VVGDITI 546 (777)
Q Consensus 540 ~~~~~~~ 546 (777)
.......
T Consensus 82 ~~~~W~P 88 (331)
T PRK11119 82 TAVNWFP 88 (331)
T ss_pred ehhhccc
Confidence 8755443
No 379
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=59.47 E-value=1.5e+02 Score=32.18 Aligned_cols=101 Identities=15% Similarity=0.149 Sum_probs=59.5
Q ss_pred HHHHHHHHHhcCCcEEEEEEE-eCccccchHHHHHHHHh--hcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEE
Q 004042 152 MTAVAEMVSYYGWNAVSVIFV-DNEYGRNGVSALNDKLA--ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (777)
Q Consensus 152 ~~a~~~~l~~~~w~~vaii~~-~~~~g~~~~~~~~~~~~--~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIv 228 (777)
.+...++.+...-+++.|+|. .....+..++.+.+.++ +.|+++... .+. ..+...++..+. +++.|+
T Consensus 235 ~~~Y~~~~~~~~~~kv~IvY~S~~GnTe~mA~~ia~g~~~~~~g~~v~~~-~~~------~~~~~~i~~~~~--~~d~ii 305 (394)
T PRK11921 235 VEKYLEWAANYQENQVTILYDTMWNSTRRMAEAIAEGIKKANKDVTVKLY-NSA------KSDKNDIITEVF--KSKAIL 305 (394)
T ss_pred HHHHHHHhhcCCcCcEEEEEECCchHHHHHHHHHHHHHhhcCCCCeEEEE-ECC------CCCHHHHHHHHH--hCCEEE
Confidence 334444445555688999993 44445566788888887 567776432 222 334455555554 367788
Q ss_pred EecCh------hHHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 004042 229 LHVSP------SLGFQVFSVAKYLGMMGNGYVWIATDWL 261 (777)
Q Consensus 229 l~~~~------~~~~~~l~~a~~~gl~~~~~~~i~~~~~ 261 (777)
+.++. +....++.....+++.++...-+++-+|
T Consensus 306 ~GspT~~~~~~~~~~~~l~~l~~~~~~~K~~a~FGsygw 344 (394)
T PRK11921 306 VGSSTINRGILSSTAAILEEIKGLGFKNKKAAAFGSYGW 344 (394)
T ss_pred EECCCcCccccHHHHHHHHHhhccCcCCCEEEEEecCCC
Confidence 76654 3466677777766665443444444333
No 380
>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=59.24 E-value=39 Score=33.77 Aligned_cols=78 Identities=6% Similarity=0.022 Sum_probs=53.4
Q ss_pred EEEEEEEe--CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh-hHHHHHHHH
Q 004042 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSV 242 (777)
Q Consensus 166 ~vaii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~-~~~~~~l~~ 242 (777)
+|++|.++ +.|.....+.+++.+++.|+++.....- .+.......++++...+.|.||+.... ......++.
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 47778753 5678888899999999999887653221 124455677888877789999886543 333446677
Q ss_pred HHHcCC
Q 004042 243 AKYLGM 248 (777)
Q Consensus 243 a~~~gl 248 (777)
+.+.+.
T Consensus 76 l~~~~i 81 (267)
T cd01536 76 ANAAGI 81 (267)
T ss_pred HHHCCC
Confidence 766554
No 381
>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=59.01 E-value=1.5e+02 Score=27.40 Aligned_cols=70 Identities=14% Similarity=0.124 Sum_probs=44.7
Q ss_pred eeeHHHHHHHHHHC-CCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEe
Q 004042 492 GFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (777)
Q Consensus 492 G~~~dl~~~l~~~l-~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~ 570 (777)
.+-.+++..+.++. +.+ +++.. +++..++..+.+|++|+++..... .....+. +.++....+.++++
T Consensus 13 ~~l~~~l~~~~~~~P~v~--l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~l~-~~~l~~~~~~~~~~ 80 (199)
T cd08430 13 SFLPPILERFRAQHPQVE--IKLHT-------GDPADAIDKVLNGEADIAIAARPD--KLPARLA-FLPLATSPLVFIAP 80 (199)
T ss_pred eeccHHHHHHHHHCCCce--EEEEe-------CCHHHHHHHHHCCCCCEEEEecCC--CCCcccE-EEeeccceEEEEEe
Confidence 45567888888887 444 44443 457789999999999998853211 1112232 35666777777766
Q ss_pred ccC
Q 004042 571 FRK 573 (777)
Q Consensus 571 ~~~ 573 (777)
+.-
T Consensus 81 ~~~ 83 (199)
T cd08430 81 NIA 83 (199)
T ss_pred CCc
Confidence 543
No 382
>PRK00865 glutamate racemase; Provisional
Probab=58.84 E-value=95 Score=31.44 Aligned_cols=37 Identities=8% Similarity=0.160 Sum_probs=25.5
Q ss_pred HHHHHhcCcEEEEcCCChhHHHHHHHhhccCCceEEe
Q 004042 89 ALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLS 125 (777)
Q Consensus 89 a~~l~~~~v~aviGp~~s~~~~~va~~~~~~~iP~Is 125 (777)
+..|.+.|+.+++=+-.+.++.++..+-+..++|+|.
T Consensus 60 ~~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 60 VEFLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 3344455888888766666555666666777999996
No 383
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=58.77 E-value=1.4e+02 Score=30.67 Aligned_cols=86 Identities=10% Similarity=0.142 Sum_probs=54.0
Q ss_pred CceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEee
Q 004042 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (777)
Q Consensus 464 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 543 (777)
.++|+|++.... ...+..+++..+.++.. .+++++.. +...+++..|.+|++|+++..
T Consensus 94 ~g~l~I~~~~~~--------------~~~~l~~~l~~~~~~~p-~i~~~~~~-------~~~~~~~~~l~~g~~Di~i~~ 151 (302)
T PRK09791 94 AGQINIGMGASI--------------ARSLMPAVISRFHQQHP-QVKVRIME-------GQLVSMINELRQGELDFTINT 151 (302)
T ss_pred ceEEEEEechHH--------------HHhhhHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHCCCccEEEEe
Confidence 367888886421 22445677787777764 33344433 356789999999999998852
Q ss_pred EEEeecccceeeecccccccceEEEEeccC
Q 004042 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (777)
Q Consensus 544 ~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~ 573 (777)
.... .....+.+ .|+....+++++++..
T Consensus 152 ~~~~-~~~~~~~~-~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 152 YYQG-PYDHEFTF-EKLLEKQFAVFCRPGH 179 (302)
T ss_pred cCCc-ccccceeE-EEeccceEEEEEcCCC
Confidence 2111 11222433 6788888888877655
No 384
>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=58.73 E-value=1.5e+02 Score=27.37 Aligned_cols=71 Identities=17% Similarity=0.237 Sum_probs=44.8
Q ss_pred eeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEecc
Q 004042 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (777)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~ 572 (777)
+-.+++..+.+... ++++++.. ++...+++.+.+|++|+++.... ...+.+.+ ...|+....+.+++++.
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~-~~~~l~~~~~~~~~~~~ 83 (201)
T cd08435 14 LLPPAIARLLARHP-RLTVRVVE-------GTSDELLEGLRAGELDLAIGRLA-DDEQPPDL-ASEELADEPLVVVARPG 83 (201)
T ss_pred HHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCccEEEEecC-cccCCCCc-EEEEcccCcEEEEEeCC
Confidence 34567777777753 44455543 34678899999999999885321 11112223 23577788888888765
Q ss_pred C
Q 004042 573 K 573 (777)
Q Consensus 573 ~ 573 (777)
.
T Consensus 84 ~ 84 (201)
T cd08435 84 H 84 (201)
T ss_pred C
Confidence 4
No 385
>cd08178 AAD_C C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD). Alcohol dehydrogenase domain located on the C-terminal of a bifunctional two-domain protein. The N-terminal of the protein contains an acetaldehyde-CoA dehydrogenase domain. This protein is involved in pyruvate metabolism. Pyruvate is converted to acetyl-CoA and formate by pyruvate formate-lysase (PFL). Under anaerobic condition, acetyl-CoA is reduced to acetaldehyde and ethanol by this two-domain protein. Acetyl-CoA is first converted into an enzyme-bound thiohemiacetal by the N-terminal acetaldehyde dehydrogenase domain. The enzyme-bound thiohemiacetal is subsequently reduced by the C-terminal NAD+-dependent alcohol dehydrogenase domain. In E. coli, this protein is called AdhE and was shown pyruvate formate-lysase (PFL) deactivase activity, which is involved in the inactivation of PFL, a key enzyme in anaerobic metabolism. In Escherichi
Probab=58.59 E-value=32 Score=37.38 Aligned_cols=79 Identities=13% Similarity=0.012 Sum_probs=56.0
Q ss_pred cCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh--hHHHHH
Q 004042 162 YGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--SLGFQV 239 (777)
Q Consensus 162 ~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~--~~~~~~ 239 (777)
.+.+++.+|+..........+.+.+.+++.|+++.....+.++ .+.+.....+..+++.++|+||..+.+ -|+..+
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 3568998887544334447788999999999877544445444 456788889999999999999976655 455555
Q ss_pred HHH
Q 004042 240 FSV 242 (777)
Q Consensus 240 l~~ 242 (777)
+..
T Consensus 97 iA~ 99 (398)
T cd08178 97 MWL 99 (398)
T ss_pred HHH
Confidence 543
No 386
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=58.24 E-value=78 Score=29.18 Aligned_cols=80 Identities=14% Similarity=0.123 Sum_probs=57.7
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEe
Q 004042 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (777)
Q Consensus 151 ~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~ 230 (777)
+++.+..+.++++.++|.++- |..........+-..+.-.|+++... +.++....+++ ...+.++++++
T Consensus 15 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~---------sv~~a~~~l~~-~~~~~~v~il~ 83 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVAN-DEVAEDPVQQNLMEMVLAEGIAVRFW---------TLQKVIDNIHR-AADRQKILLVC 83 (157)
T ss_pred hHHhhhhhhcccCCCEEEEEc-chhcCCHHHHHHHHhhCCCCCeEEEE---------EHHHHHHHHhc-cCCCceEEEEE
Confidence 578888899999999988773 44444445666666666678776532 14566777777 66667899999
Q ss_pred cChhHHHHHHH
Q 004042 231 VSPSLGFQVFS 241 (777)
Q Consensus 231 ~~~~~~~~~l~ 241 (777)
-++.++..+++
T Consensus 84 k~~~d~~~l~~ 94 (157)
T PRK11425 84 KTPADFLTLVK 94 (157)
T ss_pred CCHHHHHHHHH
Confidence 99999887764
No 387
>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=58.05 E-value=1e+02 Score=30.56 Aligned_cols=117 Identities=14% Similarity=0.155 Sum_probs=68.9
Q ss_pred cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hHHHHHHHhhccCCc
Q 004042 43 TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAHIVSYVSNELQV 121 (777)
Q Consensus 43 ~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s-~~~~~va~~~~~~~i 121 (777)
..|+.-..++...+.++| |..+++.+ +..-++ +...+++..+.+.||....+ ..-..+..++...++
T Consensus 61 diG~~Kae~~~~~l~~in------P~~~V~~~--~~~i~~----~~~~~l~~~~~D~VvdaiD~~~~k~~L~~~c~~~~i 128 (231)
T cd00755 61 TVGKPKVEVMAERIRDIN------PECEVDAV--EEFLTP----DNSEDLLGGDPDFVVDAIDSIRAKVALIAYCRKRKI 128 (231)
T ss_pred hCCCcHHHHHHHHHHHHC------CCcEEEEe--eeecCH----hHHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHhCC
Confidence 345555666677777777 55555544 333222 23445565567788876554 444567889999999
Q ss_pred eEEecccCCCCCCCCCCCceEEecCCchH----HHHHHHHHHHhcCCc-EEEEEEEeCc
Q 004042 122 PLLSFGVTDPTLSSLQYPFFVRTTQSDSY----QMTAVAEMVSYYGWN-AVSVIFVDNE 175 (777)
Q Consensus 122 P~Is~~a~~~~l~~~~~~~~~r~~p~~~~----~~~a~~~~l~~~~w~-~vaii~~~~~ 175 (777)
|+|+.......+ .|.-+|...-... .++.+-+.|++.+.. .|-+||+.+.
T Consensus 129 p~I~s~g~g~~~----dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E~ 183 (231)
T cd00755 129 PVISSMGAGGKL----DPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTEP 183 (231)
T ss_pred CEEEEeCCcCCC----CCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCCC
Confidence 999864433322 2454555432222 345555556666664 6888887653
No 388
>cd06316 PBP1_ABC_sugar_binding_like_7 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=57.07 E-value=38 Score=34.81 Aligned_cols=79 Identities=6% Similarity=0.121 Sum_probs=52.4
Q ss_pred EEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHHHHH
Q 004042 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSV 242 (777)
Q Consensus 166 ~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~l~~ 242 (777)
||++|.. ++.|.......+.+.+++.|..+.... ... .+.......++.+.+.++|.||+..... .....+++
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 4676664 345666777888999999998876321 111 2244455677777778899888864332 24567788
Q ss_pred HHHcCC
Q 004042 243 AKYLGM 248 (777)
Q Consensus 243 a~~~gl 248 (777)
+.+.|+
T Consensus 77 ~~~~~i 82 (294)
T cd06316 77 VAEAGI 82 (294)
T ss_pred HHHcCC
Confidence 888775
No 389
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=56.99 E-value=43 Score=33.61 Aligned_cols=77 Identities=12% Similarity=0.094 Sum_probs=52.2
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|++|.. .+.|.......+++.+++.|.++... ... .+...-...++++.+.++|.|++..........++++.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~---~~~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLA---NSG--EDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLA 76 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEe---cCC--CChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHH
Confidence 566664 45677778888999999999887532 111 12444566788888888999988765443334777777
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.|+
T Consensus 77 ~~~i 80 (268)
T cd06289 77 ESGI 80 (268)
T ss_pred hcCC
Confidence 7675
No 390
>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=56.93 E-value=1.5e+02 Score=29.65 Aligned_cols=126 Identities=12% Similarity=0.037 Sum_probs=70.0
Q ss_pred EEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 32 VNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 32 i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
-+||.+.+........-..|+.-++++.+- ..+..........+...+.+.+.++++++..+|+... ...+..
T Consensus 121 ~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai~~~~-d~~A~g 193 (260)
T cd06304 121 GKVGFVGGMPIPEVNRFINGFAAGAKSVNP------DITVLVIYTGSFFDPAKGKEAALALIDQGADVIFAAA-GGTGPG 193 (260)
T ss_pred CceEEEeccccHHHHHHHHHHHHHHHHhCC------CcEEEEEEecCccCcHHHHHHHHHHHhCCCCEEEEcC-CCCchH
Confidence 467777543222233445677777766431 2333223333333445666677777776668887743 344444
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcE
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNA 166 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~ 166 (777)
+...+...++-++++... ....-..|.+.....+....+...++.+..-.|+.
T Consensus 194 v~~al~~~gv~vigfD~~--~~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~ 246 (260)
T cd06304 194 VIQAAKEAGVYAIGVDSD--QSALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKG 246 (260)
T ss_pred HHHHHHHcCCEEEeecCc--hhhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCC
Confidence 555555566666655432 22222236666666777777777777766666643
No 391
>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=56.47 E-value=46 Score=33.35 Aligned_cols=77 Identities=9% Similarity=0.080 Sum_probs=52.3
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|+++.. .++|.....+.+.+.+++.|+.+..... . .+.......++++...++|.||+..........++.+.
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 566664 4567777888999999999988775432 1 12455567788888788999998543322334677777
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.|+
T Consensus 77 ~~~i 80 (266)
T cd06282 77 AERV 80 (266)
T ss_pred hCCC
Confidence 7775
No 392
>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=56.46 E-value=56 Score=33.46 Aligned_cols=77 Identities=9% Similarity=0.031 Sum_probs=55.4
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC-hhHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVA 243 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~-~~~~~~~l~~a 243 (777)
|++|.. ++.|.....+.+.+.+++.|..+...... .+.......++++.+.++|.|++... .......++++
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 677775 35677788889999999999987754321 12455667788888889999988654 34456678888
Q ss_pred HHcCC
Q 004042 244 KYLGM 248 (777)
Q Consensus 244 ~~~gl 248 (777)
.+.|.
T Consensus 77 ~~~~i 81 (288)
T cd01538 77 ADAGI 81 (288)
T ss_pred HHCCC
Confidence 87765
No 393
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=56.43 E-value=53 Score=33.51 Aligned_cols=137 Identities=14% Similarity=0.182 Sum_probs=0.0
Q ss_pred HHHHHHHHHH-CCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEeccC
Q 004042 495 IDVFTAAVNL-LPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (777)
Q Consensus 495 ~dl~~~l~~~-l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~ 573 (777)
.++...+.++ .|.+ +++..+ ..+.....+|.+|++|+....-..-.+.... .-..-+...+..+++|..-
T Consensus 47 ~e~a~~~~k~~~G~~--Velv~f------sd~~~~n~AL~~G~ID~n~~qh~~yl~~~~~-~~g~~lv~~~~~~~~P~~~ 117 (272)
T PRK09861 47 AEVAKKVAKEKYGLD--VELVGF------SGSLLPNDATNHGELDANVFQHRPFLEQDNQ-AHGYKLVAVGNTFVFPMAG 117 (272)
T ss_pred HHHHHHHHHHcCCCe--EEEEec------CchhhHHHHHHcCCcceehhhhHHHHHHHHH-hcCCCeEEEeEEEEEeeec
Q ss_pred CCCCcceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCcccchhhHHHHHhhhhhccCcCcccCchhHHHHHH
Q 004042 574 LNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAHKENTVSTLGRLVLII 653 (777)
Q Consensus 574 ~~~~~~~~~~pf~~~vWl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~R~~~~~ 653 (777)
T Consensus 118 -------------------------------------------------------------------------------- 117 (272)
T PRK09861 118 -------------------------------------------------------------------------------- 117 (272)
T ss_pred --------------------------------------------------------------------------------
Q ss_pred HHHHHHHHHhHhhHhHHHhhhhccccCCCCChhhhhhCCCCeEEee--CchHHHHHHhhhcc------------------
Q 004042 654 WLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQE--GSFAEYYLSQELNI------------------ 713 (777)
Q Consensus 654 ~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~i~~~~--~~~~~~~~~~~~~~------------------ 713 (777)
+...|+|++||.+ |.+|++.+ +...+.++--+...
T Consensus 118 ------------------------Ys~~iksl~DL~~-Ga~IAipnd~~n~~ral~lL~~agli~l~~~~g~~~t~~di~ 172 (272)
T PRK09861 118 ------------------------YSKKIKTVAQIKE-GATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDIT 172 (272)
T ss_pred ------------------------cccCCCCHHHcCC-CCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHh
Q ss_pred ---ccccccccCCHHHHHHHHhcCCCCCCceEEEecchhh
Q 004042 714 ---SKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYV 750 (777)
Q Consensus 714 ---~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~~~~~~ 750 (777)
..-++++.+ ..+....+.+ |++|+.+...+.+
T Consensus 173 ~np~~l~~ve~~-~~q~~~al~d----g~vD~a~i~~~~~ 207 (272)
T PRK09861 173 DNPRHLQIMELE-GAQLPRVLDD----PKVDVAIISTTYI 207 (272)
T ss_pred cCCCCCEEEEcC-HHHhHhhccC----cccCEEEEchhHH
No 394
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=55.94 E-value=1.7e+02 Score=28.00 Aligned_cols=101 Identities=8% Similarity=0.093 Sum_probs=60.4
Q ss_pred HHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHH
Q 004042 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (777)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 188 (777)
...+..+++..++|++..... ++.....+.+.+.+++..-+.+-.|...+.+.......+.+.+
T Consensus 47 ~e~~~~~A~~lgipl~~i~~~----------------~~~e~~~~~l~~~l~~~~~~g~~~vv~G~i~sd~~~~~~e~~~ 110 (194)
T cd01994 47 HELLELQAEAMGIPLIRIEIS----------------GEEEDEVEDLKELLRKLKEEGVDAVVFGAILSEYQRTRVERVC 110 (194)
T ss_pred HHHHHHHHHHcCCcEEEEeCC----------------CCchHHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHHHH
Confidence 345567788889998754321 1112233444444443321123333344444455677888888
Q ss_pred hhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh
Q 004042 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (777)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~ 233 (777)
++.|++....-+- .+-...++++.+.+-+++|.....
T Consensus 111 ~~~gl~~~~PLW~--------~~~~~ll~e~~~~g~~~~iv~v~~ 147 (194)
T cd01994 111 ERLGLEPLAPLWG--------RDQEELLREMIEAGFKAIIIKVAA 147 (194)
T ss_pred HHcCCEEEecccC--------CCHHHHHHHHHHcCCeEEEEEecc
Confidence 8999887654432 244668888888899988876654
No 395
>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=55.85 E-value=1.2e+02 Score=26.10 Aligned_cols=86 Identities=10% Similarity=0.061 Sum_probs=47.2
Q ss_pred HHHHhcCCcEEEEEEEeCc-cccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhH
Q 004042 157 EMVSYYGWNAVSVIFVDNE-YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL 235 (777)
Q Consensus 157 ~~l~~~~w~~vaii~~~~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~ 235 (777)
+-+...|.+.|.-+-.|.+ .++.....+++.+++.|+..... .+... ..+.+++....+.+......|.+.|.++..
T Consensus 21 ~~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~i-Pv~~~-~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~R 98 (110)
T PF04273_consen 21 AQLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHI-PVDGG-AITEEDVEAFADALESLPKPVLAHCRSGTR 98 (110)
T ss_dssp HHHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE-----TT-T--HHHHHHHHHHHHTTTTSEEEE-SCSHH
T ss_pred HHHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEe-ecCCC-CCCHHHHHHHHHHHHhCCCCEEEECCCChh
Confidence 3456799999988876643 34456667888999999987642 23222 134566666666666555567777777777
Q ss_pred HHHHHHHHH
Q 004042 236 GFQVFSVAK 244 (777)
Q Consensus 236 ~~~~l~~a~ 244 (777)
+..+...++
T Consensus 99 a~~l~~l~~ 107 (110)
T PF04273_consen 99 ASALWALAQ 107 (110)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 665554443
No 396
>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=55.55 E-value=62 Score=32.54 Aligned_cols=75 Identities=15% Similarity=0.082 Sum_probs=49.9
Q ss_pred EEEEEEe-----CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHH
Q 004042 167 VSVIFVD-----NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFS 241 (777)
Q Consensus 167 vaii~~~-----~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~ 241 (777)
|+++.++ +.|.....+.+++.+++.|.++.... .+.. .......++.+.+.++|.|++.....+. .++
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~-~~~~----~~~~~~~~~~l~~~~vdgiii~~~~~~~--~~~ 74 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKF-VSDE----DEEEFELPSFLEDGKVDGIILLGGISTE--YIK 74 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEe-CCCC----hHHHHHHHHHHHHCCCCEEEEeCCCChH--HHH
Confidence 5666654 67888888899999999998876543 2212 3334455666777789999986644332 366
Q ss_pred HHHHcCC
Q 004042 242 VAKYLGM 248 (777)
Q Consensus 242 ~a~~~gl 248 (777)
.+.+.+.
T Consensus 75 ~l~~~~i 81 (268)
T cd06277 75 EIKELGI 81 (268)
T ss_pred HHhhcCC
Confidence 7776664
No 397
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=55.44 E-value=1.7e+02 Score=30.20 Aligned_cols=70 Identities=11% Similarity=0.071 Sum_probs=41.4
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.+... ++++++.. .+-..+...|.+|++|+++.... .....+ ...+.+.....+++++
T Consensus 107 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~~~~~ 174 (309)
T PRK11013 107 SLLPGLCQPFLARYP-DVSLNIVP-------QESPLLEEWLSAQRHDLGLTETL---HTPAGT-ERTELLTLDEVCVLPA 174 (309)
T ss_pred hhHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCCCEEEEcCC---CCCCCc-eeeeecceeEEEEEcC
Confidence 345677788887762 33355543 34567889999999999885321 111112 2335555666666665
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 175 ~~ 176 (309)
T PRK11013 175 GH 176 (309)
T ss_pred CC
Confidence 44
No 398
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=55.27 E-value=89 Score=32.50 Aligned_cols=69 Identities=9% Similarity=0.047 Sum_probs=45.9
Q ss_pred eeeHHHHHHHHHHC-CCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEe
Q 004042 492 GFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (777)
Q Consensus 492 G~~~dl~~~l~~~l-~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~ 570 (777)
++..+++..+.++. +.+ +++.. ++...+++.|.+|++|+++.... .....+.+ .++....+.++++
T Consensus 125 ~~l~~~l~~f~~~~P~i~--l~i~~-------~~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~~-~~l~~~~~~lv~~ 191 (314)
T PRK09508 125 RLTSQIYNRIEQIAPNIH--VVFKS-------SLNQNIEHQLRYQETEFVISYEE---FDRPEFTS-VPLFKDELVLVAS 191 (314)
T ss_pred HHHHHHHHHHHHhCCCcE--EEEEe-------CcchhHHHHHhcCCccEEEecCC---CCccccce-eeeecCceEEEEc
Confidence 45678888888876 344 44433 34678899999999999986432 11222322 4677788888877
Q ss_pred ccC
Q 004042 571 FRK 573 (777)
Q Consensus 571 ~~~ 573 (777)
+..
T Consensus 192 ~~h 194 (314)
T PRK09508 192 KNH 194 (314)
T ss_pred CCC
Confidence 654
No 399
>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=55.21 E-value=92 Score=29.97 Aligned_cols=88 Identities=8% Similarity=-0.097 Sum_probs=55.8
Q ss_pred cEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh----hHHHHHH
Q 004042 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP----SLGFQVF 240 (777)
Q Consensus 165 ~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~----~~~~~~l 240 (777)
.+|.+....++.-.-+..-+...++..|+++..-. . +......++.+++.+||+|.+.+.. ..+..++
T Consensus 85 ~~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG---~-----~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i 156 (197)
T TIGR02370 85 GKVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLG---R-----DVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDIN 156 (197)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECC---C-----CCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHH
Confidence 35555554555555556677778888888876432 1 2334556666677788888886542 5677778
Q ss_pred HHHHHcCCCCCCeEEEEeCc
Q 004042 241 SVAKYLGMMGNGYVWIATDW 260 (777)
Q Consensus 241 ~~a~~~gl~~~~~~~i~~~~ 260 (777)
+++++.+....-.+|++...
T Consensus 157 ~~l~~~~~~~~v~i~vGG~~ 176 (197)
T TIGR02370 157 DKLKEEGYRDSVKFMVGGAP 176 (197)
T ss_pred HHHHHcCCCCCCEEEEEChh
Confidence 88888877544456666543
No 400
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=54.75 E-value=51 Score=33.11 Aligned_cols=78 Identities=6% Similarity=0.030 Sum_probs=50.4
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|+++.+ ++.|.....+.+++.+++.|..+.....- .. ........++.+...+.|.||+..........++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~-~~---~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 77 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPCD-SG---SPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLD 77 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeCC-CC---chHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHH
Confidence 566664 46788888899999999999887654322 11 1224555666677778898887643322345666776
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.++
T Consensus 78 ~~~i 81 (270)
T cd01545 78 EAGV 81 (270)
T ss_pred hcCC
Confidence 6664
No 401
>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=54.64 E-value=53 Score=33.14 Aligned_cols=80 Identities=8% Similarity=0.042 Sum_probs=53.0
Q ss_pred EEEEEEE--eCccccchHHHHHHHHhhc---ceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHH
Q 004042 166 AVSVIFV--DNEYGRNGVSALNDKLAER---RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQV 239 (777)
Q Consensus 166 ~vaii~~--~~~~g~~~~~~~~~~~~~~---g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~ 239 (777)
||+++.. ++.|.....+.+++.+++. |..+.... ++.. .+.......++++...++|.||+..... .....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i-~~~~--~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIV-TSAD--GDVAQQIADIRNLIAQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEE-ecCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHH
Confidence 4667663 4557777888899999888 87432222 1211 2355677888888888999999976543 34456
Q ss_pred HHHHHHcCC
Q 004042 240 FSVAKYLGM 248 (777)
Q Consensus 240 l~~a~~~gl 248 (777)
+..+++.|.
T Consensus 78 l~~~~~~~i 86 (272)
T cd06300 78 IEEACEAGI 86 (272)
T ss_pred HHHHHHCCC
Confidence 777777665
No 402
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=54.60 E-value=1.9e+02 Score=30.28 Aligned_cols=85 Identities=18% Similarity=0.081 Sum_probs=52.1
Q ss_pred CceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEee
Q 004042 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (777)
Q Consensus 464 ~~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 543 (777)
.++|+||+... + ...+-.+++..+.++.. ++++.+.. +....++..+.+|++|+++..
T Consensus 92 ~g~l~Ig~~~~--~------------~~~~l~~~l~~f~~~~P-~i~i~i~~-------~~~~~~~~~L~~g~iDl~i~~ 149 (324)
T PRK12681 92 KGSLYIATTHT--Q------------ARYALPPVIKGFIERYP-RVSLHMHQ-------GSPTQIAEAAAKGNADFAIAT 149 (324)
T ss_pred CCeEEEEechh--H------------HHHhhHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCCCEEEec
Confidence 35788888641 1 12345667777777763 33455543 457899999999999999853
Q ss_pred EEEeecccceeeecccccccceEEEEeccC
Q 004042 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (777)
Q Consensus 544 ~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~ 573 (777)
- .......+. ..|+......+++++..
T Consensus 150 ~--~~~~~~~l~-~~~l~~~~~~~v~~~~h 176 (324)
T PRK12681 150 E--ALHLYDDLI-MLPCYHWNRSVVVPPDH 176 (324)
T ss_pred C--cccCCCCeE-EEEeccceeEEEeCCCC
Confidence 1 111122233 35667777777776543
No 403
>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=54.25 E-value=51 Score=32.52 Aligned_cols=78 Identities=14% Similarity=0.172 Sum_probs=54.4
Q ss_pred EEEEEEEe---CccccchHHHHHHHHhh--cceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHH
Q 004042 166 AVSVIFVD---NEYGRNGVSALNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVF 240 (777)
Q Consensus 166 ~vaii~~~---~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l 240 (777)
+|++|.+. +.++....+.+++.+++ .++++..... . .+..+....++++...+++.|++.........+.
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 46777753 46777788888888888 7777654322 2 2245677788888888899999877665555467
Q ss_pred HHHHHcCC
Q 004042 241 SVAKYLGM 248 (777)
Q Consensus 241 ~~a~~~gl 248 (777)
..+.+.++
T Consensus 76 ~~~~~~~i 83 (269)
T cd01391 76 ELAAAAGI 83 (269)
T ss_pred HHHHHcCC
Confidence 77777665
No 404
>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=54.03 E-value=33 Score=36.98 Aligned_cols=78 Identities=9% Similarity=-0.005 Sum_probs=53.9
Q ss_pred cCCcEEEEEEEeCccc-cchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh--hHHHH
Q 004042 162 YGWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--SLGFQ 238 (777)
Q Consensus 162 ~~w~~vaii~~~~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~--~~~~~ 238 (777)
++.+|+.+|+....+- ....+.+.+.+++.|+++..-..+.++ .+.+.....++.+++.++|.||..+.+ -|+..
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 3458888887544332 345678888898889876543334434 457788899999999999999987665 35554
Q ss_pred HHH
Q 004042 239 VFS 241 (777)
Q Consensus 239 ~l~ 241 (777)
.+.
T Consensus 99 ~ia 101 (375)
T cd08179 99 AMW 101 (375)
T ss_pred HHH
Confidence 544
No 405
>cd08447 PBP2_LTTR_aromatics_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type regulator similar to CbnR which is involved in the regulation of chlorocatechol breakdown. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Ve
Probab=54.01 E-value=1.8e+02 Score=26.83 Aligned_cols=69 Identities=20% Similarity=0.205 Sum_probs=43.2
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+..+++..+.++.. ++++++.. +....+...+.+|++|+++... ......+ .+.++....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 80 (198)
T cd08447 13 SFLPRLLAAARAALP-DVDLVLRE-------MVTTDQIEALESGRIDLGLLRP---PFARPGL-ETRPLVREPLVAAVPA 80 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCceEEEecC---CCCCCCe-eEEEeecCceEEEecC
Confidence 455677888877763 33344433 4578899999999999998531 1112222 2356667777777655
Q ss_pred c
Q 004042 572 R 572 (777)
Q Consensus 572 ~ 572 (777)
.
T Consensus 81 ~ 81 (198)
T cd08447 81 G 81 (198)
T ss_pred C
Confidence 4
No 406
>TIGR03414 ABC_choline_bnd choline ABC transporter, periplasmic binding protein. Partial phylogenetic profiling (PubMed:16930487) vs. the genome property of glycine betaine biosynthesis from choline consistently reveals a member of this ABC transporter periplasmic binding protein as the best match, save for the betaine biosynthesis enzymes themselves. Genomes often carry several paralogs, one encoded together with the permease and ATP-binding components and another encoded next to a choline-sulfatase gene, suggesting that different members of this protein family interact with shared components and give some flexibility in substrate. Of two members from Sinorhizobium meliloti 1021, one designated ChoX has been shown experimentally to bind choline (though not various related compounds such as betaine) and to be required for about 60 % of choline uptake. Members of this protein have an invariant Cys residue near the N-terminus and likely are lipoproteins.
Probab=53.90 E-value=94 Score=32.06 Aligned_cols=40 Identities=15% Similarity=0.210 Sum_probs=28.8
Q ss_pred HHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEee
Q 004042 495 IDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (777)
Q Consensus 495 ~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 543 (777)
-.++..+-|.+|+++++.. ..-.-+...|.+|++|+.+..
T Consensus 24 ~~i~~~iLE~~Gy~Ve~~~---------~~~~~~~~al~~GdiD~~~e~ 63 (290)
T TIGR03414 24 TALASVLLEGLGYQPKVTL---------LSVPVTYAGLKDGDLDVFLGN 63 (290)
T ss_pred HHHHHHHHHHcCCcceeEE---------ccHHHHHHHHHcCCceEeccc
Confidence 3566666677898876542 235667888999999997754
No 407
>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=53.89 E-value=57 Score=32.76 Aligned_cols=77 Identities=9% Similarity=0.072 Sum_probs=52.9
Q ss_pred EEEEEEe--CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh-hHHHHHHHHH
Q 004042 167 VSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVA 243 (777)
Q Consensus 167 vaii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~-~~~~~~l~~a 243 (777)
|+++..+ +.|.....+.+++.+++.|..+..... . .+.......++++.+.++|.|++.... ......++++
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 4566543 667788889999999999988764321 1 124456677788888899999986543 3345567777
Q ss_pred HHcCC
Q 004042 244 KYLGM 248 (777)
Q Consensus 244 ~~~gl 248 (777)
++.|+
T Consensus 77 ~~~~i 81 (267)
T cd06322 77 KKAGI 81 (267)
T ss_pred HHCCC
Confidence 77665
No 408
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=53.73 E-value=72 Score=29.19 Aligned_cols=96 Identities=14% Similarity=0.043 Sum_probs=57.2
Q ss_pred cCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcce--EEEEeeecCCCCCCChhhHHHHHHHHhcC
Q 004042 145 TQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRC--RISYKSGIPPESGVNTGYVMDLLVKVALM 222 (777)
Q Consensus 145 ~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~--~v~~~~~~~~~~~~~~~d~~~~l~~l~~~ 222 (777)
.+.-..+++.+++.++..+..--.|+.|.-.-..+.++.+.+. .+. .+.....+.+. ....++...++++...
T Consensus 24 t~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~~---~~~~~~~~~~~~l~p~--~~~~~~~~~l~~~~~~ 98 (152)
T TIGR00249 24 TTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVGDC---LNLPSSAEVLEGLTPC--GDIGLVSDYLEALTNE 98 (152)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHH---cCCCcceEEccCcCCC--CCHHHHHHHHHHHHhc
Confidence 3445568888999888765533344444444333333333333 232 23333333333 3456677777777665
Q ss_pred CCeEEEEecChhHHHHHHHHHHH
Q 004042 223 ESRVIVLHVSPSLGFQVFSVAKY 245 (777)
Q Consensus 223 ~~~vIvl~~~~~~~~~~l~~a~~ 245 (777)
..+.|+++++.+....++.++-.
T Consensus 99 ~~~~vliVgH~P~i~~l~~~l~~ 121 (152)
T TIGR00249 99 GVASVLLVSHLPLVGYLVAELCP 121 (152)
T ss_pred CCCEEEEEeCCCCHHHHHHHHhC
Confidence 56788888999988888888753
No 409
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=53.54 E-value=3.1e+02 Score=29.37 Aligned_cols=142 Identities=8% Similarity=0.004 Sum_probs=83.0
Q ss_pred EEcCCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEE-eCcccc
Q 004042 100 IIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFV-DNEYGR 178 (777)
Q Consensus 100 viGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~-~~~~g~ 178 (777)
+++|.......++- .....+|=+|.|+. .-++|-.| .....+..++.+...-++|.++|. ......
T Consensus 195 lm~p~~~~v~~~l~-~~~~l~i~~IaP~H----------G~i~~~~~--~~i~~~Y~~W~~~~~~~~V~l~Y~smyg~T~ 261 (388)
T COG0426 195 LMAPNARLVLWALK-KIKLLKIEMIAPSH----------GPIWRGNP--KEIVEAYRDWAEGQPKGKVDLIYDSMYGNTE 261 (388)
T ss_pred hhcccHHHHHHHHh-hhcccCccEEEcCC----------CceeeCCH--HHHHHHHHHHHccCCcceEEEEEecccCCHH
Confidence 45554443333333 33336677776533 23455432 334566666666665558999994 344555
Q ss_pred chHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh------hHHHHHHHHHHHcCCCCCC
Q 004042 179 NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP------SLGFQVFSVAKYLGMMGNG 252 (777)
Q Consensus 179 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~------~~~~~~l~~a~~~gl~~~~ 252 (777)
..++.+.+.+.+.|+.|.... . . ..+.+.+++.+.+ ++.+++..+. +.+..++-....+......
T Consensus 262 ~ma~aiaegl~~~gv~v~~~~-~--~----~~~~~eI~~~i~~--a~~~vvGsPT~~~~~~p~i~~~l~~v~~~~~~~k~ 332 (388)
T COG0426 262 KMAQAIAEGLMKEGVDVEVIN-L--E----DADPSEIVEEILD--AKGLVVGSPTINGGAHPPIQTALGYVLALAPKNKL 332 (388)
T ss_pred HHHHHHHHHhhhcCCceEEEE-c--c----cCCHHHHHHHHhh--cceEEEecCcccCCCCchHHHHHHHHHhccCcCce
Confidence 667889999999999887432 2 2 4477777888764 4556665543 3455566555555544343
Q ss_pred eEEEEeCcchh
Q 004042 253 YVWIATDWLAY 263 (777)
Q Consensus 253 ~~~i~~~~~~~ 263 (777)
-.-+++-+|..
T Consensus 333 ~~vfgS~GW~g 343 (388)
T COG0426 333 AGVFGSYGWSG 343 (388)
T ss_pred EEEEeccCCCC
Confidence 44555555543
No 410
>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=53.41 E-value=31 Score=34.55 Aligned_cols=20 Identities=10% Similarity=-0.203 Sum_probs=15.0
Q ss_pred hHHHHHHHHhcCCCeEEEEe
Q 004042 211 YVMDLLVKVALMESRVIVLH 230 (777)
Q Consensus 211 d~~~~l~~l~~~~~~vIvl~ 230 (777)
+....++.+...+.|+.+..
T Consensus 182 ~~~~~~~al~~G~~Da~~~~ 201 (254)
T TIGR01098 182 SHDASALAVANGKVDAATNN 201 (254)
T ss_pred chHHHHHHHHcCCCCeEEec
Confidence 34567788888889988864
No 411
>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=53.02 E-value=47 Score=33.81 Aligned_cols=82 Identities=10% Similarity=0.146 Sum_probs=51.8
Q ss_pred EEEEEEEe---CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHH
Q 004042 166 AVSVIFVD---NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSV 242 (777)
Q Consensus 166 ~vaii~~~---~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~ 242 (777)
+|++|..+ ++|.....+.+.+.+++.|..+......... ..+...-...++.+...++|.||+..........++.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~ 79 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRP-GIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIER 79 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCc-ccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHH
Confidence 37778754 4577777888999999999877643221111 0123444567778888899999886543333445666
Q ss_pred HHHcCC
Q 004042 243 AKYLGM 248 (777)
Q Consensus 243 a~~~gl 248 (777)
+.+.+.
T Consensus 80 l~~~~~ 85 (280)
T cd06303 80 VLASGK 85 (280)
T ss_pred HHhCCC
Confidence 666553
No 412
>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=52.78 E-value=44 Score=34.10 Aligned_cols=77 Identities=13% Similarity=0.132 Sum_probs=53.6
Q ss_pred EEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh-hHHHHHHHH
Q 004042 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSV 242 (777)
Q Consensus 166 ~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~-~~~~~~l~~ 242 (777)
+|++|.. .++|.....+.+.+.+++.|..+...... + .......++++...++|.||+.... ......+++
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~--~----~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~ 74 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKIDVP--D----GEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAK 74 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEccCC--C----HHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHH
Confidence 3666764 35677788889999999999887643211 2 3445567778888889999886543 345667888
Q ss_pred HHHcCC
Q 004042 243 AKYLGM 248 (777)
Q Consensus 243 a~~~gl 248 (777)
+.+.|+
T Consensus 75 ~~~~~i 80 (289)
T cd01540 75 AKAYNM 80 (289)
T ss_pred HHhCCC
Confidence 888775
No 413
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=52.65 E-value=2.4e+02 Score=29.31 Aligned_cols=84 Identities=14% Similarity=0.191 Sum_probs=52.4
Q ss_pred ceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeE
Q 004042 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (777)
Q Consensus 465 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~ 544 (777)
++++||+... + ...+-.+++..+.++.. .+++++.. +....+++.|.+|++|+++...
T Consensus 93 g~lrIg~~~~--~------------~~~~l~~~l~~f~~~~P-~i~l~l~~-------~~~~~~~~~L~~g~~Dl~i~~~ 150 (316)
T PRK12679 93 GVLTIATTHT--Q------------ARYSLPEVIKAFRELFP-EVRLELIQ-------GTPQEIATLLQNGEADIGIASE 150 (316)
T ss_pred ceEEEEechH--h------------hhcchHHHHHHHHHHCC-CeEEEEec-------CCHHHHHHHHHcCCCCEEEecc
Confidence 5688888641 1 12455677888877753 33344433 3467899999999999987532
Q ss_pred EEeecccceeeecccccccceEEEEeccC
Q 004042 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (777)
Q Consensus 545 ~~t~~r~~~~dfs~p~~~~~~~~~v~~~~ 573 (777)
.. .....+. +.++.....++++++..
T Consensus 151 ~~--~~~~~l~-~~~l~~~~~~~v~~~~h 176 (316)
T PRK12679 151 RL--SNDPQLV-AFPWFRWHHSLLVPHDH 176 (316)
T ss_pred cC--CCCCCce-EEEccCCcEEEEecCCC
Confidence 11 1122233 35778888888886655
No 414
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=52.57 E-value=2.7e+02 Score=28.30 Aligned_cols=69 Identities=9% Similarity=0.045 Sum_probs=43.3
Q ss_pred eeeHHHHHHHHHHC-CCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEe
Q 004042 492 GFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (777)
Q Consensus 492 G~~~dl~~~l~~~l-~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~ 570 (777)
.+..+++..+.++. +.+ +++.. +....++..+.+|++|+++... +.....+ ...|+....+.++++
T Consensus 102 ~~~~~~l~~~~~~~P~i~--i~v~~-------~~~~~~~~~l~~g~~Di~i~~~---~~~~~~~-~~~~l~~~~~~lv~~ 168 (290)
T PRK10837 102 YILPAMIARYRRDYPQLP--LELSV-------GNSQDVINAVLDFRVDIGLIEG---PCHSPEL-ISEPWLEDELVVFAA 168 (290)
T ss_pred hhhHHHHHHHHHHCCCce--EEEEE-------CCHHHHHHHHHhCCceEEEecC---CCCCCce-eEEEeecceEEEEEc
Confidence 34456777877776 344 44433 3467899999999999998532 1112222 235666777777776
Q ss_pred ccC
Q 004042 571 FRK 573 (777)
Q Consensus 571 ~~~ 573 (777)
+.-
T Consensus 169 ~~h 171 (290)
T PRK10837 169 PDS 171 (290)
T ss_pred CCC
Confidence 554
No 415
>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=52.50 E-value=37 Score=35.81 Aligned_cols=79 Identities=9% Similarity=0.004 Sum_probs=51.7
Q ss_pred HhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh--hHHH
Q 004042 160 SYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--SLGF 237 (777)
Q Consensus 160 ~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~--~~~~ 237 (777)
..++.+++.+|+..........+.+.+.+++. +.+..-..+.++ .+.+.....++.+++.++|.||..+.+ -|+.
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 44556899988854443334677788888776 554332233333 346778888899999999999977655 3455
Q ss_pred HHHH
Q 004042 238 QVFS 241 (777)
Q Consensus 238 ~~l~ 241 (777)
.++.
T Consensus 95 Ka~a 98 (332)
T cd08180 95 KAII 98 (332)
T ss_pred HHHH
Confidence 4443
No 416
>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=52.36 E-value=1.3e+02 Score=25.89 Aligned_cols=66 Identities=12% Similarity=-0.011 Sum_probs=39.7
Q ss_pred CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh----hHHHHHHHHHHHcC
Q 004042 174 NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP----SLGFQVFSVAKYLG 247 (777)
Q Consensus 174 ~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~----~~~~~~l~~a~~~g 247 (777)
.+.-.-...-+...++..|+++..-. . .......++.+.+.++++|.+.+.. ..+..++++.++.+
T Consensus 9 ~e~H~lG~~~~~~~l~~~G~~V~~lg---~-----~~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~ 78 (119)
T cd02067 9 GDGHDIGKNIVARALRDAGFEVIDLG---V-----DVPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAG 78 (119)
T ss_pred CchhhHHHHHHHHHHHHCCCEEEECC---C-----CCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence 33334445667777888888875322 1 1223455566666788888887652 34566667777654
No 417
>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=52.20 E-value=1.2e+02 Score=29.14 Aligned_cols=65 Identities=11% Similarity=0.064 Sum_probs=43.5
Q ss_pred CcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh
Q 004042 164 WNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (777)
Q Consensus 164 w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~ 233 (777)
-++|+++.. |.|-....++++..++..|+.+....... + ........+++.++.+.|+|++...+
T Consensus 29 ~~~v~lis~-D~~R~ga~eQL~~~a~~l~vp~~~~~~~~-~---~~~~~~~~l~~~~~~~~D~vlIDT~G 93 (196)
T PF00448_consen 29 GKKVALISA-DTYRIGAVEQLKTYAEILGVPFYVARTES-D---PAEIAREALEKFRKKGYDLVLIDTAG 93 (196)
T ss_dssp T--EEEEEE-STSSTHHHHHHHHHHHHHTEEEEESSTTS-C---HHHHHHHHHHHHHHTTSSEEEEEE-S
T ss_pred cccceeecC-CCCCccHHHHHHHHHHHhccccchhhcch-h---hHHHHHHHHHHHhhcCCCEEEEecCC
Confidence 678998874 44667788999999999998876432211 1 12335567788887889999997654
No 418
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=52.18 E-value=1.8e+02 Score=26.11 Aligned_cols=86 Identities=8% Similarity=0.010 Sum_probs=54.1
Q ss_pred cEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh----hHHHHHH
Q 004042 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP----SLGFQVF 240 (777)
Q Consensus 165 ~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~----~~~~~~l 240 (777)
.+|.+.....+.-.-+..-+...++..|+++.+-.. .....+.++.+.+.++++|.+.+.. ..+..++
T Consensus 4 ~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~--------~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~ 75 (137)
T PRK02261 4 KTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGV--------MTSQEEFIDAAIETDADAILVSSLYGHGEIDCRGLR 75 (137)
T ss_pred CEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCC--------CCCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHH
Confidence 344444434444444566777888999999875322 2233456666677789999886533 5677888
Q ss_pred HHHHHcCCCCCCeEEEEeC
Q 004042 241 SVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 241 ~~a~~~gl~~~~~~~i~~~ 259 (777)
+++++.+... -.+|++..
T Consensus 76 ~~L~~~~~~~-~~i~vGG~ 93 (137)
T PRK02261 76 EKCIEAGLGD-ILLYVGGN 93 (137)
T ss_pred HHHHhcCCCC-CeEEEECC
Confidence 8888887643 34555543
No 419
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=52.13 E-value=57 Score=38.01 Aligned_cols=66 Identities=17% Similarity=0.140 Sum_probs=45.9
Q ss_pred CCcEEEEEEEeCcc---------cc---chHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEe
Q 004042 163 GWNAVSVIFVDNEY---------GR---NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (777)
Q Consensus 163 ~w~~vaii~~~~~~---------g~---~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~ 230 (777)
...+|++|...++- |+ .....+...+++.|.++.....++.+ ...+...+++..+ ++|+||+.
T Consensus 185 ~~prv~vi~tG~El~~~~~~~~~g~i~dsn~~~l~~~l~~~g~~~~~~~~v~Dd----~~~i~~~l~~~~~-~~D~iItt 259 (633)
T PRK14498 185 KKPRVGIISTGDELVEPGEPLKPGKIYDVNSYTLAAAVEEAGGEPVRYGIVPDD----EEELEAALRKALK-ECDLVLLS 259 (633)
T ss_pred cCcEEEEEecCccccCCCCCCCCCEEEEChHHHHHHHHHHCCCEEEEEEEeCCC----HHHHHHHHHHHHh-cCCEEEEC
Confidence 45688888765431 22 23456788899999998776666533 6778888888764 79999986
Q ss_pred cCh
Q 004042 231 VSP 233 (777)
Q Consensus 231 ~~~ 233 (777)
+..
T Consensus 260 GG~ 262 (633)
T PRK14498 260 GGT 262 (633)
T ss_pred CCC
Confidence 654
No 420
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=52.10 E-value=66 Score=32.19 Aligned_cols=76 Identities=13% Similarity=0.064 Sum_probs=53.4
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|+++.+ +++|.....+.+.+.+++.|+.+..... . .+.....+.++.+...+.|.||+....... ..++++.
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 4667778888999999999988775422 1 224556677888888899999987544333 3478888
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.|.
T Consensus 76 ~~~i 79 (265)
T cd06299 76 KRGI 79 (265)
T ss_pred hCCC
Confidence 7775
No 421
>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=51.73 E-value=31 Score=31.54 Aligned_cols=82 Identities=15% Similarity=0.111 Sum_probs=61.4
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEe
Q 004042 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (777)
Q Consensus 151 ~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~ 230 (777)
+++.+..++++++.++|.++- |.....+..+.+-+.+.-.|+++... +.++....+++-...+.++++++
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~---------sv~~a~~~l~~~~~~~~~v~ii~ 82 (151)
T PF03830_consen 13 HGQVATAWVKKLNANRIIVVD-DEVANDPFQKMILKMAAPAGVKLSIF---------SVEEAIEKLKKPEYSKKRVLIIV 82 (151)
T ss_dssp CTTHHHHHHHHHTTSEEEEE--HHHHHSHHHHHHHHHTSHTTSEEEEE----------HHHHHHHHCGGGGTTEEEEEEE
T ss_pred eeeeeEEEhhhcccCEEEEEC-HHHhcCHHHHHHHHHhhcCCCceEEE---------EHHHHHHHHHhcccCCceEEEEE
Confidence 467788899999999999874 55555556777777776778887642 25567777777777788999999
Q ss_pred cChhHHHHHHHH
Q 004042 231 VSPSLGFQVFSV 242 (777)
Q Consensus 231 ~~~~~~~~~l~~ 242 (777)
-++.++..++++
T Consensus 83 k~~~d~~~l~~~ 94 (151)
T PF03830_consen 83 KSPEDALRLVEA 94 (151)
T ss_dssp SSHHHHHHHHHT
T ss_pred CCHHHHHHHHhc
Confidence 999999877754
No 422
>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=51.46 E-value=1.8e+02 Score=26.10 Aligned_cols=68 Identities=16% Similarity=-0.036 Sum_probs=46.6
Q ss_pred chHHHHHHHHhhcceEEEEeeecC--CCCCCChhh---HHHHHHHHhcCCCeEEEEecChhHHHHHHHHHHHcCC
Q 004042 179 NGVSALNDKLAERRCRISYKSGIP--PESGVNTGY---VMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (777)
Q Consensus 179 ~~~~~~~~~~~~~g~~v~~~~~~~--~~~~~~~~d---~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~~~gl 248 (777)
.....+.+.+++.|+++....... .. .+..| ..+.++.+.....+.|++.....+....++++++.|.
T Consensus 52 ~~~~~~~~~L~~~g~~~~~~~~~~~~~~--~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 52 ERQRGFLDALRRLGFEPIQKPLRTRGSG--KKGVDVALAIDALELAYKRRIDTIVLVSGDSDFVPLVERLRELGK 124 (149)
T ss_pred hhHHHHHHHHHHCCcEEEEEcceecCCc--ccCccHHHHHHHHHHhhhcCCCEEEEEECCccHHHHHHHHHHcCC
Confidence 356778889999999887554321 11 11233 3344555555578899998888889999999999874
No 423
>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=51.42 E-value=1.9e+02 Score=26.75 Aligned_cols=41 Identities=15% Similarity=0.264 Sum_probs=31.0
Q ss_pred cCcEEEEcCCCh--hHHHHHHHhhccCCceEEecccCCCCCCC
Q 004042 95 TDIVAIIGPQCS--TVAHIVSYVSNELQVPLLSFGVTDPTLSS 135 (777)
Q Consensus 95 ~~v~aviGp~~s--~~~~~va~~~~~~~iP~Is~~a~~~~l~~ 135 (777)
+++..++|+... .....+..+++..++|+++.......+.+
T Consensus 28 KRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~ 70 (162)
T TIGR00315 28 KRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIE 70 (162)
T ss_pred CCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCcccccccc
Confidence 389999998664 77888999999999999985443333443
No 424
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=51.28 E-value=2.9e+02 Score=28.53 Aligned_cols=121 Identities=12% Similarity=0.028 Sum_probs=72.8
Q ss_pred EEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccc
Q 004042 98 VAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYG 177 (777)
Q Consensus 98 ~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g 177 (777)
++|++...-.....+.++++..|.|+++ .+++ .+.+.+.+-+..++-..|.||...-.
T Consensus 30 ~VIlvsDn~aD~~lA~~iaellNA~Vlt-tpwg-------------------~ynes~~~eI~~lnpd~VLIIGGp~A-- 87 (337)
T COG2247 30 VVILVSDNEADLLLALPIAELLNAPVLT-TPWG-------------------IYNESVLDEIIELNPDLVLIIGGPIA-- 87 (337)
T ss_pred EEEEecchHHHHHHhhHHHHHhCCeeEe-cCcc-------------------cccHHHHHHHHhhCCceEEEECCCCc--
Confidence 4444444445555667888888889884 2222 12355666677889999999974333
Q ss_pred cchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhc------CCCeEEEEecChhHHHHHHHHHHHcCCC
Q 004042 178 RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL------MESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (777)
Q Consensus 178 ~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~------~~~~vIvl~~~~~~~~~~l~~a~~~gl~ 249 (777)
......+.++..|++|.....-++ .+........+++ .+..+|+++++.-.. .++..+++ |..
T Consensus 88 --Vs~~yE~~Lks~GitV~RigG~nR-----~ETa~~v~~~~~~~yp~af~n~kvvvv~GwDy~~-~~~e~~k~-~~~ 156 (337)
T COG2247 88 --VSPNYENALKSLGITVKRIGGANR-----YETAEKVAKFFREDYPNAFKNVKVVVVYGWDYAD-ALMELMKE-GIV 156 (337)
T ss_pred --CChhHHHHHHhCCcEEEEecCcch-----HHHHHHHHHHHHhhchhhhcCeEEEEEeccccHH-HHHHHHhc-Ccc
Confidence 345567778889998875443322 2333444555542 235677776655433 66766666 653
No 425
>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=51.26 E-value=61 Score=32.75 Aligned_cols=80 Identities=9% Similarity=0.051 Sum_probs=52.4
Q ss_pred EEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh-hHHHHHHHH
Q 004042 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSV 242 (777)
Q Consensus 166 ~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~-~~~~~~l~~ 242 (777)
+|++|.. ++.|.....+.+.+.+++.|..+.....-.. .+...-...++++...+.+.||+.... ......++.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~ 77 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAAPSE---GDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVER 77 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEccCCC---CCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHH
Confidence 4667664 4567777888999999999988764322111 123445567778887889988876433 333456777
Q ss_pred HHHcCC
Q 004042 243 AKYLGM 248 (777)
Q Consensus 243 a~~~gl 248 (777)
+.+.+.
T Consensus 78 ~~~~~i 83 (275)
T cd06320 78 AKKKGI 83 (275)
T ss_pred HHHCCC
Confidence 777665
No 426
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=51.00 E-value=86 Score=32.73 Aligned_cols=80 Identities=9% Similarity=0.051 Sum_probs=52.5
Q ss_pred CcEEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHH
Q 004042 164 WNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFS 241 (777)
Q Consensus 164 w~~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~ 241 (777)
-+.|+++.. ++.|.....+.+.+.+++.|..+...... .+...-...++.+...+.|.||+..........++
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 135 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACSD-----DQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQ 135 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHH
Confidence 457888875 35677777888999999999887653221 12334456677777788999988654322234566
Q ss_pred HHHHcCC
Q 004042 242 VAKYLGM 248 (777)
Q Consensus 242 ~a~~~gl 248 (777)
++.+.++
T Consensus 136 ~l~~~~i 142 (328)
T PRK11303 136 RLQNDGL 142 (328)
T ss_pred HHHhcCC
Confidence 6666664
No 427
>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=50.83 E-value=1.3e+02 Score=25.92 Aligned_cols=49 Identities=14% Similarity=0.066 Sum_probs=27.9
Q ss_pred ccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec
Q 004042 175 EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (777)
Q Consensus 175 ~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~ 231 (777)
.+-.-+...+...+++.|.++..... . .+.....+.+++.++|+|.+.+
T Consensus 11 ~~~~lGl~~la~~l~~~G~~v~~~d~-~-------~~~~~l~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 11 EVHPLGLLYLAAYLRKAGHEVDILDA-N-------VPPEELVEALRAERPDVVGISV 59 (121)
T ss_dssp SSTSHHHHHHHHHHHHTTBEEEEEES-S-------B-HHHHHHHHHHTTCSEEEEEE
T ss_pred cchhHHHHHHHHHHHHCCCeEEEECC-C-------CCHHHHHHHHhcCCCcEEEEEc
Confidence 33344566677777777777653321 1 1224555566666777777766
No 428
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=50.77 E-value=3.4e+02 Score=28.95 Aligned_cols=113 Identities=12% Similarity=0.105 Sum_probs=64.8
Q ss_pred cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHHHHhhccCCce
Q 004042 43 TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVP 122 (777)
Q Consensus 43 ~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~va~~~~~~~iP 122 (777)
..|.....+.+++ +.+ .+.+++.|.-....-+.....++-+.. .. .-|..-.....+.+.+.+.+||
T Consensus 7 f~gD~~~a~~~l~-----~~g------~~d~l~~d~LaE~tma~~~~~~~~~p~-~g-Y~~~~~~~L~~~L~~~~~~gIk 73 (362)
T PF07287_consen 7 FWGDRPDAAVRLA-----RGG------DVDYLVGDYLAERTMAILARAKRKDPT-KG-YAPDFVRDLRPLLPAAAEKGIK 73 (362)
T ss_pred cccCcHHHHHHHH-----hcC------CCCEEEEecHHHHHHHHHHHHHhhCCC-CC-chHHHHHHHHHHHHHHHhCCCC
Confidence 3455566666655 222 357888887765555554433332221 00 1112223445666778889999
Q ss_pred EEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCc-EEEEEEEeCccccchHHHHHHHHh
Q 004042 123 LLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWN-AVSVIFVDNEYGRNGVSALNDKLA 189 (777)
Q Consensus 123 ~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~-~vaii~~~~~~g~~~~~~~~~~~~ 189 (777)
+|+-+... +....++.+.+++++.|.+ ||++|+.|+. ...+.+.++
T Consensus 74 vI~NaGg~----------------np~~~a~~v~eia~e~Gl~lkvA~V~gDd~-----~~~v~~~~~ 120 (362)
T PF07287_consen 74 VITNAGGL----------------NPAGCADIVREIARELGLSLKVAVVYGDDL-----KDEVKELLA 120 (362)
T ss_pred EEEeCCCC----------------CHHHHHHHHHHHHHhcCCCeeEEEEECccc-----hHhHHHHHh
Confidence 99732211 1233678888888887775 8999987775 444544443
No 429
>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=50.71 E-value=57 Score=33.09 Aligned_cols=78 Identities=6% Similarity=-0.018 Sum_probs=53.0
Q ss_pred EEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHHHHH
Q 004042 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSV 242 (777)
Q Consensus 166 ~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~l~~ 242 (777)
+|+++.. .+.|.......+.+.+++.|.++..... . .+...-...++.+...++|.||+..... .....++.
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~--~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~ 75 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKALGYELISTDA---Q--GDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAA 75 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEcC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHH
Confidence 3566654 4667778888999999999998764322 1 1244455678888888999999865433 23456777
Q ss_pred HHHcCC
Q 004042 243 AKYLGM 248 (777)
Q Consensus 243 a~~~gl 248 (777)
+.+.|+
T Consensus 76 ~~~~~i 81 (282)
T cd06318 76 AKAAGV 81 (282)
T ss_pred HHHCCC
Confidence 777665
No 430
>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=50.67 E-value=68 Score=32.28 Aligned_cols=77 Identities=9% Similarity=0.097 Sum_probs=52.2
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|++|.+ ++.|.....+.+.+.+++.|..+...... .+...-...++.+...+.+.||+.........+++.++
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 567764 46677788889999999999887654321 12445666778888888898888654333345666766
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.+.
T Consensus 77 ~~~i 80 (269)
T cd06281 77 SLDL 80 (269)
T ss_pred hCCC
Confidence 6554
No 431
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=50.26 E-value=89 Score=32.88 Aligned_cols=80 Identities=9% Similarity=0.059 Sum_probs=55.1
Q ss_pred CcEEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHH
Q 004042 164 WNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFS 241 (777)
Q Consensus 164 w~~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~ 241 (777)
-+.|+++.. +++|.......+.+.+++.|..+..... . .+.......++.+.+.+.|.||+..........++
T Consensus 64 ~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 138 (342)
T PRK10014 64 SGVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQG---G--KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLRE 138 (342)
T ss_pred CCEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHH
Confidence 357888885 3667778888899999999987653221 1 12445567788888888999998754433345667
Q ss_pred HHHHcCC
Q 004042 242 VAKYLGM 248 (777)
Q Consensus 242 ~a~~~gl 248 (777)
.+.+.++
T Consensus 139 ~l~~~~i 145 (342)
T PRK10014 139 MAEEKGI 145 (342)
T ss_pred HHhhcCC
Confidence 7776664
No 432
>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=49.82 E-value=65 Score=33.22 Aligned_cols=77 Identities=9% Similarity=0.089 Sum_probs=50.0
Q ss_pred EEEEE--eCccccchHHHHHHHHhhcc-eEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh-hHHHHHHHHH
Q 004042 168 SVIFV--DNEYGRNGVSALNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVA 243 (777)
Q Consensus 168 aii~~--~~~~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~-~~~~~~l~~a 243 (777)
++|.. +++|.....+.+++.+++.| ..+....... .+.......++.+.+.++|.||+.... ......++++
T Consensus 2 gvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~i~~~~~~----~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~ 77 (302)
T TIGR02637 2 GLVVKSLGNPFFEAANKGAEEAAKELGSVYIIYTGPTG----TTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKA 77 (302)
T ss_pred EEEeccCCCHHHHHHHHHHHHHHHHhCCeeEEEECCCC----CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHH
Confidence 44443 46677777888999999998 4443221111 124555677888888899998886543 3445677888
Q ss_pred HHcCC
Q 004042 244 KYLGM 248 (777)
Q Consensus 244 ~~~gl 248 (777)
.+.|+
T Consensus 78 ~~~gi 82 (302)
T TIGR02637 78 MKRGI 82 (302)
T ss_pred HHCCC
Confidence 87775
No 433
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=49.79 E-value=1.4e+02 Score=27.98 Aligned_cols=115 Identities=14% Similarity=0.184 Sum_probs=63.2
Q ss_pred CcEEEEcCCChh---HHHHHHHhhccCCceEEecccCCCCCCCCC-CCceEEecCCchHHHHHHHHHHHhcCCc------
Q 004042 96 DIVAIIGPQCST---VAHIVSYVSNELQVPLLSFGVTDPTLSSLQ-YPFFVRTTQSDSYQMTAVAEMVSYYGWN------ 165 (777)
Q Consensus 96 ~v~aviGp~~s~---~~~~va~~~~~~~iP~Is~~a~~~~l~~~~-~~~~~r~~p~~~~~~~a~~~~l~~~~w~------ 165 (777)
+...++|..... ....+..+++..++|+++.......+.++. .+. ......+..++..-+|.
T Consensus 36 rPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~kgv~~~--------~~~lg~lg~~~~~p~~e~~~g~~ 107 (171)
T PRK00945 36 RPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLIDKGVDAK--------YINLHELTNYLKDPNWKGLDGNG 107 (171)
T ss_pred CcEEEECcCccccchHHHHHHHHHHHHCCCEEEccccccccccCCccCC--------cccHHHHHhhccCchhhhhcCCC
Confidence 889999987644 667789999999999998655455555421 121 11123444445444443
Q ss_pred ---EEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCC-----CCChhhHHHHHHHHh
Q 004042 166 ---AVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-----GVNTGYVMDLLVKVA 220 (777)
Q Consensus 166 ---~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~-----~~~~~d~~~~l~~l~ 220 (777)
-|.++-.+..+.......++....-+ .|.....|.++- ..+.+++.+.|+++.
T Consensus 108 ~~DlvlfvG~~~~~~~~~l~~lk~f~~~~--~~~~~~~y~~~a~~s~~~~~~~~~~~~l~~li 168 (171)
T PRK00945 108 NYDLVIFIGVTYYYASQGLSALKHFSPLK--TITIDRYYHPNADMSFPNLSKEEYLEYLDELI 168 (171)
T ss_pred CcCEEEEecCCchhHHHHHHHHhhcCCce--EEEecCCcCCCCceecCCCCHHHHHHHHHHHH
Confidence 34555566666555555555433311 222223332221 124556666666654
No 434
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=49.20 E-value=75 Score=33.67 Aligned_cols=81 Identities=6% Similarity=-0.075 Sum_probs=54.5
Q ss_pred CcEEEEEEEe--CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHHH
Q 004042 164 WNAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVF 240 (777)
Q Consensus 164 w~~vaii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~l 240 (777)
-++|++|..+ +.|.....+.+++.+++.|..+.....-.. .+.......++.+.+.++|.||+..... .....+
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~~---~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l 122 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGGY---YNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL 122 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCCC---CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH
Confidence 3688888854 567777788999999999988765432111 1234455678888888999999876443 333455
Q ss_pred HHHHHcCC
Q 004042 241 SVAKYLGM 248 (777)
Q Consensus 241 ~~a~~~gl 248 (777)
++++.|+
T Consensus 123 -~~~~~gi 129 (343)
T PRK10936 123 -ELQAANI 129 (343)
T ss_pred -HHHHCCC
Confidence 6676665
No 435
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=48.92 E-value=3e+02 Score=28.02 Aligned_cols=70 Identities=13% Similarity=0.066 Sum_probs=43.6
Q ss_pred eHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEeccC
Q 004042 494 CIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (777)
Q Consensus 494 ~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~ 573 (777)
..+++..+.++.. ++++.+.. .+-+.++..+.+|++|+++.... .......+.+ .|+....+.+++++..
T Consensus 112 l~~~l~~f~~~~p-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~-~~~~~~~l~~-~~l~~~~~~~v~~~~~ 181 (294)
T PRK09986 112 LRPAMRHFLKENP-NVEWLLRE-------LSPSMQMAALERRELDAGIWRMA-DLEPNPGFTS-RRLHESAFAVAVPEEH 181 (294)
T ss_pred HHHHHHHHHHhCC-CeEEEEEe-------CCHHHHHHHHHcCCCCEEEecCC-ccCCCCCeEE-EEeecccEEEEEcCCC
Confidence 3566777777754 33355433 34577899999999999874211 0122233433 6777788888887665
No 436
>PLN02245 ATP phosphoribosyl transferase
Probab=48.76 E-value=41 Score=35.93 Aligned_cols=26 Identities=12% Similarity=0.197 Sum_probs=21.6
Q ss_pred hhHHHHHHhcCceeEEEeeEEEeecc
Q 004042 525 YTQLVDSITTGVFDAVVGDITIVTNR 550 (777)
Q Consensus 525 ~~~~~~~l~~g~~Di~~~~~~~t~~r 550 (777)
-.++-..|..|.+|+++.+.-+-.|.
T Consensus 120 ~~DIp~yV~~G~~DlGItG~D~l~E~ 145 (403)
T PLN02245 120 PKDIVRKLLSGDLDLGIVGYDMLREY 145 (403)
T ss_pred HHHHHHHHhCCCccEEEeeeeeeecc
Confidence 35678999999999999988777663
No 437
>PF01007 IRK: Inward rectifier potassium channel; InterPro: IPR013521 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Inwardly-rectifying potassium channels (Kir) are the principal class of two-TM domain potassium channels. They are characterised by the property of inward-rectification, which is described as the ability to allow large inward currents and smaller outward currents. Inwardly rectifying potassium channels (Kir) are responsible for regulating diverse processes including: cellular excitability, vascular tone, heart rate, renal salt flow, and insulin release []. To date, around twenty members of this superfamily have been cloned, which can be grouped into six families by sequence similarity, and these are designated Kir1.x-6.x [, ]. Cloned Kir channel cDNAs encode proteins of between ~370-500 residues, both N- and C-termini are thought to be cytoplasmic, and the N terminus lacks a signal sequence. Kir channel alpha subunits possess only 2TM domains linked with a P-domain. Thus, Kir channels share similarity with the fifth and sixth domains, and P-domain of the other families. It is thought that four Kir subunits assemble to form a tetrameric channel complex, which may be hetero- or homomeric [].; PDB: 3AT9_A 3AUW_D 3SYA_A 3ATE_A 3SYQ_A 3SYO_A 3ATB_A 3SYC_A 3AT8_A 3ATA_A ....
Probab=48.37 E-value=60 Score=34.20 Aligned_cols=58 Identities=12% Similarity=0.104 Sum_probs=49.1
Q ss_pred cchhhHHHHHhhhhhccCcC----cccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccc
Q 004042 621 RQVITILWFSLSTLFFAHKE----NTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQL 678 (777)
Q Consensus 621 ~~~~~~~~~~~~~~~~~~~~----~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~ 678 (777)
.++..++++++.+++..|.+ .|.+..+=+++.+=.+.++++.+.-+|-+.+.++.|+.
T Consensus 83 ~~f~~aF~FSveT~tTIGYG~~~~~~~c~~a~~l~~~q~~~g~l~~a~~~Glvfar~srP~~ 144 (336)
T PF01007_consen 83 NSFTSAFLFSVETQTTIGYGSRYPTPECPYAIFLVTIQSLVGLLLDAFMTGLVFARFSRPKK 144 (336)
T ss_dssp TTHHHHHHHHHHHHTT---SSSEB-CSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCCC
T ss_pred cchhhheeEEEEEEEEeccCCcccCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCccc
Confidence 57999999999999977633 57888889999999999999999999999999999874
No 438
>PRK09701 D-allose transporter subunit; Provisional
Probab=48.30 E-value=84 Score=32.65 Aligned_cols=84 Identities=12% Similarity=0.084 Sum_probs=57.5
Q ss_pred cCCcEEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHH
Q 004042 162 YGWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQ 238 (777)
Q Consensus 162 ~~w~~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~ 238 (777)
+.-.+|+++.. +++|.....+.+++.+++.|..+..... +.. .+...-...++.+...++|.||+..... ....
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 44568999985 4678888889999999999988764321 111 1234556678888888899998876443 3334
Q ss_pred HHHHHHHcCC
Q 004042 239 VFSVAKYLGM 248 (777)
Q Consensus 239 ~l~~a~~~gl 248 (777)
.+.++.+.|+
T Consensus 99 ~l~~~~~~gi 108 (311)
T PRK09701 99 PVARAWKKGI 108 (311)
T ss_pred HHHHHHHCCC
Confidence 5667777665
No 439
>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=48.16 E-value=83 Score=33.32 Aligned_cols=82 Identities=7% Similarity=-0.057 Sum_probs=55.4
Q ss_pred HHHHHHH-hcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 154 AVAEMVS-YYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 154 a~~~~l~-~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
.+.++++ ..+.+++.+|+....+ ....+.+.+.+++.| .+... +.++ .+.+.....++.+++.++|+||..+.
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~~-~~~~~~v~~~l~~~~-~~~~~--~~~~--~~~~~v~~~~~~~~~~~~d~iIaiGG 87 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTTK-SIAGKKVEALLEDEG-EVDVV--IVED--ATYEEVEKVESSARDIGADFVIGVGG 87 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCchH-HHHHHHHHHHHHhcC-CeEEE--EeCC--CCHHHHHHHHHHhhhcCCCEEEEeCC
Confidence 3455666 3567899988854443 356677888888887 54322 2223 35788888889999889999998766
Q ss_pred h--hHHHHHHH
Q 004042 233 P--SLGFQVFS 241 (777)
Q Consensus 233 ~--~~~~~~l~ 241 (777)
+ -|+..++.
T Consensus 88 Gs~~D~aK~~a 98 (339)
T cd08173 88 GRVIDVAKVAA 98 (339)
T ss_pred chHHHHHHHHH
Confidence 5 35555554
No 440
>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=46.90 E-value=49 Score=33.88 Aligned_cols=77 Identities=10% Similarity=0.027 Sum_probs=54.6
Q ss_pred cEEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHH
Q 004042 165 NAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSV 242 (777)
Q Consensus 165 ~~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~ 242 (777)
+.|++|.+ .++|..+....+.+.+++.|..+.....-. ..+....++.+.+.+.|-+|+.+...+...+. .
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~~------~~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~-~ 74 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTGD------DEEKEEYIELLLQRRVDGIILASSENDDEELR-R 74 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEETT------THHHHHHHHHHHHTTSSEEEEESSSCTCHHHH-H
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCCC------chHHHHHHHHHHhcCCCEEEEecccCChHHHH-H
Confidence 46888886 467888899999999999999886543332 33334889999999999999986665533333 3
Q ss_pred HHHcCC
Q 004042 243 AKYLGM 248 (777)
Q Consensus 243 a~~~gl 248 (777)
..+.++
T Consensus 75 ~~~~~i 80 (279)
T PF00532_consen 75 LIKSGI 80 (279)
T ss_dssp HHHTTS
T ss_pred HHHcCC
Confidence 333344
No 441
>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=46.61 E-value=89 Score=32.31 Aligned_cols=78 Identities=13% Similarity=0.180 Sum_probs=53.0
Q ss_pred EEEEEEE--eCccccchHHHHHHHHhh--cceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec-ChhHHHHHH
Q 004042 166 AVSVIFV--DNEYGRNGVSALNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV-SPSLGFQVF 240 (777)
Q Consensus 166 ~vaii~~--~~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~-~~~~~~~~l 240 (777)
+|++|.. ++.|.....+.+.+.+++ .|+.+.... .. .+...-...++++...+++.||+.. ++......+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~---~~--~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~ 75 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYD---AK--NNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVI 75 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEec---CC--CCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHH
Confidence 4677764 356777778889999998 777765432 11 2244455678888888999888864 333346678
Q ss_pred HHHHHcCC
Q 004042 241 SVAKYLGM 248 (777)
Q Consensus 241 ~~a~~~gl 248 (777)
+++++.|+
T Consensus 76 ~~~~~~gi 83 (303)
T cd01539 76 NKAKQKNI 83 (303)
T ss_pred HHHHHCCC
Confidence 88887776
No 442
>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=46.19 E-value=1.1e+02 Score=31.14 Aligned_cols=79 Identities=11% Similarity=0.008 Sum_probs=54.1
Q ss_pred cEEEEEEEe--CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhH-HHHHHH
Q 004042 165 NAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFS 241 (777)
Q Consensus 165 ~~vaii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~-~~~~l~ 241 (777)
++|+++..+ ++|.....+.+.+.+++.|..+..... . .+.+.-...++.+...+.|.||+.....+ ....++
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 467877753 567777888999999999988765321 1 12455667888888889999999754333 234556
Q ss_pred HHHHcCC
Q 004042 242 VAKYLGM 248 (777)
Q Consensus 242 ~a~~~gl 248 (777)
.+.+.++
T Consensus 76 ~~~~~~i 82 (280)
T cd06315 76 LAQKAGI 82 (280)
T ss_pred HHHHCCC
Confidence 6666564
No 443
>PRK11914 diacylglycerol kinase; Reviewed
Probab=45.62 E-value=1e+02 Score=32.06 Aligned_cols=80 Identities=11% Similarity=0.031 Sum_probs=52.0
Q ss_pred HhcCCcEEEEEEEeCc-cc--cchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHH
Q 004042 160 SYYGWNAVSVIFVDNE-YG--RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLG 236 (777)
Q Consensus 160 ~~~~w~~vaii~~~~~-~g--~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~ 236 (777)
++...+++.+|+.... -| ...++.+.+.+++.|+++....+- ...+...+.+++.+.+.|+||+.+.....
T Consensus 4 ~~~~~~~~~iI~NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~t~------~~~~~~~~a~~~~~~~~d~vvv~GGDGTi 77 (306)
T PRK11914 4 RRHEIGKVTVLTNPLSGHGAAPHAAERAIARLHHRGVDVVEIVGT------DAHDARHLVAAALAKGTDALVVVGGDGVI 77 (306)
T ss_pred CcCCCceEEEEECCCCCCCcHHHHHHHHHHHHHHcCCeEEEEEeC------CHHHHHHHHHHHHhcCCCEEEEECCchHH
Confidence 3455678898883221 12 234556777888888876543222 24577777777777778888887777777
Q ss_pred HHHHHHHHH
Q 004042 237 FQVFSVAKY 245 (777)
Q Consensus 237 ~~~l~~a~~ 245 (777)
..++..+..
T Consensus 78 ~evv~~l~~ 86 (306)
T PRK11914 78 SNALQVLAG 86 (306)
T ss_pred HHHhHHhcc
Confidence 777766643
No 444
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=45.43 E-value=1.5e+02 Score=30.12 Aligned_cols=97 Identities=10% Similarity=0.010 Sum_probs=68.7
Q ss_pred CCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHH
Q 004042 138 YPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLV 217 (777)
Q Consensus 138 ~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~ 217 (777)
-.++++...+. ..++++.++.+.+|.+.|.+|-+.+ ..+.+++.++..|-+-+.++.-.. +.++.. .
T Consensus 161 GD~vIQNganS-~VG~~ViQlaka~GiktinvVRdR~-----~ieel~~~Lk~lGA~~ViTeeel~-----~~~~~k--~ 227 (354)
T KOG0025|consen 161 GDSVIQNGANS-GVGQAVIQLAKALGIKTINVVRDRP-----NIEELKKQLKSLGATEVITEEELR-----DRKMKK--F 227 (354)
T ss_pred CCeeeecCccc-HHHHHHHHHHHHhCcceEEEeecCc-----cHHHHHHHHHHcCCceEecHHHhc-----chhhhh--h
Confidence 35788876644 4689999999999999999997655 478899999998877655442211 112211 1
Q ss_pred HHhcCCCeEEEEecChhHHHHHHHHHHHcC
Q 004042 218 KVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (777)
Q Consensus 218 ~l~~~~~~vIvl~~~~~~~~~~l~~a~~~g 247 (777)
+....+++.-+-+..+..+..+.+.+.+-|
T Consensus 228 ~~~~~~prLalNcVGGksa~~iar~L~~Gg 257 (354)
T KOG0025|consen 228 KGDNPRPRLALNCVGGKSATEIARYLERGG 257 (354)
T ss_pred hccCCCceEEEeccCchhHHHHHHHHhcCc
Confidence 123457788888888888999999888644
No 445
>KOG3684 consensus Ca2+-activated K+ channel proteins (intermediate/small conductance classes) [Inorganic ion transport and metabolism]
Probab=45.36 E-value=17 Score=38.84 Aligned_cols=64 Identities=14% Similarity=0.073 Sum_probs=48.2
Q ss_pred cccchhhHHHHHhhhhhccCcC--cccCchhHHHHHHHHHHHHHHHhHhhHhHHHhhhhccccCCC
Q 004042 619 PKRQVITILWFSLSTLFFAHKE--NTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPI 682 (777)
Q Consensus 619 ~~~~~~~~~~~~~~~~~~~~~~--~p~~~~~R~~~~~~~~~~lv~~~~Y~a~L~s~l~~~~~~~~i 682 (777)
...++++++|+...+++..|.+ .|..+-+|.+.++--+++-.+++.-.|-++--|...+-+...
T Consensus 284 ~~~~~~nsmWli~iTFlsiGYGDiVP~TycGr~v~l~tGivGa~~sallvAvisRKLeLt~aEKhV 349 (489)
T KOG3684|consen 284 VTINYLNSMWLIAITFLSIGYGDIVPNTYCGRGVALLTGIVGAGCSSLLVAVIARKLELTKAEKHV 349 (489)
T ss_pred hHHHHHhhHHHHHHHHhhcccCcccCCccccchHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 6677999999999999988744 899999999988777776666666666666666555444433
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=45.35 E-value=1.8e+02 Score=30.79 Aligned_cols=100 Identities=11% Similarity=0.024 Sum_probs=59.8
Q ss_pred HHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhh-cceEEEEeeecCCCCCCChhhHHHHHHHHhcC---CCeEEE
Q 004042 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIV 228 (777)
Q Consensus 153 ~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIv 228 (777)
..+.++++.++-+++.+|++...+. ...+.+.+.+++ .++.+..-...... .+.+.+...+..+++. +.|.||
T Consensus 12 ~~l~~~~~~~~~~k~livtd~~v~~-~~~~~v~~~L~~~~~~~~~~~~~~e~~--k~~~~v~~~~~~~~~~~~~r~d~II 88 (344)
T cd08169 12 ESVESYTTRDLFDQYFFISDSGVAD-LIAHYIAEYLSKILPVHILVIEGGEEY--KTFETVTRILERAIALGANRRTAIV 88 (344)
T ss_pred HHHHHHHHhcCCCeEEEEECccHHH-HHHHHHHHHHHhhcCceEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCCCcEEE
Confidence 3445567777778998887544433 466777788876 56654322222222 3466777777777754 489999
Q ss_pred EecCh--hHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 229 LHVSP--SLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 229 l~~~~--~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
..+.+ .+...++......|+ .++-|-|
T Consensus 89 aiGGGsv~D~ak~vA~~~~rgi---p~i~VPT 117 (344)
T cd08169 89 AVGGGATGDVAGFVASTLFRGI---AFIRVPT 117 (344)
T ss_pred EECCcHHHHHHHHHHHHhccCC---cEEEecC
Confidence 87665 455656655444443 3444444
No 447
>COG4143 TbpA ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]
Probab=45.21 E-value=1.5e+02 Score=30.63 Aligned_cols=70 Identities=14% Similarity=0.152 Sum_probs=45.3
Q ss_pred CCceEEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc----CcEEEEcC
Q 004042 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET----DIVAIIGP 103 (777)
Q Consensus 28 ~~~~i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~----~v~aviGp 103 (777)
...+++|+.-=+..+..| ....+.-++|.-+ +.+++++...+. ++...+++.+ +.++++|-
T Consensus 24 ~t~~LtVytydSF~~ewg--~Gp~vk~~FE~~~-------~~~v~fV~~~d~------v~llnRl~leg~~~~ADvvvGl 88 (336)
T COG4143 24 ATPTLTVYTYDSFASEWG--PGPKVKKAFEAEY-------GCKVNFVALGDG------VELLNRLILEGKNPKADVVVGL 88 (336)
T ss_pred cCceEEEEEEeeeecccC--CcHHHHHHHHHHh-------CceEEEEEcCcH------HHHHHHHHHcCCCCCCcEEEec
Confidence 346899998877664443 2234444555543 678888877554 5567777755 78999997
Q ss_pred CChhHHHHH
Q 004042 104 QCSTVAHIV 112 (777)
Q Consensus 104 ~~s~~~~~v 112 (777)
.....+.+-
T Consensus 89 dn~~l~~A~ 97 (336)
T COG4143 89 DNNLLARAR 97 (336)
T ss_pred ChHHHHHHH
Confidence 766555543
No 448
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=45.13 E-value=3.6e+02 Score=27.72 Aligned_cols=75 Identities=12% Similarity=0.119 Sum_probs=49.0
Q ss_pred cEEEEcCCChhHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEe--c---CC---chHHHHHHHHHHHhc------
Q 004042 97 IVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRT--T---QS---DSYQMTAVAEMVSYY------ 162 (777)
Q Consensus 97 v~aviGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~--~---p~---~~~~~~a~~~~l~~~------ 162 (777)
+.-++||.-.+....++.++...++=.+..+...+.. .-.+|.|+ . |. ....-.++.++.+.+
T Consensus 11 iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~~d~~---~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~~i 87 (289)
T PRK13010 11 VLTLACPSAPGIVAAVSGFLAEKGCYIVELTQFDDDE---SGRFFMRVSFHAQSAEAASVDTFRQEFQPVAEKFDMQWAI 87 (289)
T ss_pred EEEEECCCCCCcHHHHHHHHHHCCCCEEecccccccc---cCcEEEEEEEEcCCCCCCCHHHHHHHHHHHHHHhCCeEEE
Confidence 7789999999999999999999998888754432111 12445452 2 22 234455566665554
Q ss_pred ----CCcEEEEEEEeC
Q 004042 163 ----GWNAVSVIFVDN 174 (777)
Q Consensus 163 ----~w~~vaii~~~~ 174 (777)
..+|++++.+..
T Consensus 88 ~~~~~~~kiavl~Sg~ 103 (289)
T PRK13010 88 HPDGQRPKVVIMVSKF 103 (289)
T ss_pred ecCCCCeEEEEEEeCC
Confidence 346888888765
No 449
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=45.06 E-value=2.6e+02 Score=29.80 Aligned_cols=102 Identities=12% Similarity=0.106 Sum_probs=63.8
Q ss_pred HHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec
Q 004042 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (777)
Q Consensus 152 ~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~ 231 (777)
..-++.++++.||+ ++++. .|.|-....+++.+.+.+.++.+....+.. ....-...-+.+-|+.+.|+||+..
T Consensus 118 c~KlA~y~kkkG~K-~~Lvc-aDTFRagAfDQLkqnA~k~~iP~ygsyte~----dpv~ia~egv~~fKke~fdvIIvDT 191 (483)
T KOG0780|consen 118 CTKLAYYYKKKGYK-VALVC-ADTFRAGAFDQLKQNATKARVPFYGSYTEA----DPVKIASEGVDRFKKENFDVIIVDT 191 (483)
T ss_pred HHHHHHHHHhcCCc-eeEEe-ecccccchHHHHHHHhHhhCCeeEeccccc----chHHHHHHHHHHHHhcCCcEEEEeC
Confidence 45566777788876 45554 345666778888888888888776532211 1133455667888888999999977
Q ss_pred Ch--hHHHHHHHHHHHc-CCCCCCeEEEEeC
Q 004042 232 SP--SLGFQVFSVAKYL-GMMGNGYVWIATD 259 (777)
Q Consensus 232 ~~--~~~~~~l~~a~~~-gl~~~~~~~i~~~ 259 (777)
++ .+-..++.++.+. +-..|+-+.+.-|
T Consensus 192 SGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmD 222 (483)
T KOG0780|consen 192 SGRHKQEASLFEEMKQVSKAIKPDEIIFVMD 222 (483)
T ss_pred CCchhhhHHHHHHHHHHHhhcCCCeEEEEEe
Confidence 76 3555666666553 2333554444433
No 450
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=45.03 E-value=1.4e+02 Score=30.60 Aligned_cols=81 Identities=5% Similarity=0.074 Sum_probs=55.8
Q ss_pred CCcEEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHH
Q 004042 163 GWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQV 239 (777)
Q Consensus 163 ~w~~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~ 239 (777)
.-+.|+++.+ +++|.......+.+.+++.|+.+..... . .+.......++++...+++.+++..... .....
T Consensus 25 ~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~-~----~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~ 99 (295)
T PRK10653 25 AKDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDS-Q----NNPAKELANVQDLTVRGTKILLINPTDSDAVGNA 99 (295)
T ss_pred cCCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecC-C----CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHH
Confidence 3568888885 4567788889999999999998765322 1 1244556677788777899887765443 33456
Q ss_pred HHHHHHcCC
Q 004042 240 FSVAKYLGM 248 (777)
Q Consensus 240 l~~a~~~gl 248 (777)
++.+++.|.
T Consensus 100 l~~~~~~~i 108 (295)
T PRK10653 100 VKMANQANI 108 (295)
T ss_pred HHHHHHCCC
Confidence 777777665
No 451
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=45.01 E-value=1.9e+02 Score=29.77 Aligned_cols=73 Identities=12% Similarity=0.199 Sum_probs=42.9
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
++-.+++..+.++.. ++++.+.. +....+...|.+|++|+++............+ ...|+....+.+++++
T Consensus 106 ~~l~~~l~~f~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~l-~~~~l~~~~~~~~~~~ 176 (296)
T PRK11062 106 RLVSRVLLTAVPEDE-SIHLRCFE-------STHEMLLEQLSQHKLDMILSDCPVDSTQQEGL-FSKKLGECGVSFFCTN 176 (296)
T ss_pred hhHHHHHHHHHhcCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEecCCCccccccch-hhhhhhccCcceEecC
Confidence 555677777766542 33354433 35788999999999999875321111111222 3356666666666655
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
+.
T Consensus 177 ~~ 178 (296)
T PRK11062 177 PL 178 (296)
T ss_pred CC
Confidence 43
No 452
>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=45.00 E-value=1e+02 Score=30.90 Aligned_cols=76 Identities=7% Similarity=-0.025 Sum_probs=51.4
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|++|.. +++|.....+.+.+.+++.|..+...... .+...-...++.+...++|.||+........ .++++.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~~-----~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~-~~~~~~ 75 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAGH-----HSAEKEREAIEFLLERRCDALILHSKALSDD-ELIELA 75 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeCC-----CchHHHHHHHHHHHHcCCCEEEEecCCCCHH-HHHHHh
Confidence 455553 46788888899999999999987653221 1234455778888888999999876432222 377777
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06270 76 AQVP 79 (268)
T ss_pred hCCC
Confidence 6664
No 453
>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=44.91 E-value=98 Score=31.01 Aligned_cols=76 Identities=12% Similarity=0.041 Sum_probs=51.2
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|+++.. ++.+.......+.+.+++.|..+... ... .+.......++++.+.+.|.|++.+... ....++.++
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~---~~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~ 75 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVA---SSG--YDLDREYAQARKLLERGVDGLALIGLDH-SPALLDLLA 75 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEe---cCC--CCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHH
Confidence 566664 46677788889999999999887652 212 2345566778888888889888765432 234566666
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.+.
T Consensus 76 ~~~i 79 (268)
T cd06273 76 RRGV 79 (268)
T ss_pred hCCC
Confidence 6664
No 454
>cd08464 PBP2_DntR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=44.89 E-value=2.6e+02 Score=25.85 Aligned_cols=70 Identities=13% Similarity=0.114 Sum_probs=43.4
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
++...++..+.++.. ++++++.. +....++..+.+|++|+++... ......+ -+.+.....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08464 13 WLAPPLLAALRAEAP-GVRLVFRQ-------VDPFNVGDMLDRGEIDLAIGVF---GELPAWL-KREVLYTEGYACLFDP 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCcccHHHHHhcCcccEEEecC---CCCcccc-eeeeecccceEEEEeC
Confidence 455677788887763 33344433 3466788999999999998522 1112222 3357777777777655
Q ss_pred cC
Q 004042 572 RK 573 (777)
Q Consensus 572 ~~ 573 (777)
..
T Consensus 81 ~~ 82 (200)
T cd08464 81 QQ 82 (200)
T ss_pred CC
Confidence 43
No 455
>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=44.89 E-value=1.4e+02 Score=31.20 Aligned_cols=81 Identities=6% Similarity=0.007 Sum_probs=53.6
Q ss_pred CCcEEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHH
Q 004042 163 GWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVF 240 (777)
Q Consensus 163 ~w~~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l 240 (777)
.-+.|+++.. ++.|.......+.+.+++.|..+...... .+...-...++.+...+.|.||+..........+
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~~-----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~ 133 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACSD-----DNPDQEKVVIENLLARQVDALIVASCMPPEDAYY 133 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHH
Confidence 3457888875 35677788889999999999987653221 1133445677778778899888865432123456
Q ss_pred HHHHHcCC
Q 004042 241 SVAKYLGM 248 (777)
Q Consensus 241 ~~a~~~gl 248 (777)
+++.+.++
T Consensus 134 ~~l~~~~i 141 (327)
T TIGR02417 134 QKLQNEGL 141 (327)
T ss_pred HHHHhcCC
Confidence 66666554
No 456
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=44.88 E-value=1e+02 Score=30.74 Aligned_cols=77 Identities=6% Similarity=-0.004 Sum_probs=48.7
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|++|.+ ++.+.......+++.+++.|..+.....- . .....-...++.+.+.+.|.|++........ .+.++.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~--~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~ 76 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSMLA--E--ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAA 76 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeCC--C--CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHH
Confidence 566664 45577778889999999999887643221 1 1134566678888888899998865443333 234444
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.|.
T Consensus 77 ~~~i 80 (264)
T cd01574 77 PADV 80 (264)
T ss_pred hcCC
Confidence 5554
No 457
>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=44.82 E-value=1.3e+02 Score=27.83 Aligned_cols=66 Identities=11% Similarity=0.099 Sum_probs=45.5
Q ss_pred CcEEEEEEEeCcccc---chHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhc-CCCeEEEEecCh
Q 004042 164 WNAVSVIFVDNEYGR---NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHVSP 233 (777)
Q Consensus 164 w~~vaii~~~~~~g~---~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vIvl~~~~ 233 (777)
..++++|...|.-+. .....+...+++.|.++.....++.+ ..++...+++..+ .+.|+|+..+..
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~Dd----~~~i~~~l~~~~~~~~~DlVIttGGt 73 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKDD----IYQIRAQVSAWIADPDVQVILITGGT 73 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCCC----HHHHHHHHHHHHhcCCCCEEEECCCc
Confidence 457888765443222 22346778888999998877777644 7778888888753 578999986543
No 458
>KOG1545 consensus Voltage-gated shaker-like K+ channel KCNA [Inorganic ion transport and metabolism]
Probab=44.78 E-value=7.2 Score=39.93 Aligned_cols=44 Identities=11% Similarity=0.194 Sum_probs=35.0
Q ss_pred CCcccchhhHHHHHhhhhhccC--cCcccCchhHHHHHHHHHHHHH
Q 004042 617 GPPKRQVITILWFSLSTLFFAH--KENTVSTLGRLVLIIWLFVVLI 660 (777)
Q Consensus 617 ~~~~~~~~~~~~~~~~~~~~~~--~~~p~~~~~R~~~~~~~~~~lv 660 (777)
.+...++-+++||+..+|+.-| ...|.+..++++.....+.+.+
T Consensus 388 ~S~F~SIPdaFWwavVTMTTVGYGDm~P~TvgGKIVGslCAiaGVL 433 (507)
T KOG1545|consen 388 ESHFSSIPDAFWWAVVTMTTVGYGDMVPVTVGGKIVGSLCAIAGVL 433 (507)
T ss_pred ccCCCcCcccceEEEEEEEeeccccceecccCceehhhHHhhhhhe
Confidence 3455678999999999999775 4589999999998877766653
No 459
>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=44.57 E-value=24 Score=31.50 Aligned_cols=57 Identities=16% Similarity=0.238 Sum_probs=40.3
Q ss_pred HHHHHHHhc--CcEEEEcCCCh--hHHHHHHHhhccCCceEEecccCCCCCCCCCCCceEEe
Q 004042 87 VEALRFMET--DIVAIIGPQCS--TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRT 144 (777)
Q Consensus 87 ~~a~~l~~~--~v~aviGp~~s--~~~~~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~ 144 (777)
+.+.+++.+ ++.+++|.... .....+..+++..++|+++.... ...-+..+|.+.-.
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~-kg~i~~~hp~~~G~ 62 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMG-KGVIPEDHPLFLGY 62 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGG-TTSSTTTSTTEEEE
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCcc-ccccCCCCchhccc
Confidence 345566654 89999998776 78899999999999999985443 33444445766653
No 460
>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=44.48 E-value=31 Score=29.92 Aligned_cols=86 Identities=15% Similarity=0.136 Sum_probs=45.7
Q ss_pred cEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHh--cCCCeEEEEecChhHHHHHHHH
Q 004042 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA--LMESRVIVLHVSPSLGFQVFSV 242 (777)
Q Consensus 165 ~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~--~~~~~vIvl~~~~~~~~~~l~~ 242 (777)
|+|++|-..+.-+. ....+...+.+.|.++... .+. ...-+=......+. -..+|.++++..+.....++++
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 57888864332222 2333444455577676532 222 10111111223333 3578999999999999999999
Q ss_pred HHHcCCCCCCeEEEEeC
Q 004042 243 AKYLGMMGNGYVWIATD 259 (777)
Q Consensus 243 a~~~gl~~~~~~~i~~~ 259 (777)
+.++| .+.+|+.++
T Consensus 75 ~~~~g---~~~v~~~~g 88 (116)
T PF13380_consen 75 AAALG---VKAVWLQPG 88 (116)
T ss_dssp HHHHT----SEEEE-TT
T ss_pred HHHcC---CCEEEEEcc
Confidence 99988 478899876
No 461
>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=44.46 E-value=90 Score=31.41 Aligned_cols=77 Identities=10% Similarity=0.041 Sum_probs=52.6
Q ss_pred EEEEEE---eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHHHHH
Q 004042 167 VSVIFV---DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSV 242 (777)
Q Consensus 167 vaii~~---~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~l~~ 242 (777)
|++|.. +++|.....+.+.+.+++.|+.+..... . .........++.+...++|.|++..... .....++.
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 566663 4568888888999999999988765322 1 2245556677777778899998865433 33456777
Q ss_pred HHHcCC
Q 004042 243 AKYLGM 248 (777)
Q Consensus 243 a~~~gl 248 (777)
+.+.+.
T Consensus 77 ~~~~~i 82 (275)
T cd06317 77 AKQAGI 82 (275)
T ss_pred HHHCCC
Confidence 777665
No 462
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=44.46 E-value=4.3e+02 Score=28.36 Aligned_cols=150 Identities=13% Similarity=0.118 Sum_probs=85.9
Q ss_pred EEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHH-HHHhcCcEEEEcCCChhHHH
Q 004042 32 VNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEAL-RFMETDIVAIIGPQCSTVAH 110 (777)
Q Consensus 32 i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~-~l~~~~v~aviGp~~s~~~~ 110 (777)
.+|..+.|.|+..=+.....+.-+-+++-++.- .+ ++.+.+...-+++...+++.. .+.+.||.+.+=-..+....
T Consensus 213 l~i~~IaP~HG~i~~~~~~~i~~~Y~~W~~~~~--~~-~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~~~~ 289 (388)
T COG0426 213 LKIEMIAPSHGPIWRGNPKEIVEAYRDWAEGQP--KG-KVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDADPS 289 (388)
T ss_pred cCccEEEcCCCceeeCCHHHHHHHHHHHHccCC--cc-eEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccCCHH
Confidence 679999999964422212233333344433221 23 566666555566666555544 45555777666544444444
Q ss_pred HHHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhh
Q 004042 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE 190 (777)
Q Consensus 111 ~va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~ 190 (777)
.+.......+-.+|. +|++....+| + ...++..++..-.-++.+.+.....|+.+....+++.+++
T Consensus 290 eI~~~i~~a~~~vvG----sPT~~~~~~p-------~---i~~~l~~v~~~~~~~k~~~vfgS~GW~g~av~~i~~~l~~ 355 (388)
T COG0426 290 EIVEEILDAKGLVVG----SPTINGGAHP-------P---IQTALGYVLALAPKNKLAGVFGSYGWSGEAVDLIEEKLKD 355 (388)
T ss_pred HHHHHHhhcceEEEe----cCcccCCCCc-------h---HHHHHHHHHhccCcCceEEEEeccCCCCcchHHHHHHHHh
Confidence 444444444444443 2333322211 1 2344444444445566677777888999999999999999
Q ss_pred cceEEEEe
Q 004042 191 RRCRISYK 198 (777)
Q Consensus 191 ~g~~v~~~ 198 (777)
.|.++...
T Consensus 356 ~g~~~~~~ 363 (388)
T COG0426 356 LGFEFGFD 363 (388)
T ss_pred cCcEEecc
Confidence 99887655
No 463
>PRK05569 flavodoxin; Provisional
Probab=44.36 E-value=1.7e+02 Score=26.02 Aligned_cols=85 Identities=11% Similarity=0.040 Sum_probs=0.0
Q ss_pred cEEEEEE-EeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh--------hH
Q 004042 165 NAVSVIF-VDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--------SL 235 (777)
Q Consensus 165 ~~vaii~-~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~--------~~ 235 (777)
+++.|+| +........++.+.+.+++.|.++.....-... ..++. +.|.|++.+.. ++
T Consensus 2 ~ki~iiY~S~tGnT~~iA~~i~~~~~~~g~~v~~~~~~~~~----~~~~~---------~~d~iilgsPty~~~~~~~~~ 68 (141)
T PRK05569 2 KKVSIIYWSCGGNVEVLANTIADGAKEAGAEVTIKHVADAK----VEDVL---------EADAVAFGSPSMDNNNIEQEE 68 (141)
T ss_pred CeEEEEEECCCCHHHHHHHHHHHHHHhCCCeEEEEECCcCC----HHHHh---------hCCEEEEECCCcCCCcCChHH
Q ss_pred HHHHHHHHHHcCCCCCCeEEEEeCcch
Q 004042 236 GFQVFSVAKYLGMMGNGYVWIATDWLA 262 (777)
Q Consensus 236 ~~~~l~~a~~~gl~~~~~~~i~~~~~~ 262 (777)
...++.......+.+.....+.+.+|.
T Consensus 69 ~~~~~~~l~~~~~~~K~v~~f~t~g~~ 95 (141)
T PRK05569 69 MAPFLDQFKLTPNENKKCILFGSYGWD 95 (141)
T ss_pred HHHHHHHhhccCcCCCEEEEEeCCCCC
No 464
>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=44.02 E-value=90 Score=31.41 Aligned_cols=77 Identities=10% Similarity=0.049 Sum_probs=51.8
Q ss_pred EEEEEE--eCccccchHHHHHHHHhh--cceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFS 241 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~l~ 241 (777)
|+++.+ ++.|.......+.+.+++ .|.++..... . .+.......++.+...++|.||+..... .....++
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 667764 467888888999999999 6766543321 1 2244556677777788899988865432 2356677
Q ss_pred HHHHcCC
Q 004042 242 VAKYLGM 248 (777)
Q Consensus 242 ~a~~~gl 248 (777)
.+.+.+.
T Consensus 77 ~~~~~~i 83 (271)
T cd06321 77 RAQAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7777664
No 465
>cd08428 PBP2_IciA_ArgP The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold. The inhibitor of chromosomal replication (iciA) protein encoded by Mycobacterium tuberculosis, which is implicated in chromosome replication initiation in vitro, has been identified as arginine permease (ArgP), a LysR-type transcriptional regulator for arginine outward transport, based on the same amino sequence and similar DNA binding targets. Arp has been shown to regulate various targets including DnaA (replication), ArgO (arginine export), dapB (lysine biosynthesis), and gdhA (glutamate biosynthesis). With abundant nutrition, ArgP activates the DnaA gene (to increase replication) and the ArgO (to export redundant molecules). However, when nutrition supply is limited, it is suggested that ArgP might function as an inhibitor of chromosome replication in order to slow replication. This substrate-
Probab=43.60 E-value=2.7e+02 Score=25.71 Aligned_cols=65 Identities=6% Similarity=0.054 Sum_probs=38.5
Q ss_pred eHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 494 CIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 494 ~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
...++..+.++.+ +++++.. ++...+.+.+.+|++|+++..- ......+ .+.++......++++.
T Consensus 15 l~~~l~~f~~~~~--v~l~l~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 79 (195)
T cd08428 15 FLPALAPVLKRER--ILLDLIV-------DDEDRTHDLLRDGEVVGCISTQ---AQPMQGC-RSDYLGSMDYLLVASP 79 (195)
T ss_pred hHHHHHHHHhCcC--eEEEEEe-------CCchhHHHHHHcCcceEEEEec---CCCCCCc-eeEEeeeeeEEEEECC
Confidence 3456777777644 4455543 3467889999999999876421 1122222 3455666666666543
No 466
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=43.56 E-value=1.1e+02 Score=30.71 Aligned_cols=77 Identities=12% Similarity=0.029 Sum_probs=48.3
Q ss_pred CcEEEEEEE---------eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh
Q 004042 164 WNAVSVIFV---------DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS 234 (777)
Q Consensus 164 w~~vaii~~---------~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~ 234 (777)
.+.|++|.+ ++.|.....+.+.+.+++.|+.+.... . + . . +.....+.+.+.++|.||+.....
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~-~--~--~-~-~~~~~~~~l~~~~~dgiii~~~~~ 75 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSF-V--S--S-P-DRDWLARYLASGRADGVILIGQHD 75 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEe-C--C--c-h-hHHHHHHHHHhCCCCEEEEeCCCC
Confidence 467888885 234566677788999999998876432 1 1 1 1 334444556567899888765432
Q ss_pred HHHHHHHHHHHcCC
Q 004042 235 LGFQVFSVAKYLGM 248 (777)
Q Consensus 235 ~~~~~l~~a~~~gl 248 (777)
. ...++++.+.|.
T Consensus 76 ~-~~~~~~~~~~~i 88 (275)
T cd06295 76 Q-DPLPERLAETGL 88 (275)
T ss_pred C-hHHHHHHHhCCC
Confidence 2 244677777665
No 467
>PRK10481 hypothetical protein; Provisional
Probab=43.37 E-value=2.2e+02 Score=27.96 Aligned_cols=75 Identities=17% Similarity=0.076 Sum_probs=47.1
Q ss_pred HHHHHhc-CCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh
Q 004042 156 AEMVSYY-GWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS 234 (777)
Q Consensus 156 ~~~l~~~-~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~ 234 (777)
..++..+ +-++++++....+. .+.-.+.+.+.|..+.....-+.. .....+.+..++++..++|+|++.|.+-
T Consensus 120 ~~lv~Al~~g~riGVitP~~~q----i~~~~~kw~~~G~~v~~~~aspy~--~~~~~l~~aa~~L~~~gaD~Ivl~C~G~ 193 (224)
T PRK10481 120 PPLVAAIVGGHQVGVIVPVEEQ----LAQQAQKWQVLQKPPVFALASPYH--GSEEELIDAGKELLDQGADVIVLDCLGY 193 (224)
T ss_pred HHHHHHhcCCCeEEEEEeCHHH----HHHHHHHHHhcCCceeEeecCCCC--CCHHHHHHHHHHhhcCCCCEEEEeCCCc
Confidence 4444432 44899999866543 233333344448776644332222 2355788888899899999999988775
Q ss_pred HH
Q 004042 235 LG 236 (777)
Q Consensus 235 ~~ 236 (777)
..
T Consensus 194 ~~ 195 (224)
T PRK10481 194 HQ 195 (224)
T ss_pred CH
Confidence 44
No 468
>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=43.33 E-value=89 Score=31.23 Aligned_cols=77 Identities=8% Similarity=0.077 Sum_probs=52.5
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVA 243 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~l~~a 243 (777)
|++|.. ++.|.......+.+.+++.|+.+.... .. .+..+....++++...+++.|++..... .....++.+
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 466788888999999999998876422 12 2345566788888888899988864332 234567777
Q ss_pred HHcCC
Q 004042 244 KYLGM 248 (777)
Q Consensus 244 ~~~gl 248 (777)
.+.+.
T Consensus 77 ~~~~i 81 (268)
T cd06323 77 NEAGI 81 (268)
T ss_pred HHCCC
Confidence 76664
No 469
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=43.15 E-value=1.6e+02 Score=29.51 Aligned_cols=98 Identities=9% Similarity=-0.070 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhc--ceEEEEee-ecCCCCCCChhhHHHHHHHHhcCCCeE
Q 004042 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKS-GIPPESGVNTGYVMDLLVKVALMESRV 226 (777)
Q Consensus 150 ~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~--g~~v~~~~-~~~~~~~~~~~d~~~~l~~l~~~~~~v 226 (777)
+...++.+....- -++|.++..... ..+...+.+++. +..|+... .|-. ..++ ..++++|++++||+
T Consensus 95 Dl~~~Ll~~a~~~-~~~vfllGgkp~----V~~~a~~~l~~~~p~l~ivg~h~GYf~----~~e~-~~i~~~I~~s~pdi 164 (253)
T COG1922 95 DLVEALLKRAAEE-GKRVFLLGGKPG----VAEQAAAKLRAKYPGLKIVGSHDGYFD----PEEE-EAIVERIAASGPDI 164 (253)
T ss_pred HHHHHHHHHhCcc-CceEEEecCCHH----HHHHHHHHHHHHCCCceEEEecCCCCC----hhhH-HHHHHHHHhcCCCE
Confidence 3445555554444 357777765443 333344444443 34555443 2221 1334 68999999999999
Q ss_pred EEEecChhHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 004042 227 IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW 260 (777)
Q Consensus 227 Ivl~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 260 (777)
+++.+..+.-..++.+-.++- +.-++++.++
T Consensus 165 l~VgmG~P~QE~wi~~~~~~~---~~~v~igVGg 195 (253)
T COG1922 165 LLVGMGVPRQEIWIARNRQQL---PVAVAIGVGG 195 (253)
T ss_pred EEEeCCCchhHHHHHHhHHhc---CCceEEeccc
Confidence 999877776666665555422 2345666543
No 470
>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=43.07 E-value=1e+02 Score=32.58 Aligned_cols=85 Identities=9% Similarity=0.074 Sum_probs=54.7
Q ss_pred HHHHHHHHhcCC-cEEEEEEEeCccccchHHHHHHHHhhcceEEEEee-ecCCCCCCChhhHHHHHHHHhcCCCeEEEEe
Q 004042 153 TAVAEMVSYYGW-NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKS-GIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (777)
Q Consensus 153 ~a~~~~l~~~~w-~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~ 230 (777)
..+.++++.++. +++.+|+....+.. ..+.+.+.+++.|+++.... ...++ .+.......+..+++ +.|+||..
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 345566777775 78888875544332 34778888888887554211 12222 346778888888888 89999987
Q ss_pred cCh--hHHHHHHH
Q 004042 231 VSP--SLGFQVFS 241 (777)
Q Consensus 231 ~~~--~~~~~~l~ 241 (777)
+.+ .|+..++.
T Consensus 88 GGGsv~D~aK~iA 100 (332)
T cd08549 88 GSGTIIDLVKFVS 100 (332)
T ss_pred CCcHHHHHHHHHH
Confidence 665 45555554
No 471
>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=43.00 E-value=84 Score=32.49 Aligned_cols=77 Identities=8% Similarity=0.085 Sum_probs=51.2
Q ss_pred EEEEEE---eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC--CCeEEEEecChhHHHHHHH
Q 004042 167 VSVIFV---DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFS 241 (777)
Q Consensus 167 vaii~~---~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIvl~~~~~~~~~~l~ 241 (777)
|+++.+ ++.|.......+++.+++.|..+..... . .+...-...++.+.+. ++|.||+..........++
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 566653 4567777788899999999988765421 1 1244455677778777 8999998644333455677
Q ss_pred HHHHcCC
Q 004042 242 VAKYLGM 248 (777)
Q Consensus 242 ~a~~~gl 248 (777)
.+.+.|+
T Consensus 77 ~~~~~gi 83 (305)
T cd06324 77 LAEGAGV 83 (305)
T ss_pred HHHhCCC
Confidence 7777665
No 472
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=42.77 E-value=1.2e+02 Score=31.85 Aligned_cols=80 Identities=14% Similarity=0.014 Sum_probs=57.5
Q ss_pred CcEEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhH-HHHHH
Q 004042 164 WNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVF 240 (777)
Q Consensus 164 w~~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~-~~~~l 240 (777)
-.+|+++.. +++|.....+.+++.+++.|..+..... . .+.......++.+...++|.||+...... ....+
T Consensus 25 ~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~---~--~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l 99 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSA---N--GNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVI 99 (330)
T ss_pred CceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHH
Confidence 467888774 5678888899999999999998775322 1 23556777888888889999999764332 34566
Q ss_pred HHHHHcCC
Q 004042 241 SVAKYLGM 248 (777)
Q Consensus 241 ~~a~~~gl 248 (777)
+.+.+.+.
T Consensus 100 ~~~~~~~i 107 (330)
T PRK10355 100 KEAKQEGI 107 (330)
T ss_pred HHHHHCCC
Confidence 77776664
No 473
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=42.70 E-value=1.1e+02 Score=30.26 Aligned_cols=99 Identities=14% Similarity=0.131 Sum_probs=63.0
Q ss_pred cchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH-HHHHHhhccCCc
Q 004042 43 TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA-HIVSYVSNELQV 121 (777)
Q Consensus 43 ~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~-~~va~~~~~~~i 121 (777)
..|+.-..+++..+..|| |.- ++...++--+ .+...+++..+.+.||-...+-.+ .++..+|...++
T Consensus 80 ~iGk~Kv~vm~eri~~In------P~c--~V~~~~~f~t----~en~~~~~~~~~DyvIDaiD~v~~Kv~Li~~c~~~ki 147 (263)
T COG1179 80 DIGKPKVEVMKERIKQIN------PEC--EVTAINDFIT----EENLEDLLSKGFDYVIDAIDSVRAKVALIAYCRRNKI 147 (263)
T ss_pred hcccHHHHHHHHHHHhhC------CCc--eEeehHhhhC----HhHHHHHhcCCCCEEEEchhhhHHHHHHHHHHHHcCC
Confidence 346666778888888887 433 4444444433 445567777799999987666544 456788999999
Q ss_pred eEEecccCCCCCCCCCCCceEEecCCchHHHHHHHH
Q 004042 122 PLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAE 157 (777)
Q Consensus 122 P~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~ 157 (777)
|+|+.......+. |+-+++.--.....+.+++
T Consensus 148 ~vIss~Gag~k~D----PTri~v~DiskT~~DPLa~ 179 (263)
T COG1179 148 PVISSMGAGGKLD----PTRIQVADISKTIQDPLAA 179 (263)
T ss_pred CEEeeccccCCCC----CceEEeeechhhccCcHHH
Confidence 9999765553333 6667665433333333333
No 474
>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=42.42 E-value=1e+02 Score=30.94 Aligned_cols=76 Identities=8% Similarity=0.131 Sum_probs=51.2
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|+++.+ ++.|.......+.+.+++.|+++...... .+.......++.+...+.|.|++....... ..++.+.
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 556653 46788888999999999999887654322 123445567888888889988876543222 3467776
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.+.
T Consensus 76 ~~~i 79 (270)
T cd06296 76 RTGI 79 (270)
T ss_pred cCCC
Confidence 6664
No 475
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=42.39 E-value=98 Score=31.19 Aligned_cols=78 Identities=10% Similarity=-0.002 Sum_probs=51.7
Q ss_pred EEEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhH-HHHHHHH
Q 004042 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFSV 242 (777)
Q Consensus 166 ~vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~-~~~~l~~ 242 (777)
+|++|.. ++.|.......+.+.+++.|+++..... . .+...-.+.++++...++|.||+.....+ ....++.
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~ 75 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKALGYDAVELSA---E--NSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKL 75 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhcCCeEEEecC---C--CCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHH
Confidence 3566664 4667778888999999999988764211 1 12344556777777788999987654332 3456777
Q ss_pred HHHcCC
Q 004042 243 AKYLGM 248 (777)
Q Consensus 243 a~~~gl 248 (777)
+.+.|.
T Consensus 76 ~~~~~i 81 (277)
T cd06319 76 AAQAKI 81 (277)
T ss_pred HHHCCC
Confidence 777664
No 476
>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=42.22 E-value=2.5e+02 Score=29.70 Aligned_cols=100 Identities=11% Similarity=0.051 Sum_probs=61.6
Q ss_pred HHHHHHh-cCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCC-CCCChhhHHHHHHHHhcCCC---eEEEE
Q 004042 155 VAEMVSY-YGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPE-SGVNTGYVMDLLVKVALMES---RVIVL 229 (777)
Q Consensus 155 ~~~~l~~-~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~~~~d~~~~l~~l~~~~~---~vIvl 229 (777)
+.+++.. .+.+++.+|+....+ ....+.+.+.+++.|+.+... .++.. ...+.+.+...++.+++.+. +.||.
T Consensus 14 l~~~~~~~~~~~~~livtd~~~~-~~~~~~l~~~L~~~g~~~~~~-~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIa 91 (345)
T cd08195 14 LGELLAKLPKGSKILIVTDENVA-PLYLEKLKAALEAAGFEVEVI-VIPAGEASKSLETLEKLYDALLEAGLDRKSLIIA 91 (345)
T ss_pred HHHHHHhccCCCeEEEEECCchH-HHHHHHHHHHHHhcCCceEEE-EeCCCCCcCCHHHHHHHHHHHHHcCCCCCCeEEE
Confidence 3344443 456899888854443 356778888888888665422 23321 11346788888888887665 88888
Q ss_pred ecCh--hHHHHHHHHHHHcCCCCCCeEEEEeC
Q 004042 230 HVSP--SLGFQVFSVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 230 ~~~~--~~~~~~l~~a~~~gl~~~~~~~i~~~ 259 (777)
.+.+ .++..++......|+ .++-|-|.
T Consensus 92 iGGGsv~D~ak~vA~~~~rgi---p~i~VPTT 120 (345)
T cd08195 92 LGGGVVGDLAGFVAATYMRGI---DFIQIPTT 120 (345)
T ss_pred ECChHHHhHHHHHHHHHhcCC---CeEEcchh
Confidence 7665 466666665555554 34444443
No 477
>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=42.08 E-value=1.5e+02 Score=29.80 Aligned_cols=100 Identities=11% Similarity=0.226 Sum_probs=58.4
Q ss_pred chHHHHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHh---hcceEEE-EeeecCCCCCCChhhHHHHHHHHhcCC
Q 004042 148 DSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA---ERRCRIS-YKSGIPPESGVNTGYVMDLLVKVALME 223 (777)
Q Consensus 148 ~~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~---~~g~~v~-~~~~~~~~~~~~~~d~~~~l~~l~~~~ 223 (777)
.....++.-+++++||-..|..++--|.+..+.-..+.+.+. ...++.. .... .....+.++++|+.+
T Consensus 15 ~ed~~r~Ae~l~~~Yg~~~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~--------vpGt~~af~kIkekR 86 (275)
T PF12683_consen 15 SEDEYRGAEELIKKYGDVMIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQA--------VPGTAEAFRKIKEKR 86 (275)
T ss_dssp -HHHHHHHHHHHHHHHHHEEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-S--------S---HHHHHHHHHH-
T ss_pred ChHHHHHHHHHHHHhCcceEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCC--------CcchHHHHHHHHhcC
Confidence 344456666677777765665555455577776666666665 5556543 2333 334577889999999
Q ss_pred CeEEEEecCh--------------------hHHHHHHHHHHHcCCCCCCeEEEE
Q 004042 224 SRVIVLHVSP--------------------SLGFQVFSVAKYLGMMGNGYVWIA 257 (777)
Q Consensus 224 ~~vIvl~~~~--------------------~~~~~~l~~a~~~gl~~~~~~~i~ 257 (777)
+|++++.+.+ .....+...|+++|- ..++.+.
T Consensus 87 pDIl~ia~~~~EDp~~i~~~aDi~~~~D~~~~G~~i~~~Ak~mGA--ktFVh~s 138 (275)
T PF12683_consen 87 PDILLIAGEPHEDPEVISSAADIVVNPDEISRGYTIVWAAKKMGA--KTFVHYS 138 (275)
T ss_dssp TTSEEEESS--S-HHHHHHHSSEEEE--HHHHHHHHHHHHHHTT---S-EEEEE
T ss_pred CCeEEEcCCCcCCHHHHhhccCeEeccchhhccHHHHHHHHHcCC--ceEEEEe
Confidence 9998888774 234566788888773 5566663
No 478
>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=41.97 E-value=1.1e+02 Score=30.38 Aligned_cols=76 Identities=14% Similarity=0.064 Sum_probs=50.7
Q ss_pred EEEEEEe--CccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|+++.++ +.+.....+.+++.+++.|.++..... . .+.......++++...++|.+|+...... ..+++.++
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 5666643 456677888999999999988764322 1 12455567788888889999998755432 34556666
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.+.
T Consensus 76 ~~~i 79 (259)
T cd01542 76 KLNV 79 (259)
T ss_pred cCCC
Confidence 5553
No 479
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=41.76 E-value=4.2e+02 Score=27.50 Aligned_cols=68 Identities=12% Similarity=0.088 Sum_probs=43.2
Q ss_pred eHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEeccC
Q 004042 494 CIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (777)
Q Consensus 494 ~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~~ 573 (777)
-.+++..+.++.. .+++++.. ..-..+...|.+|++|+++..- ....+.+.+ .++....+.+++++..
T Consensus 104 l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~L~~g~~Dl~i~~~---~~~~~~~~~-~~l~~~~~~lv~~~~h 171 (317)
T PRK15421 104 LTPALENFHKNWP-QVEMDFKS-------GVTFDPQPALQQGELDLVMTSD---ILPRSGLHY-SPMFDYEVRLVLAPDH 171 (317)
T ss_pred HHHHHHHHHHHCC-CceEEEEe-------CccHHHHHHHHCCCcCEEEecC---cccCCCceE-EEeccceEEEEEcCCC
Confidence 3567777777753 33344433 2356789999999999998532 222233433 6777888888876654
No 480
>PRK07377 hypothetical protein; Provisional
Probab=41.74 E-value=68 Score=29.96 Aligned_cols=61 Identities=15% Similarity=0.243 Sum_probs=42.8
Q ss_pred ceeEEeecCCCcccceeeeccCCcceeeeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEe
Q 004042 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (777)
Q Consensus 465 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 542 (777)
..+|+|+.... ++.+. .-+-.++.++.+.++++.+ .+++++ .+-..+.+++.+|++|++++
T Consensus 75 ~~~Rlgv~~~~--------~~~~~-~~~~l~~~l~~~~~~y~~r--lElv~y------~~~~~l~~aL~~~eVh~~c~ 135 (184)
T PRK07377 75 LVMRLGVLEIE--------TETSS-VFDQLIDQLRTILDKYHLR--LELVVY------PDLQALEQALRDKEVHAICL 135 (184)
T ss_pred cEEEEEEEecc--------ccccc-cHHHHHHHHHHHHHHhCce--eeEEec------CCHHHHHHHHhcCCccEEec
Confidence 46788876530 11112 3333567789999999988 555554 56889999999999998765
No 481
>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=41.65 E-value=88 Score=31.51 Aligned_cols=77 Identities=8% Similarity=0.055 Sum_probs=51.5
Q ss_pred EEEEEE-eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChh-HHHHHHHHHH
Q 004042 167 VSVIFV-DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~-~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~-~~~~~l~~a~ 244 (777)
|++|.. .++|.......+.+.+++.|..+.....- . .+...-...+..+...++|.+|+..... .....++++.
T Consensus 2 i~~v~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~--~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~ 77 (271)
T cd06314 2 IAVVTNGASPFWKIAEAGVKAAGKELGVDVEFVVPQ--Q--GTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAA 77 (271)
T ss_pred eEEEcCCCcHHHHHHHHHHHHHHHHcCCeEEEeCCC--C--CCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHh
Confidence 555552 45677788889999999999887653211 1 1244556778888888999999875433 3456677776
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+ +.
T Consensus 78 ~-~i 80 (271)
T cd06314 78 A-GI 80 (271)
T ss_pred c-CC
Confidence 5 54
No 482
>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=41.53 E-value=90 Score=31.51 Aligned_cols=80 Identities=11% Similarity=0.020 Sum_probs=51.6
Q ss_pred EEEEEEEe--CccccchHHHHHHHHhhcceEEEEeeec-CCCCCCChhhHHHHHHHHhcCCCeEEEEecCh-hHHHHHHH
Q 004042 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGI-PPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFS 241 (777)
Q Consensus 166 ~vaii~~~--~~~g~~~~~~~~~~~~~~g~~v~~~~~~-~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~-~~~~~~l~ 241 (777)
+|+++..+ +.|.....+.+.+.+++.|..+...... ... .+.......++.+.. ++|.+++.... ......++
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~ 77 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDARIRVRIHFVES--FDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVA 77 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhccCceEEEEEccC--CCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHH
Confidence 46777753 5677778888999999987654332221 111 123445677777777 89988886544 33456788
Q ss_pred HHHHcCC
Q 004042 242 VAKYLGM 248 (777)
Q Consensus 242 ~a~~~gl 248 (777)
++.+.|.
T Consensus 78 ~~~~~~i 84 (275)
T cd06307 78 RLAAAGV 84 (275)
T ss_pred HHHHCCC
Confidence 8887765
No 483
>cd08485 PBP2_ClcR The C-terminal substrate binding domain of LysR-type transcriptional regulator ClcR involved in the chlorocatechol catabolism, contains type 2 periplasmic binding fold. In soil bacterium Pseudomonas putida, the ortho-pathways of catechol and 3-chlorocatechol are central catabolic pathways that convert aromatic and chloroaromaric compounds to tricarboxylic acid (TCA) cycle intermediates. The 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR and an intermediate of the pathway, 2-chloromuconate, as an inducer for activation. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding th
Probab=41.30 E-value=3e+02 Score=25.61 Aligned_cols=69 Identities=10% Similarity=0.079 Sum_probs=41.8
Q ss_pred eeeHHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEec
Q 004042 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (777)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~ 571 (777)
.+-.+++..+.++.. ++++++.. +.-+.++.+|.+|++|+++..... . ...+. +.++....+.+++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~--~-~~~l~-~~~l~~~~~~~~~~~ 81 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ-------MSKNRQIEALDAGTIDIGFGRFYP--Y-QEGVV-VRNVTNERLFLGAQK 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE-------CCHHHHHHHHHcCCccEEEecCCC--C-CCCeE-EEEeeccceEEEeCC
Confidence 345677777777652 33455543 346789999999999998853211 1 12222 346666676666544
Q ss_pred c
Q 004042 572 R 572 (777)
Q Consensus 572 ~ 572 (777)
.
T Consensus 82 ~ 82 (198)
T cd08485 82 S 82 (198)
T ss_pred C
Confidence 4
No 484
>PRK05723 flavodoxin; Provisional
Probab=41.23 E-value=1.8e+02 Score=26.60 Aligned_cols=79 Identities=9% Similarity=-0.034 Sum_probs=44.9
Q ss_pred EEEEEE-EeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh-------hHHH
Q 004042 166 AVSVIF-VDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-------SLGF 237 (777)
Q Consensus 166 ~vaii~-~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~-------~~~~ 237 (777)
+|.|+| +.....+..++.+.+.+.+.|.++...... . ..++. +..++.+|++++. +++.
T Consensus 2 ~i~I~ygS~tG~ae~~A~~la~~l~~~g~~~~~~~~~--~----~~~~~-------~~~~~~li~~~sT~G~Ge~Pd~~~ 68 (151)
T PRK05723 2 KVAILSGSVYGTAEEVARHAESLLKAAGFEAWHNPRA--S----LQDLQ-------AFAPEALLAVTSTTGMGELPDNLM 68 (151)
T ss_pred eEEEEEEcCchHHHHHHHHHHHHHHHCCCceeecCcC--C----HhHHH-------hCCCCeEEEEECCCCCCCCchhHH
Confidence 678888 455566677888988898888876432211 1 22222 2234455554432 5677
Q ss_pred HHHHHHHHc---CCCCCCeEEEE
Q 004042 238 QVFSVAKYL---GMMGNGYVWIA 257 (777)
Q Consensus 238 ~~l~~a~~~---gl~~~~~~~i~ 257 (777)
.|.+.+++. .+.+..|..++
T Consensus 69 ~f~~~L~~~~~~~l~~~~~aVfG 91 (151)
T PRK05723 69 PLYSAIRDQLPAAWRGLPGAVIA 91 (151)
T ss_pred HHHHHHHhcCccCCCCCEEEEEe
Confidence 777777653 34333444443
No 485
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=41.02 E-value=2.4e+02 Score=27.09 Aligned_cols=87 Identities=11% Similarity=0.018 Sum_probs=53.1
Q ss_pred cEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh----hHHHHHH
Q 004042 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP----SLGFQVF 240 (777)
Q Consensus 165 ~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~----~~~~~~l 240 (777)
.+|.+.....+.-.-+..-+...++..|+++..-. . .......+..+++.++++|.+.+.. ..+..++
T Consensus 83 ~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG---~-----~~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i 154 (201)
T cd02070 83 GKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLG---R-----DVPPEEFVEAVKEHKPDILGLSALMTTTMGGMKEVI 154 (201)
T ss_pred CeEEEEecCCccchHHHHHHHHHHHHCCCEEEECC---C-----CCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHH
Confidence 35554444444444456677788888999875321 1 2234456666666789998887632 5677777
Q ss_pred HHHHHcCCCCCCeEEEEeC
Q 004042 241 SVAKYLGMMGNGYVWIATD 259 (777)
Q Consensus 241 ~~a~~~gl~~~~~~~i~~~ 259 (777)
+++++.+....-.++++..
T Consensus 155 ~~lr~~~~~~~~~i~vGG~ 173 (201)
T cd02070 155 EALKEAGLRDKVKVMVGGA 173 (201)
T ss_pred HHHHHCCCCcCCeEEEECC
Confidence 8888776433334555543
No 486
>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=40.85 E-value=1.2e+02 Score=27.04 Aligned_cols=47 Identities=15% Similarity=0.306 Sum_probs=34.8
Q ss_pred HHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecC
Q 004042 181 VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (777)
Q Consensus 181 ~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~ 232 (777)
...+.+.+++.|.++......+.+ ...+.+.++++.+. +|+|+..+.
T Consensus 21 ~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~i~~~~~~-~DlvittGG 67 (133)
T cd00758 21 GPALEALLEDLGCEVIYAGVVPDD----ADSIRAALIEASRE-ADLVLTTGG 67 (133)
T ss_pred HHHHHHHHHHCCCEEEEeeecCCC----HHHHHHHHHHHHhc-CCEEEECCC
Confidence 456788889999988766566533 77788888887654 899998654
No 487
>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=40.77 E-value=2.1e+02 Score=28.80 Aligned_cols=88 Identities=14% Similarity=0.092 Sum_probs=58.1
Q ss_pred HHHHHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec
Q 004042 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (777)
Q Consensus 152 ~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~ 231 (777)
...++......|..-+++++ +..|.....+.++..-+..++.+.....+- + .-|+.+.+..++|+|++..
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 35556667788999999887 555677777778776666677766544331 1 2367777888999999965
Q ss_pred Ch---hHHHHHHHHHHHcCCC
Q 004042 232 SP---SLGFQVFSVAKYLGMM 249 (777)
Q Consensus 232 ~~---~~~~~~l~~a~~~gl~ 249 (777)
.. .....++..|.++||.
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 43 5568999999999985
No 488
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=40.47 E-value=1.2e+02 Score=32.30 Aligned_cols=83 Identities=7% Similarity=-0.020 Sum_probs=55.3
Q ss_pred HHHHHHHHhcCC-cEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEec
Q 004042 153 TAVAEMVSYYGW-NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (777)
Q Consensus 153 ~a~~~~l~~~~w-~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~ 231 (777)
..+.++++.++. +++.+|.....+.. ..+.+++.+++.| .+... +.+. .+.+.+...++.+++.++|+||..+
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~~~-~~~~l~~~l~~~~-~~~~~--~~~~--~t~~~v~~~~~~~~~~~~d~IIaiG 95 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTKKI-AGDRVEENLEDAG-DVEVV--IVDE--ATMEEVEKVEEKAKDVNAGFLIGVG 95 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHHHH-HHHHHHHHHHhcC-CeeEE--eCCC--CCHHHHHHHHHHhhccCCCEEEEeC
Confidence 445566777775 78888875554432 4567788887777 54322 3233 4577888889999988899999876
Q ss_pred Ch--hHHHHHHH
Q 004042 232 SP--SLGFQVFS 241 (777)
Q Consensus 232 ~~--~~~~~~l~ 241 (777)
.+ .|+..++.
T Consensus 96 GGsv~D~ak~vA 107 (350)
T PRK00843 96 GGKVIDVAKLAA 107 (350)
T ss_pred CchHHHHHHHHH
Confidence 65 35555554
No 489
>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=40.42 E-value=1.7e+02 Score=26.02 Aligned_cols=62 Identities=10% Similarity=0.044 Sum_probs=44.2
Q ss_pred chHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecCh----hHHHHHHHHHHHcCC
Q 004042 179 NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP----SLGFQVFSVAKYLGM 248 (777)
Q Consensus 179 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~----~~~~~~l~~a~~~gl 248 (777)
-..+-+...++..|++|...... ......++..++.++++|.+++.. .....+++++++.|.
T Consensus 17 ~g~~iv~~~l~~~GfeVi~lg~~--------~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~ 82 (132)
T TIGR00640 17 RGAKVIATAYADLGFDVDVGPLF--------QTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGR 82 (132)
T ss_pred HHHHHHHHHHHhCCcEEEECCCC--------CCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCC
Confidence 34566777888999998765433 233456777778899999997754 456677777877775
No 490
>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=40.36 E-value=1.4e+02 Score=27.22 Aligned_cols=64 Identities=17% Similarity=0.170 Sum_probs=42.6
Q ss_pred EEEEEEEeCc-c-cc---chHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhc-CCCeEEEEecCh
Q 004042 166 AVSVIFVDNE-Y-GR---NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHVSP 233 (777)
Q Consensus 166 ~vaii~~~~~-~-g~---~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vIvl~~~~ 233 (777)
++++|...++ + |+ .....+.+.+++.|.++.....++.+ ..++.+.+++..+ ++.|+||..+..
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~l~~~~~~~~~DlVittGG~ 71 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVPDD----KDEIREALIEWADEDGVDLILTTGGT 71 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcCCC----HHHHHHHHHHHHhcCCCCEEEECCCc
Confidence 5677764442 2 11 12346788899999998877767644 6777787777654 378999986543
No 491
>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=40.25 E-value=1.3e+02 Score=29.95 Aligned_cols=76 Identities=11% Similarity=0.020 Sum_probs=51.7
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|+++.+ +++|.......+.+.+++.|..+.... .. .+.....+.++.+...++|.|++....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~~---~~--~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYSTFVAN---TG--DNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELT 75 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEe---CC--CCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHH
Confidence 566665 466778888899999999998875322 11 124456677888888899988886543332 3467777
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.+.
T Consensus 76 ~~~i 79 (265)
T cd06285 76 RRGV 79 (265)
T ss_pred HcCC
Confidence 7664
No 492
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=40.20 E-value=2.5e+02 Score=28.68 Aligned_cols=65 Identities=9% Similarity=0.061 Sum_probs=42.1
Q ss_pred HHHHHHHHHHCCCeecEEEEecCCCCCCCChhHHHHHHhcCceeEEEeeEEEeecccceeeecccccccceEEEEecc
Q 004042 495 IDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (777)
Q Consensus 495 ~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~~v~~~ 572 (777)
..++..+.++.+.+ +++.. +.-..++..+.+|++|+++..- ......+ .+.|+....+.++++..
T Consensus 106 ~~~l~~f~~~~~i~--i~l~~-------~~~~~~~~~l~~~~~d~~i~~~---~~~~~~l-~~~~l~~~~~~lv~~~~ 170 (294)
T PRK03635 106 LPALAPVLARSGVL--LDLVV-------EDQDHTAELLRRGEVVGAVTTE---PQPVQGC-RVDPLGAMRYLAVASPA 170 (294)
T ss_pred HHHHHHHHhCCCcE--EEEEe-------cCcHHHHHHHhCCCceEEEecc---CCCCCCc-eeeecccceEEEEEcch
Confidence 34566676665444 55443 3456789999999999987532 2222333 45778888888887654
No 493
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=40.20 E-value=62 Score=30.56 Aligned_cols=29 Identities=21% Similarity=0.442 Sum_probs=25.8
Q ss_pred EEEEcCCChhHHHHHHHhhccCCceEEec
Q 004042 98 VAIIGPQCSTVAHIVSYVSNELQVPLLSF 126 (777)
Q Consensus 98 ~aviGp~~s~~~~~va~~~~~~~iP~Is~ 126 (777)
.+|+||.+++-+.....+++.+++|+|+.
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlst 31 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDT 31 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcH
Confidence 57999999998888889999999999973
No 494
>PRK13054 lipid kinase; Reviewed
Probab=40.13 E-value=1.6e+02 Score=30.51 Aligned_cols=76 Identities=9% Similarity=0.032 Sum_probs=48.8
Q ss_pred cEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 165 ~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
+++.+|+....-+......+...+.+.|+++....+-. ..+...+.+++...+.|+||+.+.......++..+.
T Consensus 4 ~~~~~i~N~~~~~~~~~~~~~~~l~~~g~~~~v~~t~~------~~~a~~~a~~~~~~~~d~vvv~GGDGTl~evv~~l~ 77 (300)
T PRK13054 4 PKSLLILNGKSAGNEELREAVGLLREEGHTLHVRVTWE------KGDAARYVEEALALGVATVIAGGGDGTINEVATALA 77 (300)
T ss_pred ceEEEEECCCccchHHHHHHHHHHHHcCCEEEEEEecC------CCcHHHHHHHHHHcCCCEEEEECCccHHHHHHHHHH
Confidence 57778875332233445566677888888765433222 335566666666667888888777777777877776
Q ss_pred Hc
Q 004042 245 YL 246 (777)
Q Consensus 245 ~~ 246 (777)
+.
T Consensus 78 ~~ 79 (300)
T PRK13054 78 QL 79 (300)
T ss_pred hh
Confidence 43
No 495
>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=40.01 E-value=1.2e+02 Score=30.32 Aligned_cols=76 Identities=12% Similarity=0.079 Sum_probs=50.3
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|++|.+ ++.+.....+.+++.+++.|..+..... . .+..+....++.+...++|.|++...... ...++.+.
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 566664 3556677788899999999988765322 1 12455667888888888999988654332 33555566
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.++
T Consensus 76 ~~~i 79 (268)
T cd01575 76 AAGI 79 (268)
T ss_pred hcCC
Confidence 6554
No 496
>cd08184 Fe-ADH3 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the iron-containing alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron or zinc ions. Members of this family are mainly found in bacteria.
Probab=39.91 E-value=1.5e+02 Score=31.48 Aligned_cols=84 Identities=13% Similarity=0.022 Sum_probs=52.4
Q ss_pred HHHHHHHHhcCC--cEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcC---CCeEE
Q 004042 153 TAVAEMVSYYGW--NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVI 227 (777)
Q Consensus 153 ~a~~~~l~~~~w--~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vI 227 (777)
..+.++++.++. +++.+++ +...-. ..+.+.+++.|+.+..-..+.++ .+.++.....+..++. ++|.|
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvt-d~~~~~---~~v~~~L~~~g~~~~~f~~v~~n--Pt~~~v~~~~~~~~~~~~~~~D~I 85 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFV-DDVFQG---KDLISRLPVESEDMIIWVDATEE--PKTDQIDALTAQVKSFDGKLPCAI 85 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEE-Ccchhh---hHHHHHHHhcCCcEEEEcCCCCC--cCHHHHHHHHHHHHhhCCCCCCEE
Confidence 445566777763 5566666 322211 56677788878765433344444 4567788888888876 89999
Q ss_pred EEecChh--HHHHHHHH
Q 004042 228 VLHVSPS--LGFQVFSV 242 (777)
Q Consensus 228 vl~~~~~--~~~~~l~~ 242 (777)
|..+.+. |+...+..
T Consensus 86 IaiGGGS~iD~AKaia~ 102 (347)
T cd08184 86 VGIGGGSTLDVAKAVSN 102 (347)
T ss_pred EEeCCcHHHHHHHHHHH
Confidence 9876653 45545443
No 497
>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=39.58 E-value=4e+02 Score=26.64 Aligned_cols=120 Identities=13% Similarity=0.044 Sum_probs=62.3
Q ss_pred EEEEEEeeCCCcchhhHHHHHHHHHHHHhccCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 004042 32 VNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (777)
Q Consensus 32 i~IG~l~~~s~~~g~~~~~a~~lAve~iN~~~gil~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~v~aviGp~~s~~~~~ 111 (777)
=+||++.+...........|++.++++.|.. .+ ..+...+......+...+.+.+.++++.+..+|+.. ++..+..
T Consensus 122 ~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~-nd~~A~g 197 (265)
T cd06354 122 GKVGFIGGMDIPLIRRFEAGFEAGVKYVNPG--VP-DIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAA-AGGTGNG 197 (265)
T ss_pred CeEEEEecccChHHHHHHHHHHHHHHHHhcc--CC-CceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEEC-CCCCchH
Confidence 4678775433222222336888888776521 10 122222222222234556667778887677888874 4444445
Q ss_pred HHHhhccCCceEEecccCCCCCCCCCCCceEEecCCchHHHHHHHH
Q 004042 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAE 157 (777)
Q Consensus 112 va~~~~~~~iP~Is~~a~~~~l~~~~~~~~~r~~p~~~~~~~a~~~ 157 (777)
+...+...++.++++... .+.....|.+..+......++.-++.
T Consensus 198 v~~al~~~gisIvGfD~~--~~~~~~~p~lttv~~~~~~~~~~~~~ 241 (265)
T cd06354 198 VFQAAKEAGVYAIGVDSD--QYYLAPGVVLTSMVKRVDVAVYDAIK 241 (265)
T ss_pred HHHHHHhcCCeEEEecCc--ccccCCCcEEEEEeehhHHHHHHHHH
Confidence 555566667777776442 23332345555554444444433333
No 498
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=39.36 E-value=1.2e+02 Score=30.32 Aligned_cols=75 Identities=12% Similarity=0.150 Sum_probs=50.4
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|+++.+ +++|.....+.+.+.+++.|..+.... .+ . .. +....++++...++|.|++....... ..++.+.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~-~~-~---~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~ 74 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQPLLIN-TD-D---DE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECR 74 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCeEEEEc-CC-C---CH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 456654 456777788889999999998876432 11 1 13 66678888888889988886543322 3477777
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.|+
T Consensus 75 ~~~i 78 (266)
T cd06278 75 RNGI 78 (266)
T ss_pred hcCC
Confidence 6665
No 499
>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=39.32 E-value=1.3e+02 Score=29.97 Aligned_cols=76 Identities=9% Similarity=0.046 Sum_probs=50.4
Q ss_pred EEEEEE--eCccccchHHHHHHHHhhcceEEEEeeecCCCCCCChhhHHHHHHHHhcCCCeEEEEecChhHHHHHHHHHH
Q 004042 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (777)
Q Consensus 167 vaii~~--~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIvl~~~~~~~~~~l~~a~ 244 (777)
|+++.. ++.|.......+.+.+++.|..+...... .+.......++.+...+.|.|++.....+.. .++.+.
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 45677777888999999999887654221 1244556778888888999998875433222 266666
Q ss_pred HcCC
Q 004042 245 YLGM 248 (777)
Q Consensus 245 ~~gl 248 (777)
+.+.
T Consensus 76 ~~~i 79 (264)
T cd06274 76 KAGL 79 (264)
T ss_pred hcCC
Confidence 6664
No 500
>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=39.21 E-value=2.5e+02 Score=29.78 Aligned_cols=97 Identities=10% Similarity=0.019 Sum_probs=58.4
Q ss_pred HHHHHHhcCCcEEEEEEEeCccccchHHHHHHHHhhcceEEEEeeecCCCC-CCChhhHHHHHHHHhcCCC---eEEEEe
Q 004042 155 VAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-GVNTGYVMDLLVKVALMES---RVIVLH 230 (777)
Q Consensus 155 ~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~-~~~~~d~~~~l~~l~~~~~---~vIvl~ 230 (777)
+.+.++. .+++.+|+....+ ....+.+.+.+++.|+.+.... ++... ..+.+.....++.+++.+. |.||..
T Consensus 13 l~~~l~~--~~~~livtd~~~~-~~~~~~v~~~L~~~g~~~~~~~-~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIav 88 (344)
T TIGR01357 13 LVEELAE--PSKLVIITDETVA-DLYADKLLEALQALGYNVLKLT-VPDGEESKSLETVQRLYDQLLEAGLDRSSTIIAL 88 (344)
T ss_pred HHHHhhc--CCeEEEEECCchH-HHHHHHHHHHHHhcCCceeEEE-eCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEE
Confidence 4445555 3899988854444 3467778888888887653221 32211 1345778888888877654 888877
Q ss_pred cCh--hHHHHHHHHHHHcCCCCCCeEEEEe
Q 004042 231 VSP--SLGFQVFSVAKYLGMMGNGYVWIAT 258 (777)
Q Consensus 231 ~~~--~~~~~~l~~a~~~gl~~~~~~~i~~ 258 (777)
+.+ -++..++......++ .++-|-|
T Consensus 89 GGGsv~D~aK~iA~~~~~~~---p~i~VPT 115 (344)
T TIGR01357 89 GGGVVGDLAGFVAATYMRGI---RFIQVPT 115 (344)
T ss_pred cChHHHHHHHHHHHHHccCC---CEEEecC
Confidence 665 456666655454443 3444444
Done!