Query 002267
Match_columns 945
No_of_seqs 528 out of 4025
Neff 9.7
Searched_HMMs 46136
Date Thu Mar 28 20:16:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002267.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002267hhsearch_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 2.2E-87 4.7E-92 698.2 50.2 782 47-883 23-846 (897)
2 KOG4440 NMDA selective glutama 100.0 1.3E-80 2.8E-85 650.3 37.2 747 46-882 31-857 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 3.2E-74 7E-79 624.6 59.4 710 91-877 76-851 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 5.5E-66 1.2E-70 617.0 55.5 600 232-882 5-624 (656)
5 cd06392 PBP1_iGluR_delta_1 N-t 100.0 5.5E-47 1.2E-51 415.5 38.7 366 52-442 1-399 (400)
6 cd06374 PBP1_mGluR_groupI Liga 100.0 4.3E-47 9.4E-52 436.6 39.3 377 46-443 5-469 (472)
7 cd06375 PBP1_mGluR_groupII Lig 100.0 1.3E-46 2.9E-51 428.3 40.4 367 49-437 1-454 (458)
8 cd06362 PBP1_mGluR Ligand bind 100.0 2.2E-46 4.8E-51 430.7 40.1 373 49-441 1-450 (452)
9 cd06361 PBP1_GPC6A_like Ligand 100.0 2.3E-46 5.1E-51 419.0 38.7 333 64-439 34-395 (403)
10 cd06364 PBP1_CaSR Ligand-bindi 100.0 4.3E-46 9.4E-51 428.3 41.9 375 46-438 8-494 (510)
11 cd06365 PBP1_Pheromone_recepto 100.0 3.1E-46 6.7E-51 427.2 39.1 368 49-437 1-452 (469)
12 cd06393 PBP1_iGluR_Kainate_Glu 100.0 5E-46 1.1E-50 417.1 38.6 368 50-442 2-382 (384)
13 cd06376 PBP1_mGluR_groupIII Li 100.0 8.4E-46 1.8E-50 425.2 40.5 369 49-437 1-452 (463)
14 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 1E-44 2.2E-49 398.5 38.6 358 52-441 1-363 (364)
15 cd06391 PBP1_iGluR_delta_2 N-t 100.0 6.2E-44 1.3E-48 396.4 38.9 368 52-441 1-398 (400)
16 cd06386 PBP1_NPR_C_like Ligand 100.0 8.7E-44 1.9E-48 398.7 40.4 354 54-438 3-379 (387)
17 cd06380 PBP1_iGluR_AMPA N-term 100.0 1.1E-43 2.5E-48 399.3 40.8 375 52-441 1-381 (382)
18 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 1E-43 2.3E-48 398.3 40.2 332 48-438 17-364 (377)
19 cd06366 PBP1_GABAb_receptor Li 100.0 7.3E-44 1.6E-48 396.5 36.8 342 52-443 1-348 (350)
20 cd06370 PBP1_Speract_GC_like L 100.0 1.6E-43 3.5E-48 399.7 38.2 354 51-433 1-390 (404)
21 cd06373 PBP1_NPR_like Ligand b 100.0 1.6E-43 3.4E-48 400.0 37.3 361 52-439 1-390 (396)
22 cd06367 PBP1_iGluR_NMDA N-term 100.0 2E-43 4.3E-48 394.3 36.0 339 50-437 2-351 (362)
23 cd06363 PBP1_Taste_receptor Li 100.0 4E-43 8.6E-48 397.3 38.8 351 47-438 3-396 (410)
24 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 9.6E-43 2.1E-47 381.3 39.8 364 52-441 1-371 (372)
25 cd06385 PBP1_NPR_A Ligand-bind 100.0 5.3E-43 1.1E-47 396.6 39.1 360 52-439 1-392 (405)
26 cd06371 PBP1_sensory_GC_DEF_li 100.0 5.2E-43 1.1E-47 391.3 38.1 353 52-436 1-370 (382)
27 cd06372 PBP1_GC_G_like Ligand- 100.0 1.4E-42 3E-47 391.5 39.3 360 52-439 1-387 (391)
28 cd06352 PBP1_NPR_GC_like Ligan 100.0 1.9E-42 4.2E-47 391.0 39.5 363 52-440 1-384 (389)
29 KOG1056 Glutamate-gated metabo 100.0 6.7E-42 1.5E-46 388.4 37.2 396 44-479 25-494 (878)
30 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 2.7E-41 5.9E-46 373.3 39.6 364 52-442 1-370 (371)
31 cd06384 PBP1_NPR_B Ligand-bind 100.0 2.3E-41 4.9E-46 381.8 38.4 360 52-439 1-393 (399)
32 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 8.2E-41 1.8E-45 370.7 39.1 361 52-442 1-369 (370)
33 cd06382 PBP1_iGluR_Kainate N-t 100.0 1.8E-41 3.8E-46 373.4 30.4 319 52-441 1-326 (327)
34 cd06394 PBP1_iGluR_Kainate_KA1 100.0 1.2E-40 2.7E-45 359.0 27.2 324 52-442 1-332 (333)
35 PRK15404 leucine ABC transport 100.0 3.1E-39 6.8E-44 359.1 36.5 338 48-430 23-365 (369)
36 cd06368 PBP1_iGluR_non_NMDA_li 100.0 6.5E-38 1.4E-42 345.1 31.8 319 52-441 1-323 (324)
37 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 1.3E-37 2.9E-42 344.6 34.3 328 52-424 1-334 (334)
38 PF01094 ANF_receptor: Recepto 100.0 1.1E-37 2.4E-42 347.7 32.6 337 67-425 2-348 (348)
39 cd06338 PBP1_ABC_ligand_bindin 100.0 3.6E-37 7.9E-42 342.3 31.6 329 52-424 1-345 (345)
40 cd06346 PBP1_ABC_ligand_bindin 100.0 3.6E-37 7.8E-42 336.3 29.4 304 52-421 1-310 (312)
41 cd06345 PBP1_ABC_ligand_bindin 100.0 8.3E-37 1.8E-41 338.8 32.2 322 52-417 1-339 (344)
42 cd06350 PBP1_GPCR_family_C_lik 100.0 9.6E-37 2.1E-41 339.5 32.5 308 52-438 1-340 (348)
43 cd06348 PBP1_ABC_ligand_bindin 100.0 4E-36 8.6E-41 333.5 34.0 334 52-421 1-343 (344)
44 cd06381 PBP1_iGluR_delta_like 100.0 1.2E-35 2.6E-40 326.6 36.5 335 52-441 1-362 (363)
45 cd06355 PBP1_FmdD_like Peripla 100.0 2E-35 4.3E-40 327.3 33.8 337 52-432 1-345 (348)
46 cd06344 PBP1_ABC_ligand_bindin 100.0 1.5E-35 3.2E-40 326.9 30.7 320 52-417 1-327 (332)
47 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 1.4E-35 3E-40 325.6 29.7 299 97-438 43-351 (362)
48 cd06340 PBP1_ABC_ligand_bindin 100.0 1.5E-35 3.3E-40 328.5 30.4 324 52-417 1-342 (347)
49 COG0683 LivK ABC-type branched 100.0 3.6E-35 7.8E-40 325.8 32.7 339 48-428 8-356 (366)
50 TIGR03669 urea_ABC_arch urea A 100.0 8.4E-35 1.8E-39 322.4 34.1 341 51-436 1-349 (374)
51 cd06329 PBP1_SBP_like_3 Peripl 100.0 5.1E-35 1.1E-39 323.8 30.9 318 52-415 1-336 (342)
52 cd06343 PBP1_ABC_ligand_bindin 100.0 4.4E-34 9.6E-39 319.5 34.8 341 48-429 4-362 (362)
53 TIGR03407 urea_ABC_UrtA urea A 100.0 5.9E-34 1.3E-38 316.7 34.4 330 51-425 1-338 (359)
54 cd06347 PBP1_ABC_ligand_bindin 100.0 5.2E-34 1.1E-38 315.9 33.9 322 52-419 1-331 (334)
55 cd06331 PBP1_AmiC_like Type I 100.0 2.9E-34 6.2E-39 317.0 31.4 320 52-415 1-326 (333)
56 cd06349 PBP1_ABC_ligand_bindin 100.0 8E-34 1.7E-38 314.5 34.5 330 52-428 1-339 (340)
57 cd06327 PBP1_SBP_like_1 Peripl 100.0 1.9E-34 4.1E-39 318.5 29.0 321 52-418 1-331 (334)
58 cd06336 PBP1_ABC_ligand_bindin 100.0 2.2E-34 4.7E-39 319.3 28.4 324 52-419 1-344 (347)
59 cd06359 PBP1_Nba_like Type I p 100.0 1.3E-33 2.9E-38 311.4 32.4 324 52-422 1-331 (333)
60 cd06330 PBP1_Arsenic_SBP_like 100.0 8.3E-34 1.8E-38 315.4 30.9 320 52-411 1-333 (346)
61 cd06357 PBP1_AmiC Periplasmic 100.0 3.6E-33 7.8E-38 310.5 35.1 339 52-433 1-347 (360)
62 cd06328 PBP1_SBP_like_2 Peripl 100.0 3.5E-33 7.6E-38 307.5 31.8 322 52-419 1-331 (333)
63 cd06360 PBP1_alkylbenzenes_lik 100.0 7.5E-33 1.6E-37 306.7 33.2 325 52-419 1-332 (336)
64 PF13458 Peripla_BP_6: Peripla 100.0 4.2E-33 9E-38 309.9 29.6 331 50-426 1-340 (343)
65 cd06356 PBP1_Amide_Urea_BP_lik 100.0 9.1E-33 2E-37 304.4 31.9 316 52-413 1-325 (334)
66 KOG1055 GABA-B ion channel rec 100.0 5E-34 1.1E-38 312.4 21.3 372 46-439 37-431 (865)
67 cd06383 PBP1_iGluR_AMPA_Like N 100.0 1.7E-33 3.6E-38 310.2 25.2 330 60-415 7-351 (368)
68 cd06358 PBP1_NHase Type I peri 100.0 1.5E-32 3.2E-37 303.2 32.2 315 52-413 1-324 (333)
69 cd06334 PBP1_ABC_ligand_bindin 100.0 1.9E-32 4.1E-37 302.5 30.5 333 52-412 1-346 (351)
70 cd06335 PBP1_ABC_ligand_bindin 100.0 4.6E-32 9.9E-37 300.7 31.2 321 52-412 1-336 (347)
71 PF13433 Peripla_BP_5: Peripla 100.0 1.2E-31 2.5E-36 280.9 28.2 316 51-410 1-323 (363)
72 cd06332 PBP1_aromatic_compound 100.0 2.5E-31 5.3E-36 294.3 32.4 320 52-417 1-327 (333)
73 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 4.9E-31 1.1E-35 291.4 32.1 317 52-437 1-322 (328)
74 cd06337 PBP1_ABC_ligand_bindin 100.0 7.2E-31 1.6E-35 291.9 28.3 328 52-428 1-356 (357)
75 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 2E-29 4.2E-34 271.2 37.6 337 48-439 16-372 (382)
76 cd06326 PBP1_STKc_like Type I 100.0 9E-29 2E-33 274.0 31.2 318 51-411 1-327 (336)
77 cd06339 PBP1_YraM_LppC_lipopro 100.0 2.2E-29 4.9E-34 277.0 25.0 302 52-414 1-329 (336)
78 TIGR03863 PQQ_ABC_bind ABC tra 100.0 4E-29 8.7E-34 272.8 26.1 292 64-417 10-309 (347)
79 cd06341 PBP1_ABC_ligand_bindin 100.0 4.6E-27 1E-31 260.7 29.3 309 52-404 1-318 (341)
80 cd06269 PBP1_glutamate_recepto 100.0 6.8E-27 1.5E-31 254.4 27.1 223 52-280 1-234 (298)
81 cd06333 PBP1_ABC-type_HAAT_lik 100.0 1.6E-26 3.4E-31 252.9 28.8 278 52-347 1-293 (312)
82 cd04509 PBP1_ABC_transporter_G 100.0 9.4E-27 2E-31 253.3 26.8 280 52-345 1-290 (299)
83 cd06268 PBP1_ABC_transporter_L 99.9 7.4E-25 1.6E-29 238.3 28.0 280 52-347 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 1.4E-23 3.1E-28 219.1 29.5 323 65-439 18-366 (380)
85 PRK09495 glnH glutamine ABC tr 99.9 1E-20 2.2E-25 199.2 20.5 220 484-830 24-244 (247)
86 PRK10797 glutamate and asparta 99.9 1.7E-20 3.6E-25 201.8 21.6 225 484-831 39-273 (302)
87 PF00497 SBP_bac_3: Bacterial 99.8 2.2E-20 4.7E-25 194.0 16.0 222 487-829 1-224 (225)
88 PRK15010 ABC transporter lysin 99.8 1.5E-19 3.1E-24 191.7 21.2 223 483-829 24-254 (260)
89 PRK11917 bifunctional adhesin/ 99.8 2.7E-19 5.8E-24 188.6 21.1 219 483-828 36-258 (259)
90 PRK11260 cystine transporter s 99.8 1.7E-19 3.8E-24 191.8 19.9 222 482-829 38-261 (266)
91 PRK15007 putative ABC transpor 99.8 4.5E-19 9.7E-24 186.4 20.5 217 484-829 20-242 (243)
92 TIGR01096 3A0103s03R lysine-ar 99.8 8.9E-19 1.9E-23 185.1 20.8 219 485-828 24-250 (250)
93 PRK15437 histidine ABC transpo 99.8 8.6E-19 1.9E-23 185.7 20.4 224 483-830 24-255 (259)
94 TIGR02995 ectoine_ehuB ectoine 99.8 1.6E-18 3.6E-23 185.1 18.7 223 483-828 31-260 (275)
95 PRK10859 membrane-bound lytic 99.7 2.1E-17 4.6E-22 189.4 18.5 222 482-829 40-266 (482)
96 PF00060 Lig_chan: Ligand-gate 99.7 8.9E-19 1.9E-23 168.4 1.4 107 606-712 1-115 (148)
97 PRK09959 hybrid sensory histid 99.7 5.5E-16 1.2E-20 200.5 23.4 216 485-829 302-520 (1197)
98 TIGR03870 ABC_MoxJ methanol ox 99.7 4.6E-16 1E-20 163.0 16.9 209 486-827 1-241 (246)
99 TIGR02285 conserved hypothetic 99.7 4.9E-16 1.1E-20 165.5 16.0 230 484-829 17-261 (268)
100 COG0834 HisJ ABC-type amino ac 99.7 3.7E-15 8E-20 160.0 19.7 225 483-829 32-264 (275)
101 cd00134 PBPb Bacterial peripla 99.6 7.3E-15 1.6E-19 151.0 19.0 215 487-828 1-218 (218)
102 cd01391 Periplasmic_Binding_Pr 99.6 2.1E-14 4.6E-19 152.9 22.7 217 52-280 1-221 (269)
103 PRK09959 hybrid sensory histid 99.6 3.7E-15 8E-20 192.9 20.1 222 483-830 54-278 (1197)
104 TIGR03871 ABC_peri_MoxJ_2 quin 99.6 9.3E-15 2E-19 152.4 18.4 212 486-828 1-228 (232)
105 smart00062 PBPb Bacterial peri 99.6 1.6E-14 3.5E-19 148.4 19.6 216 486-828 1-219 (219)
106 PF04348 LppC: LppC putative l 99.4 2.1E-11 4.6E-16 139.8 21.3 299 48-413 217-523 (536)
107 smart00079 PBPe Eukaryotic hom 99.3 7E-12 1.5E-16 118.1 10.8 123 701-829 1-133 (134)
108 COG4623 Predicted soluble lyti 99.3 1.4E-11 3E-16 125.9 12.9 219 484-829 22-247 (473)
109 TIGR01098 3A0109s03R phosphate 98.9 1.6E-08 3.4E-13 107.0 14.5 199 485-814 32-254 (254)
110 cd01537 PBP1_Repressors_Sugar_ 98.9 7.5E-08 1.6E-12 102.3 18.9 205 52-274 1-211 (264)
111 cd01536 PBP1_ABC_sugar_binding 98.8 5E-07 1.1E-11 96.2 22.1 205 52-275 1-214 (267)
112 cd06267 PBP1_LacI_sugar_bindin 98.7 5.1E-07 1.1E-11 95.8 18.6 205 52-274 1-210 (264)
113 PRK00489 hisG ATP phosphoribos 98.7 5.9E-08 1.3E-12 103.4 10.9 164 543-829 51-219 (287)
114 cd06325 PBP1_ABC_uncharacteriz 98.7 9.8E-07 2.1E-11 94.8 19.8 201 52-265 1-208 (281)
115 cd06300 PBP1_ABC_sugar_binding 98.6 3.6E-06 7.8E-11 90.0 21.5 201 52-267 1-210 (272)
116 PF10613 Lig_chan-Glu_bd: Liga 98.6 2.3E-08 4.9E-13 77.8 2.9 47 506-554 14-65 (65)
117 COG3107 LppC Putative lipoprot 98.6 4.5E-06 9.8E-11 90.2 19.8 296 47-413 254-585 (604)
118 cd06320 PBP1_allose_binding Pe 98.6 1E-05 2.3E-10 86.5 22.9 207 52-275 1-215 (275)
119 COG2984 ABC-type uncharacteriz 98.5 3E-05 6.5E-10 79.9 22.1 203 47-265 27-240 (322)
120 cd06282 PBP1_GntR_like_2 Ligan 98.4 2.6E-05 5.5E-10 83.0 20.0 200 52-271 1-206 (266)
121 cd06323 PBP1_ribose_binding Pe 98.3 7.7E-05 1.7E-09 79.4 21.9 204 53-276 2-214 (268)
122 PRK10653 D-ribose transporter 98.3 0.00026 5.6E-09 76.6 24.9 208 50-276 26-240 (295)
123 cd06319 PBP1_ABC_sugar_binding 98.2 0.00015 3.2E-09 77.7 21.6 208 52-276 1-219 (277)
124 cd06273 PBP1_GntR_like_1 This 98.2 7E-05 1.5E-09 79.7 18.8 198 52-269 1-206 (268)
125 cd06317 PBP1_ABC_sugar_binding 98.2 0.00012 2.6E-09 78.3 20.5 209 52-275 1-220 (275)
126 cd06312 PBP1_ABC_sugar_binding 98.1 0.00034 7.3E-09 74.7 22.4 208 52-275 1-216 (271)
127 cd06305 PBP1_methylthioribose_ 98.1 0.00028 6E-09 75.3 21.0 208 52-276 1-217 (273)
128 cd06301 PBP1_rhizopine_binding 98.1 0.00037 8.1E-09 74.3 21.9 209 52-276 1-218 (272)
129 TIGR03431 PhnD phosphonate ABC 98.1 3.7E-05 7.9E-10 82.8 13.8 116 701-822 126-257 (288)
130 cd06310 PBP1_ABC_sugar_binding 98.1 0.00069 1.5E-08 72.3 23.2 209 52-276 1-217 (273)
131 PF13407 Peripla_BP_4: Peripla 98.1 0.00024 5.2E-09 75.1 19.2 202 53-268 1-209 (257)
132 cd01545 PBP1_SalR Ligand-bindi 98.0 0.00031 6.7E-09 74.8 19.0 208 52-276 1-215 (270)
133 cd06309 PBP1_YtfQ_like Peripla 98.0 0.00088 1.9E-08 71.5 21.4 208 52-274 1-218 (273)
134 PRK10936 TMAO reductase system 98.0 0.0031 6.6E-08 69.8 26.0 200 48-265 44-254 (343)
135 cd06289 PBP1_MalI_like Ligand- 97.8 0.00084 1.8E-08 71.4 18.4 208 52-276 1-214 (268)
136 cd06298 PBP1_CcpA_like Ligand- 97.8 0.00096 2.1E-08 70.9 18.8 205 52-276 1-213 (268)
137 COG1879 RbsB ABC-type sugar tr 97.8 0.006 1.3E-07 66.9 24.3 209 50-274 33-250 (322)
138 cd06284 PBP1_LacI_like_6 Ligan 97.8 0.0018 3.9E-08 68.7 19.4 197 53-268 2-203 (267)
139 cd06303 PBP1_LuxPQ_Quorum_Sens 97.8 0.0037 8E-08 67.0 21.9 212 52-276 1-224 (280)
140 cd06311 PBP1_ABC_sugar_binding 97.8 0.0056 1.2E-07 65.3 23.1 202 53-266 2-210 (274)
141 cd01539 PBP1_GGBP Periplasmic 97.7 0.0044 9.4E-08 67.3 22.1 216 52-276 1-240 (303)
142 PRK15395 methyl-galactoside AB 97.7 0.0083 1.8E-07 65.9 24.5 208 48-265 22-249 (330)
143 PRK09701 D-allose transporter 97.7 0.013 2.8E-07 63.8 25.7 213 52-276 26-250 (311)
144 cd01540 PBP1_arabinose_binding 97.7 0.0047 1E-07 66.5 22.0 214 52-276 1-229 (289)
145 cd01542 PBP1_TreR_like Ligand- 97.6 0.0034 7.4E-08 66.3 19.3 200 53-275 2-207 (259)
146 cd06271 PBP1_AglR_RafR_like Li 97.6 0.0028 6E-08 67.3 18.7 201 53-272 2-212 (268)
147 TIGR01481 ccpA catabolite cont 97.6 0.0036 7.9E-08 68.9 19.9 208 49-276 58-272 (329)
148 PRK15408 autoinducer 2-binding 97.6 0.012 2.7E-07 64.5 23.7 199 51-266 24-234 (336)
149 cd06308 PBP1_sensor_kinase_lik 97.6 0.0083 1.8E-07 63.8 22.0 208 52-277 1-217 (270)
150 cd06321 PBP1_ABC_sugar_binding 97.6 0.0078 1.7E-07 64.1 21.6 206 52-276 1-214 (271)
151 cd06288 PBP1_sucrose_transcrip 97.6 0.0027 5.9E-08 67.5 17.9 202 52-274 1-210 (269)
152 cd06275 PBP1_PurR Ligand-bindi 97.6 0.0045 9.7E-08 65.8 19.5 205 52-273 1-210 (269)
153 cd06322 PBP1_ABC_sugar_binding 97.6 0.014 3E-07 62.0 23.1 194 53-265 2-203 (267)
154 cd01575 PBP1_GntR Ligand-bindi 97.6 0.0047 1E-07 65.5 19.3 206 52-275 1-212 (268)
155 cd06295 PBP1_CelR Ligand bindi 97.6 0.0041 9E-08 66.4 18.9 203 51-276 4-222 (275)
156 cd06281 PBP1_LacI_like_5 Ligan 97.6 0.0035 7.5E-08 66.7 18.1 205 52-275 1-211 (269)
157 cd06283 PBP1_RegR_EndR_KdgR_li 97.5 0.007 1.5E-07 64.2 20.1 204 52-273 1-210 (267)
158 PRK10355 xylF D-xylose transpo 97.5 0.028 6E-07 61.7 24.7 202 48-266 23-236 (330)
159 cd06306 PBP1_TorT-like TorT-li 97.5 0.012 2.6E-07 62.5 21.3 204 52-274 1-215 (268)
160 cd01538 PBP1_ABC_xylose_bindin 97.5 0.014 3.1E-07 62.7 21.7 199 52-267 1-216 (288)
161 cd06316 PBP1_ABC_sugar_binding 97.5 0.015 3.2E-07 62.8 21.9 211 52-276 1-219 (294)
162 cd06313 PBP1_ABC_sugar_binding 97.5 0.02 4.4E-07 60.9 22.5 193 66-276 16-216 (272)
163 cd06324 PBP1_ABC_sugar_binding 97.5 0.012 2.6E-07 63.9 21.0 210 53-276 2-238 (305)
164 cd06299 PBP1_LacI_like_13 Liga 97.5 0.0092 2E-07 63.2 19.6 205 52-274 1-208 (265)
165 cd06293 PBP1_LacI_like_11 Liga 97.5 0.011 2.4E-07 62.8 20.2 205 52-274 1-210 (269)
166 cd06278 PBP1_LacI_like_2 Ligan 97.5 0.008 1.7E-07 63.7 19.0 190 53-263 2-196 (266)
167 cd06274 PBP1_FruR Ligand bindi 97.5 0.013 2.8E-07 62.1 20.5 205 52-274 1-211 (264)
168 PRK10703 DNA-binding transcrip 97.4 0.008 1.7E-07 66.5 19.4 209 49-274 58-272 (341)
169 PF00532 Peripla_BP_1: Peripla 97.4 0.0085 1.8E-07 64.0 18.8 205 52-273 3-213 (279)
170 cd01574 PBP1_LacI Ligand-bindi 97.4 0.015 3.3E-07 61.5 20.8 197 52-269 1-202 (264)
171 cd06270 PBP1_GalS_like Ligand 97.4 0.011 2.5E-07 62.7 19.6 200 52-269 1-205 (268)
172 cd06285 PBP1_LacI_like_7 Ligan 97.4 0.0093 2E-07 63.2 18.8 204 52-276 1-211 (265)
173 cd06318 PBP1_ABC_sugar_binding 97.4 0.028 6.1E-07 60.1 22.5 205 52-274 1-222 (282)
174 cd06314 PBP1_tmGBP Periplasmic 97.4 0.041 8.9E-07 58.5 23.1 206 52-276 1-213 (271)
175 cd06292 PBP1_LacI_like_10 Liga 97.3 0.018 3.9E-07 61.3 20.1 206 53-274 2-214 (273)
176 PRK10014 DNA-binding transcrip 97.3 0.018 3.9E-07 63.7 20.6 203 49-268 63-270 (342)
177 cd06294 PBP1_ycjW_transcriptio 97.3 0.012 2.6E-07 62.5 18.4 207 52-276 1-219 (270)
178 cd06296 PBP1_CatR_like Ligand- 97.3 0.015 3.2E-07 61.8 19.0 207 52-276 1-214 (270)
179 PRK11303 DNA-binding transcrip 97.3 0.028 6E-07 61.8 21.7 203 49-271 60-268 (328)
180 PF04392 ABC_sub_bind: ABC tra 97.2 0.016 3.4E-07 62.5 18.3 185 52-250 1-194 (294)
181 cd06302 PBP1_LsrB_Quorum_Sensi 97.2 0.056 1.2E-06 58.4 22.6 207 52-275 1-218 (298)
182 PRK10423 transcriptional repre 97.2 0.029 6.3E-07 61.6 20.7 206 49-274 55-268 (327)
183 cd06307 PBP1_uncharacterized_s 97.2 0.049 1.1E-06 58.0 21.7 210 52-276 1-219 (275)
184 cd06291 PBP1_Qymf_like Ligand 97.2 0.025 5.4E-07 59.9 18.8 194 52-269 1-201 (265)
185 cd06286 PBP1_CcpB_like Ligand- 97.2 0.031 6.7E-07 59.0 19.3 197 52-269 1-203 (260)
186 TIGR02417 fruct_sucro_rep D-fr 97.2 0.036 7.8E-07 60.9 20.5 207 49-276 59-273 (327)
187 PRK11553 alkanesulfonate trans 97.1 0.0031 6.8E-08 68.8 11.8 111 701-817 120-236 (314)
188 PF12974 Phosphonate-bd: ABC t 97.1 0.0029 6.2E-08 66.2 10.8 122 700-827 95-230 (243)
189 TIGR02955 TMAO_TorT TMAO reduc 97.1 0.066 1.4E-06 57.8 21.8 195 52-265 1-207 (295)
190 cd06354 PBP1_BmpA_PnrA_like Pe 97.1 0.032 7E-07 59.1 18.9 195 52-264 1-206 (265)
191 COG1609 PurR Transcriptional r 97.1 0.047 1E-06 59.9 20.4 201 49-269 57-265 (333)
192 cd06304 PBP1_BmpA_like Peripla 97.1 0.031 6.8E-07 59.0 18.6 198 52-264 1-202 (260)
193 cd01541 PBP1_AraR Ligand-bindi 97.1 0.037 8.1E-07 58.9 19.2 205 53-274 2-216 (273)
194 cd06290 PBP1_LacI_like_9 Ligan 97.1 0.035 7.6E-07 58.8 18.9 204 52-275 1-211 (265)
195 PRK10727 DNA-binding transcrip 97.1 0.041 8.8E-07 60.9 19.9 206 49-273 58-269 (343)
196 cd06280 PBP1_LacI_like_4 Ligan 97.1 0.046 1E-06 57.8 19.6 199 52-273 1-204 (263)
197 PRK09492 treR trehalose repres 97.0 0.057 1.2E-06 58.9 20.6 192 49-265 61-256 (315)
198 cd06272 PBP1_hexuronate_repres 97.0 0.029 6.4E-07 59.2 17.8 197 52-271 1-202 (261)
199 cd06277 PBP1_LacI_like_1 Ligan 97.0 0.046 1E-06 58.0 19.4 203 53-275 2-212 (268)
200 cd06279 PBP1_LacI_like_3 Ligan 97.0 0.038 8.1E-07 59.3 18.3 201 53-276 2-231 (283)
201 PRK09526 lacI lac repressor; R 97.0 0.086 1.9E-06 58.3 21.3 202 49-272 62-271 (342)
202 PRK14987 gluconate operon tran 97.0 0.059 1.3E-06 59.3 19.8 207 49-274 62-272 (331)
203 cd01543 PBP1_XylR Ligand-bindi 97.0 0.037 8E-07 58.6 17.6 201 52-276 1-207 (265)
204 cd06297 PBP1_LacI_like_12 Liga 96.9 0.05 1.1E-06 57.8 18.4 201 52-274 1-213 (269)
205 TIGR01729 taurine_ABC_bnd taur 96.7 0.0097 2.1E-07 64.5 10.9 70 700-776 90-164 (300)
206 PRK10401 DNA-binding transcrip 96.6 0.19 4.2E-06 55.6 20.7 206 49-273 58-269 (346)
207 PRK11041 DNA-binding transcrip 96.6 0.17 3.6E-06 55.0 19.9 206 49-274 34-246 (309)
208 TIGR02634 xylF D-xylose ABC tr 96.6 0.27 5.9E-06 53.2 21.2 197 53-266 1-209 (302)
209 TIGR02637 RhaS rhamnose ABC tr 96.5 0.57 1.2E-05 50.6 23.5 198 53-266 1-210 (302)
210 cd01544 PBP1_GalR Ligand-bindi 96.3 0.31 6.6E-06 51.7 19.0 198 52-275 1-214 (270)
211 TIGR02405 trehalos_R_Ecol treh 96.2 0.46 1E-05 51.6 20.4 191 49-265 58-253 (311)
212 COG3221 PhnD ABC-type phosphat 96.0 0.12 2.6E-06 54.9 13.6 111 700-816 134-260 (299)
213 PF13379 NMT1_2: NMT1-like fam 96.0 0.022 4.8E-07 59.8 8.2 72 700-776 104-187 (252)
214 cd06353 PBP1_BmpA_Med_like Per 95.7 0.42 9.2E-06 50.2 16.7 193 52-264 1-200 (258)
215 cd06315 PBP1_ABC_sugar_binding 95.6 1.5 3.2E-05 46.8 20.8 204 52-269 2-217 (280)
216 TIGR03427 ABC_peri_uca ABC tra 95.5 0.13 2.8E-06 55.9 11.9 68 702-776 98-170 (328)
217 PF03466 LysR_substrate: LysR 95.3 0.43 9.3E-06 47.8 14.5 183 512-815 19-205 (209)
218 TIGR02122 TRAP_TAXI TRAP trans 95.1 0.077 1.7E-06 58.0 9.0 61 700-766 131-197 (320)
219 TIGR02990 ectoine_eutA ectoine 95.0 0.39 8.5E-06 49.3 13.0 90 170-262 107-203 (239)
220 cd08440 PBP2_LTTR_like_4 TThe 94.8 1.9 4.2E-05 42.2 17.7 70 512-593 13-82 (197)
221 cd05466 PBP2_LTTR_substrate Th 94.7 1.6 3.5E-05 42.4 16.6 70 512-593 13-82 (197)
222 TIGR01728 SsuA_fam ABC transpo 94.6 0.3 6.4E-06 52.3 11.8 71 700-776 91-165 (288)
223 cd08442 PBP2_YofA_SoxR_like Th 94.5 2.3 4.9E-05 41.6 17.2 70 512-593 13-82 (193)
224 PF09084 NMT1: NMT1/THI5 like; 94.4 0.21 4.5E-06 51.0 9.5 59 700-764 83-145 (216)
225 cd08421 PBP2_LTTR_like_1 The C 94.4 2.2 4.8E-05 42.0 16.9 70 512-593 13-82 (198)
226 cd08420 PBP2_CysL_like C-termi 94.4 2.9 6.3E-05 41.0 17.8 70 512-593 13-82 (201)
227 cd08438 PBP2_CidR The C-termin 94.2 3.4 7.5E-05 40.4 17.7 70 512-593 13-82 (197)
228 cd06287 PBP1_LacI_like_8 Ligan 94.1 3.1 6.7E-05 44.0 18.1 169 87-274 37-211 (269)
229 cd08459 PBP2_DntR_NahR_LinR_li 94.0 1.6 3.4E-05 43.3 15.0 70 512-593 13-82 (201)
230 cd08412 PBP2_PAO1_like The C-t 94.0 3.2 6.9E-05 40.8 17.1 71 511-593 12-82 (198)
231 PRK11151 DNA-binding transcrip 93.9 2.7 5.9E-05 45.4 17.4 83 485-593 91-173 (305)
232 cd08468 PBP2_Pa0477 The C-term 93.8 2.7 5.9E-05 41.7 16.2 73 512-593 13-85 (202)
233 cd08415 PBP2_LysR_opines_like 93.5 3.8 8.3E-05 40.1 16.7 71 511-593 12-82 (196)
234 CHL00180 rbcR LysR transcripti 93.3 4.5 9.8E-05 43.7 18.0 86 485-593 95-180 (305)
235 PRK12684 transcriptional regul 93.2 3.3 7.1E-05 45.0 16.7 85 484-593 92-176 (313)
236 cd08411 PBP2_OxyR The C-termin 93.1 4 8.7E-05 40.2 16.1 70 512-593 14-83 (200)
237 cd08417 PBP2_Nitroaromatics_li 93.1 3.3 7.1E-05 40.8 15.4 70 512-593 13-82 (200)
238 cd08463 PBP2_DntR_like_4 The C 93.0 5.9 0.00013 39.5 17.1 72 511-593 12-83 (203)
239 cd08433 PBP2_Nac The C-teminal 92.9 5.1 0.00011 39.4 16.4 70 512-593 13-82 (198)
240 cd08426 PBP2_LTTR_like_5 The C 92.8 5.5 0.00012 39.1 16.5 70 512-593 13-82 (199)
241 PRK12679 cbl transcriptional r 92.8 7.6 0.00016 42.2 18.8 207 485-829 93-306 (316)
242 COG1744 Med Uncharacterized AB 92.6 6.8 0.00015 42.9 17.8 202 48-267 33-246 (345)
243 PF07885 Ion_trans_2: Ion chan 92.6 0.29 6.3E-06 40.6 5.6 56 639-694 21-78 (79)
244 PRK11242 DNA-binding transcrip 92.5 4.7 0.0001 43.3 16.7 83 485-593 91-173 (296)
245 cd08419 PBP2_CbbR_RubisCO_like 92.5 9.2 0.0002 37.3 17.7 70 512-593 12-81 (197)
246 cd08418 PBP2_TdcA The C-termin 92.3 6.9 0.00015 38.4 16.6 72 512-593 13-84 (201)
247 cd08462 PBP2_NodD The C-termin 92.3 4.6 0.0001 39.9 15.3 69 512-593 13-81 (200)
248 cd08460 PBP2_DntR_like_1 The C 92.2 2.2 4.7E-05 42.3 12.7 70 511-593 12-81 (200)
249 cd08466 PBP2_LeuO The C-termin 92.1 5.1 0.00011 39.4 15.3 70 512-593 13-82 (200)
250 PRK10339 DNA-binding transcrip 92.0 6.9 0.00015 42.7 17.4 152 114-276 113-270 (327)
251 PRK12683 transcriptional regul 91.9 7 0.00015 42.3 17.1 84 485-593 93-176 (309)
252 PRK10837 putative DNA-binding 91.7 10 0.00023 40.4 18.1 83 485-593 89-171 (290)
253 PRK12681 cysB transcriptional 91.7 5.2 0.00011 43.7 15.7 85 484-593 92-176 (324)
254 PRK12682 transcriptional regul 91.5 9.4 0.0002 41.3 17.5 84 485-593 93-176 (309)
255 cd08441 PBP2_MetR The C-termin 91.2 9.5 0.00021 37.4 16.2 69 513-593 14-82 (198)
256 cd08444 PBP2_Cbl The C-termina 91.2 12 0.00026 36.9 16.9 72 511-593 12-83 (198)
257 cd08434 PBP2_GltC_like The sub 91.2 11 0.00024 36.6 16.5 70 512-593 13-82 (195)
258 cd08467 PBP2_SyrM The C-termin 91.1 7.1 0.00015 38.6 15.1 70 512-593 13-82 (200)
259 cd08413 PBP2_CysB_like The C-t 91.0 6.8 0.00015 38.7 14.8 71 512-593 13-83 (198)
260 cd08435 PBP2_GbpR The C-termin 91.0 16 0.00035 35.7 17.6 72 512-593 13-84 (201)
261 cd08465 PBP2_ToxR The C-termin 90.9 5 0.00011 39.8 13.8 70 512-593 13-82 (200)
262 cd08443 PBP2_CysB The C-termin 90.8 16 0.00035 35.9 17.4 72 511-593 12-83 (198)
263 TIGR00787 dctP tripartite ATP- 90.7 0.84 1.8E-05 48.0 8.0 103 700-814 126-230 (257)
264 cd08456 PBP2_LysR The C-termin 90.5 11 0.00024 36.8 15.8 70 512-593 13-82 (196)
265 cd08461 PBP2_DntR_like_3 The C 90.2 9.9 0.00021 37.3 15.2 70 512-593 13-82 (198)
266 cd08436 PBP2_LTTR_like_3 The C 90.0 19 0.00042 34.8 17.2 71 512-593 13-83 (194)
267 cd08414 PBP2_LTTR_aromatics_li 89.6 21 0.00046 34.7 17.0 70 512-593 13-82 (197)
268 cd08423 PBP2_LTTR_like_6 The C 89.6 15 0.00033 35.8 16.0 73 512-593 13-87 (200)
269 COG3473 Maleate cis-trans isom 89.3 11 0.00024 36.9 13.1 88 172-262 107-201 (238)
270 PF12683 DUF3798: Protein of u 89.3 19 0.00042 37.0 15.6 205 50-265 2-224 (275)
271 cd08448 PBP2_LTTR_aromatics_li 89.0 22 0.00047 34.5 16.6 70 512-593 13-82 (197)
272 PRK12680 transcriptional regul 89.0 21 0.00045 39.0 17.6 84 485-593 93-176 (327)
273 PF13377 Peripla_BP_3: Peripla 88.9 1.3 2.9E-05 42.3 7.4 96 175-272 1-99 (160)
274 PRK11480 tauA taurine transpor 88.6 2.8 6E-05 45.7 10.3 66 701-773 113-183 (320)
275 TIGR00035 asp_race aspartate r 88.6 3.4 7.3E-05 42.5 10.3 87 100-215 59-146 (229)
276 cd08469 PBP2_PnbR The C-termin 88.5 15 0.00033 36.8 15.4 70 512-593 13-82 (221)
277 PRK09860 putative alcohol dehy 88.4 2 4.4E-05 48.0 9.2 88 172-259 20-109 (383)
278 cd08464 PBP2_DntR_like_2 The C 88.4 13 0.00028 36.4 14.5 70 512-593 13-82 (200)
279 cd08486 PBP2_CbnR The C-termin 88.2 18 0.0004 35.6 15.5 70 512-593 14-83 (198)
280 TIGR00363 lipoprotein, YaeC fa 88.2 11 0.00023 39.5 13.8 121 700-827 106-250 (258)
281 cd08425 PBP2_CynR The C-termin 88.1 18 0.0004 35.2 15.4 70 512-593 14-83 (197)
282 PRK10341 DNA-binding transcrip 88.1 15 0.00032 39.8 15.8 71 513-593 111-181 (312)
283 COG1454 EutG Alcohol dehydroge 88.1 4.2 9.2E-05 44.6 11.1 93 171-263 17-111 (377)
284 cd06276 PBP1_FucR_like Ligand- 88.1 22 0.00049 36.8 16.5 143 108-271 45-192 (247)
285 PF03808 Glyco_tran_WecB: Glyc 88.0 7.3 0.00016 37.9 11.8 98 170-277 36-135 (172)
286 cd08429 PBP2_NhaR The C-termin 88.0 29 0.00064 34.4 16.9 71 512-591 13-83 (204)
287 PF02608 Bmp: Basic membrane p 87.9 32 0.00069 37.1 17.9 198 51-265 2-212 (306)
288 cd06353 PBP1_BmpA_Med_like Per 87.7 2 4.3E-05 45.2 8.1 86 52-146 122-207 (258)
289 cd08427 PBP2_LTTR_like_2 The C 87.6 25 0.00055 34.0 16.1 72 512-593 13-84 (195)
290 PF13531 SBP_bac_11: Bacterial 87.5 5.3 0.00011 41.1 11.2 189 511-818 10-219 (230)
291 PRK15454 ethanol dehydrogenase 87.3 2.5 5.5E-05 47.4 9.1 88 172-259 38-127 (395)
292 PRK11233 nitrogen assimilation 87.3 14 0.0003 39.8 14.9 68 513-592 106-173 (305)
293 PRK09791 putative DNA-binding 87.2 21 0.00046 38.3 16.2 85 485-593 95-179 (302)
294 cd08458 PBP2_NocR The C-termin 87.0 32 0.00069 33.6 16.9 70 512-593 13-82 (196)
295 TIGR02424 TF_pcaQ pca operon t 86.9 24 0.00053 37.8 16.5 86 484-593 92-177 (300)
296 cd08449 PBP2_XapR The C-termin 86.9 31 0.00068 33.4 16.3 72 512-593 13-84 (197)
297 COG4213 XylF ABC-type xylose t 86.3 48 0.001 35.0 19.0 203 47-267 22-243 (341)
298 cd08416 PBP2_MdcR The C-termin 85.9 32 0.0007 33.4 15.8 72 512-593 13-84 (199)
299 TIGR03339 phn_lysR aminoethylp 85.8 40 0.00086 35.5 17.3 69 513-593 98-166 (279)
300 cd08189 Fe-ADH5 Iron-containin 85.8 5.7 0.00012 44.3 11.0 91 171-261 14-106 (374)
301 PRK15421 DNA-binding transcrip 85.6 24 0.00053 38.2 15.7 69 513-593 103-171 (317)
302 TIGR01256 modA molybdenum ABC 85.6 8.8 0.00019 38.9 11.5 73 739-817 133-206 (216)
303 cd08190 HOT Hydroxyacid-oxoaci 85.6 3.6 7.9E-05 46.5 9.3 87 172-258 12-100 (414)
304 PRK10624 L-1,2-propanediol oxi 85.3 3.9 8.5E-05 45.8 9.3 89 171-259 18-108 (382)
305 COG1910 Periplasmic molybdate- 85.2 6.2 0.00013 39.0 9.2 108 700-819 87-202 (223)
306 cd08437 PBP2_MleR The substrat 85.2 39 0.00085 32.9 17.2 72 512-593 13-84 (198)
307 cd08457 PBP2_OccR The C-termin 85.0 39 0.00085 32.8 16.8 70 512-593 13-82 (196)
308 PRK11063 metQ DL-methionine tr 84.9 14 0.0003 39.0 12.8 122 700-827 119-263 (271)
309 cd08192 Fe-ADH7 Iron-containin 84.7 4.3 9.3E-05 45.3 9.3 89 172-260 13-103 (370)
310 cd08430 PBP2_IlvY The C-termin 84.7 40 0.00088 32.7 17.4 71 512-593 13-83 (199)
311 PRK11013 DNA-binding transcrip 84.6 35 0.00075 36.8 16.3 70 512-593 107-176 (309)
312 PF03480 SBP_bac_7: Bacterial 84.4 0.89 1.9E-05 48.7 3.6 102 700-813 126-229 (286)
313 PF12727 PBP_like: PBP superfa 84.2 16 0.00034 36.4 12.0 102 700-812 81-190 (193)
314 cd08193 HVD 5-hydroxyvalerate 83.7 5 0.00011 44.8 9.3 89 172-260 15-105 (376)
315 TIGR02638 lactal_redase lactal 83.4 5 0.00011 44.9 9.1 88 172-259 18-107 (379)
316 cd08194 Fe-ADH6 Iron-containin 83.3 5.5 0.00012 44.4 9.5 87 172-258 12-100 (375)
317 PRK11074 putative DNA-binding 83.3 40 0.00087 36.1 16.0 85 485-593 92-176 (300)
318 cd08551 Fe-ADH iron-containing 83.3 5.7 0.00012 44.3 9.6 89 172-260 12-102 (370)
319 PF14503 YhfZ_C: YhfZ C-termin 82.9 11 0.00025 38.1 10.4 106 712-829 114-225 (232)
320 PRK11482 putative DNA-binding 82.7 38 0.00082 36.8 15.6 81 485-593 117-197 (317)
321 cd08451 PBP2_BudR The C-termin 82.6 49 0.0011 32.1 17.5 70 513-593 15-84 (199)
322 PRK10200 putative racemase; Pr 82.5 12 0.00027 38.3 10.9 86 100-214 59-146 (230)
323 cd08428 PBP2_IciA_ArgP The C-t 82.2 51 0.0011 32.0 15.5 67 513-592 14-80 (195)
324 PF00465 Fe-ADH: Iron-containi 81.9 5.3 0.00012 44.4 8.7 89 172-262 12-102 (366)
325 cd06533 Glyco_transf_WecG_TagA 81.8 20 0.00042 34.9 11.5 99 169-277 33-133 (171)
326 PRK09508 leuO leucine transcri 81.7 19 0.00041 39.0 12.8 70 512-593 125-194 (314)
327 cd08453 PBP2_IlvR The C-termin 81.3 56 0.0012 31.8 17.4 73 512-593 13-85 (200)
328 PRK10094 DNA-binding transcrip 81.0 67 0.0014 34.6 16.7 71 513-593 107-177 (308)
329 PRK11062 nhaR transcriptional 80.6 52 0.0011 35.2 15.6 85 485-592 93-177 (296)
330 cd08188 Fe-ADH4 Iron-containin 80.2 8.3 0.00018 43.1 9.4 88 172-259 17-106 (377)
331 PRK09861 cytoplasmic membrane 80.0 30 0.00065 36.5 12.9 123 699-827 119-264 (272)
332 KOG3857 Alcohol dehydrogenase, 80.0 12 0.00026 39.6 9.4 96 155-250 38-137 (465)
333 cd08485 PBP2_ClcR The C-termin 79.8 63 0.0014 31.6 16.8 70 512-593 14-83 (198)
334 cd08185 Fe-ADH1 Iron-containin 79.4 8.8 0.00019 42.9 9.3 88 172-260 15-105 (380)
335 cd08176 LPO Lactadehyde:propan 79.0 8.1 0.00018 43.2 8.8 88 172-259 17-106 (377)
336 cd08445 PBP2_BenM_CatM_CatR Th 78.7 69 0.0015 31.3 16.3 70 512-593 14-83 (203)
337 cd08450 PBP2_HcaR The C-termin 78.6 66 0.0014 31.1 16.6 70 512-593 13-82 (196)
338 KOG1419 Voltage-gated K+ chann 78.6 3.4 7.4E-05 46.2 5.4 89 607-695 234-324 (654)
339 cd08181 PPD-like 1,3-propanedi 78.3 10 0.00022 42.0 9.3 86 172-258 15-103 (357)
340 PF06506 PrpR_N: Propionate ca 78.1 48 0.001 32.3 13.0 128 99-266 17-145 (176)
341 COG0715 TauA ABC-type nitrate/ 78.0 8.1 0.00018 42.4 8.5 70 700-776 126-201 (335)
342 cd08170 GlyDH Glycerol dehydro 76.8 8 0.00017 42.7 8.0 85 172-259 12-98 (351)
343 PF13407 Peripla_BP_4: Peripla 76.7 5.5 0.00012 41.6 6.5 78 186-265 1-81 (257)
344 cd08431 PBP2_HupR The C-termin 76.2 77 0.0017 30.6 14.6 71 512-593 13-83 (195)
345 cd08446 PBP2_Chlorocatechol Th 76.0 79 0.0017 30.6 17.3 70 512-593 14-83 (198)
346 cd08191 HHD 6-hydroxyhexanoate 75.5 14 0.00031 41.4 9.5 89 172-261 12-102 (386)
347 PRK07475 hypothetical protein; 75.4 13 0.00028 38.6 8.5 82 100-213 62-146 (245)
348 COG0725 ModA ABC-type molybdat 75.3 50 0.0011 34.5 12.8 176 516-812 46-241 (258)
349 PRK09906 DNA-binding transcrip 75.2 1.1E+02 0.0025 32.4 16.4 70 512-593 103-172 (296)
350 cd08182 HEPD Hydroxyethylphosp 74.8 14 0.00031 41.1 9.3 86 172-260 12-99 (367)
351 cd07766 DHQ_Fe-ADH Dehydroquin 74.1 23 0.00049 38.8 10.6 88 172-261 12-101 (332)
352 cd08187 BDH Butanol dehydrogen 73.5 13 0.00029 41.5 8.7 87 172-259 18-107 (382)
353 PF13685 Fe-ADH_2: Iron-contai 73.4 24 0.00052 36.6 9.8 98 173-275 9-107 (250)
354 cd08452 PBP2_AlsR The C-termin 73.3 93 0.002 30.2 17.0 70 512-593 13-82 (197)
355 COG1794 RacX Aspartate racemas 73.1 14 0.0003 36.9 7.5 128 100-265 59-189 (230)
356 PF01177 Asp_Glu_race: Asp/Glu 73.0 59 0.0013 32.8 12.8 123 110-262 60-198 (216)
357 cd08186 Fe-ADH8 Iron-containin 72.6 16 0.00035 40.8 9.1 89 172-260 12-106 (383)
358 cd08171 GlyDH-like2 Glycerol d 72.5 14 0.00031 40.6 8.5 87 172-260 12-100 (345)
359 PF03401 TctC: Tripartite tric 72.4 51 0.0011 34.9 12.4 122 700-826 88-241 (274)
360 PF02608 Bmp: Basic membrane p 72.0 15 0.00033 39.7 8.4 89 52-147 128-221 (306)
361 PRK13583 hisG ATP phosphoribos 71.6 38 0.00083 34.4 10.4 92 701-802 110-212 (228)
362 COG1744 Med Uncharacterized AB 71.3 59 0.0013 35.7 12.8 75 50-130 161-235 (345)
363 PRK03692 putative UDP-N-acetyl 70.9 41 0.00088 34.8 10.7 86 170-262 93-179 (243)
364 PRK10537 voltage-gated potassi 70.9 6 0.00013 44.1 5.1 56 638-693 164-221 (393)
365 PRK03635 chromosome replicatio 70.7 94 0.002 33.1 14.3 67 514-593 105-171 (294)
366 cd06301 PBP1_rhizopine_binding 70.7 14 0.0003 38.9 7.8 78 185-265 1-82 (272)
367 cd06305 PBP1_methylthioribose_ 70.3 17 0.00037 38.1 8.4 79 185-266 1-82 (273)
368 COG0078 ArgF Ornithine carbamo 70.2 1.5E+02 0.0033 31.4 15.9 162 50-246 44-212 (310)
369 cd01537 PBP1_Repressors_Sugar_ 69.4 14 0.00031 38.3 7.5 78 185-265 1-80 (264)
370 PRK09423 gldA glycerol dehydro 69.3 17 0.00037 40.4 8.3 84 172-258 19-104 (366)
371 cd08432 PBP2_GcdR_TrpI_HvrB_Am 69.2 48 0.001 32.0 10.9 65 513-592 14-78 (194)
372 cd08177 MAR Maleylacetate redu 69.2 1.1E+02 0.0023 33.6 14.5 85 172-259 12-98 (337)
373 PLN02245 ATP phosphoribosyl tr 68.7 36 0.00077 37.6 10.1 92 701-802 178-277 (403)
374 PRK11716 DNA-binding transcrip 68.0 1.6E+02 0.0034 30.6 15.7 71 512-593 80-150 (269)
375 PLN03192 Voltage-dependent pot 67.8 6.1 0.00013 49.3 4.8 69 641-709 249-324 (823)
376 PRK13348 chromosome replicatio 67.3 1.4E+02 0.0031 31.6 14.9 65 516-593 107-171 (294)
377 cd06267 PBP1_LacI_sugar_bindin 66.7 19 0.0004 37.4 7.7 77 186-266 2-80 (264)
378 PRK11119 proX glycine betaine 66.7 32 0.0007 37.5 9.5 63 481-566 25-88 (331)
379 cd08183 Fe-ADH2 Iron-containin 66.3 26 0.00057 39.1 9.0 83 172-259 12-96 (374)
380 TIGR00696 wecB_tagA_cpsF bacte 66.2 61 0.0013 31.7 10.4 86 169-262 35-122 (177)
381 TIGR03298 argP transcriptional 66.0 1.6E+02 0.0034 31.3 14.9 64 516-592 107-170 (292)
382 PRK00865 glutamate racemase; P 64.9 62 0.0013 33.9 11.0 38 107-144 59-96 (261)
383 COG1638 DctP TRAP-type C4-dica 64.7 41 0.00088 36.7 9.8 103 700-818 157-265 (332)
384 PRK14498 putative molybdopteri 64.7 65 0.0014 38.9 12.6 66 181-249 184-261 (633)
385 cd06306 PBP1_TorT-like TorT-li 64.3 22 0.00048 37.3 7.8 80 185-265 1-82 (268)
386 PRK15408 autoinducer 2-binding 64.1 28 0.00061 38.1 8.6 82 182-265 22-106 (336)
387 cd06312 PBP1_ABC_sugar_binding 63.7 23 0.0005 37.2 7.8 79 185-265 1-83 (271)
388 cd01538 PBP1_ABC_xylose_bindin 63.7 31 0.00067 36.7 8.8 77 186-265 2-81 (288)
389 cd06282 PBP1_GntR_like_2 Ligan 63.5 27 0.00058 36.4 8.2 78 186-266 2-81 (266)
390 cd06318 PBP1_ABC_sugar_binding 63.2 25 0.00054 37.2 7.9 78 185-265 1-81 (282)
391 cd08550 GlyDH-like Glycerol_de 62.7 29 0.00062 38.3 8.4 84 172-258 12-97 (349)
392 PF04273 DUF442: Putative phos 62.6 1.1E+02 0.0024 27.1 10.6 84 178-261 23-107 (110)
393 cd01536 PBP1_ABC_sugar_binding 62.5 28 0.0006 36.2 8.1 78 185-265 1-81 (267)
394 PRK10677 modA molybdate transp 62.4 53 0.0012 34.4 10.0 71 514-593 41-117 (257)
395 cd06289 PBP1_MalI_like Ligand- 61.5 30 0.00064 36.1 8.1 77 186-265 2-80 (268)
396 TIGR03414 ABC_choline_bnd chol 61.1 1.5E+02 0.0032 31.7 13.2 43 513-564 22-64 (290)
397 cd08178 AAD_C C-terminal alcoh 60.4 25 0.00054 39.6 7.5 79 181-259 19-99 (398)
398 PF07302 AroM: AroM protein; 60.1 62 0.0014 32.6 9.3 89 166-261 111-201 (221)
399 cd06322 PBP1_ABC_sugar_binding 59.2 35 0.00076 35.6 8.2 77 186-265 2-81 (267)
400 cd06299 PBP1_LacI_like_13 Liga 58.8 52 0.0011 34.2 9.4 76 186-265 2-79 (265)
401 cd01391 Periplasmic_Binding_Pr 58.7 32 0.0007 35.3 7.8 78 185-265 1-83 (269)
402 cd06310 PBP1_ABC_sugar_binding 58.3 33 0.00072 36.0 7.8 80 185-265 1-83 (273)
403 cd06277 PBP1_LacI_like_1 Ligan 58.1 47 0.001 34.7 8.9 75 186-265 2-81 (268)
404 cd06303 PBP1_LuxPQ_Quorum_Sens 57.7 28 0.00061 36.8 7.1 80 185-264 1-84 (280)
405 cd06281 PBP1_LacI_like_5 Ligan 57.6 42 0.00091 35.1 8.4 77 186-265 2-80 (269)
406 cd06316 PBP1_ABC_sugar_binding 57.5 33 0.00071 36.6 7.7 79 185-265 1-82 (294)
407 PRK00945 acetyl-CoA decarbonyl 57.5 66 0.0014 31.1 8.6 91 108-206 27-132 (171)
408 cd08175 G1PDH Glycerol-1-phosp 57.1 42 0.0009 37.0 8.5 85 172-258 12-100 (348)
409 cd08422 PBP2_CrgA_like The C-t 57.0 61 0.0013 31.2 9.1 66 512-592 14-79 (197)
410 cd06315 PBP1_ABC_sugar_binding 56.6 50 0.0011 34.9 8.9 79 184-265 1-82 (280)
411 cd01545 PBP1_SalR Ligand-bindi 56.4 43 0.00092 35.0 8.3 78 186-265 2-81 (270)
412 PF01634 HisG: ATP phosphoribo 56.1 15 0.00033 35.1 4.1 101 701-814 57-159 (163)
413 cd06302 PBP1_LsrB_Quorum_Sensi 55.3 42 0.00092 35.9 8.1 78 186-265 2-82 (298)
414 cd08179 NADPH_BDH NADPH-depend 55.3 29 0.00063 38.7 6.9 80 180-259 20-102 (375)
415 TIGR00070 hisG ATP phosphoribo 55.2 43 0.00093 32.7 7.1 74 701-787 100-173 (182)
416 PRK05452 anaerobic nitric oxid 54.8 3.9E+02 0.0085 30.9 16.4 140 119-278 198-348 (479)
417 cd02071 MM_CoA_mut_B12_BD meth 54.6 87 0.0019 28.3 8.7 70 190-265 6-79 (122)
418 PRK11139 DNA-binding transcrip 54.4 1.8E+02 0.0039 30.9 12.9 63 515-592 110-172 (297)
419 cd08180 PDD 1,3-propanediol de 53.9 33 0.00071 37.6 6.9 80 179-259 18-99 (332)
420 PRK00002 aroB 3-dehydroquinate 53.8 89 0.0019 34.6 10.4 92 172-264 20-118 (358)
421 PRK10014 DNA-binding transcrip 53.8 61 0.0013 35.4 9.3 80 183-265 64-145 (342)
422 PRK10653 D-ribose transporter 53.6 51 0.0011 35.1 8.4 80 183-265 26-108 (295)
423 cd06270 PBP1_GalS_like Ligand 53.6 58 0.0013 34.0 8.7 76 186-265 2-79 (268)
424 PRK10355 xylF D-xylose transpo 53.6 57 0.0012 35.6 8.8 80 183-265 25-107 (330)
425 PRK11303 DNA-binding transcrip 53.5 64 0.0014 35.0 9.3 81 182-265 60-142 (328)
426 TIGR00315 cdhB CO dehydrogenas 52.3 1.4E+02 0.003 28.7 9.8 34 115-148 29-64 (162)
427 PF14981 FAM165: FAM165 family 52.1 31 0.00067 24.5 3.9 33 849-881 3-35 (51)
428 cd01542 PBP1_TreR_like Ligand- 51.8 59 0.0013 33.6 8.4 75 186-264 2-78 (259)
429 cd06317 PBP1_ABC_sugar_binding 51.8 52 0.0011 34.4 8.0 77 186-265 2-82 (275)
430 cd06300 PBP1_ABC_sugar_binding 51.3 50 0.0011 34.6 7.8 80 185-265 1-86 (272)
431 cd06323 PBP1_ribose_binding Pe 51.1 49 0.0011 34.4 7.7 77 186-265 2-81 (268)
432 PF13380 CoA_binding_2: CoA bi 51.0 27 0.00059 31.4 4.7 86 184-276 1-88 (116)
433 cd01539 PBP1_GGBP Periplasmic 50.9 59 0.0013 34.9 8.4 78 185-265 1-83 (303)
434 cd08447 PBP2_LTTR_aromatics_li 50.9 2.3E+02 0.005 27.1 16.5 70 512-593 13-82 (198)
435 cd06319 PBP1_ABC_sugar_binding 50.9 50 0.0011 34.6 7.7 77 186-265 2-81 (277)
436 cd01540 PBP1_arabinose_binding 50.8 44 0.00095 35.4 7.3 77 185-265 1-80 (289)
437 COG1464 NlpA ABC-type metal io 50.6 59 0.0013 33.7 7.4 47 49-106 29-75 (268)
438 COG2358 Imp TRAP-type uncharac 50.6 83 0.0018 33.8 8.9 61 700-766 127-193 (321)
439 TIGR02370 pyl_corrinoid methyl 50.1 1.1E+02 0.0025 30.4 9.5 86 185-276 86-175 (197)
440 PRK09701 D-allose transporter 50.0 1.2E+02 0.0026 32.7 10.6 85 180-265 21-108 (311)
441 TIGR01276 thiB thiamine ABC tr 50.0 3.4E+02 0.0074 29.0 14.2 83 741-827 176-261 (309)
442 cd06321 PBP1_ABC_sugar_binding 49.5 55 0.0012 34.2 7.7 77 186-265 2-83 (271)
443 cd06309 PBP1_YtfQ_like Peripla 49.4 45 0.00097 35.0 7.0 71 192-265 10-81 (273)
444 cd06320 PBP1_allose_binding Pe 49.4 58 0.0013 34.1 7.9 80 185-265 1-83 (275)
445 cd06295 PBP1_CelR Ligand bindi 48.9 76 0.0016 33.2 8.7 77 183-265 3-88 (275)
446 PRK09986 DNA-binding transcrip 48.0 3.6E+02 0.0077 28.4 17.3 85 485-593 97-181 (294)
447 TIGR02417 fruct_sucro_rep D-fr 47.6 1E+02 0.0022 33.5 9.6 81 182-265 59-141 (327)
448 PRK10936 TMAO reductase system 47.4 75 0.0016 34.9 8.6 81 183-265 46-129 (343)
449 PF00532 Peripla_BP_1: Peripla 47.2 42 0.00092 35.6 6.3 74 184-261 2-77 (279)
450 TIGR00854 pts-sorbose PTS syst 47.1 1.1E+02 0.0023 29.0 8.2 82 170-259 13-94 (151)
451 cd06296 PBP1_CatR_like Ligand- 46.9 74 0.0016 33.1 8.3 76 186-265 2-79 (270)
452 cd00001 PTS_IIB_man PTS_IIB, P 46.7 1.1E+02 0.0024 29.0 8.2 82 170-259 12-93 (151)
453 cd06313 PBP1_ABC_sugar_binding 46.6 59 0.0013 34.1 7.4 70 193-265 11-81 (272)
454 PF03830 PTSIIB_sorb: PTS syst 46.6 54 0.0012 31.0 6.2 83 170-260 13-95 (151)
455 cd08184 Fe-ADH3 Iron-containin 46.5 91 0.002 34.3 8.9 85 172-260 12-103 (347)
456 cd06167 LabA_like LabA_like pr 46.4 2.5E+02 0.0054 26.2 11.6 92 173-265 28-124 (149)
457 TIGR02667 moaB_proteo molybden 46.1 1E+02 0.0022 29.6 8.1 64 183-248 4-71 (163)
458 PRK15116 sulfur acceptor prote 45.7 1.7E+02 0.0037 30.8 10.2 87 62-164 80-167 (268)
459 cd06273 PBP1_GntR_like_1 This 45.7 85 0.0018 32.6 8.4 76 186-265 2-79 (268)
460 PRK09756 PTS system N-acetylga 45.5 1.4E+02 0.0031 28.5 8.9 81 170-259 17-98 (158)
461 PRK10481 hypothetical protein; 45.5 1.9E+02 0.0042 29.4 10.2 68 182-253 128-195 (224)
462 PF02310 B12-binding: B12 bind 45.4 1.7E+02 0.0036 26.1 9.2 49 194-248 11-59 (121)
463 cd06278 PBP1_LacI_like_2 Ligan 45.4 80 0.0017 32.7 8.2 75 186-265 2-78 (266)
464 cd06274 PBP1_FruR Ligand bindi 45.4 87 0.0019 32.5 8.4 76 186-265 2-79 (264)
465 cd08549 G1PDH_related Glycerol 45.3 86 0.0019 34.3 8.5 85 172-258 12-100 (332)
466 TIGR02329 propionate_PrpR prop 45.3 3.3E+02 0.0071 31.9 13.5 129 99-267 37-166 (526)
467 cd01575 PBP1_GntR Ligand-bindi 45.0 78 0.0017 32.9 8.0 76 186-265 2-79 (268)
468 TIGR00067 glut_race glutamate 45.0 2.2E+02 0.0049 29.6 11.1 130 106-251 51-183 (251)
469 COG1880 CdhB CO dehydrogenase/ 44.6 2.7E+02 0.0059 26.3 9.8 121 107-236 27-167 (170)
470 PF00625 Guanylate_kin: Guanyl 44.6 1.8E+02 0.0039 28.4 10.0 130 115-264 3-136 (183)
471 cd06283 PBP1_RegR_EndR_KdgR_li 44.3 95 0.0021 32.2 8.6 76 186-265 2-79 (267)
472 TIGR02136 ptsS_2 phosphate bin 44.2 24 0.00051 37.7 3.9 73 513-593 49-127 (287)
473 TIGR03850 bind_CPR_0540 carboh 44.1 81 0.0018 35.9 8.5 25 68-95 47-71 (437)
474 cd06285 PBP1_LacI_like_7 Ligan 43.8 1E+02 0.0022 32.0 8.7 76 186-265 2-79 (265)
475 cd06271 PBP1_AglR_RafR_like Li 43.5 82 0.0018 32.7 7.9 76 186-265 2-83 (268)
476 cd08197 DOIS 2-deoxy-scyllo-in 43.3 2E+02 0.0044 31.7 11.0 100 173-276 13-119 (355)
477 cd08173 Gro1PDH Sn-glycerol-1- 43.2 83 0.0018 34.5 8.0 82 173-258 14-98 (339)
478 cd06308 PBP1_sensor_kinase_lik 43.1 88 0.0019 32.7 8.1 77 186-265 2-82 (270)
479 cd08481 PBP2_GcdR_like The C-t 43.0 2.4E+02 0.0053 26.8 10.9 65 513-592 14-78 (194)
480 TIGR02637 RhaS rhamnose ABC tr 43.0 84 0.0018 33.6 8.0 77 187-265 2-82 (302)
481 PRK11425 PTS system N-acetylga 42.8 1.6E+02 0.0034 28.2 8.6 81 170-259 15-95 (157)
482 cd01574 PBP1_LacI Ligand-bindi 42.7 1.1E+02 0.0023 31.8 8.6 77 186-265 2-80 (264)
483 PRK14987 gluconate operon tran 42.5 1.4E+02 0.003 32.4 9.8 79 183-265 63-143 (331)
484 TIGR00249 sixA phosphohistidin 42.0 1.4E+02 0.003 28.3 8.3 98 164-262 24-121 (152)
485 TIGR02634 xylF D-xylose ABC tr 41.9 80 0.0017 33.9 7.6 71 192-265 9-80 (302)
486 cd06304 PBP1_BmpA_like Peripla 41.8 2.4E+02 0.0052 29.2 11.1 129 49-186 119-247 (260)
487 PRK03601 transcriptional regul 41.8 4.3E+02 0.0094 27.6 15.1 83 485-593 89-171 (275)
488 PRK01686 hisG ATP phosphoribos 41.5 3.2E+02 0.007 27.6 11.0 91 712-814 115-207 (215)
489 cd06292 PBP1_LacI_like_10 Liga 41.5 1.1E+02 0.0024 31.8 8.6 77 186-265 2-84 (273)
490 cd00886 MogA_MoaB MogA_MoaB fa 41.0 1.2E+02 0.0025 28.8 7.6 62 185-248 2-69 (152)
491 COG0563 Adk Adenylate kinase a 40.9 51 0.0011 32.3 5.2 28 117-144 3-30 (178)
492 cd06324 PBP1_ABC_sugar_binding 40.9 89 0.0019 33.5 7.8 77 186-265 2-83 (305)
493 cd08169 DHQ-like Dehydroquinat 40.7 2E+02 0.0044 31.6 10.5 101 172-276 12-118 (344)
494 PRK09189 uroporphyrinogen-III 40.6 87 0.0019 32.3 7.3 87 170-262 103-191 (240)
495 cd00758 MoCF_BD MoCF_BD: molyb 40.4 1E+02 0.0022 28.4 6.9 47 199-248 20-66 (133)
496 PRK15424 propionate catabolism 40.4 3.5E+02 0.0076 31.7 12.7 129 99-267 47-176 (538)
497 cd06286 PBP1_CcpB_like Ligand- 40.3 1.1E+02 0.0023 31.7 8.1 74 186-263 2-77 (260)
498 cd00755 YgdL_like Family of ac 40.2 2.6E+02 0.0057 28.7 10.5 88 61-164 60-148 (231)
499 cd01324 cbb3_Oxidase_CcoQ Cyto 39.9 24 0.00052 26.0 2.0 28 608-635 12-39 (48)
500 cd02067 B12-binding B12 bindin 39.6 1.6E+02 0.0034 26.4 8.0 86 185-276 1-88 (119)
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=2.2e-87 Score=698.24 Aligned_cols=782 Identities=21% Similarity=0.338 Sum_probs=638.3
Q ss_pred CCceEEEEEEeccCCccccchHHHHHHHHHHHhcCCCCCC-CcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEccCC
Q 002267 47 RPSSVRIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILP-GTTLNFVIRDTN-CSGFVGTMEALQLMENEVVAAIGPQS 124 (945)
Q Consensus 47 ~~~~i~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~-g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~ 124 (945)
-+.+|.||.+||-... +...|+++|+...|.+..--+ -.+|..++..-+ .+......+.|....++|.||+|-..
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 4568999999998753 567888888888877543211 145555554322 46667778889999999999999999
Q ss_pred hhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHH
Q 002267 125 SGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLG 204 (945)
Q Consensus 125 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~ 204 (945)
-.....+..+|...++|+|+++. |. +...++.+++.|+ .-.++++++.||+|.+++++| |.+-|...++++-
T Consensus 100 ~ks~~~ltsfc~aLh~~~vtpsf--p~--~~~~~Fviq~RP~---l~~al~s~i~hy~W~~fv~ly-D~~rg~s~Lqai~ 171 (897)
T KOG1054|consen 100 KKSVNTLTSFCGALHVSFVTPSF--PT--DGDNQFVIQMRPA---LKGALLSLIDHYKWEKFVYLY-DTDRGLSILQAIM 171 (897)
T ss_pred ccchhhhhhhccceeeeeecccC--Cc--CCCceEEEEeCch---HHHHHHHHHHhcccceEEEEE-cccchHHHHHHHH
Confidence 99999999999999999999755 22 2335788888887 458999999999999999999 5567889999999
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCC
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDS 284 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~ 284 (945)
+.+.+++..|.....-.+ .+..+++.+++.+...+.+-|++.|..+-..+++.++-+.+-...+|+++..+..-...|.
T Consensus 172 ~~a~~~nw~VtA~~v~~~-~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~d~dl 250 (897)
T KOG1054|consen 172 EAAAQNNWQVTAINVGNI-NDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFTDIDL 250 (897)
T ss_pred HHHHhcCceEEEEEcCCc-ccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCchhhH
Confidence 999999999988765442 3556699999999988999999999999999999998888888899999997643222222
Q ss_pred CCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhc---CCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCccc
Q 002267 285 TEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKY---KENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFT 361 (945)
Q Consensus 285 ~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~---~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~ 361 (945)
+.......++.+++....+++..++|.++|++... ++.....+...++.+|||+.++++|++...++.-++.
T Consensus 251 -----~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~~~~ 325 (897)
T KOG1054|consen 251 -----ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRIDIS 325 (897)
T ss_pred -----HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhhchh
Confidence 34455667799999999999999999999997643 2223345677789999999999999999987764432
Q ss_pred ccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEEEEEecCCCCc
Q 002267 362 FSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGYWSNYSGL 441 (945)
Q Consensus 362 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~w~~~~gl 441 (945)
. ++.+|+++. .+..+|.+|..+.++|+++.++|++|+|+||..|.|.+.+.+|+.+..++.+++|+|+...|+
T Consensus 326 r------RG~~GD~~a-n~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e~~~f 398 (897)
T KOG1054|consen 326 R------RGNAGDCLA-NPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNEGEGF 398 (897)
T ss_pred c------cCCCccccC-CCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeecccCce
Confidence 2 233554433 347889999999999999999999999999999999999999999999999999999998886
Q ss_pred ccccccccccCCCCCCCCCcceeeEeCCCcccCCcceeccCCCCceEEEecCccccccceecc---CCCCceeeeeHHHH
Q 002267 442 SVVAPEILYTKPPNSSSNRHLYSVIWPGEITATPRGWVFPNNGMPLRIAVPNRVSYNEFVAKD---KSPPGVKGYCIDVF 518 (945)
Q Consensus 442 ~~~~~~~~~~~~~~~~~~~~l~~i~W~g~~~~~P~~~~~~~~g~~l~v~~~~~~~~~~~~~~~---~~~~~~~G~~~dll 518 (945)
....... . ..+.+. ....+++.|.+....||..+.+.. .++.++.|||+|++
T Consensus 399 v~~~t~a-~--~~~d~~----------------------~~~n~tvvvttiL~spyvm~kkn~~~~egn~ryEGyCvdLa 453 (897)
T KOG1054|consen 399 VPGSTVA-Q--SRNDQA----------------------SKENRTVVVTTILESPYVMLKKNHEQLEGNERYEGYCVDLA 453 (897)
T ss_pred eeccccc-c--cccccc----------------------ccccceEEEEEecCCchhHHHhhHHHhcCCcccceeHHHHH
Confidence 5332210 0 000000 011244555555555555544322 26789999999999
Q ss_pred HHHHHhCCCCccEEEEEcCCC-----CCCCC-HHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 519 EAAVNLLPYPVPHNYIMYGNG-----KRNPI-YNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 519 ~~l~~~l~~~~~~~~~~~~~~-----~~~~~-~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
.++|++.+++ |+..-.++| ++.++ |+|+++.|..|++|+++++++||..|.+.+|||.||+..|++|+.+++
T Consensus 454 ~~iAkhi~~~--Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIKKP 531 (897)
T KOG1054|consen 454 AEIAKHIGIK--YKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIKKP 531 (897)
T ss_pred HHHHHhcCce--EEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEeCc
Confidence 9999999987 555544343 35666 999999999999999999999999999999999999999999999988
Q ss_pred C-CCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCC-------------ccchhhHHHHHHHHhhccc
Q 002267 593 K-LKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPP-------------SQQLVTIFWFSFSTMFFSH 658 (945)
Q Consensus 593 ~-~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-------------~~~~~~~~~~~~~~l~~~~ 658 (945)
. ..++.+.||.|+..++|+|++..++-++++++++.|+++.||+-.. -+++.+++||+++++++|+
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 8 7889999999999999999999999999999999999988874221 1458999999999999999
Q ss_pred cC-cccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCC-CeEEeeCchHHHHHHHhhcccc-
Q 002267 659 RE-NTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTE-PIGVQDGSFAWNYLVDELKIAE- 735 (945)
Q Consensus 659 ~~-~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~-~v~~~~~s~~~~~l~~~~~~~~- 735 (945)
-. .|||.++||+..+||||+||++++|||||++|||+.+..+||.+.|||.++.+ ..|...+....+|+++.. +.-
T Consensus 612 ~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr~Sk-iavy 690 (897)
T KOG1054|consen 612 CDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRRSK-IAVY 690 (897)
T ss_pred CCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHhhhh-HHHH
Confidence 65 89999999999999999999999999999999999999999999999998775 367777666777775421 110
Q ss_pred ccc----------eecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCccccccceEEEecCCCcchH
Q 002267 736 SRL----------VKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQEFTKSGWGFAFQRDSPLAI 805 (945)
Q Consensus 736 ~~~----------~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~spl~~ 805 (945)
.++ +-..+..|.++.+++. ++.+|++.|...-+|.-++..|+-..++..+.+.+||++.|+||.|+.
T Consensus 691 ~kMW~yM~SaepsVFv~t~aeGv~rVRks---KGkyAfLLEsTmNey~eqRkPCDTMKVGgNLds~GYGiATp~Gsslr~ 767 (897)
T KOG1054|consen 691 EKMWTYMKSAEPSVFVRTTAEGVARVRKS---KGKYAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLRN 767 (897)
T ss_pred HHHHHHHhcCCcceeeehhhhHHHHHHhc---CCceEeehHhhhhhhhhccCCccceecccccCCcceeecCCCCccccc
Confidence 111 2235778888888874 778999999999999988889999999999999999999999999999
Q ss_pred HHHHHHHhccccccHHHHHHHhcC-CCCCCCCCCCCCCCCCcccccchhHHHHHHHHHHHHHHHHHHHHHHHhhhccCC
Q 002267 806 DLSTAILQLSENGDLQKIHNKWLT-YNECSMDLSPADGGGSRLSLKSFWGLFLICGIACFLALIFFFCRVCGQFRRFGS 883 (945)
Q Consensus 806 ~i~~~i~~l~e~G~~~~i~~~w~~-~~~c~~~~~~~~~~~~~L~l~~~~g~f~i~~~g~~lal~vf~~e~~~~~~~~~~ 883 (945)
.+|.++++|.|.|+++++++|||. ++.|.....+..+....|+|.+.+|+|||+..|+++|+++.++|++|+.+...+
T Consensus 768 ~vNLAvLkL~E~G~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr~Eak 846 (897)
T KOG1054|consen 768 AVNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAK 846 (897)
T ss_pred chhhhhhhhcccchHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhhHHHH
Confidence 999999999999999999999998 899998777665566899999999999999999999999999999998877653
No 2
>KOG4440 consensus NMDA selective glutamate-gated ion channel receptor subunit GRIN1 [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1.3e-80 Score=650.31 Aligned_cols=747 Identities=23% Similarity=0.396 Sum_probs=608.3
Q ss_pred CCCceEEEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEec--CCCChHH-HHHHHHHHHhcCcEEEEc-
Q 002267 46 SRPSSVRIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRD--TNCSGFV-GTMEALQLMENEVVAAIG- 121 (945)
Q Consensus 46 ~~~~~i~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D--~~~~~~~-a~~~a~~li~~~v~aiiG- 121 (945)
..+++++||.++.-. ....-+.-++.++|.+.+ -.++.+.-.- .+.++.+ +.....+|++..|.+|+=
T Consensus 31 ~np~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~---s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~vS 102 (993)
T KOG4440|consen 31 CNPKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHG---SWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLVS 102 (993)
T ss_pred CCccceeeeeeeech-----hHHHHHHHHHHHhhcccc---ceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEec
Confidence 357899999998764 345677788999997653 2566552222 1223444 444555788888887763
Q ss_pred -cCChhH---HHHHHHhhcccCccEEecccCCCCCCCCC-CCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcc
Q 002267 122 -PQSSGI---AHVISHVVNELNVPLLSFGATDPTLTSLQ-YPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYG 196 (945)
Q Consensus 122 -p~~s~~---~~~va~~~~~~~iP~Is~~a~~~~ls~~~-~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g 196 (945)
|.+|.. -.+++--+.-++||++.....+..++++. ++.|.|++|+..+|+....+++.+|.|++|.++.+||.-|
T Consensus 103 h~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~~g 182 (993)
T KOG4440|consen 103 HPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDHEG 182 (993)
T ss_pred CCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEcccccc
Confidence 333322 23455566788999999988899999954 8999999999999999999999999999999999999999
Q ss_pred cchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 197 RNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 197 ~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
+.....++..+++...++.....+. ++.++++..|-++|..++||+++....+++..+++.|.+++|+++||+||+++
T Consensus 183 ra~~~r~qt~~e~~~~~~e~v~~f~--p~~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnmTG~G~VWiV~E 260 (993)
T KOG4440|consen 183 RAAQKRLQTLLEERESKAEKVLQFD--PGTKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNMTGSGYVWIVGE 260 (993)
T ss_pred hhHHhHHHHHHHHHhhhhhhheecC--cccchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcccCceEEEEEec
Confidence 9888888888776666555444555 56788999999999999999999999999999999999999999999999987
Q ss_pred CCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhc
Q 002267 277 WLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNE 356 (945)
Q Consensus 277 ~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~ 356 (945)
..... ....+|++|.+.-...+. ..+.-|+|.++|.|++++++.
T Consensus 261 ~a~~~-----------nn~PdG~LGlqL~~~~~~-------------------------~~hirDsv~vlasAv~e~~~~ 304 (993)
T KOG4440|consen 261 RAISG-----------NNLPDGILGLQLINGKNE-------------------------SAHIRDSVGVLASAVHELLEK 304 (993)
T ss_pred ccccc-----------CCCCCceeeeEeecCccc-------------------------cceehhhHHHHHHHHHHHHhh
Confidence 43221 134678999876543211 134579999999999999875
Q ss_pred CCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcc-cccceeeEEEccCCCCCCCcEEEEEee-ccceEEEEE
Q 002267 357 GGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMN-FTGLSGEIRFDADKNLVNPAYDVLNIG-GTGSRRIGY 434 (945)
Q Consensus 357 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~sG~v~fd~~g~~~~~~y~i~~~~-~~~~~~Vg~ 434 (945)
.. ++ .....||+....|..+..|.+.+...+ -+|.+|+|.||+||+|....|+|+|+. +...+-+|.
T Consensus 305 e~-I~----------~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~ 373 (993)
T KOG4440|consen 305 EN-IT----------DPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGI 373 (993)
T ss_pred cc-CC----------CCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhcc
Confidence 33 21 122347788888998999988887754 689999999999999999999999994 444555555
Q ss_pred ecCCCCcccccccccccCCCCCCCCCcceeeEeCCCcccCCcceeccCCCCceEEEecCccccccceeccC---------
Q 002267 435 WSNYSGLSVVAPEILYTKPPNSSSNRHLYSVIWPGEITATPRGWVFPNNGMPLRIAVPNRVSYNEFVAKDK--------- 505 (945)
Q Consensus 435 w~~~~gl~~~~~~~~~~~~~~~~~~~~l~~i~W~g~~~~~P~~~~~~~~g~~l~v~~~~~~~~~~~~~~~~--------- 505 (945)
|+. +.+ ..+.+.|+|||+.++.|+++++|+. |||.+.+++|| ++...
T Consensus 374 yd~---~r~---------------~~nd~~IiWpGg~~~KP~gi~~pth---LrivTi~~~PF---VYv~p~~sd~~c~e 429 (993)
T KOG4440|consen 374 YDG---TRV---------------IPNDRKIIWPGGETEKPRGIQMPTH---LRIVTIHQEPF---VYVKPTLSDGTCKE 429 (993)
T ss_pred ccc---eee---------------ccCCceeecCCCCcCCCccccccce---eEEEEeccCCe---EEEecCCCCcchhh
Confidence 543 221 1234789999999999999999874 99999888554 44221
Q ss_pred ----------------------------CCCceeeeeHHHHHHHHHhCCCCccEEEEEcCC-CC----------CCCCHH
Q 002267 506 ----------------------------SPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGN-GK----------RNPIYN 546 (945)
Q Consensus 506 ----------------------------~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~-~~----------~~~~~~ 546 (945)
..-|+.|||||++-.+++.+||+++..+++.+. +. ...+|+
T Consensus 430 ef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~ 509 (993)
T KOG4440|consen 430 EFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWN 509 (993)
T ss_pred hccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccceeh
Confidence 024788999999999999999997777776332 11 123699
Q ss_pred HHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhhe
Q 002267 547 DIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWI 626 (945)
Q Consensus 547 ~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~ 626 (945)
|+++.|..+++||++++++|+++|.++++||.||...|+.|+.++..+.+.+..||+||+-.+|+++.+++.++++++++
T Consensus 510 G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYl 589 (993)
T KOG4440|consen 510 GMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYL 589 (993)
T ss_pred hhhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecccCCC-CC-------CCCccchhhHHHHHHHHhhccc--cCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeec
Q 002267 627 LEHRFNNE-FR-------GPPSQQLVTIFWFSFSTMFFSH--RENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQ 696 (945)
Q Consensus 627 l~~~~~~~-~~-------~~~~~~~~~~~~~~~~~l~~~~--~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~ 696 (945)
++|+++.+ |. .....+++.++||+|+.|+.++ ...|+|.+.|++-++|.=|++|++++|||||++||...
T Consensus 590 LDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLd 669 (993)
T KOG4440|consen 590 LDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLD 669 (993)
T ss_pred HHhcCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeec
Confidence 99987643 21 1234568999999999999887 44899999999999999999999999999999999999
Q ss_pred cccCCCCChHHhhcC----CCCeEEeeCchHHHHHHHhhcccc----ccceecCCHHHHHHHHhcCCCCCceeEEecchh
Q 002267 697 QLTSQIEGIDSLISS----TEPIGVQDGSFAWNYLVDELKIAE----SRLVKLKNMEEYSIALARGPKGGGVAAIVDELP 768 (945)
Q Consensus 697 ~~~~~i~~~~dL~~~----~~~v~~~~~s~~~~~l~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~ 768 (945)
+.+..++++.|-.-. +...+...+|.+..|++++..... ..-..|.+.+|.++++++ |..+|++.+..
T Consensus 670 rPe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~----gkL~AFIWDS~ 745 (993)
T KOG4440|consen 670 RPEERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRD----GKLHAFIWDSA 745 (993)
T ss_pred CccccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHc----CceeEEEeecc
Confidence 999999999994332 245788899999999987654332 122347788999999999 99999999999
Q ss_pred hHHHHhccCCccEEEeCccccccceEEEecCCCcchHHHHHHHHhccccccHHHHHHHhcCC---CCCCCCCCCCCCCCC
Q 002267 769 YIELFMSKTNCEFRTVGQEFTKSGWGFAFQRDSPLAIDLSTAILQLSENGDLQKIHNKWLTY---NECSMDLSPADGGGS 845 (945)
Q Consensus 769 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~i~~~w~~~---~~c~~~~~~~~~~~~ 845 (945)
.++|..++ +|++...++.|...+||+.++|+||+.+.+..+|+++.|+|.|+++.++|... +.|..... .+.
T Consensus 746 rLEfEAs~-~CeLvT~GeLFgRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~~~k----~Pa 820 (993)
T KOG4440|consen 746 RLEFEASQ-KCELVTTGELFGRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECDSRSK----APA 820 (993)
T ss_pred eeeehhhc-ccceEeccccccccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhhhhcc----Ccc
Confidence 99999999 99999999999999999999999999999999999999999999999999983 44543322 678
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHHHHHHHhhhccC
Q 002267 846 RLSLKSFWGLFLICGIACFLALIFFFCRVCGQFRRFG 882 (945)
Q Consensus 846 ~L~l~~~~g~f~i~~~g~~lal~vf~~e~~~~~~~~~ 882 (945)
.|++++|.|+|++.+.|+++++...++|..|++++.+
T Consensus 821 tLgl~NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~ 857 (993)
T KOG4440|consen 821 TLGLENMAGVFILVAGGIAAGIFLIFIEVAYKRHKDA 857 (993)
T ss_pred cccccccccEEEEEecchhheeeEEEEeehhhhhhhh
Confidence 9999999999999999999998888899999887654
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=3.2e-74 Score=624.59 Aligned_cols=710 Identities=21% Similarity=0.379 Sum_probs=557.2
Q ss_pred EEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh---HHHHHHHhhcccCccEEecccC-CCCCCCCC-CCceEEec
Q 002267 91 NFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSG---IAHVISHVVNELNVPLLSFGAT-DPTLTSLQ-YPYFLRTT 164 (945)
Q Consensus 91 ~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~---~~~~va~~~~~~~iP~Is~~a~-~~~ls~~~-~p~~~r~~ 164 (945)
.+...++ .||..-+...|+++.. +|.+|+=-..|. ++..+--+....+||+|+..+. +..++++. -..|++..
T Consensus 76 ~~l~~N~-tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg 154 (1258)
T KOG1053|consen 76 VLLPMNT-TDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLG 154 (1258)
T ss_pred eEeecCC-CCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeC
Confidence 3333343 7999999999999976 888876544443 3333334557889999997654 44555532 35799999
Q ss_pred CChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhc--CcEEEEeecCCCCCChHHHHHHHHhhccCCce
Q 002267 165 QSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKK--RAKISYKAPFSPGASRSAINSLLVGANLMESR 242 (945)
Q Consensus 165 p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~ 242 (945)
++-.+|+.++.++|+.|+|..+++|...-+..+.+...+++..... |.++.......+. .++.......++++.++.
T Consensus 155 ~Sieqqa~Vml~iL~~ydW~~Fs~vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s-~~d~~a~~q~qLkki~a~ 233 (1258)
T KOG1053|consen 155 PSIEQQAQVMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPS-TDDLLAKLQAQLKKIQAP 233 (1258)
T ss_pred CcHHHHHHHHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCC-CCchHHHHHHHHHhcCCc
Confidence 9999999999999999999999999998888888888888877653 5566555555533 222233444456666799
Q ss_pred EEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhh
Q 002267 243 VFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNL 322 (945)
Q Consensus 243 vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~ 322 (945)
||+++|+.+++..+|..|.++|+++++|+||++...... + +...+...|++.+... .|+.
T Consensus 234 VillyC~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~-~------~~pa~~P~GLisv~~~------------~w~~- 293 (1258)
T KOG1053|consen 234 VILLYCSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL-E------PRPAEFPLGLISVSYD------------TWRY- 293 (1258)
T ss_pred EEEEEecHHHHHHHHHHHHhcCCcCCceEEEeehhccCC-C------CCCccCccceeeeecc------------chhh-
Confidence 999999999999999999999999999999996533221 0 1112445677766532 2221
Q ss_pred hcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccc
Q 002267 323 KYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGL 402 (945)
Q Consensus 323 ~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~ 402 (945)
.+....-|+|-++|.|...++...+.++.+ +.++..-.. .....+..+.+.|.|++|+|
T Consensus 294 -----------~l~~rVrdgvaiva~aa~s~~~~~~~lp~~--------~~~C~~~~~-~~~~~~~~l~r~l~NvT~~g- 352 (1258)
T KOG1053|consen 294 -----------SLEARVRDGVAIVARAASSMLRIHGFLPEP--------KMDCREQEE-TRLTSGETLHRFLANVTWDG- 352 (1258)
T ss_pred -----------hHHHHHhhhHHHHHHHHHHHHhhcccCCCc--------ccccccccC-ccccchhhhhhhhheeeecc-
Confidence 234557899999999999998876654321 222111111 11224788999999999999
Q ss_pred eeeEEEccCCCCCCCcEEEEEeec-cceEEEEEecCCCCcccccccccccCCCCCCCCCcceeeEeCCCcccCCcceecc
Q 002267 403 SGEIRFDADKNLVNPAYDVLNIGG-TGSRRIGYWSNYSGLSVVAPEILYTKPPNSSSNRHLYSVIWPGEITATPRGWVFP 481 (945)
Q Consensus 403 sG~v~fd~~g~~~~~~y~i~~~~~-~~~~~Vg~w~~~~gl~~~~~~~~~~~~~~~~~~~~l~~i~W~g~~~~~P~~~~~~ 481 (945)
++++|+++|-.+++...++.... ..|.+||.|.+++ | .++-.+||- ....+ .+.|
T Consensus 353 -~~lsf~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L-------------------~M~y~vWPr-~~~~~--q~~~ 408 (1258)
T KOG1053|consen 353 -RDLSFNEDGYLVHPNLVVIDLNRDRTWERVGSWENGT-L-------------------VMKYPVWPR-YHKFL--QPVP 408 (1258)
T ss_pred -cceeecCCceeeccceEEEecCCCcchheeceecCCe-E-------------------EEecccccc-ccCcc--CCCC
Confidence 88999999988888888887764 5799999998765 2 245567872 22222 2222
Q ss_pred CCCCceEEEecCccccccceeccC-------------------------C----CCceeeeeHHHHHHHHHhCCCCccEE
Q 002267 482 NNGMPLRIAVPNRVSYNEFVAKDK-------------------------S----PPGVKGYCIDVFEAAVNLLPYPVPHN 532 (945)
Q Consensus 482 ~~g~~l~v~~~~~~~~~~~~~~~~-------------------------~----~~~~~G~~~dll~~l~~~l~~~~~~~ 532 (945)
+..+|+|.+.++.||..-...|. . ..|++||||||++.|++.+||+ |+
T Consensus 409 -d~~HL~VvTLeE~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~Ft--YD 485 (1258)
T KOG1053|consen 409 -DKLHLTVVTLEERPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFT--YD 485 (1258)
T ss_pred -CcceeEEEEeccCCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcc--eE
Confidence 23578888877754432222211 1 3589999999999999999998 77
Q ss_pred EEEcCCCC----CCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchh
Q 002267 533 YIMYGNGK----RNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIP 608 (945)
Q Consensus 533 ~~~~~~~~----~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~ 608 (945)
++...+|+ .||.|||+|++|..+++||++++++|+++|++.+|||.||.+.++.++|.+.+...+..+||.||++.
T Consensus 486 LYlVtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~s 565 (1258)
T KOG1053|consen 486 LYLVTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPS 565 (1258)
T ss_pred EEEecCCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchH
Confidence 77777665 69999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHh-hhheeecccCCCCC---------CCCccchhhHHHHHHHHhhccc--cCcccccchhhHHHHHHH
Q 002267 609 MWLVTGGFFLFVGA-VVWILEHRFNNEFR---------GPPSQQLVTIFWFSFSTMFFSH--RENTVSSLGRVVLIVWLF 676 (945)
Q Consensus 609 ~W~~~~~~~~~~~~-~~~~l~~~~~~~~~---------~~~~~~~~~~~~~~~~~l~~~~--~~~p~s~~~R~~~~~w~~ 676 (945)
+|+.+++++++++. .++++|+.++-.+. +.+.++++.++|..|+.+|... .+.|++..+||++.+|.|
T Consensus 566 vWVmmFVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAf 645 (1258)
T KOG1053|consen 566 VWVMMFVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAF 645 (1258)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHH
Confidence 99999998886655 56799998765442 3346789999999999999885 568999999999999999
Q ss_pred HHHhhhhhhhhhhheeeeeccccCCCCChHHhhcC-------CCCeEEeeCchHHHHHHHhhccccccceec--CCHHHH
Q 002267 677 VVLIINSSYTASLTSILTVQQLTSQIEGIDSLISS-------TEPIGVQDGSFAWNYLVDELKIAESRLVKL--KNMEEY 747 (945)
Q Consensus 677 ~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~-------~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~--~~~~~~ 747 (945)
|++|+.++|||||++||...++..++.++.|=+-+ ..++|...++..++++++++..-...++.| ...++.
T Consensus 646 FavifLAsYTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~Nyp~MHeYM~kyNq~~v~da 725 (1258)
T KOG1053|consen 646 FAVIFLASYTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRSNYPEMHEYMVKYNQPGVEDA 725 (1258)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHhccHHHHHHHHHhccCchHHH
Confidence 99999999999999999999999999999986533 235777766667777766443222445545 467899
Q ss_pred HHHHhcCCCCCceeEEecchhhHHHHhcc-CCccEEEeC--ccccccceEEEecCCCcchHHHHHHHHhccccccHHHHH
Q 002267 748 SIALARGPKGGGVAAIVDELPYIELFMSK-TNCEFRTVG--QEFTKSGWGFAFQRDSPLAIDLSTAILQLSENGDLQKIH 824 (945)
Q Consensus 748 ~~~l~~~~~~g~~~a~~~~~~~~~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~i~ 824 (945)
++.|++ |+.||||+|...++|...+ +.|++..++ ..|.+.+||+++|||||++..||.+|+++...|.+++++
T Consensus 726 l~sLK~----gKLDAFIyDaAVLnY~agkDegCKLvTIGsgKvFAttGYGIal~k~Spwkr~IdlallQy~gdGeme~Le 801 (1258)
T KOG1053|consen 726 LESLKN----GKLDAFIYDAAVLNYMAGKDEGCKLVTIGSGKVFATTGYGIALPKNSPWKRQIDLALLQYLGDGEMEMLE 801 (1258)
T ss_pred HHHHhc----ccchhHHHHHHHHHHhhccCCCceEEEecCCceeeecceeeecCCCCcchhhHHHHHHHHhccchHHHHH
Confidence 999998 9999999999999999876 479999998 899999999999999999999999999999999999999
Q ss_pred HHhcCCCCCCCCCCCCCCCCCcccccchhHHHHHHHHHHHHHHHHHHHHHHHh
Q 002267 825 NKWLTYNECSMDLSPADGGGSRLSLKSFWGLFLICGIACFLALIFFFCRVCGQ 877 (945)
Q Consensus 825 ~~w~~~~~c~~~~~~~~~~~~~L~l~~~~g~f~i~~~g~~lal~vf~~e~~~~ 877 (945)
+.|+. +.|.++.++. .+.+|++++|.|+|++|++|+++|+++|++|.++.
T Consensus 802 ~~Wlt-gic~n~k~ev--mSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvY 851 (1258)
T KOG1053|consen 802 TLWLT-GICHNSKNEV--MSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVY 851 (1258)
T ss_pred HHHhh-cccccchhhh--hhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99998 6777766666 78899999999999999999999999999997643
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=5.5e-66 Score=617.02 Aligned_cols=600 Identities=36% Similarity=0.624 Sum_probs=511.2
Q ss_pred HHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCch
Q 002267 232 LLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDL 311 (945)
Q Consensus 232 ~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~ 311 (945)
.+.+++....+++++++.+..+..++.++.++||+..+|+|+.+.+.....+.... ....+.++|.++...+.|.+..
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~s~~ 82 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDEL--YSLIDVMNGVLGLRGHIPRSEL 82 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhccccc--ccchhheeeEEeeccCCCccHH
Confidence 44556667899999999999999999999999999999999999987766665432 3455778899999999999999
Q ss_pred hhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHH
Q 002267 312 KKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFL 391 (945)
Q Consensus 312 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 391 (945)
.+.|..+|+.. ....+.++.++||+++++|.|++.... .... ...|...+.|.++..+.
T Consensus 83 ~~~~~~~~~~~------~~~~~~~~~~~~D~~~~~a~~~~~~~~-~~~~--------------~~~~~~~~~~~~~~~~~ 141 (656)
T KOG1052|consen 83 LQNFVTRWQTS------NVELLVYALWAYDAIQALARAVESLLN-IGNL--------------SLSCGRNNSWLDALGVF 141 (656)
T ss_pred HHHHHHHHhhc------cccccchhhHHHHHHHHHHHHHHHhhc-CCCC--------------ceecCCCCcccchhHHH
Confidence 99999999864 234677899999999999999999764 2222 22333344566788888
Q ss_pred HHHHhcccc---cceeeEEEccCCCCCCCcEEEEEeeccceEEEEEecCCCCcccccccccccCCCCCCCCCcceeeEeC
Q 002267 392 QTLLRMNFT---GLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGYWSNYSGLSVVAPEILYTKPPNSSSNRHLYSVIWP 468 (945)
Q Consensus 392 ~~l~~~~f~---G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~w~~~~gl~~~~~~~~~~~~~~~~~~~~l~~i~W~ 468 (945)
+.+...... |.+|.+.++.++.+....|+|+|..+.+.+.||.|++..| .+|.||
T Consensus 142 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~----------------------~~i~~~ 199 (656)
T KOG1052|consen 142 NFGKKLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG----------------------ENISWP 199 (656)
T ss_pred HHHHhhhhhccccceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC----------------------ceeecc
Confidence 888876644 4567888888888899999999999999999999998763 478999
Q ss_pred CCcccCCcceeccCCCCceEEEecCccccccceecc---CCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCC--CCC
Q 002267 469 GEITATPRGWVFPNNGMPLRIAVPNRVSYNEFVAKD---KSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGK--RNP 543 (945)
Q Consensus 469 g~~~~~P~~~~~~~~g~~l~v~~~~~~~~~~~~~~~---~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~--~~~ 543 (945)
+.....|++|.+|.+|++|||+++..+||..++... .++..+.|+|+||++++++.+||+++++.++.+.|+ ++|
T Consensus 200 ~~~~~~~~~~~~~~~~~~l~v~~~~~~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g 279 (656)
T KOG1052|consen 200 GKDYFVPKGWFFPTNGKPLRVGVVTEPPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNG 279 (656)
T ss_pred CCcccCcCCccccCCCceEEEEEeccCCceeeeecccccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCC
Confidence 999999999999999999999999998887777652 135689999999999999999999888888765544 457
Q ss_pred CHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhh
Q 002267 544 IYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAV 623 (945)
Q Consensus 544 ~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~ 623 (945)
+|+|++++|.+|++|++ ++++++++|.+++|||.||++.++++++++++.....|.|++||++++|+++++++++++++
T Consensus 280 ~~~g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~ 358 (656)
T KOG1052|consen 280 NWDGLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLL 358 (656)
T ss_pred ChhHHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHH
Confidence 99999999999999999 89999999999999999999999999999999665599999999999999999999999999
Q ss_pred hheeecccCCCCCCCCc------cchhhHHHHHHHHhhccc-cCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeec
Q 002267 624 VWILEHRFNNEFRGPPS------QQLVTIFWFSFSTMFFSH-RENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQ 696 (945)
Q Consensus 624 ~~~l~~~~~~~~~~~~~------~~~~~~~~~~~~~l~~~~-~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~ 696 (945)
+|+++|+.+.++ ++. ....+++|+++++++.++ .+.|++.++|+++++||++++|++++|||+|+|+||++
T Consensus 359 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~ 436 (656)
T KOG1052|consen 359 LWILERLSPYEL--PPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVP 436 (656)
T ss_pred HHHHhccccccC--CccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 999999999888 222 123557899999888886 45899999999999999999999999999999999999
Q ss_pred cccCCCCChHHhhc-CCCCeEEeeCchHHHHHHHh---hccccc-cceecCCHHHHHHHHhcCCCCCceeEEecchhhHH
Q 002267 697 QLTSQIEGIDSLIS-STEPIGVQDGSFAWNYLVDE---LKIAES-RLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIE 771 (945)
Q Consensus 697 ~~~~~i~~~~dL~~-~~~~v~~~~~s~~~~~l~~~---~~~~~~-~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~ 771 (945)
++..+|++++||.+ ++.++|...+++...++.+. .....+ +.+.+.+.+++.+++++|.. |+++++.++.++..
T Consensus 437 ~~~~~i~~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~-~~~~~~~~~~~~~~ 515 (656)
T KOG1052|consen 437 RLRSPIDSLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPS-GGYAFASDELYLAY 515 (656)
T ss_pred ccCCcccCHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCC-CceEEEeccHHHHH
Confidence 99999999999995 78889999999999999776 334444 77788999999999999544 45666666666666
Q ss_pred HHhccCCccEEEeCccccccceEEEecCCCcchHHHHHHHHhccccccHHHHHHHhcCCCCCCCCCCCCCCCCCcccccc
Q 002267 772 LFMSKTNCEFRTVGQEFTKSGWGFAFQRDSPLAIDLSTAILQLSENGDLQKIHNKWLTYNECSMDLSPADGGGSRLSLKS 851 (945)
Q Consensus 772 ~~~~~~~~~~~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~i~~~w~~~~~c~~~~~~~~~~~~~L~l~~ 851 (945)
++.+++.|+++.+++.+...+++ ++||||||++.++++|+++.|.|.++++++||+....|........ ....|++++
T Consensus 516 ~~~~~~~c~~~~v~~~~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~~~-~~~~l~~~~ 593 (656)
T KOG1052|consen 516 LFLRDEICDLTEVGEPFLYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQTE-KTKALDLES 593 (656)
T ss_pred HHhhcCCCceEEeCCcccCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCCcc-cccccchhh
Confidence 66665568999999999999999 9999999999999999999999999999999999554422222211 467899999
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhhhccC
Q 002267 852 FWGLFLICGIACFLALIFFFCRVCGQFRRFG 882 (945)
Q Consensus 852 ~~g~f~i~~~g~~lal~vf~~e~~~~~~~~~ 882 (945)
++|+|+++++|+++|+++|++|++|++++..
T Consensus 594 ~~g~F~i~~~g~~lal~vfi~E~~~~~~~~~ 624 (656)
T KOG1052|consen 594 FWGLFLILLVGYLLALLVFILELLYSRRRTL 624 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999999999998875
No 5
>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=5.5e-47 Score=415.46 Aligned_cols=366 Identities=20% Similarity=0.317 Sum_probs=297.0
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEE-ecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVI-RDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~-~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||+||+..+. ....|+++|++++|.+..++++.+|.+++ +|+.+|++.+..++|+|++++|.|||||.++..+..
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 48999997653 46899999999999999999999999999 999999999999999999999999999999999999
Q ss_pred HHHhhcccCccEEeccc-----------CCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccch
Q 002267 131 ISHVVNELNVPLLSFGA-----------TDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNG 199 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a-----------~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~ 199 (945)
++.+|+..+||+|++++ ++|.++..+||++.|+. ..+..|+++++++|+|++|++|| |++||...
T Consensus 78 v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lrp~---~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~ 153 (400)
T cd06392 78 LQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAARPP---VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRG 153 (400)
T ss_pred HHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEecCc---hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHH
Confidence 99999999999999866 44555556677777763 46678999999999999999999 89999999
Q ss_pred HHHHHHHHhhcCcEEEEeec-------CCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEE
Q 002267 200 ISVLGDALSKKRAKISYKAP-------FSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVW 272 (945)
Q Consensus 200 ~~~l~~~l~~~g~~v~~~~~-------~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~w 272 (945)
++.+.+++.+.+.+|.++.. +++. -.+.....|.+++..+ ++||++++++.+..+|++|+++||+.++|+|
T Consensus 154 lq~L~~~~~~~~~~I~~~~v~~~~~~~~~~~-l~~~~~~~L~~~~~~~-r~iVv~~s~~~~~~il~qA~~lgM~~~~y~w 231 (400)
T cd06392 154 LQSFLDQASRLGLDVSLQKVDRNISRVFTNL-FTTMKTEELNRYRDTL-RRAILLLSPRGAQTFINEAVETNLASKDSHW 231 (400)
T ss_pred HHHHHHHHhhcCceEEEEEcccCcchhhhhH-HHHHHHhhhhhccccc-eEEEEEcCcHHHHHHHHHHHHhCcccCCeEE
Confidence 99999999999999987652 2211 1233345566666556 8999999999999999999999999999999
Q ss_pred EEeCCCccccCCCCCCChhHHhhhc-ceeEEEeecCCCchhhHHH----HHHHhhhcCC--CCCCCCchhHHHHHHHHHH
Q 002267 273 IATDWLPSVLDSTEPVDIDTMNLLQ-GVVALRHHTPDTDLKKNFI----SRWKNLKYKE--NSPSGFNSYALYAYDSVWL 345 (945)
Q Consensus 273 i~~~~~~~~~~~~~~~~~~~~~~~~-G~~~~~~~~~~~~~~~~f~----~~~~~~~~~~--~~~~~~~~~~~~~YDav~~ 345 (945)
|.+++.....+. .+...... ++++++.+.|.++...+|. .+|++..... .....++.+++++|||||+
T Consensus 232 I~t~~~~~~~dl-----~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~l~~~aalayDaV~~ 306 (400)
T cd06392 232 VFVNEEISDTEI-----LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGYLQMLQVSNLYLYDSVLM 306 (400)
T ss_pred EEecCCcccccH-----HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHHH
Confidence 999987664433 23333333 4555999988777566554 6776443211 1111467899999999999
Q ss_pred HHHHHHHHHhcCCcccccCCCCCCCCCCCcccc--CCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEE
Q 002267 346 VAHALDALLNEGGKFTFSNDPKLHDTNGSMLNL--SSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLN 423 (945)
Q Consensus 346 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~ 423 (945)
+|+|++..+...... +..+ ++| ...++|+.|..|+++|++++|+|+||+|+||++|+|.+..|+|+|
T Consensus 307 ~A~Al~~ll~~~~~~---------~~~~--l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi~ 375 (400)
T cd06392 307 LANAFHRKLEDRKWH---------SMAS--LNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEILG 375 (400)
T ss_pred HHHHHHHHhhccccC---------CCCC--CccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEEe
Confidence 999999865432221 1122 345 568899999999999999999999999999999999999999999
Q ss_pred ee-----ccceEEEEEecCCCCcc
Q 002267 424 IG-----GTGSRRIGYWSNYSGLS 442 (945)
Q Consensus 424 ~~-----~~~~~~Vg~w~~~~gl~ 442 (945)
++ +.|+++||+|++.+||.
T Consensus 376 l~~~~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 376 TSYSETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred ccccccCCCCceEeEEecCCCCCC
Confidence 54 67799999999998863
No 6
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=4.3e-47 Score=436.55 Aligned_cols=377 Identities=23% Similarity=0.392 Sum_probs=310.1
Q ss_pred CCCceEEEEEEeccCC-----------------ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHH
Q 002267 46 SRPSSVRIGALFTYDS-----------------VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEA 108 (945)
Q Consensus 46 ~~~~~i~IG~l~~l~~-----------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a 108 (945)
..+++|.||++||.+. ..|.....|+.+|+|+||+++++|||++|++.++|+|+++..|++.+
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 13567789999999999999999999999999999999999999999
Q ss_pred HHHHh--------------------------cCcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceE
Q 002267 109 LQLME--------------------------NEVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFL 161 (945)
Q Consensus 109 ~~li~--------------------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~ 161 (945)
.+++. .+|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..|||||
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 99985 27999999999999999999999999999999999999998 4799999
Q ss_pred EecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCC-
Q 002267 162 RTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLME- 240 (945)
Q Consensus 162 r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~- 240 (945)
|+.|+|..++.++++++++|+|++|++||+|++||+...+.+.+.+++.|+||+..+.++...+..++..++++|++++
T Consensus 165 Rt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~lk~~~~ 244 (472)
T cd06374 165 RVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSNAGEQSFDRLLRKLRSRLP 244 (472)
T ss_pred EcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCchHHHHHHHHHHHhcCC
Confidence 9999999999999999999999999999999999999999999999999999998887764457789999999999754
Q ss_pred -ceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHH---
Q 002267 241 -SRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFI--- 316 (945)
Q Consensus 241 -~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~--- 316 (945)
++||++.+....+..++++++++|+. .+++||++++|....... ....+..+|++++.+..+..+.+++|+
T Consensus 245 da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~~----~~~~~~~~G~l~~~~~~~~~~~F~~~l~~l 319 (472)
T cd06374 245 KARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDVV----EGYEEEAEGGITIKLQSPEVPSFDDYYLKL 319 (472)
T ss_pred CcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHhh----hcchhhhheeEEEEecCCCCccHHHHHHhC
Confidence 55666667788899999999999996 468999999776432111 123466899999999888877777754
Q ss_pred ------------HHHHhhhcCC-------CCC----------C----CCchhHHHHHHHHHHHHHHHHHHHhcCCccccc
Q 002267 317 ------------SRWKNLKYKE-------NSP----------S----GFNSYALYAYDSVWLVAHALDALLNEGGKFTFS 363 (945)
Q Consensus 317 ------------~~~~~~~~~~-------~~~----------~----~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 363 (945)
+.|++.|... ... . ..+.++.++|||||++|+||++++.+....
T Consensus 320 ~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~--- 396 (472)
T cd06374 320 RPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPG--- 396 (472)
T ss_pred CcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCC---
Confidence 4466555311 000 0 112456689999999999999997654321
Q ss_pred CCCCCCCCCCCccccCCccccCchHHHHHHHHhccccccee-eEEEccCCCCCCCcEEEEEeec-----cceEEEEEecC
Q 002267 364 NDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSG-EIRFDADKNLVNPAYDVLNIGG-----TGSRRIGYWSN 437 (945)
Q Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG-~v~fd~~g~~~~~~y~i~~~~~-----~~~~~Vg~w~~ 437 (945)
....|..... .++.+|+++|++++|+|++| +|.||++|++. ..|+|+|++. .++++||+|++
T Consensus 397 ----------~~~~c~~~~~-~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~~ 464 (472)
T cd06374 397 ----------HVGLCDAMKP-IDGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWHE 464 (472)
T ss_pred ----------CCCCCcCCCC-CCHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEeC
Confidence 0112333232 35999999999999999999 69999999975 5899999994 25899999974
Q ss_pred CCCccc
Q 002267 438 YSGLSV 443 (945)
Q Consensus 438 ~~gl~~ 443 (945)
.+|.+
T Consensus 465 -~~l~~ 469 (472)
T cd06374 465 -GDLGI 469 (472)
T ss_pred -Ccccc
Confidence 35543
No 7
>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=1.3e-46 Score=428.29 Aligned_cols=367 Identities=21% Similarity=0.407 Sum_probs=308.6
Q ss_pred ceEEEEEEeccCC-------------ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh--
Q 002267 49 SSVRIGALFTYDS-------------VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLME-- 113 (945)
Q Consensus 49 ~~i~IG~l~~l~~-------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~-- 113 (945)
++|.||++||++. ..|.....|+.+|+|+||+++++|||++|+++++|+|+++..|++.+.+++.
T Consensus 1 Gd~~igglFp~h~~~~~~~~C~~~~~~~g~~~~~Am~~AIe~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~~i~~~ 80 (458)
T cd06375 1 GDLVLGGLFPVHEKGEGTEECGRINEDRGIQRLEAMLFAIDRINNDPRILPGIKLGVHILDTCSRDTYALEQSLEFVRAS 80 (458)
T ss_pred CCEEEEEEEEeeeCCCCCCCCcCccccchHHHHHHHHHHHHHHhCCCCCCCCceeccEEEecCCCcHHHHHHHHHHHhhh
Confidence 4799999999982 3577889999999999999999999999999999999999999999988872
Q ss_pred -----------------------cCcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhH
Q 002267 114 -----------------------NEVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYY 169 (945)
Q Consensus 114 -----------------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~ 169 (945)
.+|.|||||.+|..+.+++++++.++||+|+++++++.|++ .+||||||+.|+|..
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 26999999999999999999999999999999999999998 579999999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc-CCceEEEEEc
Q 002267 170 QMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANL-MESRVFVVHV 248 (945)
Q Consensus 170 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vivl~~ 248 (945)
|+.++++++++|||++|++||+|++||+..++.+.+++++.|+||+..+.++...+..|+..++++|++ .++||||+.+
T Consensus 161 qa~ai~~ll~~~~W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~l~~~~~a~vVvl~~ 240 (458)
T cd06375 161 QAKAMAEILRFFNWTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRSADRKSYDSVIRKLLQKPNARVVVLFT 240 (458)
T ss_pred HHHHHHHHHHHCCCeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCCHHHHHHHHHHHhccCCCEEEEEec
Confidence 999999999999999999999999999999999999999999999998888755567899999999875 6899999999
Q ss_pred ChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHH----------
Q 002267 249 NPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISR---------- 318 (945)
Q Consensus 249 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~---------- 318 (945)
...++..++++|+++|+. ++||++++|....... ....+..+|++++.+.....+.+++|++.
T Consensus 241 ~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~----~~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~n~ 313 (458)
T cd06375 241 RSEDARELLAAAKRLNAS---FTWVASDGWGAQESIV----KGSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTRNP 313 (458)
T ss_pred ChHHHHHHHHHHHHcCCc---EEEEEeccccccchhh----hccchhhceEEEEEeccccchhHHHHHHhCCcCcCCCCc
Confidence 999999999999999986 7999999876332111 11235688999999988777777766644
Q ss_pred -----HHhhhcCC----C---------C------CCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCCCCC
Q 002267 319 -----WKNLKYKE----N---------S------PSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDTNGS 374 (945)
Q Consensus 319 -----~~~~~~~~----~---------~------~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~ 374 (945)
|+..|... . . ......++.+.||||+++|||||+++.+.... .
T Consensus 314 w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~-------------~ 380 (458)
T cd06375 314 WFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPN-------------T 380 (458)
T ss_pred HHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCC-------------C
Confidence 65555410 0 0 00124578899999999999999998654321 1
Q ss_pred ccccCCccccCchHHHH-HHHHhcccc-----ccee-eEEEccCCCCCCCcEEEEEeec--cc----eEEEEEecC
Q 002267 375 MLNLSSLRVFDGGQQFL-QTLLRMNFT-----GLSG-EIRFDADKNLVNPAYDVLNIGG--TG----SRRIGYWSN 437 (945)
Q Consensus 375 ~~~~~~~~~~~~~~~l~-~~l~~~~f~-----G~sG-~v~fd~~g~~~~~~y~i~~~~~--~~----~~~Vg~w~~ 437 (945)
...|+....+ ++++|+ +.|++++|. |.+| +|.||+||+. ...|+|+|++. ++ +++||+|+.
T Consensus 381 ~~~c~~~~~~-~~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 381 TKLCDAMKPL-DGKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDG-LGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCCCCCCCC-CHHHHHHHHHHhccccccccCCCCCCeeEECCCCCC-CcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 1235555555 488999 599999999 9998 5999999995 57899999993 32 679999964
No 8
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=100.00 E-value=2.2e-46 Score=430.66 Aligned_cols=373 Identities=24% Similarity=0.399 Sum_probs=309.8
Q ss_pred ceEEEEEEeccCC-------------ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh--
Q 002267 49 SSVRIGALFTYDS-------------VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLME-- 113 (945)
Q Consensus 49 ~~i~IG~l~~l~~-------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~-- 113 (945)
+++.||++||++. ..|.....|+++|+|+||+++++|||++|+++++|+++++..|+..+.+++.
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 4799999999982 3566679999999999999999999999999999999999999999998885
Q ss_pred ---------------------cCcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHH
Q 002267 114 ---------------------NEVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQM 171 (945)
Q Consensus 114 ---------------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~ 171 (945)
.+|.|||||.+|..+.+++++++.+++|+|+++++++.+++ .+||||||+.|++..++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~ 160 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQA 160 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHH
Confidence 38999999999999999999999999999999999999987 57999999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc-CCceEEEEEcCh
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANL-MESRVFVVHVNP 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vivl~~~~ 250 (945)
.++++++++++|++|++|++|++||....+.+.+.+++.|++|+..+.++...+..|+..++++|++ .++|+||+.+..
T Consensus 161 ~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~~~~~d~~~~l~~l~~~~~a~viil~~~~ 240 (452)
T cd06362 161 QAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEKLAAERGICIAGSEKIPSSATEEEFDNIIRKLLSKPNARVVVLFCRE 240 (452)
T ss_pred HHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEEEEEEcCCCCCHHHHHHHHHHHhhcCCCeEEEEEcCh
Confidence 9999999999999999999999999999999999999999999998888754577899999999987 579999999999
Q ss_pred hhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHH--------------
Q 002267 251 DTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFI-------------- 316 (945)
Q Consensus 251 ~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~-------------- 316 (945)
.++..++++|+++|++ ..++||+++.|....... +...+..+|++++.+.....+.+++|+
T Consensus 241 ~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~~~ 315 (452)
T cd06362 241 DDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSVV----EGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNPWF 315 (452)
T ss_pred HHHHHHHHHHHHcCCc-CceEEEEeccccccchhh----cccccccceEEEEEecccccccHHHHhhhCCcCcCCCChHH
Confidence 9999999999999997 468999998775432211 123366889998888776655555543
Q ss_pred -HHHHhhhcC---CC-C---------------CCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCCCCCcc
Q 002267 317 -SRWKNLKYK---EN-S---------------PSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDTNGSML 376 (945)
Q Consensus 317 -~~~~~~~~~---~~-~---------------~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~ 376 (945)
+.|+..|.. .. . ....+.+++++|||||++|+||++++.+..... ..
T Consensus 316 ~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~-------------~~ 382 (452)
T cd06362 316 REFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGT-------------TG 382 (452)
T ss_pred HHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCC-------------CC
Confidence 334444421 00 0 012345889999999999999999986643210 11
Q ss_pred ccCCccccCchHHHHHHHHhccccccee-eEEEccCCCCCCCcEEEEEeec----cceEEEEEecCCCCc
Q 002267 377 NLSSLRVFDGGQQFLQTLLRMNFTGLSG-EIRFDADKNLVNPAYDVLNIGG----TGSRRIGYWSNYSGL 441 (945)
Q Consensus 377 ~~~~~~~~~~~~~l~~~l~~~~f~G~sG-~v~fd~~g~~~~~~y~i~~~~~----~~~~~Vg~w~~~~gl 441 (945)
.|.... +.++.+|+++|++++|+|++| +|+||++|++. ..|+|+|++. .++++||+|++..||
T Consensus 383 ~c~~~~-~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~~-~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 383 LCDAMK-PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDGP-GRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CCcCcc-CCCHHHHHHHHHhCCcCCCCCceEEECCCCCCC-CceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 233333 346999999999999999998 79999999975 6899999983 358999999877653
No 9
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=100.00 E-value=2.3e-46 Score=419.01 Aligned_cols=333 Identities=25% Similarity=0.337 Sum_probs=283.3
Q ss_pred ccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-------------------CcEEEEccCC
Q 002267 64 GRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-------------------EVVAAIGPQS 124 (945)
Q Consensus 64 g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-------------------~v~aiiGp~~ 124 (945)
|.....|+.+|+|+||+++ +|||++|+++++|+|+++..|+.++.+|+++ +|.|||||.+
T Consensus 34 g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~ 112 (403)
T cd06361 34 GFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGY 112 (403)
T ss_pred HHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCc
Confidence 5678899999999999998 5689999999999999999999999999873 7999999999
Q ss_pred hhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHH
Q 002267 125 SGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVL 203 (945)
Q Consensus 125 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 203 (945)
|..+.+++++++.++||+|+++++++.|++ .+||||||+.|+|..|+.+++++++++||++|++|++|++||++..+.|
T Consensus 113 S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f 192 (403)
T cd06361 113 SEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYGRSALETF 192 (403)
T ss_pred chHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchHHHHHHHH
Confidence 999999999999999999999999999998 5799999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcCcEEEEeecCCCCCCh-----HHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCC
Q 002267 204 GDALSKKRAKISYKAPFSPGASR-----SAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWL 278 (945)
Q Consensus 204 ~~~l~~~g~~v~~~~~~~~~~~~-----~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~ 278 (945)
.+++++.|+||+..+.++...++ .++..+++.++++++||||+.+...++..++++|+++|+ +++||++++|
T Consensus 193 ~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~---~~~wigs~~w 269 (403)
T cd06361 193 IIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI---NKVWIASDNW 269 (403)
T ss_pred HHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC---CeEEEEECcc
Confidence 99999999999999888753221 566677777889999999999999999999999999998 5899999988
Q ss_pred ccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCC
Q 002267 279 PSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGG 358 (945)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 358 (945)
........ ........|++++.+..+. .+.|.+.|++.+ ..++||||+++|+||+++..+.
T Consensus 270 ~~~~~~~~---~~~~~~~~g~ig~~~~~~~---~~~F~~~~~~~~------------~~~v~~AVyaiA~Al~~~~~~~- 330 (403)
T cd06361 270 STAKKILT---DPNVKKIGKVVGFTFKSGN---ISSFHQFLKNLL------------IHSIQLAVFALAHAIRDLCQER- 330 (403)
T ss_pred cCcccccc---CCcccccceEEEEEecCCc---cchHHHHHHHhh------------HHHHHHHHHHHHHHHHHhccCC-
Confidence 65332221 1122567788998886654 455555555543 3458999999999999964321
Q ss_pred cccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccc----eEEEEE
Q 002267 359 KFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTG----SRRIGY 434 (945)
Q Consensus 359 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~----~~~Vg~ 434 (945)
.|...... ++++|+++|++++|+|++|++.||+||+. ...|+|+|+++++ +++||.
T Consensus 331 ------------------~c~~~~~~-~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~vg~ 390 (403)
T cd06361 331 ------------------QCQNPNAF-QPWELLGQLKNVTFEDGGNMYHFDANGDL-NLGYDVVLWKEDNGHMTVTIMAE 390 (403)
T ss_pred ------------------CCCCCCCc-CHHHHHHHHheeEEecCCceEEECCCCCC-CcceEEEEeEecCCcEEEEEEEE
Confidence 12222223 58999999999999999889999999995 6789999999642 689999
Q ss_pred ecCCC
Q 002267 435 WSNYS 439 (945)
Q Consensus 435 w~~~~ 439 (945)
|++.+
T Consensus 391 ~~~~~ 395 (403)
T cd06361 391 YDPQN 395 (403)
T ss_pred EeCCC
Confidence 99875
No 10
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=100.00 E-value=4.3e-46 Score=428.26 Aligned_cols=375 Identities=22% Similarity=0.364 Sum_probs=310.5
Q ss_pred CCCceEEEEEEeccCC----------------------ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHH
Q 002267 46 SRPSSVRIGALFTYDS----------------------VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFV 103 (945)
Q Consensus 46 ~~~~~i~IG~l~~l~~----------------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~ 103 (945)
..+++|.||++||++. ..|.....|+.+|+|+||+++++|||++|+++++|+|+++..
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 4678999999999983 346678999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhc-C------------------cEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEe
Q 002267 104 GTMEALQLMEN-E------------------VVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRT 163 (945)
Q Consensus 104 a~~~a~~li~~-~------------------v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~ 163 (945)
|++.+.+++.+ + |.|||||.+|..+.++++++..++||+|+++++++.+++ .+||||||+
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 2 469999999999999999999999999999999999998 579999999
Q ss_pred cCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceE
Q 002267 164 TQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRV 243 (945)
Q Consensus 164 ~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 243 (945)
.|+|..++.++++++++|+|++|++|+.|++||+...+.+.+.+++.|+||++.+.++...+..|+..++.+|+++++||
T Consensus 168 ~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~~~~~d~~~~l~klk~~~a~v 247 (510)
T cd06364 168 IPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQYSDEEEIQRVVEVIQNSTAKV 247 (510)
T ss_pred CCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCCCCHHHHHHHHHHHHhcCCeE
Confidence 99999999999999999999999999999999999999999999999999999887764346789999999999999999
Q ss_pred EEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHH-----
Q 002267 244 FVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISR----- 318 (945)
Q Consensus 244 ivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~----- 318 (945)
||+.+...++..++++|+++|+.+ ++||+++.|....... .....+.+.|++++.+.....+.+++|++.
T Consensus 248 Vvl~~~~~~~~~ll~qa~~~g~~~--~iwI~s~~w~~~~~~~---~~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p~~ 322 (510)
T cd06364 248 IVVFSSGPDLEPLIKEIVRRNITG--KIWLASEAWASSSLIA---MPEYFDVMGGTIGFALKAGQIPGFREFLQKVHPKK 322 (510)
T ss_pred EEEEeCcHHHHHHHHHHHHhCCCC--cEEEEEchhhcccccc---cCCccceeeEEEEEEECCCcCccHHHHHHhCCccc
Confidence 999999999999999999999864 6999998775432221 123456788999998887666665555533
Q ss_pred ----------HHhhhcCC------C------------------------C-------C---C-------CCchhHHHHHH
Q 002267 319 ----------WKNLKYKE------N------------------------S-------P---S-------GFNSYALYAYD 341 (945)
Q Consensus 319 ----------~~~~~~~~------~------------------------~-------~---~-------~~~~~~~~~YD 341 (945)
|++.|... + . . . ....++.+.||
T Consensus 323 ~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~~ 402 (510)
T cd06364 323 SSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVYL 402 (510)
T ss_pred CCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHHH
Confidence 55544310 0 0 0 0 01234678999
Q ss_pred HHHHHHHHHHHHHhcCCcc-cccCCCCCCCCCCCccccCCccccCchHHHHHHHHhccccccee-eEEEccCCCCCCCcE
Q 002267 342 SVWLVAHALDALLNEGGKF-TFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSG-EIRFDADKNLVNPAY 419 (945)
Q Consensus 342 av~~la~Al~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG-~v~fd~~g~~~~~~y 419 (945)
||+++|+|||+++.|.... .+ ....|+..... ++++|++.|++++|+|.+| +|.||+||+. ...|
T Consensus 403 AVyAvAhaLh~~~~c~~~~~~~-----------~~~~c~~~~~~-~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~Y 469 (510)
T cd06364 403 AVYSIAHALQDIYTCTPGKGLF-----------TNGSCADIKKV-EAWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGNY 469 (510)
T ss_pred HHHHHHHHHHHHhcCCCCCCCc-----------cCCCCCCCCCC-CHHHHHHHHHhcEEecCCCCEEEEecCCCC-ccce
Confidence 9999999999998764221 00 01135554444 4899999999999999998 5999999995 5789
Q ss_pred EEEEeec---c---ceEEEEEecCC
Q 002267 420 DVLNIGG---T---GSRRIGYWSNY 438 (945)
Q Consensus 420 ~i~~~~~---~---~~~~Vg~w~~~ 438 (945)
+|+||+. + .+++||+|++.
T Consensus 470 dI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 470 SIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred eEEEeeecCCCCcEEEEEEEEEcCC
Confidence 9999993 2 26799999753
No 11
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=3.1e-46 Score=427.16 Aligned_cols=368 Identities=21% Similarity=0.309 Sum_probs=303.7
Q ss_pred ceEEEEEEeccCC----------------------ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHH
Q 002267 49 SSVRIGALFTYDS----------------------VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTM 106 (945)
Q Consensus 49 ~~i~IG~l~~l~~----------------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~ 106 (945)
++|.||++||++. ..|.+...|+.+|+|+||++..+|||++|++.++|+||++..|+.
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 4689999999972 124567899999999999999999999999999999999999999
Q ss_pred HHHHHHh--------------cCcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHH
Q 002267 107 EALQLME--------------NEVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQM 171 (945)
Q Consensus 107 ~a~~li~--------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~ 171 (945)
.+.+++. .+++|||||.+|..+.+++++++.++||+|+++++++.+++ .+||||||+.|+|..|+
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 9999984 36999999999999999999999999999999999999998 57899999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCCh--HHHHHHHHhhccCCceEEEEEcC
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASR--SAINSLLVGANLMESRVFVVHVN 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~--~d~~~~l~~l~~~~~~vivl~~~ 249 (945)
.|+++++++|+|++|++|+.|++||+..++.+.+++++.|+||++.+.++..... .++..++++|+++++||||+++.
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 9999999999999999999999999999999999999999999999888754332 47899999999999999999999
Q ss_pred hhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHH-----------
Q 002267 250 PDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISR----------- 318 (945)
Q Consensus 250 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~----------- 318 (945)
...+..++.++.+.+. .+++||++++|....... ....+.++|+++++++.+..+.+++|.++
T Consensus 241 ~~~~~~l~~~~~~~~~--~~~~wi~s~~w~~~~~~~----~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw 314 (469)
T cd06365 241 TDSLLEVSFRLWQYLL--IGKVWITTSQWDVTTSPK----DFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIF 314 (469)
T ss_pred cHHHHHHHHHHHHhcc--CceEEEeecccccccccc----ccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccH
Confidence 8888777666555443 468999998775443221 22346789999999999988888887755
Q ss_pred ----HHhhhcCC--------------CCCC----------CCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCC
Q 002267 319 ----WKNLKYKE--------------NSPS----------GFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHD 370 (945)
Q Consensus 319 ----~~~~~~~~--------------~~~~----------~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~ 370 (945)
|+..|... +... ....++.+.||||+++|+|||+++.++....
T Consensus 315 ~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~--------- 385 (469)
T cd06365 315 LEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQ--------- 385 (469)
T ss_pred HHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCC---------
Confidence 44444200 0000 0234678899999999999999998754310
Q ss_pred CCCCccccCCccccCchHHHHHHHHhccccccee-eEEEccCCCCCCCcEEEEEeec--c---ceEEEEEecC
Q 002267 371 TNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSG-EIRFDADKNLVNPAYDVLNIGG--T---GSRRIGYWSN 437 (945)
Q Consensus 371 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG-~v~fd~~g~~~~~~y~i~~~~~--~---~~~~Vg~w~~ 437 (945)
...+|.. ... ++.+|++.|++++|+|.+| +|.||+||++ ...|+|+|++. + .+++||+|++
T Consensus 386 ---~~~~~~~-~~~-~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~ 452 (469)
T cd06365 386 ---SENNGKR-LIF-LPWQLHSFLKNIQFKNPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSP 452 (469)
T ss_pred ---CcCCCCC-CCc-cHHHHHHHHHhccccCCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeC
Confidence 1112222 223 4889999999999999999 5999999995 57899999972 2 3789999975
No 12
>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated
Probab=100.00 E-value=5e-46 Score=417.08 Aligned_cols=368 Identities=20% Similarity=0.307 Sum_probs=307.0
Q ss_pred eEEEEEEec-cC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEccCC
Q 002267 50 SVRIGALFT-YD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNC-SGFVGTMEALQLMENEVVAAIGPQS 124 (945)
Q Consensus 50 ~i~IG~l~~-l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~-~~~~a~~~a~~li~~~v~aiiGp~~ 124 (945)
.|+||+++| ++ +..|...+.|+++|+++||+++++|++.+|.+.+.+.++ ++..+...+++++.++|.|||||.+
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 566788999999999999999999999999999999665 6667788888877789999999999
Q ss_pred hhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHH
Q 002267 125 SGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLG 204 (945)
Q Consensus 125 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~ 204 (945)
|..+.+++++++.++||+|+++++++.+++. .+|++|+.|++..++.++++++++|+|++|++||+++. |...++.+.
T Consensus 82 S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g~~~l~~~~ 159 (384)
T cd06393 82 GSCTNAVQSICNALEVPHIQLRWKHHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-GLIRLQELI 159 (384)
T ss_pred hHHHHHHHHHHhccCCCeEeccCCCcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-hHHHHHHHH
Confidence 9999999999999999999999999888864 35778888998889999999999999999999997654 665566788
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCC
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDS 284 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~ 284 (945)
+.+++.|++|+.. .++ .+..|++.+|++|++.++++||++++..++..++++|+++||+.+.|+|+.++.....++.
T Consensus 160 ~~~~~~g~~v~~~-~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~~~ 236 (384)
T cd06393 160 MAPSRYNIRLKIR-QLP--TDSDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYALDL 236 (384)
T ss_pred HhhhccCceEEEE-ECC--CCchHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCccccccc
Confidence 8888999999864 455 4678999999999999999999999999999999999999999999999987753322222
Q ss_pred CCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhh-hcCCC---C---CCCCchhHHHHHHHHHHHHHHHHHHHhcC
Q 002267 285 TEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNL-KYKEN---S---PSGFNSYALYAYDSVWLVAHALDALLNEG 357 (945)
Q Consensus 285 ~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~---~---~~~~~~~~~~~YDav~~la~Al~~~~~~~ 357 (945)
+........+++++...++++..++|+++|+++ +.... . ...++.+++++||||+++|+|++++.+.
T Consensus 237 -----~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~~~~~- 310 (384)
T cd06393 237 -----EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQRAPQM- 310 (384)
T ss_pred -----hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhhhhhc-
Confidence 111112223577778888889999999999854 42110 0 0113568999999999999999975321
Q ss_pred CcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEcc-CCCCCCCcEEEEEeeccceEEEEEec
Q 002267 358 GKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDA-DKNLVNPAYDVLNIGGTGSRRIGYWS 436 (945)
Q Consensus 358 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~-~g~~~~~~y~i~~~~~~~~~~Vg~w~ 436 (945)
....+.|....+|+.|..|+++|++++|+|+||+++||+ +|+|.+..++|+|+.++++++||+|+
T Consensus 311 --------------~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W~ 376 (384)
T cd06393 311 --------------TVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVWN 376 (384)
T ss_pred --------------CCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEEc
Confidence 112335667789999999999999999999999999996 67889999999999999999999999
Q ss_pred CCCCcc
Q 002267 437 NYSGLS 442 (945)
Q Consensus 437 ~~~gl~ 442 (945)
+..||+
T Consensus 377 ~~~g~~ 382 (384)
T cd06393 377 PNTGLN 382 (384)
T ss_pred CCCCcC
Confidence 999875
No 13
>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=8.4e-46 Score=425.25 Aligned_cols=369 Identities=20% Similarity=0.384 Sum_probs=300.3
Q ss_pred ceEEEEEEeccC--C-----------ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHH----H
Q 002267 49 SSVRIGALFTYD--S-----------VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQ----L 111 (945)
Q Consensus 49 ~~i~IG~l~~l~--~-----------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~----l 111 (945)
++|+||++||++ . ..|.....|+++|+|+||+++++|||++|+++++|+|+++..+.+.+.. +
T Consensus 1 Gdi~igglfp~h~~~~~~~~c~~~~~~~g~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~~~~~a~~~~~~l 80 (463)
T cd06376 1 GDITLGGLFPVHARGPAGVPCGDIKKENGIHRLEAMLYALDQINSDPDLLPNVTLGARILDTCSRDTYALEQSLTFVQAL 80 (463)
T ss_pred CCeEEEEEEeeeeCCCCCCCccccccchhHHHHHHHHHHHHHhhCCCCCCCCceEccEEEeccCCcHHHHHHHHHHHhhh
Confidence 479999999998 1 2556678999999999999999999999999999999987655555544 3
Q ss_pred Hh-------------------cCcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHH
Q 002267 112 ME-------------------NEVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQM 171 (945)
Q Consensus 112 i~-------------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~ 171 (945)
++ ++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..||||||+.|+|..++
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 56999999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcC-cEEEEeecCCCCCChHHHHHHHHhhcc-CCceEEEEEcC
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKR-AKISYKAPFSPGASRSAINSLLVGANL-MESRVFVVHVN 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vivl~~~ 249 (945)
.++++++++|+|++|++||.+++||....+.+.+.+++.| ++|.....++...+..|+..++++|++ .++|+||+.+.
T Consensus 161 ~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~~~~~d~~~~l~~ik~~~~~~vIvl~~~ 240 (463)
T cd06376 161 QAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQISREAGGVCIAQSIKIPREPRPGEFDKIIKRLLETPNARAVIIFAN 240 (463)
T ss_pred HHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHHHHHHcCCceEEEEEecCCCCCHHHHHHHHHHHhccCCCeEEEEecC
Confidence 9999999999999999999999999999999999999874 688776666545677899999999986 69999999999
Q ss_pred hhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHH------------
Q 002267 250 PDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFIS------------ 317 (945)
Q Consensus 250 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~------------ 317 (945)
..++..++++|+++|+++ .|+||+++.|........ ...+.+.|.+++.+..+..+.+++|..
T Consensus 241 ~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~----~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~~~ 315 (463)
T cd06376 241 EDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL----QQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRNVW 315 (463)
T ss_pred hHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc----cCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCCcH
Confidence 999999999999999875 599999998764332211 112467899999888777666666554
Q ss_pred ---HHHhhhcCC-----CC------------------CCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCC
Q 002267 318 ---RWKNLKYKE-----NS------------------PSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDT 371 (945)
Q Consensus 318 ---~~~~~~~~~-----~~------------------~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~ 371 (945)
.|+..|... .. .......+.++||||+++|+|||+++++....
T Consensus 316 ~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~----------- 384 (463)
T cd06376 316 FAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPG----------- 384 (463)
T ss_pred HHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCC-----------
Confidence 566554311 00 00112368899999999999999998654321
Q ss_pred CCCccccCCccccCchHHHHHHHHhccccccee-eEEEccCCCCCCCcEEEEEeec-----cceEEEEEecC
Q 002267 372 NGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSG-EIRFDADKNLVNPAYDVLNIGG-----TGSRRIGYWSN 437 (945)
Q Consensus 372 ~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG-~v~fd~~g~~~~~~y~i~~~~~-----~~~~~Vg~w~~ 437 (945)
....|.... +.++.+|+++|++++|+|++| +|.||++|++. +.|+|+|++. .++++||.|++
T Consensus 385 --~~~~C~~~~-~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~~-~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 385 --YTGVCPEME-PADGKKLLKYIRAVNFNGSAGTPVMFNENGDAP-GRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred --CCCCCccCC-CCCHHHHHHHHHhCCccCCCCCeEEeCCCCCCC-CceEEEEEEecCCCceeEEEEEEECC
Confidence 111344433 346999999999999999999 69999999964 6899999983 35899999975
No 14
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1e-44 Score=398.50 Aligned_cols=358 Identities=18% Similarity=0.274 Sum_probs=298.6
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVI 131 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 131 (945)
+||+||+.++ .....|+++|++++|.+..+++. ++ +-+..|.+.+.+++|+++++||.||+||.++..+..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~~--~~---~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLPQ--ID---IVNISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCcccccc--eE---EeccccHHHHHHHHHHHhhcCceEEEccCChhHHHHH
Confidence 4899998764 35689999999999998655431 11 2234688999999999999999999999999999999
Q ss_pred HHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcC
Q 002267 132 SHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKR 211 (945)
Q Consensus 132 a~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g 211 (945)
+.+|+..+||+|+++. |..+ ...|++++.|+ ++.|+++++++|+|++|++||+++ ||...++.+.+++++.|
T Consensus 73 ~sic~~~~vP~i~~~~--~~~~--~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~ 144 (364)
T cd06390 73 TSFCGALHVCFITPSF--PVDT--SNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKN 144 (364)
T ss_pred HHhhcCCCCCceecCC--CCCC--CCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccC
Confidence 9999999999999754 3333 23568999987 899999999999999999999655 99999999999999999
Q ss_pred cEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChh
Q 002267 212 AKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDID 291 (945)
Q Consensus 212 ~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~ 291 (945)
++|.+...++ .+..++..+|++++.+++|+||++|.++.+..+++++.+.+|+..+|+||.|+......+ .++
T Consensus 145 ~~I~~~~~~~--~~~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~-----~~~ 217 (364)
T cd06390 145 WQVTAVNILT--TTEEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDID-----LTK 217 (364)
T ss_pred ceeeEEEeec--CChHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCccccc-----HHH
Confidence 9999877766 456799999999999999999999999999999999999999999999999983222212 145
Q ss_pred HHhhhcceeEEEeecCCCchhhHHHHHHHhhhcC---CCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCC
Q 002267 292 TMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYK---ENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKL 368 (945)
Q Consensus 292 ~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~---~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~ 368 (945)
....+.|+++++.+.|+++..++|.++|++.... ..+...++.+++++|||||++|+|++++...+...++.
T Consensus 218 ~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~----- 292 (364)
T cd06390 218 FRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRR----- 292 (364)
T ss_pred HhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccC-----
Confidence 5668899999999999999999999999876531 12223567899999999999999999986554433211
Q ss_pred CCCCCCccccC--CccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEEEEEecCCCCc
Q 002267 369 HDTNGSMLNLS--SLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGYWSNYSGL 441 (945)
Q Consensus 369 ~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~w~~~~gl 441 (945)
+.+..|. ...+|+.|..|+++|++++|+|+||+++||++|++.+..|+|+|+.+.++++||+|++..||
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 1112232 24578999999999999999999999999999999999999999999999999999998875
No 15
>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=6.2e-44 Score=396.39 Aligned_cols=368 Identities=21% Similarity=0.327 Sum_probs=296.7
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEE--EEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLN--FVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~--l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 129 (945)
+||++|+.++..+ +.|+++|+++||++..+|+|++|+ +++.|+ +|+..+..+++++++++|.||+||.++..+.
T Consensus 1 ~IGaif~~~s~~~---~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~-~d~f~a~~~~c~l~~~gv~ai~Gp~~~~~~~ 76 (400)
T cd06391 1 HIGAIFDESAKKD---DEVFRMAVADLNQNNEILQTEKITVSVTFVDG-NNPFQAVQEACELMNQGILALVSSIGCTSAG 76 (400)
T ss_pred CcceeeccCCchH---HHHHHHHHHHhcCCccccCCCcceEEEEEeeC-CCcHHHHHHHHHHHhCCeEEEECCCcchHHH
Confidence 4899999987544 569999999999999999999555 588899 4999999999999999999999998888889
Q ss_pred HHHHhhcccCccEEec----ccCC-----CCCCC--CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccc
Q 002267 130 VISHVVNELNVPLLSF----GATD-----PTLTS--LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRN 198 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~----~a~~-----~~ls~--~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~ 198 (945)
.++.+|+.++||+|++ ++++ +.+++ .+||+++| |+ ..++.++++++++|+|++++++ .|++||..
T Consensus 77 ~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~-~d~~~~~~ 152 (400)
T cd06391 77 SLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIF-YDTDYDIR 152 (400)
T ss_pred HHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEE-EeCCccHH
Confidence 9999999999999974 4433 34443 46888888 43 6789999999999999999875 56778999
Q ss_pred hHHHHHHHHhhcCcEEEEeecCCCCCCh---HHHHH-HHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEE
Q 002267 199 GISVLGDALSKKRAKISYKAPFSPGASR---SAINS-LLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVW 272 (945)
Q Consensus 199 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~---~d~~~-~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~w 272 (945)
.++.+.+.+++.|+||....... ...+ ..+.. .+++|++ .+.++||+++.++.+..+|++|+++||++++|+|
T Consensus 153 ~l~~l~~~~~~~~i~I~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y~w 231 (400)
T cd06391 153 GIQEFLDKVSQQGMDVALQKVEN-NINKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLVAFDCHW 231 (400)
T ss_pred HHHHHHHHHHHcCCeEEEEecCc-chhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCCCCCeEE
Confidence 99999999999999999754221 1110 12222 3455554 5679999999999999999999999999999999
Q ss_pred EEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCC-----CC-CCCCchhHHHHHHHHHHH
Q 002267 273 IATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKE-----NS-PSGFNSYALYAYDSVWLV 346 (945)
Q Consensus 273 i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~-----~~-~~~~~~~~~~~YDav~~l 346 (945)
|.+++....++..+ .....+.|+.+++++.|.+...++|..+|.+++... .. ...++.+++++|||||++
T Consensus 232 i~t~~~~~~~dl~~----~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDaV~~~ 307 (400)
T cd06391 232 IIINEEISDMDVQE----LVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDTVLLL 307 (400)
T ss_pred EEeCccccccccch----HHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHHHHHH
Confidence 99999888877632 334567788889999998888899999998766311 11 113568999999999999
Q ss_pred HHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEee-
Q 002267 347 AHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIG- 425 (945)
Q Consensus 347 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~- 425 (945)
|+|++++........ .....|......+|+.|..|+++|++++|+|+||+++|+++|+|.+..|+|+|+.
T Consensus 308 A~A~~~l~~~~~~~~---------~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~~~ 378 (400)
T cd06391 308 ANAFHKKLEDRKWHS---------MASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGTNY 378 (400)
T ss_pred HHHHHHHHhhccccC---------CCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEeec
Confidence 999998753322211 1111222234568999999999999999999999999999999999999999996
Q ss_pred ----ccceEEEEEecCCCCc
Q 002267 426 ----GTGSRRIGYWSNYSGL 441 (945)
Q Consensus 426 ----~~~~~~Vg~w~~~~gl 441 (945)
++|+++||+|++..||
T Consensus 379 ~~~~~~g~rkiG~Ws~~~gl 398 (400)
T cd06391 379 GEDLGRGVRKLGCWNPITGL 398 (400)
T ss_pred cccCCCcceEEEEEcCCcCC
Confidence 8899999999998876
No 16
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=100.00 E-value=8.7e-44 Score=398.69 Aligned_cols=354 Identities=19% Similarity=0.268 Sum_probs=293.6
Q ss_pred EEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 54 GALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 54 G~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
=+++|.+ ...+.....|+++|+|+||+++++++|++|+++++|++|++..+...+..+.+++|.|||||.||..+.+
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 3566654 2234678899999999999999998999999999999999877777777777779999999999999999
Q ss_pred HHHhhcccCccEEecccCCCCCCC--CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccch---HHHHHH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTS--LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNG---ISVLGD 205 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~--~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~---~~~l~~ 205 (945)
++++++.++||+|+++++++.+++ ..||++||+.|++..++.++++++++|+|++|++||++++||++. ++.+.+
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 999999999999999999999986 358999999999999999999999999999999999999999886 899999
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCc-cccCC
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLP-SVLDS 284 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~-~~~~~ 284 (945)
.+++.|++|......+ .++.++..+|+++++.+ |+||++++.+.+..++++|+++||+.++|+||..+... .....
T Consensus 163 ~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~~~ 239 (387)
T cd06386 163 VFQEEGYHMSIYPFDE--TKDLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSYGD 239 (387)
T ss_pred HHHhcCceEEEEecCC--CCcccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEecccccccCC
Confidence 9999999998766554 35678999999999887 99999999999999999999999999999999998663 11110
Q ss_pred C-----CCCC---hhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCC--CC-CCCCchhHHHHHHHHHHHHHHHHHH
Q 002267 285 T-----EPVD---IDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKE--NS-PSGFNSYALYAYDSVWLVAHALDAL 353 (945)
Q Consensus 285 ~-----~~~~---~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~--~~-~~~~~~~~~~~YDav~~la~Al~~~ 353 (945)
. ...+ ....+.+.|+.+++++ ++.+++|.++|++++... .. ...++.+++++||||+++|+|++++
T Consensus 240 ~~w~~~~~~~~~~~~a~~~~~~v~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~A~Al~~~ 316 (387)
T cd06386 240 GSWKRGDKHDFEAKQAYSSLNTVTLLRTV---KPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLYALALHEV 316 (387)
T ss_pred CCCccCCCcCHHHHHHHHhheEEeccCCC---ChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHHHHHHHHH
Confidence 0 1112 1233456666655554 467888999988555311 11 2245689999999999999999998
Q ss_pred HhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeec---cceE
Q 002267 354 LNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGG---TGSR 430 (945)
Q Consensus 354 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~---~~~~ 430 (945)
+..++. +.+|..|.++|++++|+|++|+++||++|++. ..|.++.+++ ++++
T Consensus 317 ~~~g~~------------------------~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~~~ 371 (387)
T cd06386 317 LKNGYS------------------------KKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGTYE 371 (387)
T ss_pred hhCCCC------------------------CCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCccEE
Confidence 754332 23699999999999999999999999999985 5999999964 5799
Q ss_pred EEEEecCC
Q 002267 431 RIGYWSNY 438 (945)
Q Consensus 431 ~Vg~w~~~ 438 (945)
.||+|...
T Consensus 372 ~~~~~~~~ 379 (387)
T cd06386 372 VVGNYFGK 379 (387)
T ss_pred EEeEEccc
Confidence 99999754
No 17
>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=1.1e-43 Score=399.29 Aligned_cols=375 Identities=21% Similarity=0.304 Sum_probs=301.7
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTN-CSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||++|+.+ +.....|+++|+++||++..++++++|.+.+.++. +|+..+.+++|+|++++|.|||||.+|..+.+
T Consensus 1 ~iG~if~~~---~~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~ 77 (382)
T cd06380 1 PIGGLFDVD---EDQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSRGVFAIFGSYDKSSVNT 77 (382)
T ss_pred CceeEECCC---ChHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhcCcEEEEecCcHHHHHH
Confidence 489999998 46889999999999999876667888888888776 79999999999999999999999999999999
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhc
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKK 210 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 210 (945)
++++++.++||+|+++++.+.++ ..++|+||+.|+. ..++++++++++|++|++||++++ |...++.+.+.+++.
T Consensus 78 ~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~~ 152 (382)
T cd06380 78 LTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLREK 152 (382)
T ss_pred HHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhcc
Confidence 99999999999999999988875 4679999998863 458889999999999999997665 667777888899988
Q ss_pred C--cEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCC
Q 002267 211 R--AKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPV 288 (945)
Q Consensus 211 g--~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~ 288 (945)
| ++|....... ..+..|++.+|++|++.++|+||+.++.+++..++++|+++||+.++|+||.+++.....+.
T Consensus 153 g~~i~v~~~~~~~-~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~~~~---- 227 (382)
T cd06380 153 DNKWQVTARRVDN-VTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDDIDL---- 227 (382)
T ss_pred CCceEEEEEEecC-CCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCcccccH----
Confidence 8 6666543222 12457999999999999999999999999999999999999999999999998754433322
Q ss_pred ChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcC---CCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCC
Q 002267 289 DIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYK---ENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSND 365 (945)
Q Consensus 289 ~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~---~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 365 (945)
........++.+++...+..+..++|.++|++.+.. ......++.+++++||||+++|+|++++.+.+++.++...
T Consensus 228 -~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~~~ 306 (382)
T cd06380 228 -SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHRID 306 (382)
T ss_pred -HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhccccccccc
Confidence 111222345677776676778899999999988731 1122346779999999999999999998765432211111
Q ss_pred CCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEEEEEecCCCCc
Q 002267 366 PKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGYWSNYSGL 441 (945)
Q Consensus 366 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~w~~~~gl 441 (945)
. .....+..|.-....+|.+|..|.++|++++|+|++|+++||++|++....++|++++++++++||+|++..||
T Consensus 307 ~-~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 307 I-SRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNEDDGL 381 (382)
T ss_pred c-ccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCCcCc
Confidence 0 00112222222345678889999999999999999999999999999888999999999999999999998775
No 18
>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=1e-43 Score=398.30 Aligned_cols=332 Identities=23% Similarity=0.341 Sum_probs=274.4
Q ss_pred CceEEEEEEeccCCccccchHHHHHHHHHHHhcCCCC-----CCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-
Q 002267 48 PSSVRIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSI-----LPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG- 121 (945)
Q Consensus 48 ~~~i~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~i-----l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG- 121 (945)
+.+|+||+++|.+ ....|+++|++++|++.+. ++|.++++ +++++..+...+.+|++++|.||||
T Consensus 17 ~~~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~----~~~~~~~a~~~~~~Li~~~V~aii~~ 87 (377)
T cd06379 17 PKTVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITH----DPNPIQTALSVCEQLISNQVYAVIVS 87 (377)
T ss_pred CcEEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEee----cCChhhHHHHHHHHHhhcceEEEEEe
Confidence 4689999999843 5789999999999996543 23444555 2334444555666788889999974
Q ss_pred cC-Chh---HHHHHHHhhcccCccEEecccCCCCCCCC-CCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcc
Q 002267 122 PQ-SSG---IAHVISHVVNELNVPLLSFGATDPTLTSL-QYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYG 196 (945)
Q Consensus 122 p~-~s~---~~~~va~~~~~~~iP~Is~~a~~~~ls~~-~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g 196 (945)
+. +|. .+.+++.+++.++||+|+++++++.+++. .|||+||+.|++..|+.++++++++++|++|++||++++||
T Consensus 88 ~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g 167 (377)
T cd06379 88 HPPTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEG 167 (377)
T ss_pred CCCCCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcch
Confidence 33 333 46778889999999999999999999874 59999999999999999999999999999999999999999
Q ss_pred cchHHHHHHHHhhcCc----EEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEE
Q 002267 197 RNGISVLGDALSKKRA----KISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVW 272 (945)
Q Consensus 197 ~~~~~~l~~~l~~~g~----~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~w 272 (945)
++..+.+++.+++.|+ +|+..+.++ .+..|+..++++|++.++|+||++++.+++..++++|+++||++++|+|
T Consensus 168 ~~~~~~~~~~~~~~g~~~~~~v~~~~~~~--~~~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~~~w 245 (377)
T cd06379 168 RAAQKRFETLLEEREIEFKIKVEKVVEFE--PGEKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEGYVW 245 (377)
T ss_pred hHHHHHHHHHHHhcCCccceeeeEEEecC--CchhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCEEE
Confidence 9999999999999999 888887776 4678999999999999999999999999999999999999999999999
Q ss_pred EEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHH
Q 002267 273 IATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDA 352 (945)
Q Consensus 273 i~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~ 352 (945)
|.++.+... .....|++++++..+ ..++.++||||+++|+|+++
T Consensus 246 i~t~~~~~~-----------~~~~~g~~g~~~~~~-------------------------~~~~~~~yDAV~~~A~Al~~ 289 (377)
T cd06379 246 IVSEQAGAA-----------RNAPDGVLGLQLING-------------------------KNESSHIRDAVAVLASAIQE 289 (377)
T ss_pred EEecccccc-----------ccCCCceEEEEECCC-------------------------CCHHHHHHHHHHHHHHHHHH
Confidence 999976321 134578998886542 12457899999999999999
Q ss_pred HHhcCCcccccCCCCCCCCCCCccccCCc-cccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEE
Q 002267 353 LLNEGGKFTFSNDPKLHDTNGSMLNLSSL-RVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRR 431 (945)
Q Consensus 353 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~ 431 (945)
+.++.. .+ .....|... .+|.+|+.|+++|++++|+|++|+|+||++|++....|+|+|+++.++++
T Consensus 290 ~~~~~~-~~-----------~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~ 357 (377)
T cd06379 290 LFEKEN-IT-----------EPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQ 357 (377)
T ss_pred HHcCCC-CC-----------CCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceE
Confidence 875321 11 111123322 25778999999999999999999999999999888899999999999999
Q ss_pred EEEecCC
Q 002267 432 IGYWSNY 438 (945)
Q Consensus 432 Vg~w~~~ 438 (945)
||+|++.
T Consensus 358 VG~w~~~ 364 (377)
T cd06379 358 VGLYNGD 364 (377)
T ss_pred eeEEcCc
Confidence 9999863
No 19
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=100.00 E-value=7.3e-44 Score=396.54 Aligned_cols=342 Identities=47% Similarity=0.793 Sum_probs=303.2
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~~~ 129 (945)
+||+++|++ +..|.....|+++|+++||+++|+++|++|+++++|++|+|..+++.+++|+++ +|.+||||.+|..+.
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 888999999999999999999877789999999999999999999999999987 999999999999999
Q ss_pred HHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHh
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALS 208 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 208 (945)
+++++++.++||+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|++||.|++||+...+.+.+.++
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 9999999999999999999998865 568999999999999999999999999999999999999999999999999999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCC-CCC
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDS-TEP 287 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~-~~~ 287 (945)
+.|++|+....++...+..|+..++++|++.++|+|++++.+.++..++++++++|+..++|+|+.++++...++. ...
T Consensus 161 ~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 240 (350)
T cd06366 161 EAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGYVWILTDWLSSNWWSSSDC 240 (350)
T ss_pred HcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCEEEEECcchhhhhccCCCC
Confidence 9999999998887432368999999999999999999999999999999999999999889999999876543321 011
Q ss_pred CChhHHhhhcceeEEEeecCC-CchhhHHHHHHHhhhcCC-CCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCC
Q 002267 288 VDIDTMNLLQGVVALRHHTPD-TDLKKNFISRWKNLKYKE-NSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSND 365 (945)
Q Consensus 288 ~~~~~~~~~~G~~~~~~~~~~-~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 365 (945)
..+...+..+|++++.++.++ ++..++|.++|++++... .....++.++.++||++++
T Consensus 241 ~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~p~~~a~~~YDav~~-------------------- 300 (350)
T cd06366 241 TDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPELTEPSIYALYAYDAVWA-------------------- 300 (350)
T ss_pred ChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcCcCCCCcccchhhhheee--------------------
Confidence 123455778999999999887 888999999999998210 0012578899999999988
Q ss_pred CCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEEEEEecCCCCccc
Q 002267 366 PKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGYWSNYSGLSV 443 (945)
Q Consensus 366 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~w~~~~gl~~ 443 (945)
+.+|+|++|+++||++|++....|+++++.++++++||+|++..|++.
T Consensus 301 ------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~~ 348 (350)
T cd06366 301 ------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLSV 348 (350)
T ss_pred ------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCccc
Confidence 135899999999999999888999999999999999999999888753
No 20
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=100.00 E-value=1.6e-43 Score=399.65 Aligned_cols=354 Identities=20% Similarity=0.333 Sum_probs=296.1
Q ss_pred EEEEEEeccCC----ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChh
Q 002267 51 VRIGALFTYDS----VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSG 126 (945)
Q Consensus 51 i~IG~l~~l~~----~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~ 126 (945)
|+||++.|++. ..|.....|+++|+|+||+++++++|++|+++++|++|++..|+.++++|++++|.+||||.+|.
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 68999999984 45889999999999999999999889999999999999999999999999999999999999985
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGD 205 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 205 (945)
.+ ++.+++.++||+|+++++++.+++ ..||+|||+.|++..++.++++++++++|++|++|+++++||++..+.+++
T Consensus 81 ~~--~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g~~~~~~~~~ 158 (404)
T cd06370 81 TT--EARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKYSSVFETLKE 158 (404)
T ss_pred HH--HHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCcccHHHHHHHHH
Confidence 54 567999999999999999999987 578999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCcEEEEeecCCCCC-----ChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCC-CCCeEEEEeCCCc
Q 002267 206 ALSKKRAKISYKAPFSPGA-----SRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMT-AGSYVWIATDWLP 279 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~-----~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~-~~~~~wi~~~~~~ 279 (945)
.+++.|++|+..+.++... ...++..++++++.. ++++|+++...++..++++|+++||+ ..+|+||.++...
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 9999999999988887431 257899999998764 78888888888999999999999999 6789999876311
Q ss_pred cc---------------cCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCC---------CCCCCCchh
Q 002267 280 SV---------------LDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKE---------NSPSGFNSY 335 (945)
Q Consensus 280 ~~---------------~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~---------~~~~~~~~~ 335 (945)
.. ............++++|++.+.+..+ ++..++|.++|++++... .....++.+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (404)
T cd06370 238 YDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIE 316 (404)
T ss_pred ccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccccccccccee
Confidence 00 01011112345567899988876655 677899999999875310 023346788
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhccccccee-eEEEccCCCC
Q 002267 336 ALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSG-EIRFDADKNL 414 (945)
Q Consensus 336 ~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG-~v~fd~~g~~ 414 (945)
++++||||+++|+|+++++++++.. .++.+|.++|++++|+|++| +|.||++|++
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 15899999999999999999 8999999997
Q ss_pred CCCcEEEEEeeccceEEEE
Q 002267 415 VNPAYDVLNIGGTGSRRIG 433 (945)
Q Consensus 415 ~~~~y~i~~~~~~~~~~Vg 433 (945)
...|.+++++++.|-.-|
T Consensus 373 -~~~y~v~~~~~~~~~~~~ 390 (404)
T cd06370 373 -EGNYSVLALQPIPPGDNG 390 (404)
T ss_pred -ccceEEEEeccccccCCC
Confidence 589999999876544433
No 21
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=1.6e-43 Score=399.98 Aligned_cols=361 Identities=24% Similarity=0.353 Sum_probs=300.2
Q ss_pred EEEEEeccCC----ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC----ChHHHHHHHHHHHh-cCcEEEEcc
Q 002267 52 RIGALFTYDS----VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNC----SGFVGTMEALQLME-NEVVAAIGP 122 (945)
Q Consensus 52 ~IG~l~~l~~----~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~----~~~~a~~~a~~li~-~~v~aiiGp 122 (945)
+||+++|.+. ..|.....|+++|+|+||+++++++|++|+++++|++| ++..++..+.+++. ++|.|||||
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 4899999983 34667899999999999999998899999999999999 89999999998874 589999999
Q ss_pred CChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcc----c
Q 002267 123 QSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYG----R 197 (945)
Q Consensus 123 ~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g----~ 197 (945)
.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|++||.+++++ .
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 99999999999999999999999999999987 579999999999999999999999999999999999987764 4
Q ss_pred chHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCC
Q 002267 198 NGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDW 277 (945)
Q Consensus 198 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~ 277 (945)
...+.+.+.+++.|++|+... +.......|+..+|+++++.. |+||++++..++..++++++++|++..+|+||..+.
T Consensus 161 ~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~~yv~i~~~~ 238 (396)
T cd06373 161 FTLEGVYTVLKEENITVSDFP-FDEDKELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSGEYVFFNIDL 238 (396)
T ss_pred HHHHHHHHHHhhcCceeeEEe-ecCCccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCcEEEEEEcc
Confidence 567889999999999988553 442111479999999999765 999999999999999999999999999999999875
Q ss_pred CccccCC--------CCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhc----CCCCCCCCchhHHHHHHHHHH
Q 002267 278 LPSVLDS--------TEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKY----KENSPSGFNSYALYAYDSVWL 345 (945)
Q Consensus 278 ~~~~~~~--------~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~----~~~~~~~~~~~~~~~YDav~~ 345 (945)
....... .....+...+..+|++++..+.++.+..++|.++|+++.. .......++.+++++||||++
T Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 318 (396)
T cd06373 239 FGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAVLL 318 (396)
T ss_pred chhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHH
Confidence 4321100 1111233445678898888888888889999999987521 111112456799999999999
Q ss_pred HHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEe-
Q 002267 346 VAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNI- 424 (945)
Q Consensus 346 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~- 424 (945)
+++||+++..++++ +.++++|.++|++++|+|++|+++||++|++ ...|.++++
T Consensus 319 ~a~Al~~~~~~~~~------------------------~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~-~~~~~v~~~~ 373 (396)
T cd06373 319 YALALNETLAEGGD------------------------PRDGTNITRRMWNRTFEGITGNVSIDENGDR-ESDFSLWDMT 373 (396)
T ss_pred HHHHHHHHHhccCC------------------------CCChHHHHHHhcCCceecccCceEeecCCcc-cceeeeeecc
Confidence 99999998654332 1258999999999999999999999999996 467888665
Q ss_pred --eccceEEEEEecCCC
Q 002267 425 --GGTGSRRIGYWSNYS 439 (945)
Q Consensus 425 --~~~~~~~Vg~w~~~~ 439 (945)
+++.++.||+|++.+
T Consensus 374 ~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 374 DTETGTFEVVANYNGSN 390 (396)
T ss_pred CCCCceEEEEeeccccc
Confidence 567899999998754
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=2e-43 Score=394.28 Aligned_cols=339 Identities=21% Similarity=0.306 Sum_probs=289.0
Q ss_pred eEEEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH-
Q 002267 50 SVRIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI- 127 (945)
Q Consensus 50 ~i~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~- 127 (945)
.|+||+++|.++ ...+++.|+..+|.+..+..++++++++.|+.+||.+++.++++++.+ +|.+|+||.+|+.
T Consensus 2 ~~~ig~~~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~~s~~~ 76 (362)
T cd06367 2 TVNIGVVLSGSS-----SEPAFRDAVTAANFRHNLPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSDPTDEE 76 (362)
T ss_pred ceEEEEEecCCc-----chhhHHHHhhhccccccCCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEecCCCCcc
Confidence 589999999883 347888888888877644468999999999999999999999998765 8999999999998
Q ss_pred --HHHHHHhhcccCccEEecccCCCCC-CC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHH
Q 002267 128 --AHVISHVVNELNVPLLSFGATDPTL-TS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVL 203 (945)
Q Consensus 128 --~~~va~~~~~~~iP~Is~~a~~~~l-s~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 203 (945)
+.+++.+++.++||+|+++++++.+ ++ ..||||||+.|++..++.++++++++|+|++|++||++++||++..+.+
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 9999999999999999999999988 77 5799999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcCcE--EEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccc
Q 002267 204 GDALSKKRAK--ISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSV 281 (945)
Q Consensus 204 ~~~l~~~g~~--v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~ 281 (945)
++.+++.|++ +.....++.. ...++...+.++++.++|+||++++..++..++++|+++||++++|+||+++.+...
T Consensus 157 ~~~l~~~g~~~~i~~~~~~~~~-~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~~~~ 235 (362)
T cd06367 157 ETTLEESFVGWEFQLVLTLDLS-DDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELALGS 235 (362)
T ss_pred HHHHHhcccceeeeeeEEeccC-CCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcccccc
Confidence 9999999999 7766666532 222788999999999999999999999999999999999999999999999987642
Q ss_pred cCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCccc
Q 002267 282 LDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFT 361 (945)
Q Consensus 282 ~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~ 361 (945)
.. ...+...|++++++..+ ..+++++||||+++|+|+++++++.+..+
T Consensus 236 ~~-------~~~~~~~G~~g~~~~~~-------------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~~~ 283 (362)
T cd06367 236 GL-------APEGLPVGLLGVGLDTW-------------------------YSLEARVRDAVAIVARAAESLLRDKGALP 283 (362)
T ss_pred cC-------CccCCCCeeEEEEeccc-------------------------ccHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 11 11245679999986532 23467899999999999999987643321
Q ss_pred ccCCCCCCCCCCCccccCCccc--cCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEee-ccceEEEEEecC
Q 002267 362 FSNDPKLHDTNGSMLNLSSLRV--FDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIG-GTGSRRIGYWSN 437 (945)
Q Consensus 362 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~-~~~~~~Vg~w~~ 437 (945)
.....|..... |.+|..|.++|++++|+|++|+|+||+||++..+.|+|+|++ +.++++||+|++
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 11123444432 678999999999999999999999999999888899999999 789999999975
No 23
>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=4e-43 Score=397.27 Aligned_cols=351 Identities=28% Similarity=0.416 Sum_probs=295.3
Q ss_pred CCceEEEEEEeccCC---------------------ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHH
Q 002267 47 RPSSVRIGALFTYDS---------------------VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGT 105 (945)
Q Consensus 47 ~~~~i~IG~l~~l~~---------------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~ 105 (945)
.++++.||++||++. ..|.....|+++|+|+||+++|+|+|++|+++++|+|+ +..++
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 578999999999973 23556789999999999999999999999999999966 77799
Q ss_pred HHHHHHHh----------------cCcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChh
Q 002267 106 MEALQLME----------------NEVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDY 168 (945)
Q Consensus 106 ~~a~~li~----------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~ 168 (945)
+.+.+|++ ++|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..+||+||+.|++.
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 48999999999999999999999999999999999999987 57899999999999
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCC-CChHHHHHHHHhhccCCceEEEEE
Q 002267 169 YQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPG-ASRSAINSLLVGANLMESRVFVVH 247 (945)
Q Consensus 169 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~d~~~~l~~l~~~~~~vivl~ 247 (945)
.++.++++++++++|++|++|+.|++||....+.+.+.+++.|++|+..+.++.. .+..|+..++++|+++++|+|+++
T Consensus 162 ~~~~al~~~l~~~~~k~vaii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~~~~~dvIil~ 241 (410)
T cd06363 162 DQIEAMVQLLQEFGWNWVAFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIPLDTDPETDYQQILKQINQTKVNVIVVF 241 (410)
T ss_pred HHHHHHHHHHHHCCCcEEEEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 9999999999999999999999999999999999999999999999998887642 257899999999999999999999
Q ss_pred cChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCC
Q 002267 248 VNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKEN 327 (945)
Q Consensus 248 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 327 (945)
+.++++..++++|+++|+.. .+|++++.+........ ........+++++....+..+.+++|.++
T Consensus 242 ~~~~~~~~il~qa~~~g~~~--~~~i~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~--------- 307 (410)
T cd06363 242 ASRQPAEAFFNSVIQQNLTG--KVWIASEAWSLNDELPS---LPGIRNIGTVLGVAQQTVTIPGFSDFIYS--------- 307 (410)
T ss_pred cChHHHHHHHHHHHhcCCCC--CEEEEeCcccccccccC---CccceeeccEEEEEeCCCCCccHHHHHHH---------
Confidence 99999999999999999854 48999876543211111 11113345677777777777788777776
Q ss_pred CCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEE
Q 002267 328 SPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIR 407 (945)
Q Consensus 328 ~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~ 407 (945)
+++.+||||+++|+|++++++++... |... ...+++.|.++|++++|+|++|++.
T Consensus 308 -------~~~~~YDaV~~~a~Al~~a~~~~~~~-----------------~~~~-~~~~~~~l~~~L~~~~~~g~~g~i~ 362 (410)
T cd06363 308 -------FAFSVYAAVYAVAHALHNVLQCGSGG-----------------CPKR-VPVYPWQLLEELKKVNFTLLGQTVR 362 (410)
T ss_pred -------HHHHHHHHHHHHHHHHHHHhCCCCCC-----------------CCCC-CCCCHHHHHHHHhccEEecCCcEEE
Confidence 35679999999999999997654321 1110 1225889999999999999999999
Q ss_pred EccCCCCCCCcEEEEEeecc----ceEEEEEecCC
Q 002267 408 FDADKNLVNPAYDVLNIGGT----GSRRIGYWSNY 438 (945)
Q Consensus 408 fd~~g~~~~~~y~i~~~~~~----~~~~Vg~w~~~ 438 (945)
||++|++ ...|.|++++.. ++++||+|++.
T Consensus 363 fd~~G~~-~~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 363 FDENGDP-NFGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred eCCCCCC-ccceEEEEEEEcCCceeEEEEEEEECC
Confidence 9999985 467999998543 58999999874
No 24
>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=9.6e-43 Score=381.29 Aligned_cols=364 Identities=16% Similarity=0.265 Sum_probs=300.8
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCC-cEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEccCChhHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPG-TTLNFVIRDT-NCSGFVGTMEALQLMENEVVAAIGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g-~~l~l~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 129 (945)
.||+||+.++ .....|+++|++.+|.+..+++. .+|...+..- ..|.+.+.+++|+++++||.||+||.++..+.
T Consensus 1 ~iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~~GV~AIfGp~~~~s~~ 77 (372)
T cd06387 1 SIGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFSRGVYAIFGFYDQMSMN 77 (372)
T ss_pred CcceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhhcccEEEEecCCHhHHH
Confidence 3899998654 25689999999999999877664 5787755433 46999999999999999999999999999999
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhh
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSK 209 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~ 209 (945)
.+..+|+..+||+|.+.-. .+...++.+++.|+ +..|+++++++|+|++|++|| |+++|...++.+.+.++.
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 9999999999999986322 12334778899998 789999999999999999999 778899999999999999
Q ss_pred cCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCC
Q 002267 210 KRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVD 289 (945)
Q Consensus 210 ~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~ 289 (945)
.+..|......+. ....+++.++++|++++.++||++|.++.+..++++|.++||+.++|+||.++......+.
T Consensus 150 ~~~~V~~~~v~~~-~~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl----- 223 (372)
T cd06387 150 NNWQVTARSVGNI-KDVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISL----- 223 (372)
T ss_pred CCceEEEEEeccC-CchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccH-----
Confidence 9999887765442 2456889999999999999999999999999999999999999999999999843333332
Q ss_pred hhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcC---CCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCC
Q 002267 290 IDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYK---ENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDP 366 (945)
Q Consensus 290 ~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~---~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 366 (945)
.+......++++++.+.|+++..++|.++|++.... +....+++.+++++|||||++|+|++++..+....+.
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 233333444999999999999999999999876542 2222346789999999999999999997544333211
Q ss_pred CCCCCCCCccccC--CccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEEEEEecCCCCc
Q 002267 367 KLHDTNGSMLNLS--SLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGYWSNYSGL 441 (945)
Q Consensus 367 ~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~w~~~~gl 441 (945)
.+.++.|. ...+|..|..|+++|++++|+|+||+++||++|+|.+..|+|+|+.++++++||+|++..|+
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 01122332 35679999999999999999999999999999999999999999999999999999998876
No 25
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=100.00 E-value=5.3e-43 Score=396.61 Aligned_cols=360 Identities=22% Similarity=0.303 Sum_probs=293.2
Q ss_pred EEEEEeccCCc---cc-cchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHH-----HHHHHHH-HhcCcEEEEc
Q 002267 52 RIGALFTYDSV---IG-RAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVG-----TMEALQL-MENEVVAAIG 121 (945)
Q Consensus 52 ~IG~l~~l~~~---~g-~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a-----~~~a~~l-i~~~v~aiiG 121 (945)
+||+++|++.. +| .....|+++|+|+||+++|+|+|++|++++.|+++++..+ ...+.++ ..++|.+|||
T Consensus 1 ~~g~l~~~~~~~~~~~~~~~~~a~~lAve~IN~~~gil~g~~l~~~~~D~~~~~~~c~~~~~~~~~~~~~~~~~v~aiiG 80 (405)
T cd06385 1 TLAVILPLTNTSYPWAWPRVGPALERAIDRVNADPDLLPGLHLQYVLGSSENKEGVCSDSAAPLVAVDLKFTHNPWAFIG 80 (405)
T ss_pred CeeEECCCCCCcCccchhhhHHHHHHHHHHHhcCCCCCCCceEEEEEccccccCCCCccccchHHHHHHHHhcCCcEEEC
Confidence 58999999843 44 6788999999999999999999999999999997666543 3333333 2459999999
Q ss_pred cCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEE-EEEeCC-cccc
Q 002267 122 PQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIA-IFVDDD-YGRN 198 (945)
Q Consensus 122 p~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~i-i~~d~~-~g~~ 198 (945)
|.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++|+|+++++ +|.++. +++.
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 5799999999999999999999999999999985 565543 3343
Q ss_pred ---hHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEe
Q 002267 199 ---GISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIAT 275 (945)
Q Consensus 199 ---~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 275 (945)
..+.+.+.+++.|++|+..+..+ .+..|+..+|++|++. .|+||++++...+..++++|+++||++++|+||.+
T Consensus 161 ~~~~~~~l~~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~~-~~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~ 237 (405)
T cd06385 161 CYFAMEGLYMELKKNNITVVDLVFEE--DDLINYTTLLQDIKQK-GRVIYVCCSPDIFRRLMLQFWREGLPSEDYVFFYI 237 (405)
T ss_pred hHHHHHHHHHHHHhCCeEEEEeeccC--CchhhHHHHHHHHhhc-ceEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEEEe
Confidence 46889999999999999876443 3578999999999875 49999999999999999999999999999999999
Q ss_pred CCCccccCC---------CCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhh----hcCCCCCCCCchhHHHHHHH
Q 002267 276 DWLPSVLDS---------TEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNL----KYKENSPSGFNSYALYAYDS 342 (945)
Q Consensus 276 ~~~~~~~~~---------~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~~~~~~~~~~~~~YDa 342 (945)
+++...++. .+..+....+++++++....+.+.++.+++|.++|+++ |..+.....++.+++++|||
T Consensus 238 ~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~YDa 317 (405)
T cd06385 238 DLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFYDG 317 (405)
T ss_pred ecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHHHH
Confidence 765432221 01112344567899988877778788899999999985 31000011267899999999
Q ss_pred HHHHHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEE
Q 002267 343 VWLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVL 422 (945)
Q Consensus 343 v~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~ 422 (945)
||++|.|++++.++.++ +.+|+.|.++|++++|+|++|.+.||++|+|. +.|.++
T Consensus 318 v~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~-~~~~~~ 372 (405)
T cd06385 318 VMLYAHALNETMAKGGT------------------------RPPGTAITQRMWNRTFYGVTGFVKIDDNGDRE-TDFALW 372 (405)
T ss_pred HHHHHHHHHHHHhcCCC------------------------CCCHHHHHHHhhCceEeeceeEEEEcCCCCEe-ceeEEE
Confidence 99999999998665432 22589999999999999999999999999974 778777
Q ss_pred Ee---eccceEEEEEecCCC
Q 002267 423 NI---GGTGSRRIGYWSNYS 439 (945)
Q Consensus 423 ~~---~~~~~~~Vg~w~~~~ 439 (945)
++ ++++++.||+|+..+
T Consensus 373 ~~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 373 DMTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred EccCCCCCcEEEEEEEcccC
Confidence 55 577899999998644
No 26
>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=5.2e-43 Score=391.29 Aligned_cols=353 Identities=20% Similarity=0.326 Sum_probs=288.8
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIA 128 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 128 (945)
+||++.|+| +..|...+.|+++|+|+||+++++++|++|++++.|++|++..++..+.++ +++|.+||||.||..+
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 589999997 556778999999999999999999889999999999999988877655543 4699999999999999
Q ss_pred HHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHH
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDAL 207 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 207 (945)
.+++++++.++||+|+++++++.+++ ..||+|+|+.|++ +.++++++++|+|++|++||++++||.+..+.+.+.+
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 6799999999886 4668889999999999999999999999999999999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccCC-ceEEEEEcCh-----hhHHHHHHHHHhCCCCCCCeEEEEeCCCccc
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLME-SRVFVVHVNP-----DTGLTIFSVAKSLGMTAGSYVWIATDWLPSV 281 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vivl~~~~-----~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~ 281 (945)
++.|++|+..+.++ .+..|++.+|++|+..+ +||||++++. .++..++++|+++||+..+|+||.+++....
T Consensus 157 ~~~gi~v~~~~~~~--~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~~~ 234 (382)
T cd06371 157 RAHGLPVGLVTSMG--PDEKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPYDTLLYS 234 (382)
T ss_pred HHCCCcEEEEEEec--CCHHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEecccccc
Confidence 99999999887777 56789999999999987 6999998765 6788999999999999999999999854311
Q ss_pred cC-----CCC-CCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcC-CCCCCCCchhHHHHHHHHHHHHHHHHHHH
Q 002267 282 LD-----STE-PVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYK-ENSPSGFNSYALYAYDSVWLVAHALDALL 354 (945)
Q Consensus 282 ~~-----~~~-~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~~~~YDav~~la~Al~~~~ 354 (945)
.+ ... ..+++..++.++++++..+.+..+..++|.++|+....+ +.....++.|++++|||++++|+|+++++
T Consensus 235 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~a~ 314 (382)
T cd06371 235 LPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGEIPSDLEPEQVSPLFGTIYNSIYLLAHAVENAR 314 (382)
T ss_pred CCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCCCCCCCccccchhHHHHHHHHHHHHHHHHHHH
Confidence 10 000 012445567889888877655444444455544311000 00112345676789999999999999987
Q ss_pred hcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEEEEE
Q 002267 355 NEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGY 434 (945)
Q Consensus 355 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~ 434 (945)
+.+++. ++.++.++|++++|+|++|+++||++|++ .+.|.|+++++.+++-+-+
T Consensus 315 ~~g~~~-------------------------d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~~~~~~ 368 (382)
T cd06371 315 AAGGGV-------------------------SGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGDQLYPT 368 (382)
T ss_pred HhCCCc-------------------------cHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCCeeeee
Confidence 654321 58999999999999999999999999986 6999999999988886655
Q ss_pred ec
Q 002267 435 WS 436 (945)
Q Consensus 435 w~ 436 (945)
+.
T Consensus 369 ~~ 370 (382)
T cd06371 369 YT 370 (382)
T ss_pred EE
Confidence 53
No 27
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=1.4e-42 Score=391.51 Aligned_cols=360 Identities=17% Similarity=0.276 Sum_probs=290.1
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|.+ ...+.....|+++|+++||+++++++|++|+++++|++|++..++..+++++.+ +|.+||||.||..
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 HHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC---Ccc--cchHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD---DYG--RNGIS 201 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g--~~~~~ 201 (945)
+.+++++++.++||+|+++++++.+++ ..||+++|+.|++..++.++++++++|+|++|++||.++ .|+ ....+
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 568999999999999999999999999999999998542 343 22344
Q ss_pred HHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccc
Q 002267 202 VLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSV 281 (945)
Q Consensus 202 ~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~ 281 (945)
.+.+.++ .+++++..+.++ .+..++...+.+.+..++|+||++++..++..++++|+++||+.++|+||.+++....
T Consensus 161 ~~~~~~~-~~~~i~~~~~~~--~~~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~~~ 237 (391)
T cd06372 161 AVENQLK-FHFNITATVRYS--SSNPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLLQQFEDN 237 (391)
T ss_pred HHHHHHh-hCEEEEEEEecC--CCChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEehhhcCc
Confidence 5555554 678998887776 4456777666666678999999999999999999999999999888999996432211
Q ss_pred c-CCC-C-CCChhHHhhhcceeEEEeecCC-CchhhHHHHHHHhhhcCCC------CCCCCchhHHHHHHHHHHHHHHHH
Q 002267 282 L-DST-E-PVDIDTMNLLQGVVALRHHTPD-TDLKKNFISRWKNLKYKEN------SPSGFNSYALYAYDSVWLVAHALD 351 (945)
Q Consensus 282 ~-~~~-~-~~~~~~~~~~~G~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~------~~~~~~~~~~~~YDav~~la~Al~ 351 (945)
. ... . ..+....+..+|++++.+..+. .+..++|.++|++++.... .....+.|++++|||||++|+|++
T Consensus 238 ~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~Al~ 317 (391)
T cd06372 238 FWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYALAVK 317 (391)
T ss_pred cccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHHHHH
Confidence 1 100 0 0012233567888888776543 3557789988887763110 111346789999999999999999
Q ss_pred HHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHH---hcccccceeeEEEccCCCCCCCcEEEEEeec--
Q 002267 352 ALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLL---RMNFTGLSGEIRFDADKNLVNPAYDVLNIGG-- 426 (945)
Q Consensus 352 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~---~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~-- 426 (945)
++++++.. +.+|.+|.++|+ +++|+|++|+|.||++|++ .+.|.|+++++
T Consensus 318 ~~~~~g~~------------------------~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r-~~~y~i~~~~~~~ 372 (391)
T cd06372 318 EMLKAGKD------------------------FRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR-QMDYSVYALQKSG 372 (391)
T ss_pred HHHhcCCC------------------------CCCHHHHHHHHhhccCceEeccceeEEECCCCCc-ceeEEEEeccccC
Confidence 98764321 336889999999 6899999999999999997 68999999985
Q ss_pred c--ceEEEEEecCCC
Q 002267 427 T--GSRRIGYWSNYS 439 (945)
Q Consensus 427 ~--~~~~Vg~w~~~~ 439 (945)
+ .++.||+|+..+
T Consensus 373 ~~~~~~~vg~~~~~~ 387 (391)
T cd06372 373 NSSLFLPFLHYDSHQ 387 (391)
T ss_pred CccceeeEEEecchh
Confidence 2 378999998754
No 28
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=100.00 E-value=1.9e-42 Score=391.04 Aligned_cols=363 Identities=25% Similarity=0.437 Sum_probs=314.1
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||+++|++ +..|.....|+++|+|+||++|++++|++|+++++|++|++..+++.+.+|+.+ +|.+||||.+|..
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 599999998 567889999999999999999976679999999999999999999999999875 9999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC-cccchHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD-YGRNGISVLGD 205 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~ 205 (945)
+.+++++++.++||+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++++++++++. ||....+.+.+
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 999999999999999999999998887 4789999999999999999999999999999999998887 99999999999
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCC-
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDS- 284 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~- 284 (945)
++++.|++|+....++......|+..+++++++.+ |+||+++.+.++..++++++++|+...+++|+.++.+......
T Consensus 161 ~~~~~G~~v~~~~~~~~~~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~~~ 239 (389)
T cd06352 161 ALREFNLTVSHVVFMEDNSGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLFNYSLPYQ 239 (389)
T ss_pred HHHhcCCeEEEEEEecCCccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehhccccccC
Confidence 99999999999888873212689999999999877 9999999999999999999999999888999998866544211
Q ss_pred -------CCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCC-----CCCCCchhHHHHHHHHHHHHHHHHH
Q 002267 285 -------TEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKEN-----SPSGFNSYALYAYDSVWLVAHALDA 352 (945)
Q Consensus 285 -------~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~-----~~~~~~~~~~~~YDav~~la~Al~~ 352 (945)
.....+...+..+|++++.++.+.++..++|.++|++++.... ....++.++.++||||+++++|+++
T Consensus 240 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 319 (389)
T cd06352 240 NSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHALNE 319 (389)
T ss_pred CCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHHHH
Confidence 0111234557789999988888888899999999999873110 1234678999999999999999999
Q ss_pred HHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeec--cceE
Q 002267 353 LLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGG--TGSR 430 (945)
Q Consensus 353 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~--~~~~ 430 (945)
+..+++. +.++..+.+.|++++|.|++|++.||++|++. ..|.|+++++ +.+.
T Consensus 320 ~~~~~~~------------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~-~~~~v~~~~~~~~~~~ 374 (389)
T cd06352 320 TLAEGGD------------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDRE-GDYSLLDLDSTGGQLE 374 (389)
T ss_pred HHHhCCC------------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCee-eeEEEEEecCCCceEE
Confidence 8765432 22588899999999999999999999999975 7899999996 5678
Q ss_pred EEEEecCCCC
Q 002267 431 RIGYWSNYSG 440 (945)
Q Consensus 431 ~Vg~w~~~~g 440 (945)
.++.+.+.++
T Consensus 375 ~~~~~~~~~~ 384 (389)
T cd06352 375 VVYLYDTSSG 384 (389)
T ss_pred EEEeccccce
Confidence 8988876553
No 29
>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=6.7e-42 Score=388.37 Aligned_cols=396 Identities=24% Similarity=0.435 Sum_probs=336.5
Q ss_pred CCCCCceEEEEEEeccCC-------------ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHH
Q 002267 44 SSSRPSSVRIGALFTYDS-------------VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQ 110 (945)
Q Consensus 44 ~~~~~~~i~IG~l~~l~~-------------~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~ 110 (945)
...-+++|.||++||.+. ..|.+...||.+|+|+||+ +.+|||.|+++.++|+|..+..|+++..+
T Consensus 25 ~~~~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~ 103 (878)
T KOG1056|consen 25 VARIPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLS 103 (878)
T ss_pred eccCCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHH
Confidence 346789999999999972 3456778999999999999 99999999999999999999999999999
Q ss_pred HHhc-----------------CcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHH
Q 002267 111 LMEN-----------------EVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMH 172 (945)
Q Consensus 111 li~~-----------------~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ 172 (945)
++.. .|.++|||..|+.+.+++.+..-++||+|+|+++++.|++ .+|+||.|+.|+|..|+.
T Consensus 104 Fv~~~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~ 183 (878)
T KOG1056|consen 104 FVRASLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQ 183 (878)
T ss_pred HHHhcccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHH
Confidence 8842 4899999999999999999999999999999999999999 689999999999999999
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc-CCceEEEEEcChh
Q 002267 173 AVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANL-MESRVFVVHVNPD 251 (945)
Q Consensus 173 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vivl~~~~~ 251 (945)
||++++++|+|++|..++++++||+.+++++++..+++|+||...+.++....+..++.+++++.. .++++||+++.++
T Consensus 184 Am~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~~~~~~~~~~l~kl~~~~~a~vvV~F~~~~ 263 (878)
T KOG1056|consen 184 AMVDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQLSIEQEFDCVLRKLLETPNARVVVVFCRGE 263 (878)
T ss_pred HHHHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccccchhHHHHHHHHHhhcCCCeEEEEecCcc
Confidence 999999999999999999999999999999999999999999999887766778889999999987 7899999999999
Q ss_pred hHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHH-------------
Q 002267 252 TGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISR------------- 318 (945)
Q Consensus 252 ~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~------------- 318 (945)
++..++++|+++++.+ .++||++|+|....+... ......+|++++....+..+.+++|.+.
T Consensus 264 ~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~~----~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~ 338 (878)
T KOG1056|consen 264 DARRLLKAARRANLTG-EFLWIASDGWASQNSPTE----APEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFA 338 (878)
T ss_pred hHHHHHHHHHHhCCCc-ceEEEecchhhccCChhh----hhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccc
Confidence 9999999999999876 689999999886544422 2224788999999988887777776654
Q ss_pred --HHhhhcCC-----------------CC-CCCC-----chhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCCCC
Q 002267 319 --WKNLKYKE-----------------NS-PSGF-----NSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDTNG 373 (945)
Q Consensus 319 --~~~~~~~~-----------------~~-~~~~-----~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~ 373 (945)
|+..|... .+ .... ..-...++|||+++|+||+.+.++... +
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 44444300 00 0011 123567999999999999999765322 2
Q ss_pred CccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeecc----ceEEEEEecCCCCccccccccc
Q 002267 374 SMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGT----GSRRIGYWSNYSGLSVVAPEIL 449 (945)
Q Consensus 374 ~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~----~~~~Vg~w~~~~gl~~~~~~~~ 449 (945)
....|.+++.. +|++|.+.+++++|.+..|.+.||++|| ....|+|++++.. .+.+||+|++...
T Consensus 406 ~~~~C~~m~~~-dg~~L~~~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~--------- 474 (878)
T KOG1056|consen 406 TSGLCSAMKAI-DGSLLLKYLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLS--------- 474 (878)
T ss_pred ccccCcCcccc-CHHHHHhhhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeeccccc---------
Confidence 34457777776 5999999999999999999999999999 5699999999853 5889999987542
Q ss_pred ccCCCCCCCCCcceeeEeCCCcccCCccee
Q 002267 450 YTKPPNSSSNRHLYSVIWPGEITATPRGWV 479 (945)
Q Consensus 450 ~~~~~~~~~~~~l~~i~W~g~~~~~P~~~~ 479 (945)
.+...+.|.++..++|+|.|
T Consensus 475 ----------l~i~~~~w~~~~~~v~~S~C 494 (878)
T KOG1056|consen 475 ----------LNIEDLDWTTKPSGVPKSVC 494 (878)
T ss_pred ----------ccceeeeeccCCCCCccccc
Confidence 33467899999999999998
No 30
>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=2.7e-41 Score=373.34 Aligned_cols=364 Identities=20% Similarity=0.282 Sum_probs=289.4
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCC-CcEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEccCChhHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILP-GTTLNFVIRDT-NCSGFVGTMEALQLMENEVVAAIGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~-g~~l~l~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 129 (945)
+||+||+.++ .....|+++|++.+|.+..++. +.+|...+..- ..|...+.+++|++++++|.||+||.+|..+.
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~ss~~~~ 77 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYSRGVFAIFGLYDKRSVH 77 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHhCCceEEEecCCHHHHH
Confidence 4899999654 2467999999999998864432 35777665543 35899999999999999999999999999999
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhh
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSK 209 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~ 209 (945)
+++++|+..+||+|+++.+ +...+.|.+++.|+ +..++++++++|+|++|++||+ +++|...++.|.+.+++
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 12233444455555 4578888999999999999995 44566779999999999
Q ss_pred cCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCC
Q 002267 210 KRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVD 289 (945)
Q Consensus 210 ~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~ 289 (945)
.|++|+...... .++.|++.+|++|+..++++||+.++++.+..++++|+++||+.++|+||.++......+.
T Consensus 150 ~g~~v~~~~~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l----- 222 (371)
T cd06388 150 NGWQVSAICVEN--FNDASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISL----- 222 (371)
T ss_pred cCCeeeeEEecc--CCcHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccccH-----
Confidence 999998765554 3466999999999999999999999999999999999999999999999998742111111
Q ss_pred hhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCC--CCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCC
Q 002267 290 IDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKEN--SPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPK 367 (945)
Q Consensus 290 ~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~--~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 367 (945)
.+......++.+++...++.+..++|+++|++.+.... .+..+..+++++||||+++|+|++++.......+
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 12222334488888888888899999999988754221 1135778999999999999999998743322110
Q ss_pred CCCCCCCcccc--CCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEEEEEecCCCCcc
Q 002267 368 LHDTNGSMLNL--SSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGYWSNYSGLS 442 (945)
Q Consensus 368 ~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~w~~~~gl~ 442 (945)
..|.++.| ....+|..|..|+++|++++|+|+||+++||++|+|.+..++|+++..+|+++||+|++..||.
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 01222234 3466899999999999999999999999999999998889999999999999999999988863
No 31
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=2.3e-41 Score=381.85 Aligned_cols=360 Identities=19% Similarity=0.243 Sum_probs=287.3
Q ss_pred EEEEEeccCCc---cc-cchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHH----HHHHHHH-HhcCcEEEEcc
Q 002267 52 RIGALFTYDSV---IG-RAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVG----TMEALQL-MENEVVAAIGP 122 (945)
Q Consensus 52 ~IG~l~~l~~~---~g-~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a----~~~a~~l-i~~~v~aiiGp 122 (945)
+||+++|-+.. ++ .....|+++|+|+||+++++++|++|+++++|+++++..+ ...+..+ +.+++.+||||
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 12 3566899999999999999888999999999987664333 3222222 23588999999
Q ss_pred CChhHHHHHHHhhcccCccEEecccCCCCCCC--CCCCceEEecCChhHHHHHHHHHHHHcCCe-EEEEEEEeCCccc--
Q 002267 123 QSSGIAHVISHVVNELNVPLLSFGATDPTLTS--LQYPYFLRTTQSDYYQMHAVADLVEYYGWR-EVIAIFVDDDYGR-- 197 (945)
Q Consensus 123 ~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~--~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~-~v~ii~~d~~~g~-- 197 (945)
.||..+.+++++++.++||+|+++++++.+++ ..||++||+.|++..++.++..++++|+|+ ++++||.++..+.
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 99999999999999999999999999998887 378999999999999999988889999999 6889987543222
Q ss_pred --chHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEe
Q 002267 198 --NGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIAT 275 (945)
Q Consensus 198 --~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 275 (945)
...+.+.+.+++.|++|+....+. .+..|+..+|++++. ++|+|+++++..++..++++|+++||++++|+||..
T Consensus 161 ~~~~~~~~~~~~~~~gi~v~~~~~~~--~~~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~~~y~~i~~ 237 (399)
T cd06384 161 HYFISEGVFLALQEENANVSAHPYHI--EKNSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTPGDYVFFYL 237 (399)
T ss_pred ceEehHHHHHHHHhcCceEEEEEEec--cchhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCCCcEEEEEe
Confidence 135667888899999999866554 457899999999996 899999999999999999999999999999999998
Q ss_pred CCCccccCC----------CCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCC-CCCCCC---chhHHHHHH
Q 002267 276 DWLPSVLDS----------TEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKE-NSPSGF---NSYALYAYD 341 (945)
Q Consensus 276 ~~~~~~~~~----------~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~~~---~~~~~~~YD 341 (945)
+++...+.. .....+...+++++++++..+.|.++.+++|.++|++++... +.+..+ +.+++++||
T Consensus 238 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~YD 317 (399)
T cd06384 238 DVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCFYD 317 (399)
T ss_pred hhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhhHH
Confidence 865432210 000124555688999999988888888999999999853210 111123 677999999
Q ss_pred HHHHHHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEE
Q 002267 342 SVWLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDV 421 (945)
Q Consensus 342 av~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i 421 (945)
||+++|.|+++++++++. |.++..|.++|++++|+|++|++.||++|++. ..|.+
T Consensus 318 av~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r~-~~~~~ 372 (399)
T cd06384 318 GVMLYAMALNETLAEGGS------------------------QKDGLNITRKMQDRRFWGVTGLVSIDKNNDRD-IDFDL 372 (399)
T ss_pred HHHHHHHHHHHHHhcCCC------------------------CCCcHhHHHHHhCceeecceeEEEECCCCCcc-cceEE
Confidence 999999999998655332 33688999999999999999999999999974 55666
Q ss_pred ---EEeeccceEEEEEecCCC
Q 002267 422 ---LNIGGTGSRRIGYWSNYS 439 (945)
Q Consensus 422 ---~~~~~~~~~~Vg~w~~~~ 439 (945)
.++++++++.||+|+..+
T Consensus 373 ~~~~~~~~g~~~~v~~~~~~~ 393 (399)
T cd06384 373 WAMTDHETGKYEVVAHYNGIT 393 (399)
T ss_pred EEeecCCCCeEEEEEEEcCCC
Confidence 466788999999998754
No 32
>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=8.2e-41 Score=370.72 Aligned_cols=361 Identities=19% Similarity=0.287 Sum_probs=292.2
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRD-TNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D-~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
+||+||+..+ .....|+++|++.+|.. +.+|...+.. +..|...+.+++|+++++||.||+||.+|..+.+
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~-----~~~l~~~~~~~~~~dsf~~~~~~C~~~~~GV~AI~Gp~ss~~~~~ 72 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTS-----EFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNT 72 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhccc-----CceeeeeeEEecccchHHHHHHHHHHhhcCcEEEEecCCHHHHHH
Confidence 4899998764 24689999999999986 3577764433 4468999999999999999999999999999999
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhc
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKK 210 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 210 (945)
++++|+.++||+|+++++ ++..++|.+++.|+ ...++++++++|+|++|++||+ ++||...++.+.+.+++.
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 23357888888888 5789999999999999999997 569999999999999999
Q ss_pred CcEEEEee--cCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCC
Q 002267 211 RAKISYKA--PFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPV 288 (945)
Q Consensus 211 g~~v~~~~--~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~ 288 (945)
|++|.... .+.......|++.+|++|++.++|+||+.++.+.+..++++|+++||+.++|+||.++......+.
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 98877443 222124567999999999999999999999999999999999999999999999998742222222
Q ss_pred ChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhc---CCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCC
Q 002267 289 DIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKY---KENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSND 365 (945)
Q Consensus 289 ~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~---~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 365 (945)
.+......++.+++...++.+..++|.++|++... ++.....++.+++++||||+++|+|++++........ .
T Consensus 221 -~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~--~- 296 (370)
T cd06389 221 -SKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEIS--R- 296 (370)
T ss_pred -hhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc--c-
Confidence 11112344678888888888999999999996321 1112245788999999999999999999854432221 0
Q ss_pred CCCCCCCCCcccc--CCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEEEEEecCCCCcc
Q 002267 366 PKLHDTNGSMLNL--SSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGYWSNYSGLS 442 (945)
Q Consensus 366 ~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~w~~~~gl~ 442 (945)
.+.+..| ....+|.+|..|.++|++++|+|+||+++||++|+|.+..++|++++.+++++||+|++..||.
T Consensus 297 ------~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~~ 369 (370)
T cd06389 297 ------RGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKMV 369 (370)
T ss_pred ------CCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCcc
Confidence 1112233 2356799999999999999999999999999999998889999999999999999999988764
No 33
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=1.8e-41 Score=373.40 Aligned_cols=319 Identities=22% Similarity=0.340 Sum_probs=273.2
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTN-CSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
+||++|++ ..|.....|+++|+|+||+++|+|+|++|+++++|++ +++..+.+.+++|++++|.+||||.+|..+.+
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 5688999999999999999999999999999999999 89999999999999889999999999999999
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhc
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKK 210 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 210 (945)
++++++.++||+|+++++++.++ .++++||+.|++..++.++++++++++|++|+++|++++++.. +.+.+++.
T Consensus 79 v~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~~~----l~~~~~~~ 152 (327)
T cd06382 79 VQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGLLR----LQELLQAF 152 (327)
T ss_pred HHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHHHH----HHHHHHhh
Confidence 99999999999999988888776 4689999999999999999999999999999999998876544 44455544
Q ss_pred Cc---EEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCC
Q 002267 211 RA---KISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEP 287 (945)
Q Consensus 211 g~---~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 287 (945)
|. .|.. ..++ .+. |++.+|.+|+++++|+|++++.+.++..++++|+++||..+.|+|+.+++.....+..
T Consensus 153 ~~~g~~v~~-~~~~--~~~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l~-- 226 (327)
T cd06382 153 GISGITITV-RQLD--DDL-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHTLDLE-- 226 (327)
T ss_pred ccCCCeEEE-EEcc--CCc-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccccchh--
Confidence 44 4554 3455 334 9999999999999999999999999999999999999999999999987654443321
Q ss_pred CChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCC---CCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccC
Q 002267 288 VDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKE---NSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSN 364 (945)
Q Consensus 288 ~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~---~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 364 (945)
.......++++++++.++++..++|.++|++++... .+...|+.+++.+|||++++
T Consensus 227 ---~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~------------------ 285 (327)
T cd06382 227 ---DYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF------------------ 285 (327)
T ss_pred ---hhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe------------------
Confidence 122334577888888888899999999999998311 11223778899999988655
Q ss_pred CCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEEEEEecCCCCc
Q 002267 365 DPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGYWSNYSGL 441 (945)
Q Consensus 365 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~w~~~~gl 441 (945)
|+||+|+||++|+|.+..|+|+|++++++++||+|++..||
T Consensus 286 ------------------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 ------------------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred ------------------------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 89999999999999999999999999999999999988764
No 34
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=100.00 E-value=1.2e-40 Score=358.98 Aligned_cols=324 Identities=22% Similarity=0.300 Sum_probs=262.2
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChH-HHHHHHHHHHhcCcEEEEccCChhH-HH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGF-VGTMEALQLMENEVVAAIGPQSSGI-AH 129 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~-~a~~~a~~li~~~v~aiiGp~~s~~-~~ 129 (945)
+||+||+..+..|+....|+++|++++|++++++++++|++++.|++.++. .+..+++++++++|.|||||.+|.. +.
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 489999999999999999999999999999999866799999999999875 7778889999889999999999975 67
Q ss_pred HHHHhhcccCccEEecccCC-CCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHh
Q 002267 130 VISHVVNELNVPLLSFGATD-PTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALS 208 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~-~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 208 (945)
+++++|++.+||+|+++... |.+...++++ .++.|++..++.|+++++++|+|++|++||+++++ +..|++.++
T Consensus 81 ~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~----l~~L~~~l~ 155 (333)
T cd06394 81 IVSHICGEKEIPHFKVGPEETPKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC----LLRLEELLR 155 (333)
T ss_pred HHHHHhhccCCceEEeccccCcccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH----HHHHHHHHH
Confidence 99999999999999986443 3333333344 89999999999999999999999999999999886 556666666
Q ss_pred hcCcEEEEeecCCCC--CChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCC
Q 002267 209 KKRAKISYKAPFSPG--ASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTE 286 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~--~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 286 (945)
...+ +...+++. .++.|++.+|++|+++++|+||++++++.+..++++|+++||+.++|+|+.|+.....++.
T Consensus 156 ~~~~---~~~~i~~~~~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L-- 230 (333)
T cd06394 156 QFLI---SKETLSVRMLDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPLLRL-- 230 (333)
T ss_pred hhcc---cCCceeeEEccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCcccccH--
Confidence 5433 22222221 2467899999999999999999999999999999999999999999999998876543333
Q ss_pred CCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCC---CCCchhHHHHHHHHHHHHHHHHHHHhcCCccccc
Q 002267 287 PVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSP---SGFNSYALYAYDSVWLVAHALDALLNEGGKFTFS 363 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~---~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 363 (945)
.+.......+.+++...++.+..++|+++|++++...... .....-++.+||||+++
T Consensus 231 ---~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~----------------- 290 (333)
T cd06394 231 ---DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV----------------- 290 (333)
T ss_pred ---HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE-----------------
Confidence 2233335558888888999999999999988766210001 11112345555554332
Q ss_pred CCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEEEEEecCCCCcc
Q 002267 364 NDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGYWSNYSGLS 442 (945)
Q Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~w~~~~gl~ 442 (945)
|+||+|+||++|+|.+...+|+++..+|.++||+|++..||.
T Consensus 291 -------------------------------------glTg~i~f~~~g~R~~~~l~v~~l~~~g~~kig~W~~~~gl~ 332 (333)
T cd06394 291 -------------------------------------GLTGRIEFNSKGQRSNYTLKILQKTRSGFRQIGQWHSNETLS 332 (333)
T ss_pred -------------------------------------eeecceecCCCCcCcccEEEEEEecCCcceEEEEEeCCCCcC
Confidence 899999999999999999999999999999999999988864
No 35
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=3.1e-39 Score=359.09 Aligned_cols=338 Identities=16% Similarity=0.201 Sum_probs=292.8
Q ss_pred CceEEEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCC
Q 002267 48 PSSVRIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQS 124 (945)
Q Consensus 48 ~~~i~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~ 124 (945)
.++|+||++.|++ +..|.....|+++|+++||+.||+. |++|+++++|++++|..+.+.+.+|++++|.+||||.+
T Consensus 23 ~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi~-G~~ielv~~D~~~~p~~a~~~~~~Li~~~V~~iiG~~~ 101 (369)
T PRK15404 23 ADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGIK-GDKLEGVEYDDACDPKQAVAVANKVVNDGIKYVIGHLC 101 (369)
T ss_pred CCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCCC-CeEEEEEeecCCCCHHHHHHHHHHHHhCCceEEEcCCC
Confidence 4689999999999 5568889999999999999999995 89999999999999999999999999889999999999
Q ss_pred hhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH-HHcCCeEEEEEEEeCCcccchHHHH
Q 002267 125 SGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV-EYYGWREVIAIFVDDDYGRNGISVL 203 (945)
Q Consensus 125 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l 203 (945)
|..+.+++++++..+||+|++.++++.+++..+||+||+.+.+..++.++++++ ++++|+++++|++|+.||++..+.+
T Consensus 102 s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~~~~~ 181 (369)
T PRK15404 102 SSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEGLARSV 181 (369)
T ss_pred chhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHHHHHHH
Confidence 999999999999999999999999999988778999999999999999999976 5679999999999999999999999
Q ss_pred HHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccC
Q 002267 204 GDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLD 283 (945)
Q Consensus 204 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~ 283 (945)
++.+++.|++++....++ .+.+|++.++.++++.++|+|++.+...+...++++++++|+.. .|+.+++.... .
T Consensus 182 ~~~~~~~G~~v~~~~~~~--~g~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~---~~i~~~~~~~~-~ 255 (369)
T PRK15404 182 KDGLKKAGANVVFFEGIT--AGDKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT---QFMGPEGVGNK-S 255 (369)
T ss_pred HHHHHHcCCEEEEEEeeC--CCCCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC---eEEecCcCCCH-H
Confidence 999999999999888888 57789999999999999999998888888999999999999854 47766543321 0
Q ss_pred CCCCCChhHHhhhcceeEEEeec-CCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccc
Q 002267 284 STEPVDIDTMNLLQGVVALRHHT-PDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTF 362 (945)
Q Consensus 284 ~~~~~~~~~~~~~~G~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~ 362 (945)
. .....+..+|+++..++. ..++..++|.++|++++ ...++.++..+||++++++.|++++...
T Consensus 256 ~----~~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~-----~~~~~~~~~~~Y~~~~~l~~Al~~aG~~------ 320 (369)
T PRK15404 256 L----SNIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKK-----QDPSGPFVWTTYAAVQSLAAGINRAGSD------ 320 (369)
T ss_pred H----HHhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhc-----CCCCccchHHHHHHHHHHHHHHHhhCCC------
Confidence 0 011235678888765533 34577899999999886 3455677889999999999999985210
Q ss_pred cCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceE
Q 002267 363 SNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSR 430 (945)
Q Consensus 363 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~ 430 (945)
+++.|.++|++.+|+|+.|++.|+++|++....|.|++|.+++..
T Consensus 321 -----------------------~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~~~ 365 (369)
T PRK15404 321 -----------------------DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADGTK 365 (369)
T ss_pred -----------------------CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCCeE
Confidence 478999999999999999999999999987899999999876543
No 36
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=6.5e-38 Score=345.07 Aligned_cols=319 Identities=26% Similarity=0.371 Sum_probs=269.0
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDT-NCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
+||+++|.++ .....|+++|+|+||+++|++++.++++.+.|+ ++++..+...+++|++++|.+||||.+|..+.+
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 5999999987 688999999999999999998777999999997 599999999999999889999999999999999
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhc
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKK 210 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 210 (945)
++++++.++||+|+++++++.++ ..++ ++..|++..++.++++++++++|++|++||++++++ ..++.+.+.+++.
T Consensus 78 v~~i~~~~~ip~is~~~~~~~~~-~~~~--~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~-~~l~~~~~~~~~~ 153 (324)
T cd06368 78 VQSICDALEIPHITTSWSPNPKP-RQFT--INLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEGL-LRLQELLDALSPK 153 (324)
T ss_pred HHHHHhccCCCcEEecCCcCCCC-Ccce--EEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHhH-HHHHHHHHhhccC
Confidence 99999999999999999888776 2344 445577778999999999999999999999776644 4556677778888
Q ss_pred CcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCCh
Q 002267 211 RAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDI 290 (945)
Q Consensus 211 g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~ 290 (945)
|++|+.....+ ..+|++.+|.+|++.++|+||+.+.+.++..++++++++||..++|+||.++......+. .
T Consensus 154 g~~v~~~~~~~---~~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~-----~ 225 (324)
T cd06368 154 GIQVTVRRLDD---DTDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL-----E 225 (324)
T ss_pred CceEEEEEecC---CchHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch-----h
Confidence 99998775443 233899999999999999999999999999999999999999899999998754322221 1
Q ss_pred hHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCC---CCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCC
Q 002267 291 DTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKE---NSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPK 367 (945)
Q Consensus 291 ~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~---~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 367 (945)
.......++.++....++++..++|.++|++++... .....|+.+++.+||||+++
T Consensus 226 ~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~--------------------- 284 (324)
T cd06368 226 LFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF--------------------- 284 (324)
T ss_pred hhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe---------------------
Confidence 222344467777777788899999999999988311 11126788999999998654
Q ss_pred CCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccceEEEEEecCCCCc
Q 002267 368 LHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTGSRRIGYWSNYSGL 441 (945)
Q Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~~~~Vg~w~~~~gl 441 (945)
+|+++||++|+|.+..++|+++..+++++||+|++..|+
T Consensus 285 -----------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 -----------------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred -----------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 789999999999999999999999999999999987764
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=1.3e-37 Score=344.56 Aligned_cols=328 Identities=22% Similarity=0.287 Sum_probs=288.2
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIA 128 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 128 (945)
+||++.|++ +..|.....|+++|++++|+++|+ +|++|++++.|++|++..+.+.+.+|++++|.+|+||.+|..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~i~~~~~D~~~~~~~~~~~~~~li~~~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGG-KGVKLELVVEDDQADPKQAVAVAQKLVDDGVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCChHHHHHHHHHHHhCCceEEECCCccHhH
Confidence 599999998 567888999999999999999888 5999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH-HHcCCeEEEEEEEeCCcccchHHHHHHHH
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV-EYYGWREVIAIFVDDDYGRNGISVLGDAL 207 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 207 (945)
.+++++++..+||+|+++++++.+++..||++||+.|++..++.++++++ ++++|++|++++.|++||+...+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999999888777776678999999999999999999976 67899999999999999999999999999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEP 287 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 287 (945)
++.|++|+....++ .+..|+...+.++++.++++|++.+.+.++..+++++++.|+.. .|+.++++... ..
T Consensus 160 ~~~g~~v~~~~~~~--~~~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~-~~--- 230 (334)
T cd06342 160 KAAGGKVVAREGTT--DGATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLKA---PFMGGDGLCDP-EF--- 230 (334)
T ss_pred HHcCCEEEEEecCC--CCCccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCCC---cEEecCccCCH-HH---
Confidence 99999999988887 56789999999999999999999999999999999999999853 57776543211 00
Q ss_pred CChhHHhhhcceeEEEeecCC--CchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCC
Q 002267 288 VDIDTMNLLQGVVALRHHTPD--TDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSND 365 (945)
Q Consensus 288 ~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 365 (945)
.....+..+|++.+.++.+. ++..++|.++|++++ +..++.++..+||+++++++|++++ +.
T Consensus 231 -~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~-----~~~~~~~~~~~yda~~~~~~al~~~----~~------ 294 (334)
T cd06342 231 -IKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKF-----GDPPGAYAPYAYDAANVLAEAIKKA----GS------ 294 (334)
T ss_pred -HHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHh-----CCCCchhHHHHHHHHHHHHHHHHHh----CC------
Confidence 01123467888888777663 678899999999988 4556889999999999999999985 11
Q ss_pred CCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEe
Q 002267 366 PKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNI 424 (945)
Q Consensus 366 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~ 424 (945)
.++..+.++|++++|+|++|+++|+++|++.+..|+|+||
T Consensus 295 -------------------~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 -------------------TDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred -------------------CCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 1488999999999999999999999999999999999886
No 38
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=100.00 E-value=1.1e-37 Score=347.70 Aligned_cols=337 Identities=33% Similarity=0.563 Sum_probs=280.9
Q ss_pred hHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHH-HHHhcCcEEEEccCChhHHHHHHHhhcccCccEEec
Q 002267 67 AGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEAL-QLMENEVVAAIGPQSSGIAHVISHVVNELNVPLLSF 145 (945)
Q Consensus 67 ~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~-~li~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 145 (945)
+..|+++|+++||+++++++|++|++.+.|+++++..+...+. .+.+++|.+||||.|+..+.+++.+++.++||+|++
T Consensus 2 ~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~ 81 (348)
T PF01094_consen 2 VLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQISP 81 (348)
T ss_dssp HHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEES
T ss_pred HHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCCcccccchhhhccCCCcEEEECCCcccccchhheeecccccceeec
Confidence 5689999999999999998999999999999965555555555 445569999999999999999999999999999999
Q ss_pred ccCCCCCCC--CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCc-EEEEeecCCC
Q 002267 146 GATDPTLTS--LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRA-KISYKAPFSP 222 (945)
Q Consensus 146 ~a~~~~ls~--~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~-~v~~~~~~~~ 222 (945)
+++++.+++ ..||+++|+.|++..++.++++++++|+|++|++||+++++|.+....+.+.+++.++ ++......+
T Consensus 82 ~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 160 (348)
T PF01094_consen 82 GSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISVVI- 160 (348)
T ss_dssp SGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEE-
T ss_pred cccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccccccchhhhhhhcccccceeccccccc-
Confidence 999999998 3799999999999999999999999999999999999999999999999999999654 444413333
Q ss_pred CCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhccee
Q 002267 223 GASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVV 300 (945)
Q Consensus 223 ~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~ 300 (945)
....+....+.+++. .++++||+++....+..++++|.++||..++|+||.++++...... ..+.......|++
T Consensus 161 -~~~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~---~~~~~~~~~~~~~ 236 (348)
T PF01094_consen 161 -SSDSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQ---NNEDFREAFQGVL 236 (348)
T ss_dssp -TTTSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTS---THCHHHCCHTTEE
T ss_pred -ccccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeeccccccccc---cccccccccccee
Confidence 233444555555554 9999999999999999999999999999999999999987655321 1245667899999
Q ss_pred EEEeecCCCchhhHHHHHHHhhhc---CCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCCCCCccc
Q 002267 301 ALRHHTPDTDLKKNFISRWKNLKY---KENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLN 377 (945)
Q Consensus 301 ~~~~~~~~~~~~~~f~~~~~~~~~---~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~ 377 (945)
+++...+..+.+++|.++|++... .......+..++.++||||+++|+|++++.++++....
T Consensus 237 ~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~--------------- 301 (348)
T PF01094_consen 237 GFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTN--------------- 301 (348)
T ss_dssp EEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTS---------------
T ss_pred eeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCCC---------------
Confidence 999999999999999999997531 12235567889999999999999999999876544210
Q ss_pred cCCccccCchHHHHHHHHhcccccceeeEEEcc-CCCCCCCcEEEEEee
Q 002267 378 LSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDA-DKNLVNPAYDVLNIG 425 (945)
Q Consensus 378 ~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~-~g~~~~~~y~i~~~~ 425 (945)
....|.+|..+.+.|++++|+|++|++.||+ +|++....|+|+|++
T Consensus 302 --~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 302 --GRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp --SSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred --CccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 0045678999999999999999999999999 899889999999975
No 39
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.6e-37 Score=342.33 Aligned_cols=329 Identities=16% Similarity=0.198 Sum_probs=280.7
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCC---CCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCC
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSIL---PGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQS 124 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il---~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 124 (945)
+||+++|+| +..|+....|+++|+++||++||+. .|++|+++++|++++|..+.+.+.+|+++ +|.+||||.+
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 599999999 5668889999999999999988763 47999999999999999999999999987 9999999999
Q ss_pred hhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcC--CeEEEEEEEeCCcccchHHH
Q 002267 125 SGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYG--WREVIAIFVDDDYGRNGISV 202 (945)
Q Consensus 125 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~--w~~v~ii~~d~~~g~~~~~~ 202 (945)
|..+.++++++++++||+|+++++++.++...+||+||+.|++..++.++++++++++ |+++++++.+++||+...+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999998888877756689999999999999999999999887 99999999999999999999
Q ss_pred HHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCcccc
Q 002267 203 LGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVL 282 (945)
Q Consensus 203 l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~ 282 (945)
+.+.+++.|++|+....++ .+.+|++.++++|++.++|+|++++.+.+...+++++++.|+..+ ..+. +.+....
T Consensus 161 ~~~~~~~~g~~v~~~~~~~--~~~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~~~-~~~~~~~- 235 (345)
T cd06338 161 AREKAEAAGLEVVYDETYP--PGTADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-ALYM-TVGPAFP- 235 (345)
T ss_pred HHHHHHHcCCEEEEEeccC--CCccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EEEE-ecCCCcH-
Confidence 9999999999999888787 566899999999999999999999999999999999999999754 2222 2222110
Q ss_pred CCCCCCChhHHhhhcceeEEEeecCCC-------chhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHh
Q 002267 283 DSTEPVDIDTMNLLQGVVALRHHTPDT-------DLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLN 355 (945)
Q Consensus 283 ~~~~~~~~~~~~~~~G~~~~~~~~~~~-------~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~ 355 (945)
.. .+......+|+++...+.|.. +..++|.++|+++| +..|+.++..+||+++++++|++++..
T Consensus 236 ~~----~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~-----~~~p~~~~~~~y~a~~~~~~a~~~ag~ 306 (345)
T cd06338 236 AF----VKALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKY-----GKAPDYHAAGAYAAGQVLQEAVERAGS 306 (345)
T ss_pred HH----HHHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHh-----CCCCCcccHHHHHHHHHHHHHHHHhCC
Confidence 00 012224568888877776643 67899999999998 445778889999999999999998521
Q ss_pred cCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEe
Q 002267 356 EGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNI 424 (945)
Q Consensus 356 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~ 424 (945)
. +++.+.++|++++|+|++|++.|+++|++.. .+.+++|
T Consensus 307 ~-----------------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~~ 345 (345)
T cd06338 307 L-----------------------------DPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQW 345 (345)
T ss_pred C-----------------------------CHHHHHHHHHhCCCcccccCeeECCCCCcCC-CceeeeC
Confidence 1 4789999999999999999999999998754 5555543
No 40
>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=3.6e-37 Score=336.33 Aligned_cols=304 Identities=25% Similarity=0.334 Sum_probs=265.5
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|++ +..|+....|+++|+++||++||+ .|++|+++++|++++|..+.+.+.+|+++ +|.+|+||.+|..
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 456888999999999999999999 59999999999999999999999999987 9999999999999
Q ss_pred HHHH-HHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHH
Q 002267 128 AHVI-SHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGD 205 (945)
Q Consensus 128 ~~~v-a~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 205 (945)
+.++ ++++++.++|+|+++++++.+++ ..++|+||+.|++..++.++++++.+++|+++++|+.|++||++..+.+++
T Consensus 80 ~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g~~~~~~~~~ 159 (312)
T cd06346 80 TIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYGVGLADAFTK 159 (312)
T ss_pred hHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchhhHHHHHHHH
Confidence 9999 99999999999999999999987 457999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCC
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDST 285 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 285 (945)
.+++.|++|+....++ .+.+|+++++.++++.+||+|++.+.+.++..++++++++|+.. .|+.++++.... .
T Consensus 160 ~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~~~~-~- 232 (312)
T cd06346 160 AFEALGGTVTNVVAHE--EGKSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFD---KFLLTDGMKSDS-F- 232 (312)
T ss_pred HHHHcCCEEEEEEeeC--CCCCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCC---ceEeeccccChH-H-
Confidence 9999999999988888 56899999999999999999999999999999999999999844 467665433210 0
Q ss_pred CCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCC
Q 002267 286 EPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSND 365 (945)
Q Consensus 286 ~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 365 (945)
........++|+++..++.+. +..++|.++|+++| +..|+.+++.+||+++++++|
T Consensus 233 --~~~~~~~~~~g~~~~~~~~~~-~~~~~f~~~~~~~~-----g~~p~~~~~~~Yd~~~~l~~A---------------- 288 (312)
T cd06346 233 --LPADGGYILAGSYGTSPGAGG-PGLEAFTSAYKAAY-----GESPSAFADQSYDAAALLALA---------------- 288 (312)
T ss_pred --HHhhhHHHhCCcEEccCCCCc-hhHHHHHHHHHHHh-----CCCCCccchhhHHHHHHHHHH----------------
Confidence 001112457888877665544 78899999999998 556888999999999999866
Q ss_pred CCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEE
Q 002267 366 PKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDV 421 (945)
Q Consensus 366 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i 421 (945)
|.|++|+++||++|++.. .|+-
T Consensus 289 ---------------------------------~~g~~g~~~f~~~g~~~~-~~~~ 310 (312)
T cd06346 289 ---------------------------------YQGASGVVDFDENGDVAG-SYDE 310 (312)
T ss_pred ---------------------------------hCCCccceeeCCCCCccc-ceee
Confidence 678999999999998643 5543
No 41
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=8.3e-37 Score=338.82 Aligned_cols=322 Identities=20% Similarity=0.261 Sum_probs=276.1
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|+| +..|+....|+++|++++|++||+ +|++|+++++|++++|..+++.+++|+++ +|.+||||.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi-~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 79 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGI-LGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEV 79 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCC-CCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHH
Confidence 589999998 667999999999999999999998 58999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCC----CCCCceEEecCChhHHHHHHHHHHHH-----cCCeEEEEEEEeCCcccc
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTS----LQYPYFLRTTQSDYYQMHAVADLVEY-----YGWREVIAIFVDDDYGRN 198 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~----~~~p~~~r~~p~d~~~~~ai~~~l~~-----~~w~~v~ii~~d~~~g~~ 198 (945)
+.+++++++.++||+|+++++++.+++ ..+||+||+.|++..+..++++++.+ ++|++|++++.+++||+.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~ 159 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKG 159 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhH
Confidence 999999999999999999888888873 46899999999999999999998876 899999999999999999
Q ss_pred hHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCC
Q 002267 199 GISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWL 278 (945)
Q Consensus 199 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~ 278 (945)
..+.+++.+++.|++|+....++ .+..|++.++.+|+..++|+|++.+.+.+...++++++++|+..+ ++..+.+
T Consensus 160 ~~~~~~~~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~ 234 (344)
T cd06345 160 IDAGIKALLPEAGLEVVSVERFS--PDTTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIP---TIGISVE 234 (344)
T ss_pred HHHHHHHHHHHcCCeEEEEEecC--CCCCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCc---eEEecCC
Confidence 99999999999999999988887 457899999999999999999999999999999999999998542 3333211
Q ss_pred ccccCCCCCCChhHHhhhcceeEEEeecC----CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHH
Q 002267 279 PSVLDSTEPVDIDTMNLLQGVVALRHHTP----DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALL 354 (945)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~G~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~ 354 (945)
...... .+......+|++....+.| .++..++|.++|+++| +..++.++..+||+++++++|++++.
T Consensus 235 ~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~-----g~~p~~~~~~~yda~~~l~~A~~~ag 305 (344)
T cd06345 235 GNSPAF----WKATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKF-----GGPPNYMGASTYDSIYILAEAIERAG 305 (344)
T ss_pred cCCHHH----HHhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHh-----CCCCcccchHHHHHHHHHHHHHHHhc
Confidence 110000 0112245667766655544 4677899999999998 55688899999999999999999852
Q ss_pred hcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCC
Q 002267 355 NEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNP 417 (945)
Q Consensus 355 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~ 417 (945)
. .+++.|.++|++++|+|++|+++||++|++...
T Consensus 306 ~-----------------------------~~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~~ 339 (344)
T cd06345 306 S-----------------------------TDGDALVEALEKTDFVGTAGRIQFYGDDSAFAH 339 (344)
T ss_pred C-----------------------------CCHHHHHHHHHhCCCcCCceeEEECCCCCcCcC
Confidence 1 147899999999999999999999999997643
No 42
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=100.00 E-value=9.6e-37 Score=339.52 Aligned_cols=308 Identities=34% Similarity=0.594 Sum_probs=266.2
Q ss_pred EEEEEeccCCc-------------cccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc----
Q 002267 52 RIGALFTYDSV-------------IGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN---- 114 (945)
Q Consensus 52 ~IG~l~~l~~~-------------~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~---- 114 (945)
.||++||++.. .|.....++.+|+++||+++++++|++|+++++|++|++.+|.+.+.+|+.+
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 48999999842 2456778999999999999999999999999999999999999999999975
Q ss_pred ----------CcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCC
Q 002267 115 ----------EVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGW 183 (945)
Q Consensus 115 ----------~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w 183 (945)
+|.+||||.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~ 160 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGW 160 (348)
T ss_pred CCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCC
Confidence 8999999999999999999999999999999999999976 56899999999999999999999999999
Q ss_pred eEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 184 REVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 184 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
++|++|+.+++||....+.+++.+++.|++|+..+.++......|+..++++|++.++|+|++++.+.++..++++++++
T Consensus 161 ~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~~~ 240 (348)
T cd06350 161 TWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAYKL 240 (348)
T ss_pred eEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999998888433378999999999999999999999999999999999999
Q ss_pred CCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHH
Q 002267 264 GMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSV 343 (945)
Q Consensus 264 g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav 343 (945)
|+ .+.+ |+..+.+....... ....+.++|++++..+.|.+...++|.+.|++ +++++||||
T Consensus 241 g~-~~~~-~i~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~-------------~~~~~YDav 301 (348)
T cd06350 241 GM-TGKY-WIISTDWDTSTCLL----LFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK-------------YAYNVYDAV 301 (348)
T ss_pred CC-CCeE-EEEEccccCccccc----cCCcceeeeEEEEEEEeecCCcCCChHHHHHH-------------HHHHHHhhe
Confidence 99 4444 44554443221110 12235689999999998877667778777775 678899998
Q ss_pred HHHHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEE
Q 002267 344 WLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLN 423 (945)
Q Consensus 344 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~ 423 (945)
|+ .+.||++|++ ...|.|++
T Consensus 302 ~~-----------------------------------------------------------~v~f~~~gd~-~~~~~i~~ 321 (348)
T cd06350 302 YA-----------------------------------------------------------EVKFDENGDR-LASYDIIN 321 (348)
T ss_pred eE-----------------------------------------------------------EEEecCCCCc-ccceeEEE
Confidence 76 5899999996 47799999
Q ss_pred eec----cceEEEEEecCC
Q 002267 424 IGG----TGSRRIGYWSNY 438 (945)
Q Consensus 424 ~~~----~~~~~Vg~w~~~ 438 (945)
++. .++++||.|++.
T Consensus 322 ~~~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 322 WQIFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EEEcCCcEEEEEEEEEcCC
Confidence 876 679999999873
No 43
>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=4e-36 Score=333.53 Aligned_cols=334 Identities=18% Similarity=0.276 Sum_probs=277.0
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|+| +..|+....|+++|+++||++||++ |++|+++++|++++|..+.+++++|+++ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi~-G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~ 79 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVN-GRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQ 79 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcC-CcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHH
Confidence 599999999 5678999999999999999999985 8999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHH-HHHHHHHc-CCeEEEEEEEeCC-cccchHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHA-VADLVEYY-GWREVIAIFVDDD-YGRNGISVLG 204 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~a-i~~~l~~~-~w~~v~ii~~d~~-~g~~~~~~l~ 204 (945)
+.++.+++++.+||+|+++++++.+.. .+||+||+.+++..+... +..+++++ +|+++++||.+++ ||+...+.++
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 999999999999999998887766643 468999998777655544 45567787 9999999997654 9999999999
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCC
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDS 284 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~ 284 (945)
+.+++.|++|+....++ .+.+|+..++.+|+++++|+|++.+.+.++..+++++++.|+.. .|+.++++.... .
T Consensus 159 ~~~~~~g~~v~~~~~~~--~~~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~-~ 232 (344)
T cd06348 159 KALRDQGLNLVTVQTFQ--TGDTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNG---LIVGGNGFNTPN-V 232 (344)
T ss_pred HHHHHcCCEEEEEEeeC--CCCCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC---ceeccccccCHH-H
Confidence 99999999999988888 56789999999999999999999999999999999999999865 355554432211 1
Q ss_pred CCCCChhHHhhhcceeEEEeecCC--CchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccc
Q 002267 285 TEPVDIDTMNLLQGVVALRHHTPD--TDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTF 362 (945)
Q Consensus 285 ~~~~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~ 362 (945)
.+...+..+|++...++.+. .+..++|.++|+++| +..++.++..+||+++++++|++++..+++..
T Consensus 233 ----~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~-----g~~p~~~~~~~yda~~~~~~A~~~a~~~~~~~-- 301 (344)
T cd06348 233 ----FPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKY-----GKAPPQFSAQAFDAVQVVAEALKRLNQKQKLA-- 301 (344)
T ss_pred ----HHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHH-----CCCccHHHHHHHHHHHHHHHHHHHhcCCCccc--
Confidence 12233567888888777654 457899999999998 55678889999999999999999975432110
Q ss_pred cCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEE
Q 002267 363 SNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDV 421 (945)
Q Consensus 363 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i 421 (945)
.+. ....+..|.++|++.+|+|++|++.||++|++....|.+
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 011367899999999999999999999999987666543
No 44
>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=1.2e-35 Score=326.61 Aligned_cols=335 Identities=17% Similarity=0.208 Sum_probs=256.0
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVI 131 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 131 (945)
+||++|+.++.. ....-++.+|++++|+++|+ .|+.++++.+|+.+|+.+++.++|+|++++|.|||||.+|..+.++
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 589999997543 34556666777888888886 4677889999999999999999999999999999999999999999
Q ss_pred HHhhcccCccEEecccC---CCCC-----CC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHH
Q 002267 132 SHVVNELNVPLLSFGAT---DPTL-----TS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISV 202 (945)
Q Consensus 132 a~~~~~~~iP~Is~~a~---~~~l-----s~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 202 (945)
+++++..+||+|++.+. +|.. .+ ...+|.|+..|++ .+..+++++++++||++|+++|++++ |....+.
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 99999999999996532 1111 11 1234555555664 68899999999999999999998776 5556677
Q ss_pred HHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhc-------cCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEe
Q 002267 203 LGDALSKKRAKISYKAPFSPGASRSAINSLLVGAN-------LMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIAT 275 (945)
Q Consensus 203 l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~-------~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 275 (945)
+.+++++.|+.+.... ...+ ....+..+++.++ ..+.++||++|+++.+..++++|+++||+.++|+|+++
T Consensus 157 ~~~~~~~~g~~v~~~~-~~~~-~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi~~ 234 (363)
T cd06381 157 FLDQLSRQGIDVLLQK-VDLN-ISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKDSHWFLI 234 (363)
T ss_pred HHHHHHhcCceEEEEe-cccc-cchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEEEe
Confidence 8888999998766432 2211 1223333333332 34556889999999999999999999999999999987
Q ss_pred CCCccc-cCCCCCCChhHHhhhcceeEEEeecCCCchhh----HHHHHHHhhhcCC-CCCCCCchhHHHHHHHHHHHHHH
Q 002267 276 DWLPSV-LDSTEPVDIDTMNLLQGVVALRHHTPDTDLKK----NFISRWKNLKYKE-NSPSGFNSYALYAYDSVWLVAHA 349 (945)
Q Consensus 276 ~~~~~~-~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~----~f~~~~~~~~~~~-~~~~~~~~~~~~~YDav~~la~A 349 (945)
+.+... .+. +.......|+++++...|..+..+ +|.+.|++...+. .....+...++++|||||++
T Consensus 235 ~~l~~~~~~l-----~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~yDaV~~~--- 306 (363)
T cd06381 235 NEEISDTEID-----ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDGYLQMLEISNLYIYDSVLLL--- 306 (363)
T ss_pred ccccccchhh-----HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCCCCCChhHHHHHHHHHHHHH---
Confidence 765542 222 455678899999999998877777 4555665433211 11124566799999999999
Q ss_pred HHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeeccc-
Q 002267 350 LDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGGTG- 428 (945)
Q Consensus 350 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~- 428 (945)
+++|++++|+|+||+|+||++|.|.+..++|+++.-++
T Consensus 307 -----------------------------------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~~ 345 (363)
T cd06381 307 -----------------------------------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSET 345 (363)
T ss_pred -----------------------------------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCCc
Confidence 12466788999999999999999999999999998554
Q ss_pred ----eEEEEEecCCCCc
Q 002267 429 ----SRRIGYWSNYSGL 441 (945)
Q Consensus 429 ----~~~Vg~w~~~~gl 441 (945)
.+.||+|++..||
T Consensus 346 ~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 346 LGKDGRWLATWNPSKGL 362 (363)
T ss_pred cccceEEeeeccCCCCC
Confidence 7899999998875
No 45
>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=327.27 Aligned_cols=337 Identities=18% Similarity=0.154 Sum_probs=276.3
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|+| +..|+...+|+++|+++||++||++ |++|+++++|++++|.++.+.+.+|+++ +|.+|+|+.+|..
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 599999999 5678899999999999999999996 8999999999999999999999999976 8999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHH-HcCCeEEEEEEEeCCcccchHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVE-YYGWREVIAIFVDDDYGRNGISVLGDA 206 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~-~~~w~~v~ii~~d~~~g~~~~~~l~~~ 206 (945)
+.++.+++++.++|+|++.+... ...+||+||+.+++..++..+++++. +.++++|++++.|++||++..+.+++.
T Consensus 80 ~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~ 156 (348)
T cd06355 80 RKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQ 156 (348)
T ss_pred HHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHH
Confidence 99999999999999998653221 13569999999999999999989775 457999999999999999999999999
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTE 286 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 286 (945)
+++.|++|+....++ .+..|+++++.++++.+||+|++...+.++..+++++++.|+..+...++........+..
T Consensus 157 ~~~~G~~vv~~~~~~--~~~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~-- 232 (348)
T cd06355 157 LESLGGEVVGEEYLP--LGHTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELRG-- 232 (348)
T ss_pred HHHcCCeEEeeEEec--CChhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHhh--
Confidence 999999999988887 6789999999999999999999999999999999999999997654555554322111111
Q ss_pred CCChhHHhhhcceeEEEeecC--CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccC
Q 002267 287 PVDIDTMNLLQGVVALRHHTP--DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSN 364 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 364 (945)
...+...|+++...+.+ +.+..++|.++|+++|. ....++.++..+||+++++++|++++.+.
T Consensus 233 ----~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g---~~~~~~~~a~~~Y~a~~~~~~Al~~ag~~-------- 297 (348)
T cd06355 233 ----IGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYG---QDRVTNDPMEAAYIGVYLWKQAVEKAGSF-------- 297 (348)
T ss_pred ----cChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcC---CCCCCCcHHHHHHHHHHHHHHHHHHhCCC--------
Confidence 01135678776554433 56778999999999982 11234567889999999999999995211
Q ss_pred CCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEee-ccceEEE
Q 002267 365 DPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIG-GTGSRRI 432 (945)
Q Consensus 365 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~-~~~~~~V 432 (945)
+++.|.++|++++|+++.|.++|+++++.....+.|.+++ ++.++.|
T Consensus 298 ---------------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 298 ---------------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred ---------------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 4889999999999999999999998443344556677775 4444443
No 46
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.5e-35 Score=326.86 Aligned_cols=320 Identities=20% Similarity=0.203 Sum_probs=271.3
Q ss_pred EEEEEeccC--CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhHH
Q 002267 52 RIGALFTYD--SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGIA 128 (945)
Q Consensus 52 ~IG~l~~l~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~~ 128 (945)
+||++.|++ +..|....+|+++|+++||+.||+ +|++|+++++|++++|..+.+.+.+|+++ +|.+|+|+.+|..+
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 667889999999999999999998 59999999999999999999999999987 99999999999999
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcC-CeEEEEEEEeCC-cccchHHHHHHH
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYG-WREVIAIFVDDD-YGRNGISVLGDA 206 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~-w~~v~ii~~d~~-~g~~~~~~l~~~ 206 (945)
.++++++++.++|+|+++++++.++ ..+||+||+.+++..++.++++++++.+ |+++++|+.|+. ||+...+.+.+.
T Consensus 80 ~a~~~~~~~~~ip~i~~~a~~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~~~~~~~~~~ 158 (332)
T cd06344 80 LAALDIYQKAKLVLISPTSTSVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYSQSLKQEFTSA 158 (332)
T ss_pred HHHHHHHhhcCceEEccCcCchhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHhHHHHHHHHHH
Confidence 9999999999999999988888887 4579999999999999999999998876 999999998876 999999999999
Q ss_pred Hhh-cCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCC
Q 002267 207 LSK-KRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDST 285 (945)
Q Consensus 207 l~~-~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 285 (945)
+++ .|+++.....++ .++.++..++.++++.++|+|++.+.......+++++++.+. ...|+.++.+... +..
T Consensus 159 ~~~~~g~~v~~~~~~~--~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~~-~~~ 232 (332)
T cd06344 159 LLERGGGIVVTPCDLS--SPDFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG---RLTLLGGDSLYTP-DTL 232 (332)
T ss_pred HHHhcCCeeeeeccCC--CCCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---CceEEecccccCH-HHH
Confidence 999 599988765554 456678889999999999999999988888899999888764 2345555443221 110
Q ss_pred CCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCC
Q 002267 286 EPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSND 365 (945)
Q Consensus 286 ~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 365 (945)
.......+|+++..++.++++..++|.++|++++ +..++.++..+||+++++++|++++.+.
T Consensus 233 ----~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~-----~~~~~~~a~~~Yda~~~l~~A~~~ag~~--------- 294 (332)
T cd06344 233 ----LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLW-----GGDVSWRTATAYDATKALIAALSQGPTR--------- 294 (332)
T ss_pred ----HhchhhhcCeEEEEecccccccchHHHHHHHHHh-----cCCchHHHHhHHHHHHHHHHHHHhCCCh---------
Confidence 1122467899998888888888999999999998 5568889999999999999999984211
Q ss_pred CCCCCCCCCccccCCccccCchHHHH-HHHHhcccccceeeEEEccCCCCCCC
Q 002267 366 PKLHDTNGSMLNLSSLRVFDGGQQFL-QTLLRMNFTGLSGEIRFDADKNLVNP 417 (945)
Q Consensus 366 ~~~~~~~~~~~~~~~~~~~~~~~~l~-~~l~~~~f~G~sG~v~fd~~g~~~~~ 417 (945)
++..+. ..+++..|+|+.|+++||++|++..+
T Consensus 295 --------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~ 327 (332)
T cd06344 295 --------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNGQ 327 (332)
T ss_pred --------------------hhhhhhhhhcccccccCCCceeEeCCCCcccCc
Confidence 244444 67778889999999999999997643
No 47
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=1.4e-35 Score=325.56 Aligned_cols=299 Identities=16% Similarity=0.222 Sum_probs=237.9
Q ss_pred CCCChHHHHHHHHHHHhc-CcEEEE-ccCChh--HHHHHHHhhcccCccEEecccCCC-CCCC-CCCCceEEecCChhHH
Q 002267 97 TNCSGFVGTMEALQLMEN-EVVAAI-GPQSSG--IAHVISHVVNELNVPLLSFGATDP-TLTS-LQYPYFLRTTQSDYYQ 170 (945)
Q Consensus 97 ~~~~~~~a~~~a~~li~~-~v~aii-Gp~~s~--~~~~va~~~~~~~iP~Is~~a~~~-~ls~-~~~p~~~r~~p~d~~~ 170 (945)
...||.....++|+++.+ +|.|+| ||.++. .+..++.++++++||+|+++++++ .+++ ..+|||+|+.|++..|
T Consensus 43 ~~~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~~q 122 (362)
T cd06378 43 NETDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIEQQ 122 (362)
T ss_pred CCCCHHHHHHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHHHH
Confidence 446999999999999977 699766 999997 556788888999999999976665 5566 5799999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCC-hHHHHHHHHhhccCCceEEEEEcC
Q 002267 171 MHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGAS-RSAINSLLVGANLMESRVFVVHVN 249 (945)
Q Consensus 171 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~-~~d~~~~l~~l~~~~~~vivl~~~ 249 (945)
+.|+++++++|+|++|++||++++.+..+...+++.+++.++|+.....++...+ ..+....+++++..+++|||++++
T Consensus 123 ~~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~lk~~~arViVl~~s 202 (362)
T cd06378 123 AAVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDMSDDDGDARTQRQLKKLESQVILLYCS 202 (362)
T ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeeccCCCcchHHHHHHHHhcCCCEEEEECC
Confidence 9999999999999999999999887777888888877776666544333332222 234778899999999999999999
Q ss_pred hhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCC
Q 002267 250 PDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSP 329 (945)
Q Consensus 250 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 329 (945)
.+.+..+|++|+++||++++|+||++++.....+.. ..+...|++++.. ++|++.
T Consensus 203 ~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~~------~~~~~~G~i~v~~------------~~w~~~------- 257 (362)
T cd06378 203 KEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDLG------PSEFPVGLISVSY------------DGWRYS------- 257 (362)
T ss_pred HHHHHHHHHHHHHcCCcCCCeEEEecccccCCCccc------cccCCcceEeecc------------cccccc-------
Confidence 999999999999999999999999999766553210 1134567776552 233321
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCCCCCccccCC-cc-ccCchHHHHHHHHhcccccceeeEE
Q 002267 330 SGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSS-LR-VFDGGQQFLQTLLRMNFTGLSGEIR 407 (945)
Q Consensus 330 ~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~l~~~l~~~~f~G~sG~v~ 407 (945)
+.+..||||+++|+|++.++++.+.++. ...+|.. .. +|..|..|+++|++++|+|+ +++
T Consensus 258 -----~~a~~~DaV~vva~Al~~l~~~~~~~~~-----------~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~ 319 (362)
T cd06378 258 -----LRARVRDGVAIIATGASAMLRQHGFIPE-----------AKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLS 319 (362)
T ss_pred -----HHHHHHHHHHHHHHHHHHHHhccCCCCC-----------CCCCcCCCCCCCCCchHHHHHHhhcceECCC--cee
Confidence 2456799999999999988765444421 1123322 23 48889999999999999997 999
Q ss_pred EccCCCCCCCcEEEEEeec-cceEEEEEecCC
Q 002267 408 FDADKNLVNPAYDVLNIGG-TGSRRIGYWSNY 438 (945)
Q Consensus 408 fd~~g~~~~~~y~i~~~~~-~~~~~Vg~w~~~ 438 (945)
||++|++.++.|+|+|++. .++++||+|+++
T Consensus 320 F~~~G~r~~~~ldIinl~~~~g~~kVG~W~~~ 351 (362)
T cd06378 320 FTEDGYLVNPKLVVISLNKERVWEEVGKWENG 351 (362)
T ss_pred ECCCCeEccceEEEEEecCCCCceEEEEEcCC
Confidence 9999999999999999996 599999999854
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=1.5e-35 Score=328.46 Aligned_cols=324 Identities=19% Similarity=0.257 Sum_probs=276.1
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCC--CCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCCh
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSI--LPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSS 125 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~i--l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s 125 (945)
+||++.|++ +..|.....|+++|+++||+.||+ ++|++|+++++|+++++..+.+.+++|+++ +|.+|+||.+|
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 80 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQS 80 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEecccch
Confidence 599999998 567889999999999999999973 469999999999999999999999999988 99999999999
Q ss_pred hHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc------CCeEEEEEEEeCCcccch
Q 002267 126 GIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY------GWREVIAIFVDDDYGRNG 199 (945)
Q Consensus 126 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~------~w~~v~ii~~d~~~g~~~ 199 (945)
..+.++++++++.++|+|+++++++.+++..+||+||+.|++..++.++++++.++ +|+++++|+.|++||+..
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 99999999999999999999888888887778999999999999999999999876 469999999999999999
Q ss_pred HHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCc
Q 002267 200 ISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLP 279 (945)
Q Consensus 200 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~ 279 (945)
.+.+++.+++.|++|+..+.++ .+..|++.++.+|++.++|+|++.+...++..+++++++.|+..+ .++...++..
T Consensus 161 ~~~~~~~~~~~G~~vv~~~~~~--~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~ 237 (347)
T cd06340 161 AEAIKKFAKERGFEIVEDISYP--ANARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEPK-AVYSVGGGAE 237 (347)
T ss_pred HHHHHHHHHHcCCEEEEeeccC--CCCcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCCc-EEEecCCCcC
Confidence 9999999999999999988888 457899999999999999999999999999999999999998653 2222222221
Q ss_pred cccCCCCCCChhHHhhhcceeEEEeecCC-CchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCC
Q 002267 280 SVLDSTEPVDIDTMNLLQGVVALRHHTPD-TDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGG 358 (945)
Q Consensus 280 ~~~~~~~~~~~~~~~~~~G~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 358 (945)
.. .. .....+..+|++...++.++ .+..++|.++|+++| +..++.++..+||+++++++|++++.+.
T Consensus 238 ~~-~~----~~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~-----~~~~~~~~~~~Y~a~~~l~~A~~~ag~~-- 305 (347)
T cd06340 238 DP-SF----VKALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARF-----GVDLSGNSARAYTAVLVIADALERAGSA-- 305 (347)
T ss_pred cH-HH----HHHhhHhhheEEeccccCCCCChHHHHHHHHHHHHh-----CCCCChHHHHHHHHHHHHHHHHHHhcCC--
Confidence 11 00 01223567899888777665 677899999999998 4458899999999999999999995211
Q ss_pred cccccCCCCCCCCCCCccccCCccccCchHHHH--HHHHhcccc---cceeeEEEccCCCCCCC
Q 002267 359 KFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFL--QTLLRMNFT---GLSGEIRFDADKNLVNP 417 (945)
Q Consensus 359 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~l~~~~f~---G~sG~v~fd~~g~~~~~ 417 (945)
+++.+. .+|++..+. ++.|.++||++|+..++
T Consensus 306 ---------------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 306 ---------------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred ---------------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 477788 488887765 56789999999986544
No 49
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=3.6e-35 Score=325.83 Aligned_cols=339 Identities=22% Similarity=0.279 Sum_probs=279.9
Q ss_pred CceEEEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccC
Q 002267 48 PSSVRIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQ 123 (945)
Q Consensus 48 ~~~i~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~ 123 (945)
.++|+||++.|+| +.+|+...+|+++|+|+||+.||++ |++|+++++|+++||..+.+.+.+|+.+ +|.+|||+.
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 3479999999998 6789999999999999999999985 7889999999999999999999999884 999999999
Q ss_pred ChhHHHHHHHhhcccCccEEecccCCCCCCCCCC-CceEEecCChhHHHHHHHHHHH-HcCCeEEEEEEEeCCcccchHH
Q 002267 124 SSGIAHVISHVVNELNVPLLSFGATDPTLTSLQY-PYFLRTTQSDYYQMHAVADLVE-YYGWREVIAIFVDDDYGRNGIS 201 (945)
Q Consensus 124 ~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~-p~~~r~~p~d~~~~~ai~~~l~-~~~w~~v~ii~~d~~~g~~~~~ 201 (945)
+|..+.++.+++++.++|+|+++++++.++...+ +++||+.|++..|+.++++++. ..+.|+|++|+.|+.||++..+
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 9999999999999999999999999998877544 5699999999999999999875 5566699999999999999999
Q ss_pred HHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccc
Q 002267 202 VLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSV 281 (945)
Q Consensus 202 ~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~ 281 (945)
.+++.+++.|++++..+.+. +...++..++.++++.++|+|++.+.+.+...++++++++|+... ..++........
T Consensus 167 ~~~~~l~~~G~~~~~~~~~~--~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~-~~~~~~~~~~~~ 243 (366)
T COG0683 167 AFKAALKALGGEVVVEEVYA--PGDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK-LIGGDGAGTAEF 243 (366)
T ss_pred HHHHHHHhCCCeEEEEEeeC--CCCCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc-cccccccCchhh
Confidence 99999999999866556665 344559999999999999999999999999999999999998763 222222111111
Q ss_pred cCCCCCCChhHHhhhcc-eeEEEe-ecC-CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCC
Q 002267 282 LDSTEPVDIDTMNLLQG-VVALRH-HTP-DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGG 358 (945)
Q Consensus 282 ~~~~~~~~~~~~~~~~G-~~~~~~-~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 358 (945)
... ......+ ++.... +.+ +.+..+.|+++|++++. ....++.++..+||++++++.|++++..
T Consensus 244 ~~~-------~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g---~~~~~~~~~~~~y~a~~~~~~ai~~a~~--- 310 (366)
T COG0683 244 EEI-------AGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYG---DPAAPSYFAAAAYDAVKLLAKAIEKAGK--- 310 (366)
T ss_pred hhh-------cccCccccEEEEecccccccCcchHHHHHHHHHHhC---CCCCcccchHHHHHHHHHHHHHHHHHhc---
Confidence 101 0112223 333333 233 35677889999999982 2356677999999999999999999742
Q ss_pred cccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcc-cccceeeEEEccCCCCCCCcEEEEEeeccc
Q 002267 359 KFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMN-FTGLSGEIRFDADKNLVNPAYDVLNIGGTG 428 (945)
Q Consensus 359 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~sG~v~fd~~g~~~~~~y~i~~~~~~~ 428 (945)
+ . +++++.++|+... +.+.+|.+.||++|++....+.|.+|+..+
T Consensus 311 ~------------------------~-d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~~ 356 (366)
T COG0683 311 S------------------------S-DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKGG 356 (366)
T ss_pred C------------------------C-CHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEecC
Confidence 1 1 3788999999987 689999999999999999999999988543
No 50
>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=8.4e-35 Score=322.43 Aligned_cols=341 Identities=13% Similarity=0.110 Sum_probs=273.9
Q ss_pred EEEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002267 51 VRIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSG 126 (945)
Q Consensus 51 i~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 126 (945)
|+||++.|+| +..|....+|+++|+++||++||++ |++|+++++|++++|..+.+.+.+|+++ +|.+||||.+|.
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 6899999999 6678899999999999999999996 8999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDA 206 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 206 (945)
.+.++.+++++.++|+|....... ....||+||+.|++..++.++++++....-+++++|+.|++||+...+.+++.
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~~~~---~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g~~~~~~~~~~ 156 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQYEG---GVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFGQLSADWVRVI 156 (374)
T ss_pred HHHHHHHHHHhcCceEEcCccccc---ccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHHHHHHHHHHHH
Confidence 999999999999999996422111 12358999999999999999999886543368999999999999999999999
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTE 286 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 286 (945)
+++.|++|+....++ .+..|+..++.+|++.+||+|++...+.+...++++++++|+..+ ++.............
T Consensus 157 ~~~~G~~vv~~~~~~--~g~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~~~~ 231 (374)
T TIGR03669 157 AKENGAEVVGEEFIP--LSVSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYEHKR 231 (374)
T ss_pred HHHcCCeEEeEEecC--CCcchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhhhhh
Confidence 999999999988888 678999999999999999999999888899999999999998653 222211111100000
Q ss_pred CCChhHHhhhcceeEEEeecC--CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccC
Q 002267 287 PVDIDTMNLLQGVVALRHHTP--DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSN 364 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 364 (945)
.......|+++...+.+ +++..++|+++|+++|. ....++.++..+||+++++++|++++.+.
T Consensus 232 ----~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g---~~p~~~~~a~~~Yda~~~l~~Ai~~AGs~-------- 296 (374)
T TIGR03669 232 ----FEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFP---DAPYINQEAENNYFSVYMYKQAVEEAGTT-------- 296 (374)
T ss_pred ----cCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcC---CCCCCChHHHHHHHHHHHHHHHHHHhCCC--------
Confidence 01134667776666655 35778999999999982 11123667889999999999999996211
Q ss_pred CCCCCCCCCCccccCCccccCchHHHHHHHHh-cccccceeeEEEccCCCCCCCcEEEEEeecc-ceEEEEEec
Q 002267 365 DPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLR-MNFTGLSGEIRFDADKNLVNPAYDVLNIGGT-GSRRIGYWS 436 (945)
Q Consensus 365 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~~-~~~~Vg~w~ 436 (945)
+++.|.++|++ .+|+|+.|+++||++++.....+.|.++..+ +...+..|.
T Consensus 297 ---------------------d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 297 ---------------------DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred ---------------------CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 58899999997 5799999999999766544445666677643 345555554
No 51
>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=5.1e-35 Score=323.81 Aligned_cols=318 Identities=16% Similarity=0.173 Sum_probs=273.8
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIA 128 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 128 (945)
+||++.|++ +..|+....|+++|+++||+.||+. |++|+++++|++++|.++.+.+.+|++++|.+||||.+|..+
T Consensus 1 ~IG~l~p~sG~~a~~G~~~~~g~~~a~~~iN~~GGi~-G~~i~l~~~D~~~~p~~a~~~a~~lv~~~v~aiiG~~~s~~~ 79 (342)
T cd06329 1 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVD-GRPIELVEEDNKGSPQEALRKAQKAIDDGVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcC-CeEEEEEeccCCCChHHHHHHHHHHHHhCCeEEEcccchHHH
Confidence 589999998 5678899999999999999999985 899999999999999999999999999999999999999999
Q ss_pred HHH-------HHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcC-CeEEEEEEEeCCcccch
Q 002267 129 HVI-------SHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYG-WREVIAIFVDDDYGRNG 199 (945)
Q Consensus 129 ~~v-------a~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~~~ 199 (945)
.++ +++++.+++|+|+++++++.+++ ..+||+||+.|++..++.++++++...+ ||+|++++.|+.||++.
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~ 159 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDV 159 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHH
Confidence 999 78888999999999888888876 4579999999999999999999998775 99999999999999999
Q ss_pred HHHHHHHHhh--cCcEEEEeecCCCCCCh-HHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 200 ISVLGDALSK--KRAKISYKAPFSPGASR-SAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 200 ~~~l~~~l~~--~g~~v~~~~~~~~~~~~-~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
.+.+++.+++ .|++|+....++ .+. +|+..++.++++.++|+|++...+.++..++++++++|+.. .|+...
T Consensus 160 ~~~~~~~~~~~~~G~~vv~~~~~~--~~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~ 234 (342)
T cd06329 160 AAAFKAMLAAKRPDIQIVGEDLHP--LGKVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKL---PFYTPY 234 (342)
T ss_pred HHHHHHHHHhhcCCcEEeceeccC--CCCCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCc---eEEecc
Confidence 9999999999 999999887777 566 89999999999999999999988889999999999999854 355444
Q ss_pred CCccccCCCCCCChhHHhhhcceeEEEeecC--CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHH
Q 002267 277 WLPSVLDSTEPVDIDTMNLLQGVVALRHHTP--DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALL 354 (945)
Q Consensus 277 ~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~ 354 (945)
+.... . .+...+..+|++....+.+ +++..++|.++|++++ +..++.++..+||+++++++|++++.
T Consensus 235 ~~~~~--~----~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~-----~~~~~~~~~~~y~~~~~~~~a~~~ag 303 (342)
T cd06329 235 LDQPG--N----PAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKY-----GRVPDYYEGQAYNGIQMLADAIEKAG 303 (342)
T ss_pred ccchh--H----HHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHh-----CCCCCchHHHHHHHHHHHHHHHHHhC
Confidence 33221 1 1122345678877766654 3577899999999998 45678889999999999999999842
Q ss_pred hcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEcc-CCCCC
Q 002267 355 NEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDA-DKNLV 415 (945)
Q Consensus 355 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~-~g~~~ 415 (945)
.. +++.+.++|++++|+|+.|+++|++ +++..
T Consensus 304 ----~~-------------------------~~~~v~~al~~~~~~~~~g~~~~~~~~~~~~ 336 (342)
T cd06329 304 ----ST-------------------------DPEAVAKALEGMEVDTPVGPVTMRASDHQAQ 336 (342)
T ss_pred ----CC-------------------------CHHHHHHHHhCCccccCCCCeEEcccCcchh
Confidence 11 4789999999999999999999985 45443
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=4.4e-34 Score=319.53 Aligned_cols=341 Identities=17% Similarity=0.213 Sum_probs=285.3
Q ss_pred CceEEEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccC
Q 002267 48 PSSVRIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQ 123 (945)
Q Consensus 48 ~~~i~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~ 123 (945)
+++|+||+++|++ +..|.....|+++|++++|+.||+. |++|+++++|+++++..+.+.+.+|+++ +|.+||||.
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 DTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGIN-GRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGL 82 (362)
T ss_pred CceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcC-CeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecC
Confidence 5789999999999 5678899999999999999999985 8999999999999999999999999985 999999999
Q ss_pred ChhHHHHHHHhhcccCccEEecccCCCCCCCC-CCCceEEecCChhHHHHHHHHHH-HHcCCeEEEEEEEeCCcccchHH
Q 002267 124 SSGIAHVISHVVNELNVPLLSFGATDPTLTSL-QYPYFLRTTQSDYYQMHAVADLV-EYYGWREVIAIFVDDDYGRNGIS 201 (945)
Q Consensus 124 ~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~-~~p~~~r~~p~d~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~ 201 (945)
+|..+.+++++++..+||+|++.++++.+++. .+||+||+.|++..++.++++++ ++++|++|++|+.|+.||+...+
T Consensus 83 ~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~~ 162 (362)
T cd06343 83 GTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYLK 162 (362)
T ss_pred CcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHHH
Confidence 99999999999999999999988887888774 78999999999999999999965 67899999999999999999999
Q ss_pred HHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccc
Q 002267 202 VLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSV 281 (945)
Q Consensus 202 ~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~ 281 (945)
.+++.+++.|++++....++ .+.+|++.++.++++.++|+|++.+...+...++++++++|+... ++.++++...
T Consensus 163 ~~~~~~~~~G~~vv~~~~~~--~~~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~ 237 (362)
T cd06343 163 GLKDGLGDAGLEIVAETSYE--VTEPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPT---FLLSSVSASV 237 (362)
T ss_pred HHHHHHHHcCCeEEEEeeec--CCCccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCce---EEEEeccccc
Confidence 99999999999999988888 567899999999999999999999999999999999999998753 5555543322
Q ss_pred cC-CCCCCChhHHhhhcceeEEEeec-------CCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHH
Q 002267 282 LD-STEPVDIDTMNLLQGVVALRHHT-------PDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDAL 353 (945)
Q Consensus 282 ~~-~~~~~~~~~~~~~~G~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~ 353 (945)
.. . .....+..+|++.+..+. .+++..++|.++|++++. ....++.++..+||++.++++|++++
T Consensus 238 ~~~~----~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~---~~~~~~~~~~~~y~a~~~~~~a~~~a 310 (362)
T cd06343 238 ASVL----KPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFP---EGDPPDTYAVYGYAAAETLVKVLKQA 310 (362)
T ss_pred HHHH----HHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcC---CCCCCchhhhHHHHHHHHHHHHHHHh
Confidence 10 1 011224578887766543 235678999999999881 11247889999999999999999985
Q ss_pred HhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhccc---cc-ceeeEEEccCCCCCCCcEEEEEeeccce
Q 002267 354 LNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNF---TG-LSGEIRFDADKNLVNPAYDVLNIGGTGS 429 (945)
Q Consensus 354 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f---~G-~sG~v~fd~~g~~~~~~y~i~~~~~~~~ 429 (945)
. +.. +++.|.++|+++++ .+ ..|++.|+++++.....+.|.++++++|
T Consensus 311 g---~~~-------------------------~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~ 362 (362)
T cd06343 311 G---DDL-------------------------TRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGRW 362 (362)
T ss_pred C---CCC-------------------------CHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCcC
Confidence 2 111 47899999999997 33 3458999876555556778888876653
No 53
>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=5.9e-34 Score=316.66 Aligned_cols=330 Identities=16% Similarity=0.167 Sum_probs=267.9
Q ss_pred EEEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002267 51 VRIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSG 126 (945)
Q Consensus 51 i~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 126 (945)
|+||++.|+| +..|.....|+++|+++||++||++ |++|+++++|++++|.++++.+.+|+++ +|.+|+||.+|.
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~-G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~ 79 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVL-GKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSA 79 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHH
Confidence 6899999998 5678889999999999999999996 8999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHH-cCCeEEEEEEEeCCcccchHHHHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEY-YGWREVIAIFVDDDYGRNGISVLGD 205 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~-~~w~~v~ii~~d~~~g~~~~~~l~~ 205 (945)
.+.++.++++..++|++.+.... .....||+||+.+++..++.++++++.. .|.+++++++.|++||++..+.+++
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 99999999999999999754321 1235699999999999999999998765 5999999999999999999999999
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCC
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDST 285 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 285 (945)
.+++.|++|+....++ .+..|++.++.+|++.++|+|++...+.....++++++++|+..+...++.+......+..
T Consensus 157 ~~~~~G~~vv~~~~~~--~~~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~- 233 (359)
T TIGR03407 157 YLKSLGGTVVGEDYTP--LGHTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIRG- 233 (359)
T ss_pred HHHHcCCEEEeeEEec--CChHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHhh-
Confidence 9999999999888887 6789999999999999999999888888888999999999997544334443321111111
Q ss_pred CCCChhHHhhhcceeEEEee--cCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCccccc
Q 002267 286 EPVDIDTMNLLQGVVALRHH--TPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFS 363 (945)
Q Consensus 286 ~~~~~~~~~~~~G~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 363 (945)
-..+..+|+++...+ ..+.+..++|.++|++++. ....++.++..+||+++++++|++++.+.
T Consensus 234 -----~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~---~~~~~~~~~~~~y~a~~~~~~A~~~ag~~------- 298 (359)
T TIGR03407 234 -----IGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYG---DDRVTNDPMEAAYLGVYLWKAAVEKAGSF------- 298 (359)
T ss_pred -----cChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcC---CCCCCCcHHHHHHHHHHHHHHHHHHhCCC-------
Confidence 011356787654333 2356778999999999871 11223456678999999999999995211
Q ss_pred CCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEcc-CCCCCCCcEEEEEee
Q 002267 364 NDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDA-DKNLVNPAYDVLNIG 425 (945)
Q Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~-~g~~~~~~y~i~~~~ 425 (945)
+++.+.++|++++|+++.|+++|++ +++ ....+.+.+++
T Consensus 299 ----------------------~~~~i~~al~~~~~~~~~G~i~f~~~~~~-~~~~~~~~~~~ 338 (359)
T TIGR03407 299 ----------------------DVDAVRDAAIGIEFDAPEGKVKVDGKNHH-LTKTVRIGEIR 338 (359)
T ss_pred ----------------------CHHHHHHHhcCCcccCCCccEEEeCCCCe-eeeeeEEEEEc
Confidence 4889999999999999999999997 444 33334444443
No 54
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=5.2e-34 Score=315.87 Aligned_cols=322 Identities=21% Similarity=0.317 Sum_probs=274.7
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||+++|++ +..|+....|+++|+|+||++||+ +|++|+++++|+++++..+.+.+++|+++ +|.+||||.+|..
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 599999999 456788999999999999999997 59999999999999999999999999988 9999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH-HHcCCeEEEEEEEeC-CcccchHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV-EYYGWREVIAIFVDD-DYGRNGISVLGD 205 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l-~~~~w~~v~ii~~d~-~~g~~~~~~l~~ 205 (945)
+..++++++..+||+|+++++.+.+++. .+|+||+.+++..++.++++++ ++++|++|++|+.++ +|+....+.+++
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~~~~~-~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~ 158 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPKVTQG-KDYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKE 158 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCCcccC-CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHH
Confidence 9999999999999999998887777654 3589999999999999999986 678999999999875 899999999999
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCC
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDST 285 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 285 (945)
.+++.|++++....++ .+..|+...++++++.++|+|++.+...+...+++++++.|+.. .|+.++.|......
T Consensus 159 ~~~~~g~~v~~~~~~~--~~~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~---~i~~~~~~~~~~~~- 232 (334)
T cd06347 159 AFKKLGGEIVAEETFN--AGDTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIKV---PILGGDGWDSPKLE- 232 (334)
T ss_pred HHHHcCCEEEEEEEec--CCCCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCCC---cEEecccccCHHHH-
Confidence 9999999999887777 45678999999999999999999999999999999999999743 57776655432100
Q ss_pred CCCChhHHhhhcceeEEEeecCC--CchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCccccc
Q 002267 286 EPVDIDTMNLLQGVVALRHHTPD--TDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFS 363 (945)
Q Consensus 286 ~~~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 363 (945)
....+..+|++...++.+. .+..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 233 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~-----~~~~~~~~~~~yda~~~~~~Al~~ag~~------- 296 (334)
T cd06347 233 ----EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKY-----GKEPDAFAALGYDAYYLLADAIERAGST------- 296 (334)
T ss_pred ----HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH-----CCCcchhHHHHHHHHHHHHHHHHHhCCC-------
Confidence 1223567888887776664 567899999999988 4567889999999999999999984210
Q ss_pred CCCCCCCCCCCccccCCccccCchHHHHHHHHhc-ccccceeeEEEccCCCCCCCcE
Q 002267 364 NDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRM-NFTGLSGEIRFDADKNLVNPAY 419 (945)
Q Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~f~G~sG~v~fd~~g~~~~~~y 419 (945)
++..+.++|++. +|+|++|+++|+++|+.....|
T Consensus 297 ----------------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~~~ 331 (334)
T cd06347 297 ----------------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVKSAV 331 (334)
T ss_pred ----------------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCCCce
Confidence 378899998865 6999999999999998654433
No 55
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=100.00 E-value=2.9e-34 Score=316.95 Aligned_cols=320 Identities=18% Similarity=0.178 Sum_probs=269.6
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||+++|++ +..|.....|+++|+++||++||+ .|++|+++++|++++|..+.+++++|+++ +|.+|+||.+|..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi-~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGI-LGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSAS 79 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHH
Confidence 599999998 456889999999999999999998 59999999999999999999999999988 9999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDAL 207 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 207 (945)
+.++++++++.++|+|++++.... ...||+||+.|++..++.++++++...+|++|++|+.|+.||+...+.+++.+
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 999999999999999987543321 23589999999999999999998866669999999999999999999999999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEP 287 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 287 (945)
++.|.+|+....++ .+..|+++++.++++.++|+|++++.+.++..+++++++.|+......++........+..
T Consensus 157 ~~~G~~vv~~~~~~--~~~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~--- 231 (333)
T cd06331 157 EELGGEVVGEEYLP--LGTSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRIPILSLTLDENELAA--- 231 (333)
T ss_pred HHcCCEEEEEEEec--CCcccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCCeeEEcccchhhhhc---
Confidence 99999999888888 5689999999999999999999999999999999999999997444334333221111111
Q ss_pred CChhHHhhhcceeEEEeecC--CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCC
Q 002267 288 VDIDTMNLLQGVVALRHHTP--DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSND 365 (945)
Q Consensus 288 ~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 365 (945)
......+|+++..++.+ +.+..++|.++|++++. ....++.++..+||+++++++|++++.+
T Consensus 232 ---~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~---~~~~~~~~~~~~yda~~~~~~A~~~ag~---------- 295 (333)
T cd06331 232 ---IGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYG---DDAVINSPAEAAYEAVYLWAAAVEKAGS---------- 295 (333)
T ss_pred ---cChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcC---CCcCCCchhHHHHHHHHHHHHHHHHcCC----------
Confidence 11235688888877655 36778999999998872 1124788899999999999999998411
Q ss_pred CCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCC
Q 002267 366 PKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLV 415 (945)
Q Consensus 366 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~ 415 (945)
.+++.|.++|++++|+|++|.+.|++++++.
T Consensus 296 -------------------~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 296 -------------------TDPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred -------------------CCHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 0488999999999999999999999877644
No 56
>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=8e-34 Score=314.51 Aligned_cols=330 Identities=18% Similarity=0.243 Sum_probs=275.3
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|++ +..|.....|+++|++++|++||+ +|++|+++++|+++++..+.+.+.+|+++ +|.+|+||.+|..
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 599999998 567899999999999999999999 59999999999999999999999999987 7999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH-HHcCCeEEEEEEEeCCcccchHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV-EYYGWREVIAIFVDDDYGRNGISVLGDA 206 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 206 (945)
+.++++++++.++|+|+++++++.+++ ..+|+||+.|++..+..++++++ ++++|++|++++.|++||+...+.+++.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~ 158 (340)
T cd06349 80 SMAASPIYQRAGLVQLSPTNSHPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWGRTSADIFVKA 158 (340)
T ss_pred HHHhHHHHHhCCCeEEecCCCCCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHhHHHHHHHHHH
Confidence 999999999999999999887777765 36999999999999999999985 7789999999999999999999999999
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTE 286 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 286 (945)
+++.|++|+....++ .+..|++.++.+++.+++|+|++.+.+.+...+++++++.|+..+ ++.+..+... ..
T Consensus 159 ~~~~g~~v~~~~~~~--~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~-~~-- 230 (340)
T cd06349 159 AEKLGGQVVAHEEYV--PGEKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDIP---VVASSSVYSP-KF-- 230 (340)
T ss_pred HHHcCCEEEEEEEeC--CCCCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc---EEccCCcCCH-HH--
Confidence 999999999887777 467899999999999999999999999999999999999998653 4443322111 00
Q ss_pred CCChhHHhhhcceeEEEeecCC--CchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccC
Q 002267 287 PVDIDTMNLLQGVVALRHHTPD--TDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSN 364 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 364 (945)
.+...+..+|++...++.|+ .+..++|.++|+++| +..++.++..+||+++++++|++++...
T Consensus 231 --~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~-----~~~p~~~~~~~y~~~~~~~~a~~~ag~~-------- 295 (340)
T cd06349 231 --IELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKY-----GAQPDAFAAQAYDAVGILAAAVRRAGTD-------- 295 (340)
T ss_pred --HHHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH-----CCCcchhhhhHHHHHHHHHHHHHHhCCC--------
Confidence 01122467898888777664 467899999999888 4557889999999999999999985211
Q ss_pred CCCCCCCCCCccccCCccccCchHHHHHH-HHhcccccceeeEEEccC-CCCCCCcEEEEEeeccc
Q 002267 365 DPKLHDTNGSMLNLSSLRVFDGGQQFLQT-LLRMNFTGLSGEIRFDAD-KNLVNPAYDVLNIGGTG 428 (945)
Q Consensus 365 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-l~~~~f~G~sG~v~fd~~-g~~~~~~y~i~~~~~~~ 428 (945)
+...+.+. +.+..+.|+.|.++|+++ |+. ...|.++.+++++
T Consensus 296 ---------------------~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~-~~~~~~~~~~~g~ 339 (340)
T cd06349 296 ---------------------RRAARDGFAKAEDVYSGVTGSTKFDPNTRRV-IKRFVPLVVRNGK 339 (340)
T ss_pred ---------------------CHHHHHHHHHhccCcccceEeEEECCCCCCc-cCceEEEEEeCCc
Confidence 12223232 245568899999999987 654 4578888776654
No 57
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=100.00 E-value=1.9e-34 Score=318.54 Aligned_cols=321 Identities=17% Similarity=0.191 Sum_probs=272.7
Q ss_pred EEEEEeccCC----ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002267 52 RIGALFTYDS----VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSG 126 (945)
Q Consensus 52 ~IG~l~~l~~----~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 126 (945)
+||+++|++. ..|.....|+++|+++|| ||+ .|++|+++++|++++|.++.+.+.+|+++ +|.+||||.+|.
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 5899999984 447889999999999999 787 48999999999999999999999999987 999999999999
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCCC-CCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTSL-QYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGD 205 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~-~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 205 (945)
.+.++++++++.++|+|+++++++.+++. .+||+||+.+++..++.++++++...+++++++++.|++||+...+.+++
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~ 157 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARK 157 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHH
Confidence 99999999999999999998888888874 47999999999999999999988777799999999999999999999999
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCC
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDST 285 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 285 (945)
.+++.|++|+....++ .+.+|++.++.+++..++|+|++.+.+.++..++++++++|+.. ...++........+.
T Consensus 158 ~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~-- 232 (334)
T cd06327 158 VVKANGGKVVGSVRHP--LGTSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK-GQKLAGLLLFLTDVH-- 232 (334)
T ss_pred HHHhcCCEEcCcccCC--CCCccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc-CCcEEEecccHHHHH--
Confidence 9999999999888887 56789999999999999999999999999999999999999863 223333221111100
Q ss_pred CCCChhHHhhhcceeEEEeecCC--CchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCccccc
Q 002267 286 EPVDIDTMNLLQGVVALRHHTPD--TDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFS 363 (945)
Q Consensus 286 ~~~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 363 (945)
....+..+|+++..++.++ .+..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 233 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~-----g~~p~~~~~~~Y~~~~~~~~A~~~ag~~------- 296 (334)
T cd06327 233 ----SLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKY-----GKMPSMVQAGAYSAVLHYLKAVEAAGTD------- 296 (334)
T ss_pred ----hhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHH-----CcCCCcHHHHHHHHHHHHHHHHHHHCCC-------
Confidence 1112457888888776543 677899999999998 4558889999999999999999996321
Q ss_pred CCCCCCCCCCCccccCCccccCchHHHHHHHHhcc-cccceeeEEEcc-CCCCCCCc
Q 002267 364 NDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMN-FTGLSGEIRFDA-DKNLVNPA 418 (945)
Q Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~sG~v~fd~-~g~~~~~~ 418 (945)
+++++.++|++++ ++++.|.++|+. +|+...+.
T Consensus 297 ----------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~~~~ 331 (334)
T cd06327 297 ----------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMVHDM 331 (334)
T ss_pred ----------------------ChHHHHHhccccceeccCCCCceeeccccchhccc
Confidence 4677999999986 588899999987 77654443
No 58
>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=2.2e-34 Score=319.29 Aligned_cols=324 Identities=17% Similarity=0.223 Sum_probs=272.0
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCC-CC--cEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCC
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSIL-PG--TTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQS 124 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il-~g--~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 124 (945)
+||++.|++ +..|.....|+++|++++|++||++ +| ++|+++++|++++|..+.+.+.+|+++ +|.+|+|+.+
T Consensus 1 ~IG~l~plsG~~a~~g~~~~~g~~lA~~~iN~~GGi~~~G~~~~iel~~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~ 80 (347)
T cd06336 1 KIGFSGPLSGPAAAWGLPGLRGVQLAAEEINAAGGIKVGGKKYKVEIVSYDDKYDPAEAAANARRLVQQDGVKFILGPIG 80 (347)
T ss_pred CcceeccCcCcccccChhhHHHHHHHHHHHHhcCCcccCCceeeEEEEEecCCCCHHHHHHHHHHHHhhcCceEEEeCCC
Confidence 589999998 5678899999999999999999986 45 489999999999999999999999987 9999999999
Q ss_pred hhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHH
Q 002267 125 SGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLG 204 (945)
Q Consensus 125 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~ 204 (945)
|..+.. ++++++.++|+|++.++++.++...+||+||+.|++..++.++++++++.+|++|++++.|++||+...+.++
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 9999999999999999888887556799999999999999999999988999999999999999999999999
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChh-hHHHHHHHHHhCCCCCCCeEEEEeCCCccccC
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPD-TGLTIFSVAKSLGMTAGSYVWIATDWLPSVLD 283 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~-~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~ 283 (945)
+.+++.|++|+....++ .+..|++.++.+|++.++|+|++.+... ++..++++++++|+..+ ..++..........
T Consensus 160 ~~l~~~G~~vv~~~~~~--~~~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~~~ 236 (347)
T cd06336 160 AAWEAAGGKVVSEEPYD--PGTTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG-FLSCTGDKYDELLV 236 (347)
T ss_pred HHHHHcCCEEeeecccC--CCCcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc-EEeccCCCchHHHH
Confidence 99999999999988888 5689999999999999999999999888 99999999999998753 22221111111010
Q ss_pred CCCCCChhHHhhhcceeEEEeecC----CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCc
Q 002267 284 STEPVDIDTMNLLQGVVALRHHTP----DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGK 359 (945)
Q Consensus 284 ~~~~~~~~~~~~~~G~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~ 359 (945)
....+.++|++...++.+ .++..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 237 ------~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~-----~~~p~~~~~~~y~~~~~~~~Al~~ag~~--- 302 (347)
T cd06336 237 ------ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRY-----GEPPNSEAAVSYDAVYILKAAMEAAGSV--- 302 (347)
T ss_pred ------HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHH-----CCCCcHHHHHHHHHHHHHHHHHHhcCCC---
Confidence 112245789888877655 4677899999999998 4458889999999999999999985211
Q ss_pred ccccCCCCCCCCCCCccccCCccccCchHHHHHHHHh--------cccccceeeEEEccCCCCCCCcE
Q 002267 360 FTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLR--------MNFTGLSGEIRFDADKNLVNPAY 419 (945)
Q Consensus 360 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~--------~~f~G~sG~v~fd~~g~~~~~~y 419 (945)
++..+.+++.. ..|.++.|.+.||++|+...+..
T Consensus 303 --------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 344 (347)
T cd06336 303 --------------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPWP 344 (347)
T ss_pred --------------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccCcc
Confidence 13344444332 56889999999999999776543
No 59
>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=1.3e-33 Score=311.40 Aligned_cols=324 Identities=15% Similarity=0.216 Sum_probs=270.3
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||+++|++ +..|.....|+++|++++| +++ .|++|+++++|++++|..+.+.+.+|+++ +|.+|+||.+|..
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 599999998 4568889999999999998 666 59999999999999999999999999977 9999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDA 206 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 206 (945)
+.++++++++.++|+|+++++.+.+.+ ..+||+||+.+++..+..+++++++..||++|++++.|++||+...+.+++.
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~ 157 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRT 157 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHH
Confidence 999999999999999998776666665 3589999999999999999999998899999999999999999999999887
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTE 286 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 286 (945)
++ .+++....++ .+.+|+..++.++++.++|+|++...+..+..++++++++|+.. ...++.+++.... +.
T Consensus 158 ~~---~~v~~~~~~~--~~~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~-~~-- 228 (333)
T cd06359 158 FK---GEVVGEVYTK--LGQLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEE-DT-- 228 (333)
T ss_pred hC---ceeeeeecCC--CCCcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCH-HH--
Confidence 74 4566665565 56789999999999999999999888888999999999999854 3345554433211 00
Q ss_pred CCChhHHhhhcceeEEEeecC--CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccC
Q 002267 287 PVDIDTMNLLQGVVALRHHTP--DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSN 364 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 364 (945)
.+...+..+|+++..++.+ +++..++|.++|++++ +..++.++..+||+++++++|++++... .
T Consensus 229 --~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~-----~~~~~~~~~~~yda~~~~~~A~~~ag~~---~---- 294 (333)
T cd06359 229 --LPAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKY-----GRLPTLYAAQAYDAAQLLDSAVRKVGGN---L---- 294 (333)
T ss_pred --HHhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHh-----CCCCcHHHHHHHHHHHHHHHHHHHhcCC---C----
Confidence 0122356788888877766 4678899999999998 4568899999999999999999985211 0
Q ss_pred CCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEE
Q 002267 365 DPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVL 422 (945)
Q Consensus 365 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~ 422 (945)
.+++.+.++|++++|+|++|.++|+++|+... .+.++
T Consensus 295 --------------------~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~~-~~~~~ 331 (333)
T cd06359 295 --------------------SDKDALRAALRAADFKSVRGAFRFGTNHFPIQ-DFYLR 331 (333)
T ss_pred --------------------CCHHHHHHHHhcCccccCccceEECCCCCcce-eEEEE
Confidence 04789999999999999999999999987543 34444
No 60
>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=8.3e-34 Score=315.37 Aligned_cols=320 Identities=22% Similarity=0.207 Sum_probs=270.0
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|++ +..|.....|+++|+++||++||+ +|++|+++++|+++++..+.+.+.+|+++ +|.+||||.+|..
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 599999998 456888999999999999999998 58999999999999999999999999997 9999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeCCcccchHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDDDYGRNGISVLG 204 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~~~g~~~~~~l~ 204 (945)
+.+++++++..+||+|++.++++.+++ ..++|+||+.|++..+..+++++++++ +|++|++++.|++||....+.++
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~ 159 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFK 159 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHH
Confidence 999999999999999999888887776 568999999999999999999999877 49999999999999999999999
Q ss_pred HHHhhcC--cEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCcccc
Q 002267 205 DALSKKR--AKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVL 282 (945)
Q Consensus 205 ~~l~~~g--~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~ 282 (945)
+.+++.| ++++....++ ...+|+..++.+|++.++|+|++.+.+.+...+++++++.|+.. +..|+.+.+....+
T Consensus 160 ~~~~~~g~~~~~v~~~~~~--~~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~ 236 (346)
T cd06330 160 AALKRLRPDVEVVSEQWPK--LGAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAPEL 236 (346)
T ss_pred HHHHHhCCCCeecccccCC--CCCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeeccchhhh
Confidence 9999984 5666554444 46789999999999999999999999999999999999999865 56788766543221
Q ss_pred CCCCCCChhHHhhhcceeEEEee--cC--CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCC
Q 002267 283 DSTEPVDIDTMNLLQGVVALRHH--TP--DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGG 358 (945)
Q Consensus 283 ~~~~~~~~~~~~~~~G~~~~~~~--~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 358 (945)
. ....+..+|++....+ .. +++..++|.++|++++ +..++.++..+||+++++++|++++.....
T Consensus 237 ~------~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~-----g~~p~~~~~~~y~a~~~l~~a~~~a~~~~~ 305 (346)
T cd06330 237 A------PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKY-----GDYPTYGAYGAYQAVMALAAAVEKAGATDG 305 (346)
T ss_pred h------hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHH-----CCCCChHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 1 1112456677654432 11 4678899999999998 466778899999999999999999643211
Q ss_pred cccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccC
Q 002267 359 KFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDAD 411 (945)
Q Consensus 359 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~ 411 (945)
. . ..+.+.++|++++|.|+.|++.|+++
T Consensus 306 ~------------------------~-~~~~v~~al~~~~~~~~~G~~~f~~~ 333 (346)
T cd06330 306 G------------------------A-PPEQIAAALEGLSFETPGGPITMRAA 333 (346)
T ss_pred C------------------------C-cHHHHHHHHcCCCccCCCCceeeecC
Confidence 0 1 12579999999999999999999984
No 61
>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=3.6e-33 Score=310.51 Aligned_cols=339 Identities=17% Similarity=0.165 Sum_probs=273.7
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|+| +..|+....|+++|+++||++||++ |++|+++++|++++|.++.+.+.+|+++ +|.+|+|+.+|..
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 6789999999999999999999995 8999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDAL 207 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 207 (945)
+.+++++++..++|++++++... . ...|++|++.+++..+..++++++...+-+++++|+.|++||++..+.+.+.+
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 99999999999999998654322 1 22378888888877778889998866556899999999999999999999999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCc-cccCCCC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLP-SVLDSTE 286 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~-~~~~~~~ 286 (945)
++.|++++....++...+..|++.++.++++.++|+|++.+.+.++..++++++++|+..+.. .+.+.... ..+.
T Consensus 157 ~~~G~~vv~~~~~~~~~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~~-~~~~~~~~~~~~~--- 232 (360)
T cd06357 157 EQRGGEVLGERYLPLGASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPARM-PIASLTTSEAEVA--- 232 (360)
T ss_pred HHcCCEEEEEEEecCCCchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccCc-eeEEeeccHHHHh---
Confidence 999999988766664445899999999999999999999999999999999999999875432 22332211 1111
Q ss_pred CCChhHHhhhcceeEEEeecC--CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccC
Q 002267 287 PVDIDTMNLLQGVVALRHHTP--DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSN 364 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 364 (945)
....+..+|+++..++.+ +++..++|.++|+++|. ....++.++..+||+++++++|++++...
T Consensus 233 ---~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g---~~~~~~~~~~~~yda~~~l~~Al~~ag~~-------- 298 (360)
T cd06357 233 ---AMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFG---EDAPVSACAEAAYFQVHLFARALQRAGSD-------- 298 (360)
T ss_pred ---hcchHhhCCcEEecccccccCChhHHHHHHHHHHHcC---CCCCCCcHHHHHHHHHHHHHHHHHHcCCC--------
Confidence 112256789888876644 46788999999999982 11135778999999999999999984211
Q ss_pred CCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEe-eccceEEEE
Q 002267 365 DPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNI-GGTGSRRIG 433 (945)
Q Consensus 365 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~-~~~~~~~Vg 433 (945)
+++.|.++|++++|+|+.|.+.||++++.......+.++ +++++..|.
T Consensus 299 ---------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 299 ---------------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred ---------------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 478899999999999999999999765433344455566 445555543
No 62
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=3.5e-33 Score=307.53 Aligned_cols=322 Identities=16% Similarity=0.179 Sum_probs=265.8
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHh-cCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVN-SDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSG 126 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN-~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 126 (945)
+||++.|++ +..|.....|+++|++++| +.+|+ +|++|+++++|++++|..+..++.+|+++ +|.+|+||.+|.
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 599999999 5678899999999999995 45676 59999999999999999999999999998 999999999999
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCCC-CCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTSL-QYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGD 205 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~-~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 205 (945)
.+.++.+++++.++|+|+++++++.++.. .++|+||+.+++..++..++.++... +++|++|+.|++||++..+.+++
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 99999999999999999988888888764 36999999998888888888877665 89999999999999999999999
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChh-hHHHHHHHHHhCCCCCCCeEEEEeCCCccccCC
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPD-TGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDS 284 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~-~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~ 284 (945)
.+++.|++|+....++ .+..|+..++.+|++++||+|++...+. +...+++++...|+... .............
T Consensus 159 ~~~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~~ 233 (333)
T cd06328 159 ALEKLGAAIVTEEYAP--TDTTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIE---ITLAGDILANLTM 233 (333)
T ss_pred HHHhCCCEEeeeeeCC--CCCcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCe---EEecccccCcccc
Confidence 9999999999988888 5788999999999999999998876555 67777888877776532 2222221111110
Q ss_pred CCCCChhHHhhhcceeEEEeec-CCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCccccc
Q 002267 285 TEPVDIDTMNLLQGVVALRHHT-PDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFS 363 (945)
Q Consensus 285 ~~~~~~~~~~~~~G~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 363 (945)
....+..+|++....+. +.++..+.|.++|+++| +..|+.+++.+||++.++++|++++. +.
T Consensus 234 -----~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~-----g~~p~~~~~~~y~a~~~l~~Ai~~ag----~~--- 296 (333)
T cd06328 234 -----YKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARF-----GSPPDLFTAGGMSAAIAVVEALEETG----DT--- 296 (333)
T ss_pred -----ccccccccceeeeecCCCCCCHHHHHHHHHHHHHh-----CCCcchhhHHHHHHHHHHHHHHHHhC----CC---
Confidence 11223456666655554 66788899999999998 56688899999999999999999852 11
Q ss_pred CCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEcc-CCCCCCCcE
Q 002267 364 NDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDA-DKNLVNPAY 419 (945)
Q Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~-~g~~~~~~y 419 (945)
+++.+.++|++.+|+++.|+++|++ +++...+.|
T Consensus 297 ----------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~ 331 (333)
T cd06328 297 ----------------------DTEALIAAMEGMSFETPKGTMTFRKEDHQALQPMY 331 (333)
T ss_pred ----------------------CHHHHHHHHhCCeeecCCCceEECcccchhhhccc
Confidence 4889999999999999999999995 455444433
No 63
>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=7.5e-33 Score=306.72 Aligned_cols=325 Identities=20% Similarity=0.294 Sum_probs=278.2
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||+++|++ +..|.....|+++|++++| +++ +|++|+++++|+++++..+.+.+.+|+++ +|.+||||.+|..
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 599999998 4456889999999999986 444 69999999999999999999999999975 9999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCC-CCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSL-QYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDA 206 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~-~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 206 (945)
+.++.+.+++.++|+|+++++++.+++. .+||+||+.+++..++..+++++.+.+|+++++++.++.||++..+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~ 157 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEA 157 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 9999999999999999998888888764 489999999999999999999998889999999999999999999999999
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTE 286 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 286 (945)
+++.|++++....++ .+.+|++.++.++++.+||+|++.+.+.++..+++++++.|+.. ...|+.++++.....
T Consensus 158 ~~~~G~~v~~~~~~~--~~~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~--- 231 (336)
T cd06360 158 FTEAGGKIVKELWVP--FGTSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTDGTT--- 231 (336)
T ss_pred HHHcCCEEEEEEecC--CCCcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccCHHH---
Confidence 999999999887777 56789999999999999999999999999999999999999854 235666554432210
Q ss_pred CCChhHHhhhcceeEEEeecC--CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccC
Q 002267 287 PVDIDTMNLLQGVVALRHHTP--DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSN 364 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 364 (945)
.+...+..+|++...++.+ +++..++|.++|++++ +..++.++..+||+++++++|++++....
T Consensus 232 --~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~-----~~~~~~~~~~~yda~~~~~~A~~~a~~~~------- 297 (336)
T cd06360 232 --LGAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAY-----PDTPSVYAVQGYDAGQALILALEAVGGDL------- 297 (336)
T ss_pred --HHhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHh-----CCCccHHHHHHHHHHHHHHHHHHHhCCCC-------
Confidence 1223356788888777655 4677899999999998 45788999999999999999999962110
Q ss_pred CCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcE
Q 002267 365 DPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAY 419 (945)
Q Consensus 365 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y 419 (945)
.+++.+.++|++++|.|+.|+++|+++|++..+.|
T Consensus 298 --------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~~ 332 (336)
T cd06360 298 --------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDNY 332 (336)
T ss_pred --------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccceE
Confidence 13778999999999999999999999998765543
No 64
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=100.00 E-value=4.2e-33 Score=309.87 Aligned_cols=331 Identities=23% Similarity=0.344 Sum_probs=277.8
Q ss_pred eEEEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEccCCh
Q 002267 50 SVRIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLME-NEVVAAIGPQSS 125 (945)
Q Consensus 50 ~i~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~-~~v~aiiGp~~s 125 (945)
+|+||++.|++ +..|.....|+++|++++|++||+. |++|+++++|+++++..+.+.+.+|++ ++|.+|+||.+|
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi~-G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s 79 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGIN-GRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSS 79 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEET-TEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcC-CccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCc
Confidence 59999999998 4567889999999999999999995 999999999999999999999999999 699999999999
Q ss_pred hHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH-HHcCCeEEEEEEEeCCcccchHHHHH
Q 002267 126 GIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV-EYYGWREVIAIFVDDDYGRNGISVLG 204 (945)
Q Consensus 126 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~ 204 (945)
..+.++++.++..++|+|++++.++ ...++|+||..|++..++.++++++ ++++.+++++|+.+++||+...+.++
T Consensus 80 ~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~ 156 (343)
T PF13458_consen 80 AQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFR 156 (343)
T ss_dssp HHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHH
Confidence 9999999999999999999654442 2557999999999999999999986 56899999999999999999999999
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCC
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDS 284 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~ 284 (945)
+.+++.|++++....++ .+..|+..++.++++.++|+|++.+.+.+...++++++++|+..+.+....+......+.
T Consensus 157 ~~~~~~G~~vv~~~~~~--~~~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~- 233 (343)
T PF13458_consen 157 KALEAAGGKVVGEIRYP--PGDTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDASLQ- 233 (343)
T ss_dssp HHHHHTTCEEEEEEEE---TTSSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHHHH-
T ss_pred HHHhhcCceeccceecc--cccccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHHHH-
Confidence 99999999998888887 567999999999999999999999999999999999999998764444443332221111
Q ss_pred CCCCChhHHhhhcceeEEEeecC--CCchhhHHHHHHHhhhcCCCCCC--CCchhHHHHHHHHHHHHHHHHHHHhcCCcc
Q 002267 285 TEPVDIDTMNLLQGVVALRHHTP--DTDLKKNFISRWKNLKYKENSPS--GFNSYALYAYDSVWLVAHALDALLNEGGKF 360 (945)
Q Consensus 285 ~~~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~~YDav~~la~Al~~~~~~~~~~ 360 (945)
.......+|+++..++.| +.+..++|.++|++.+ +. .++.++..+||++.+++.|++++. +.
T Consensus 234 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~-----~~~~~~~~~~~~~yda~~~~~~al~~~g----~~ 299 (343)
T PF13458_consen 234 -----QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAY-----GEEPPPSLYAAQGYDAARLLAQALERAG----SL 299 (343)
T ss_dssp -----HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHH-----SSTGGTCHHHHHHHHHHHHHHHHHHHHT----SH
T ss_pred -----HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHc-----CCCCCCchhHHHHHHHHHHHHHHHHHhC----CC
Confidence 111246889998888776 4678899999999998 33 488999999999999999999962 11
Q ss_pred cccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEeec
Q 002267 361 TFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIGG 426 (945)
Q Consensus 361 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~~ 426 (945)
+++.+.++|++++|+|+.|++.|++.++.....+.|++++.
T Consensus 300 -------------------------~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~ 340 (343)
T PF13458_consen 300 -------------------------DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKS 340 (343)
T ss_dssp -------------------------HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEET
T ss_pred -------------------------CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEec
Confidence 58999999999999999999999865555678888998883
No 65
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=100.00 E-value=9.1e-33 Score=304.37 Aligned_cols=316 Identities=15% Similarity=0.150 Sum_probs=261.1
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|+| +..|+....|+++|+++||+.||+. |++|+++++|++++|..+...+.+|+++ +|.+|||+.+|..
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi~-Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~ 79 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGIL-GREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSAS 79 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCC-CceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHH
Confidence 599999999 6679999999999999999999985 9999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDAL 207 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 207 (945)
+.++.+++++.++|+|+...... +...||+||+.+++..++.++++++...+-+++++|+.|++||++..+.+++.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~ 156 (334)
T cd06356 80 REAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIV 156 (334)
T ss_pred HHHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHH
Confidence 99999999999999998533322 123589999999999999999998866544889999999999999999999999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCC-CCCCeEEEEeCCCccccCCCC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGM-TAGSYVWIATDWLPSVLDSTE 286 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~-~~~~~~wi~~~~~~~~~~~~~ 286 (945)
++.|++++....++ .+..|++.++.+|++.+||+|++...+.+...+++++++.|+ .. ..+...+.........
T Consensus 157 ~~~G~~vv~~~~~~--~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~~~~ 231 (334)
T cd06356 157 EENGGEVVGEEFIP--LDVSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGLGNI---PMASSTLGAQGYEHKR 231 (334)
T ss_pred HHcCCEEEeeeecC--CCchhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCCccC---ceeeeecccchhHHhc
Confidence 99999999888888 678999999999999999999999888899999999999998 32 1222211111110000
Q ss_pred CCChhHHhhhcceeEEEeecCC--CchhhHHHHHHHhhhcCCCCCCC-CchhHHHHHHHHHHHHHHHHHHHhcCCccccc
Q 002267 287 PVDIDTMNLLQGVVALRHHTPD--TDLKKNFISRWKNLKYKENSPSG-FNSYALYAYDSVWLVAHALDALLNEGGKFTFS 363 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~-~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 363 (945)
......+|+++...+.++ .+..++|.++|++++ +..+ ++.++..+||+++++++|++++.+.
T Consensus 232 ----~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~----~~~p~~~~~~~~~y~a~~~~~~A~~~ag~~------- 296 (334)
T cd06356 232 ----LKPPALKDMYATANYIEELDTPANKAFVERFRAKF----PDAPYINEEAENNYEAIYLYKEAVEKAGTT------- 296 (334)
T ss_pred ----cCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHc----CCCCCCCchhHHHHHHHHHHHHHHHHHCCC-------
Confidence 011456788877766544 567899999999998 2222 3678999999999999999985211
Q ss_pred CCCCCCCCCCCccccCCccccCchHHHHHHHHh-cccccceeeEEEccCCC
Q 002267 364 NDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLR-MNFTGLSGEIRFDADKN 413 (945)
Q Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~G~sG~v~fd~~g~ 413 (945)
+++.|.++|++ ..|+|+.|++.|+++++
T Consensus 297 ----------------------~~~~v~~aL~~~~~~~~~~g~~~~~~~~h 325 (334)
T cd06356 297 ----------------------DRDAVIEALESGLVCDGPEGKVCIDGKTH 325 (334)
T ss_pred ----------------------CHHHHHHHHHhCCceeCCCceEEEecCCC
Confidence 47899999997 57899999999997443
No 66
>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=5e-34 Score=312.44 Aligned_cols=372 Identities=21% Similarity=0.353 Sum_probs=302.6
Q ss_pred CCCceEEEEEEeccC-----CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CcEE
Q 002267 46 SRPSSVRIGALFTYD-----SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN--EVVA 118 (945)
Q Consensus 46 ~~~~~i~IG~l~~l~-----~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~--~v~a 118 (945)
....+..+++++|+. ...|+....|+++|++++|+.+.||||++|.++..|++|++..+.++..+++-. ...+
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 344568888888886 345788999999999999999999999999999999999999999999999987 5677
Q ss_pred EEccCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCccc
Q 002267 119 AIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGR 197 (945)
Q Consensus 119 iiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~ 197 (945)
++|+ |++.+..++.-+..++.-+++|++++|.+++ +.||+|||+.|++..+.....+++++|+|++|+.++.+..--.
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 7887 9999999999999999999999999999999 6799999999999999999999999999999999999988888
Q ss_pred chHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCC
Q 002267 198 NGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDW 277 (945)
Q Consensus 198 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~ 277 (945)
...+.+...+.+.+++++.+..+. .|....+++++..++|+|+...+...+...++++++.+|.+..|+|+...|
T Consensus 196 ~~~~dl~~~~~~~~ieiv~~qsf~-----~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~g~ 270 (865)
T KOG1055|consen 196 STLNDLEARLKEAGIEIVFRQSFS-----SDPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLIGW 270 (865)
T ss_pred chHHHHHHhhhccccEEEEeeccc-----cCHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEEEe
Confidence 889999999999999999887765 345667899999999999999999999999999999999999999988765
Q ss_pred Ccccc-----CCCCCCChhHHhhhcceeEEEee--cCC------CchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHH
Q 002267 278 LPSVL-----DSTEPVDIDTMNLLQGVVALRHH--TPD------TDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVW 344 (945)
Q Consensus 278 ~~~~~-----~~~~~~~~~~~~~~~G~~~~~~~--~~~------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~ 344 (945)
....+ +...+.-++...+++|.+++... .+. .-..++|...+.++.............+.++||++|
T Consensus 271 y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~~~~~~~~~~ayd~Iw 350 (865)
T KOG1055|consen 271 YADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEETGGFQEAPLAYDAIW 350 (865)
T ss_pred eccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccccccCcccCchHHHHHH
Confidence 44322 22122235667889998887543 222 112366666665543211122445677889999999
Q ss_pred HHHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCcccc--CchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEE
Q 002267 345 LVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVF--DGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVL 422 (945)
Q Consensus 345 ~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~ 422 (945)
++|+|++++....+.-. ..+.+.... .-.++|.++|.+++|+|++|.|.|.+ |+|. ..-+|-
T Consensus 351 a~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 351 ALALALNKTMEGLGRSH--------------VRLEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTLIE 414 (865)
T ss_pred HHHHHHHHHHhcCCccc--------------eeccccchhhhHHHHHHHHHhhcccccccccceEecc-hhhH-HHHHHH
Confidence 99999999977643210 011122111 12578999999999999999999976 8875 666888
Q ss_pred EeeccceEEEEEecCCC
Q 002267 423 NIGGTGSRRIGYWSNYS 439 (945)
Q Consensus 423 ~~~~~~~~~Vg~w~~~~ 439 (945)
|++++.++++|+|+...
T Consensus 415 Q~qdg~y~k~g~Yds~~ 431 (865)
T KOG1055|consen 415 QFQDGKYKKIGYYDSTK 431 (865)
T ss_pred HHhCCceEeeccccccc
Confidence 99999999999998765
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=1.7e-33 Score=310.19 Aligned_cols=330 Identities=15% Similarity=0.152 Sum_probs=241.5
Q ss_pred CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecC------CC-ChHHHHHHHHHHHhcCc--EEEEccCChhHHHH
Q 002267 60 DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDT------NC-SGFVGTMEALQLMENEV--VAAIGPQSSGIAHV 130 (945)
Q Consensus 60 ~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~------~~-~~~~a~~~a~~li~~~v--~aiiGp~~s~~~~~ 130 (945)
+...|...+.|+++|++++|++. |.+|.+.+.++ .+ |...+.+++|+++++++ .|||||.++..+..
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 67888888887 55 55666667999999988 89999999999999
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHH-HHhh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGD-ALSK 209 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~-~l~~ 209 (945)
++.+++.++||+|+++.. ..++.++||++|+.|++..++.|+++++++|+|++|++||+++.+.......+.. ....
T Consensus 83 V~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~~ 160 (368)
T cd06383 83 IKSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTR 160 (368)
T ss_pred HHHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhc
Confidence 999999999999997443 2334579999999999999999999999999999999999776643323333333 3334
Q ss_pred cCcEEEEeecCCCCCChHHHHHHHHhhccCCc-eEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCC
Q 002267 210 KRAKISYKAPFSPGASRSAINSLLVGANLMES-RVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPV 288 (945)
Q Consensus 210 ~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~-~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~ 288 (945)
.+.++. + ....++...+++|+..+. +|||++..++.+..++++|.++||++++|+||.+++....++.
T Consensus 161 ~~~~v~-----~--~~~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl---- 229 (368)
T cd06383 161 HVITII-----N--SIIDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDD---- 229 (368)
T ss_pred CCEEEE-----e--ccchhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhh----
Confidence 444543 1 133568899999999888 4555555569999999999999999999999999986554433
Q ss_pred ChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCC
Q 002267 289 DIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKL 368 (945)
Q Consensus 289 ~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~ 368 (945)
++......++.+++...+.....+++.++|.+.-...........-++.+||||+++++|++....+.....
T Consensus 230 -~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~------- 301 (368)
T cd06383 230 -LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPTLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDG------- 301 (368)
T ss_pred -hhhccccCcEEEeeccccchhhhccceeeccCCccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCC-------
Confidence 223344568899998766555558888776432100011112344588999999999999997521111110
Q ss_pred CCCCCCccccCCc---ccc-CchHHHHHHHHhcccccceeeEEEccCCCCC
Q 002267 369 HDTNGSMLNLSSL---RVF-DGGQQFLQTLLRMNFTGLSGEIRFDADKNLV 415 (945)
Q Consensus 369 ~~~~~~~~~~~~~---~~~-~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~ 415 (945)
+.......|... .+| .+|..+.++|+.++|+|+||+|+||++|.|.
T Consensus 302 -~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~ 351 (368)
T cd06383 302 -STGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVS 351 (368)
T ss_pred -CcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceee
Confidence 000011122222 245 5666999999999999999999999999864
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=1.5e-32 Score=303.17 Aligned_cols=315 Identities=17% Similarity=0.205 Sum_probs=263.3
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|+| +..|.....|+++|+++||+.||+. |++|++.++|++++|..+++.+.+|+++ +|.+||||.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~-G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~ 79 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGIL-GREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAV 79 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcC-CcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHH
Confidence 599999998 4578899999999999999999994 8999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH-HHcCCeEEEEEEEeCCcccchHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV-EYYGWREVIAIFVDDDYGRNGISVLGDA 206 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 206 (945)
+.++.++++ .+||+|++.+.+.. ...||+||+.+++..++.++++++ +..+|++|++++.|+.||+...+.+++.
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~ 155 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRY 155 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999 99999997543321 246999999999999988777765 6679999999999999999999999999
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC-CCccc-cCC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD-WLPSV-LDS 284 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~-~~~~~-~~~ 284 (945)
+++.|++|+....++ .+..|++.++.++++.++|+|++.....+...+++++++.|+..+ |+... .+... +..
T Consensus 156 ~~~~G~~v~~~~~~~--~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~~~ 230 (333)
T cd06358 156 IAELGGEVVGEEYVP--LGTTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENMLLA 230 (333)
T ss_pred HHHcCCEEeeeeeec--CChHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHHHHh
Confidence 999999999888888 678999999999999999999999888888999999999999764 22221 11111 110
Q ss_pred CCCCChhHHhhhcceeEEEeecC--CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccc
Q 002267 285 TEPVDIDTMNLLQGVVALRHHTP--DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTF 362 (945)
Q Consensus 285 ~~~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~ 362 (945)
......+|++....+.+ ..+..++|.++|+++|. .....++.++..+||+++++++|++++. +.
T Consensus 231 ------~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--~~~~~~~~~~~~~yda~~~~~~A~~~ag----~~-- 296 (333)
T cd06358 231 ------SGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFG--DDAPPLNSLSESCYEAVHALAAAAERAG----SL-- 296 (333)
T ss_pred ------cChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcC--CCCCCCChHHHHHHHHHHHHHHHHHHhC----CC--
Confidence 11135688877766544 56789999999999982 1112467789999999999999999742 11
Q ss_pred cCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCC
Q 002267 363 SNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKN 413 (945)
Q Consensus 363 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~ 413 (945)
++..|.++|++++|+|+.|.+.|++++.
T Consensus 297 -----------------------~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 297 -----------------------DPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred -----------------------CHHHHHHHhccCeeeCCCcceEEccccc
Confidence 4789999999999999999999998854
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=1.9e-32 Score=302.52 Aligned_cols=333 Identities=14% Similarity=0.136 Sum_probs=267.7
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|+| +..|+.+..|+++|+++||+.|||. |++|+++++|++++|..+++.+.+|+++ +|.+|+ +.+|..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI~-Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~ 78 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGIN-GVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGI 78 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcC-CeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHH
Confidence 589999998 6678899999999999999999994 9999999999999999999999999988 777765 578999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcC-----CeEEEEEEEeCCcccchHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYG-----WREVIAIFVDDDYGRNGIS 201 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~-----w~~v~ii~~d~~~g~~~~~ 201 (945)
+.++++++++.+||+|+++++++.+++ ..+||+||+.|++..++.++++++...+ .++|++|+.|++||++..+
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~ 158 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIE 158 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHH
Confidence 999999999999999998877777764 5689999999999999999999986654 7999999999999999999
Q ss_pred HHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccc
Q 002267 202 VLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSV 281 (945)
Q Consensus 202 ~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~ 281 (945)
.+++.+++.|++|+....++ .+.+|++.++.++++.+||+|++.+.+.++..++++++++|+.. .|+.+.+....
T Consensus 159 ~~~~~~~~~G~~vv~~~~~~--~~~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~~~ 233 (351)
T cd06334 159 ALKALAEKLGFEVVLEPVPP--PGPNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDD---KFIGNWWSGDE 233 (351)
T ss_pred HHHHHHHHcCCeeeeeccCC--CCcccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCc---eEEEeeccCcH
Confidence 99999999999999988887 67789999999999999999999999999999999999999853 35554432211
Q ss_pred cCCCCCCChhHHhhhcceeEEEeecC--CCchhhHHHHHHHhhhcCCC-CCCCCchhHHHHHHHHHHHHHHHHHHHhcCC
Q 002267 282 LDSTEPVDIDTMNLLQGVVALRHHTP--DTDLKKNFISRWKNLKYKEN-SPSGFNSYALYAYDSVWLVAHALDALLNEGG 358 (945)
Q Consensus 282 ~~~~~~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~-~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 358 (945)
.. .+...+..+|+++..++.+ +++..++|.++|++++.... ....++.++..+||+++++++|++++.+..+
T Consensus 234 -~~----~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~~~~~~~~~~~gy~a~~~l~~Al~~ag~~~~ 308 (351)
T cd06334 234 -ED----VKPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGNDKEIGSVYYNRGVVNAMIMVEAIRRAQEKGG 308 (351)
T ss_pred -HH----HHHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 01 0122356788887777654 57889999999999882000 0023467899999999999999999977644
Q ss_pred cccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCC
Q 002267 359 KFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADK 412 (945)
Q Consensus 359 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g 412 (945)
...... +. ..+ +-+.-++.+.+....|+.|+++|....
T Consensus 309 ~~~~~~--------~~-------~~~-~~~~~~~~~~~~~~~g~~~~~~~~~~d 346 (351)
T cd06334 309 ETTIAG--------EE-------QLE-NLKLDAARLEELGAEGLGPPVSVSCDD 346 (351)
T ss_pred CCCCcH--------HH-------HHH-hhhhhhhhhhhcCcccccCCceecccc
Confidence 311000 00 000 012345566677788999999998643
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=4.6e-32 Score=300.67 Aligned_cols=321 Identities=20% Similarity=0.238 Sum_probs=261.9
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||++.|+| +..|.....|+++|++++|++||+. |++|+++++|++++|..+.+.+.+|+++ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~-G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVL-GRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPV 79 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcC-CeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHH
Confidence 599999998 5678899999999999999999984 8999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCC--CCCCceEEecCChhHHHHHHHHHH-HHcCCeEEEEEEEeCCcccchHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTS--LQYPYFLRTTQSDYYQMHAVADLV-EYYGWREVIAIFVDDDYGRNGISVLG 204 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~--~~~p~~~r~~p~d~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~ 204 (945)
+.++++++++.+||+|++.++.+.+++ ..++|+||+.+++..++.++++++ ++.+|++|+++|.|++||+...+.++
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~ 159 (347)
T cd06335 80 ALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWGRSNRKDLT 159 (347)
T ss_pred HHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchhhhHHHHHH
Confidence 999999999999999998887777765 346899999999999999999976 55679999999999999999999999
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCC
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDS 284 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~ 284 (945)
+.+++.|++++....++ .+..|+++.+.+|++.++++|++.+.+.+...+++++++.|+..+ ++...... ..+.
T Consensus 160 ~~~~~~G~~v~~~~~~~--~~~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~-~~~~ 233 (347)
T cd06335 160 AALAARGLKPVAVEWFN--WGDKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVP---IISHWGLS-GGNF 233 (347)
T ss_pred HHHHHcCCeeEEEeeec--CCCccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCc---EecccCCc-Cchh
Confidence 99999999999888887 567899999999999999999999999999999999999998542 22222111 1111
Q ss_pred CCCCChhHHhhhcceeEEEeec---CCCchhhHHHHHHHhhhcCCC-CCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcc
Q 002267 285 TEPVDIDTMNLLQGVVALRHHT---PDTDLKKNFISRWKNLKYKEN-SPSGFNSYALYAYDSVWLVAHALDALLNEGGKF 360 (945)
Q Consensus 285 ~~~~~~~~~~~~~G~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~-~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~ 360 (945)
. ....+...|++....+. ++++..++|.++|++++.... ....++.++..+||+++++++|++++...
T Consensus 234 ~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aYd~~~~l~~A~~~ag~~---- 305 (347)
T cd06335 234 I----EGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPADIPAPVGAAHAYDAVHLLAAAIKQAGST---- 305 (347)
T ss_pred h----hccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCcccccCcchhHHHHHHHHHHHHHHHHHhcCC----
Confidence 0 11224567877665443 246788999999999982100 00135667788999999999999985211
Q ss_pred cccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcc--cccceee--EEEccCC
Q 002267 361 TFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMN--FTGLSGE--IRFDADK 412 (945)
Q Consensus 361 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~--f~G~sG~--v~fd~~g 412 (945)
.++.+.++|+++. +.|+.|. +.|++..
T Consensus 306 -------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~ 336 (347)
T cd06335 306 -------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSKED 336 (347)
T ss_pred -------------------------CHHHHHHHHHhccCCceeeecccCCCCChhh
Confidence 2468999998764 6777774 4566543
No 71
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=100.00 E-value=1.2e-31 Score=280.88 Aligned_cols=316 Identities=16% Similarity=0.193 Sum_probs=230.3
Q ss_pred EEEEEEeccCC---ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEccCChh
Q 002267 51 VRIGALFTYDS---VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLME-NEVVAAIGPQSSG 126 (945)
Q Consensus 51 i~IG~l~~l~~---~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~-~~v~aiiGp~~s~ 126 (945)
|+||++++++. ..++....|+.||++|||++||++ |++|+.+++|.++|+....+.|.+|+. ++|.+|+|.++|.
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 68999999984 446688999999999999999997 899999999999999999999999986 5999999999999
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHH-HHHcCCeEEEEEEEeCCcccchHHHHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADL-VEYYGWREVIAIFVDDDYGRNGISVLGD 205 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~-l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 205 (945)
.-++|.++.++++-.+..+..-. .+ ...|++|-+.....+|...++++ ++++|.+++.+|.+|+.|++..-..+++
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 99999999999999998642211 11 34589999998888888888885 5889999999999999999999999999
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCC
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDST 285 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 285 (945)
.+++.|++|+.+..+| .+.+|+..++.+|++.+||+|+-...++....|+++.++.|+..+....+........+...
T Consensus 157 ~l~~~GgevvgE~Y~p--lg~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~~~Pi~S~~~~E~E~~~~ 234 (363)
T PF13433_consen 157 LLEARGGEVVGERYLP--LGATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPERIPIASLSTSEAELAAM 234 (363)
T ss_dssp HHHHTT-EEEEEEEE---S-HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS---EEESS--HHHHTTS
T ss_pred HHHHcCCEEEEEEEec--CCchhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcccCeEEEEecCHHHHhhc
Confidence 9999999999999999 78899999999999999999999999999999999999999886543333322211111111
Q ss_pred CCCChhHHhhhcceeEEEeecC--CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCccccc
Q 002267 286 EPVDIDTMNLLQGVVALRHHTP--DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFS 363 (945)
Q Consensus 286 ~~~~~~~~~~~~G~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 363 (945)
..+...|.++..+|.. +++.+++|+++|+++|. .+..++...-.+|.+|+++|+|++++.+.
T Consensus 235 ------g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g---~~~v~s~~~eaaY~~v~l~a~Av~~ags~------- 298 (363)
T PF13433_consen 235 ------GAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYG---DDRVTSDPMEAAYFQVHLWAQAVEKAGSD------- 298 (363)
T ss_dssp -------HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS----TT----HHHHHHHHHHHHHHHHHHHHTS--------
T ss_pred ------ChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhC---CCCCCCcHHHHHHHHHHHHHHHHHHhCCC-------
Confidence 1257889999988765 57899999999999982 23346777778999999999999996321
Q ss_pred CCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEcc
Q 002267 364 NDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDA 410 (945)
Q Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~ 410 (945)
+.+++.++|.+++|+++.|.+++|+
T Consensus 299 ----------------------d~~~vr~al~g~~~~aP~G~v~id~ 323 (363)
T PF13433_consen 299 ----------------------DPEAVREALAGQSFDAPQGRVRIDP 323 (363)
T ss_dssp -----------------------HHHHHHHHTT--EEETTEEEEE-T
T ss_pred ----------------------CHHHHHHHhcCCeecCCCcceEEcC
Confidence 5899999999999999999999997
No 72
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=100.00 E-value=2.5e-31 Score=294.34 Aligned_cols=320 Identities=18% Similarity=0.258 Sum_probs=268.5
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||+++|++ +..|.....|+++|++++| +++ .|+++++.++|+++++..+.+.+.+|+++ +|.+||||.+|..
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 599999999 4467789999999999997 555 59999999999999999999999999987 9999999999988
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCC-CCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSL-QYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDA 206 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~-~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 206 (945)
+.++.+.+++.++|+|+++++.+.+++. .+|++||+.|++..++..+++++...+|+++++++.++.||++..+.+.+.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~ 157 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRT 157 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHh
Confidence 8899999999999999998887777764 379999999999999999999999999999999999999999999999998
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTE 286 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 286 (945)
++ ..+.....++ .+..|+..+++++++.++|+|++...+..+..++++++++|+.. ...++.++.+.... .
T Consensus 158 ~~---~~~~~~~~~~--~~~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~-~-- 228 (333)
T cd06332 158 FK---GEVVEEVYTP--LGQLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQD-T-- 228 (333)
T ss_pred hc---EEEeeEEecC--CCCcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCHH-H--
Confidence 87 4566565665 45678999999999999999999888889999999999999854 34566655433220 0
Q ss_pred CCChhHHhhhcceeEEEeecCC--CchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccC
Q 002267 287 PVDIDTMNLLQGVVALRHHTPD--TDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSN 364 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 364 (945)
.+...+..+|+++..++.++ ++..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 229 --~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~-----~~~~~~~~~~~yda~~~~~~a~~~ag~~-------- 293 (333)
T cd06332 229 --LPAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAY-----GRVPSVYAAQGYDAAQLLDAALRAVGGD-------- 293 (333)
T ss_pred --HHhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHh-----CCCCcHHHHHHHHHHHHHHHHHHHhcCC--------
Confidence 01223567888888777664 567899999999998 4557889999999999999999995211
Q ss_pred CCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCC
Q 002267 365 DPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNP 417 (945)
Q Consensus 365 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~ 417 (945)
..++..+.++|++++|+|+.|.+.|+++|+...+
T Consensus 294 -------------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~~ 327 (333)
T cd06332 294 -------------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPIQD 327 (333)
T ss_pred -------------------CCCHHHHHHHHhcCceecCccceeECCCCCcccc
Confidence 0136789999999999999999999999986544
No 73
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=100.00 E-value=4.9e-31 Score=291.40 Aligned_cols=317 Identities=25% Similarity=0.333 Sum_probs=255.0
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHH-hcCcEEEEccCChhHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTN-CSGFVGTMEALQLM-ENEVVAAIGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~-~~~~~a~~~a~~li-~~~v~aiiGp~~s~~~~ 129 (945)
+||++++.+. .....|+++|++++|..++++++.++.+.+.+.+ +++..+.+.+|+++ +++|.+|+||.+|..+.
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 4888988765 5788999999999999999877777776666554 79999999999999 67999999999999999
Q ss_pred HHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHh
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALS 208 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 208 (945)
+++++++.++||+|+++++++.+++ ..+|++||+.|++..++.++++++++++|++|++||+++++.... +.+.+...
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 568999999999999999999999999999999999988854433 33333333
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccCCc-eEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCC
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLMES-RVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEP 287 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~-~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 287 (945)
..+..+... .+. .+.++++..+++++..++ ++|+.++..+.+..++++|+++||++++|+||.++......+.
T Consensus 157 ~~~~~v~~~-~~~--~~~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~--- 230 (328)
T cd06351 157 IKGIQVTVR-RLD--LDDDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDIDL--- 230 (328)
T ss_pred ccCceEEEE-Eec--CCchhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCccccch---
Confidence 334455544 344 233489999999999998 6666666659999999999999999999999999876554432
Q ss_pred CChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCC
Q 002267 288 VDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPK 367 (945)
Q Consensus 288 ~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 367 (945)
........|+++++...+..+..++|..+|.... .......+...++.+||+++++
T Consensus 231 --~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~d~~~~~--------------------- 286 (328)
T cd06351 231 --EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEES-PGVNLRAPIYDAALLYDAVLLL--------------------- 286 (328)
T ss_pred --hhhccCCcceEEEEEeCCCchHHHHHHHhhhhcc-CCCCcCccchhhHhhhcEEEEE---------------------
Confidence 2344667899999999999999999999994433 1112223344455556554211
Q ss_pred CCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEee-ccceEEEEEecC
Q 002267 368 LHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIG-GTGSRRIGYWSN 437 (945)
Q Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~-~~~~~~Vg~w~~ 437 (945)
+|++.||++|+|.+..++|+++. +.++++||.|++
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 74
>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=7.2e-31 Score=291.88 Aligned_cols=328 Identities=12% Similarity=0.100 Sum_probs=261.0
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCC--cEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCCh
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPG--TTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSS 125 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g--~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s 125 (945)
+||++.|+| +..|.....++++|+++||..+++ .| ++|+++++|++++|.++.+.+.+|+++ +|.+|||+.+|
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i-~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s 79 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVV-GGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTP 79 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeE-CCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCc
Confidence 599999998 567888999999999999965544 45 589999999999999999999999987 99999999999
Q ss_pred hHHHHHHHhhcccCccEEecccCCCCC-------CCCCCCceEEecCChhHHHHHHHHHHHHcC-CeEEEEEEEeCCccc
Q 002267 126 GIAHVISHVVNELNVPLLSFGATDPTL-------TSLQYPYFLRTTQSDYYQMHAVADLVEYYG-WREVIAIFVDDDYGR 197 (945)
Q Consensus 126 ~~~~~va~~~~~~~iP~Is~~a~~~~l-------s~~~~p~~~r~~p~d~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~ 197 (945)
..+.++++++++.+||+|++.+..+.+ ....++|+||..+++..+..+++.+++..+ +++|++++.|++||+
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 113478999999999888889998888877 999999999999999
Q ss_pred chHHHHH---HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 198 NGISVLG---DALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 198 ~~~~~l~---~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
...+.+. +.+++.|++|+..+.++ .+.+|++.++.+|++++||+|++.+.+.++..++++++++|+..+ ++.
T Consensus 160 ~~~~~~~~~~~~~~~~G~~vv~~~~~~--~~~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~ 234 (357)
T cd06337 160 AFADPVIGLPAALADAGYKLVDPGRFE--PGTDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPK---IVT 234 (357)
T ss_pred HHHHhhhcccHHHHhCCcEEecccccC--CCCCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCC---eEE
Confidence 8776654 57778999999988888 678899999999999999999999999999999999999998653 333
Q ss_pred eC-CC--ccccCCCCCCChhHHhhhcceeEEEeecCCC--------chhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHH
Q 002267 275 TD-WL--PSVLDSTEPVDIDTMNLLQGVVALRHHTPDT--------DLKKNFISRWKNLKYKENSPSGFNSYALYAYDSV 343 (945)
Q Consensus 275 ~~-~~--~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~--------~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav 343 (945)
.. .. ..... ...+..+|++....+.|.. +..++|.++|++++ +..+.....++||++
T Consensus 235 ~~~~~~~~~~~~-------~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~-----g~~~~~~~~~~~~~~ 302 (357)
T cd06337 235 IAKALLFPEDVE-------ALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAAT-----GRQWTQPLGYAHALF 302 (357)
T ss_pred EeccccCHHHHH-------HhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHh-----CCCccCcchHHHHHH
Confidence 22 21 11111 1123346766554444432 34789999999998 445566677899999
Q ss_pred HHHHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEE
Q 002267 344 WLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLN 423 (945)
Q Consensus 344 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~ 423 (945)
+++++|++++... .+++.|.++|++++++++.|++.|+++ . .....|+.
T Consensus 303 ~~l~~Ai~~Ags~----------------------------~d~~~v~~aL~~~~~~~~~G~~~f~~~--~-~~~~~~~~ 351 (357)
T cd06337 303 EVGVKALVRADDP----------------------------DDPAAVADAIATLKLDTVVGPVDFGNS--P-IKNVAKTP 351 (357)
T ss_pred HHHHHHHHHcCCC----------------------------CCHHHHHHHHHcCCcccceeeeecCCC--C-Cccccccc
Confidence 9999999985211 147799999999999999999999865 2 23456666
Q ss_pred eeccc
Q 002267 424 IGGTG 428 (945)
Q Consensus 424 ~~~~~ 428 (945)
+.++.
T Consensus 352 ~~~~~ 356 (357)
T cd06337 352 LVGGQ 356 (357)
T ss_pred cccCC
Confidence 66544
No 75
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=99.98 E-value=2e-29 Score=271.23 Aligned_cols=337 Identities=16% Similarity=0.168 Sum_probs=244.1
Q ss_pred CceEEEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHH-HhcCcEEEEcc-CC
Q 002267 48 PSSVRIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTN-CSGFVGTMEALQL-MENEVVAAIGP-QS 124 (945)
Q Consensus 48 ~~~i~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~-~~~~~a~~~a~~l-i~~~v~aiiGp-~~ 124 (945)
+..|+||++|+.. .....|+++|++.+|.+..++++.+|+.++..-. .|+..+...+|++ +.+||.||+|| .+
T Consensus 16 ~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg~p~s 91 (382)
T cd06377 16 GHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLAFPQT 91 (382)
T ss_pred CCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEecCCC
Confidence 3469999999965 3579999999999999988888899998887654 5999999999999 59999999994 87
Q ss_pred hhHHHHHHHhhcccCccEEecccCCCCC-CCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHH
Q 002267 125 SGIAHVISHVVNELNVPLLSFGATDPTL-TSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVL 203 (945)
Q Consensus 125 s~~~~~va~~~~~~~iP~Is~~a~~~~l-s~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 203 (945)
+..+..+..+|+.++||+|+++..++.. ++..+.+..++.|+...++.|+++++++|+|++|++||+.+.....+.+.+
T Consensus 92 ~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl~~lq~l~ 171 (382)
T cd06377 92 RPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDPTGLLLLW 171 (382)
T ss_pred HHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCHHHHHHHH
Confidence 7888999999999999999986654332 222222334669999999999999999999999999998877444322222
Q ss_pred HHHHhhcCc-EEEEeecCCCC-CChHHH-HHHHHhhccCC-ceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCc
Q 002267 204 GDALSKKRA-KISYKAPFSPG-ASRSAI-NSLLVGANLME-SRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLP 279 (945)
Q Consensus 204 ~~~l~~~g~-~v~~~~~~~~~-~~~~d~-~~~l~~l~~~~-~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~ 279 (945)
+.....++ .+......+.. .+..+. +..|++|++.+ .++|++.|+.+.+..+++++.+ +|+||.++.
T Consensus 172 -~~~~~~~~~~~i~v~~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~------~y~wIv~~~-- 242 (382)
T cd06377 172 -TNHARFHLGSVLNLSRNDPSTADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP------GPHWILGDP-- 242 (382)
T ss_pred -HHhcccccCceEEEEeccCccCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc------ceEEEEcCC--
Confidence 22222221 12222222211 134455 99999999999 9999999999999999977654 599999872
Q ss_pred cccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHh--cC
Q 002267 280 SVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLN--EG 357 (945)
Q Consensus 280 ~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~--~~ 357 (945)
++.... ......-|+++ |.+. . .....++.||||+++|+|++.+.. ..
T Consensus 243 --~~le~~---~~~g~nigLl~-----------------~~~~------~--~~~l~ali~DAV~lvA~a~~~l~~~~~~ 292 (382)
T cd06377 243 --LPPEAL---RTEGLPPGLLA-----------------HGET------T--QPPLEAYVQDALELVARAVGSATLVQPE 292 (382)
T ss_pred --cChhhc---cCCCCCceEEE-----------------Eeec------c--cccHHHHHHHHHHHHHHHHHHhhhcccc
Confidence 121110 00012223331 2111 1 112378899999999999998631 11
Q ss_pred CcccccCCCCCCCCCCCccccCCc--c-ccCchHHHHHHHHhcccccceeeEEEccCCCC--CCCcEEEEEee--ccc--
Q 002267 358 GKFTFSNDPKLHDTNGSMLNLSSL--R-VFDGGQQFLQTLLRMNFTGLSGEIRFDADKNL--VNPAYDVLNIG--GTG-- 428 (945)
Q Consensus 358 ~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~--~~~~y~i~~~~--~~~-- 428 (945)
..+ .....+|.+. + +|++|..|.++|++++|+|.||+|.| ++|.| .+..++|++++ ..|
T Consensus 293 ~~l-----------~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F-~~g~R~~~~~~l~I~~L~~~~~G~~ 360 (382)
T cd06377 293 LAL-----------IPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWV-TGSSQVHSSRHFKVWSLRRDPVGQP 360 (382)
T ss_pred ccc-----------CCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEE-ccCeeecccceEEEEEeccccCCCc
Confidence 111 1122355544 5 89999999999999999999999999 45777 78899999998 444
Q ss_pred -eEEEEEecCCC
Q 002267 429 -SRRIGYWSNYS 439 (945)
Q Consensus 429 -~~~Vg~w~~~~ 439 (945)
|++||+|++..
T Consensus 361 ~W~kVG~W~~~~ 372 (382)
T cd06377 361 TWTTVGSWQGGR 372 (382)
T ss_pred cceEEEEecCCC
Confidence 59999999853
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=9e-29 Score=274.04 Aligned_cols=318 Identities=14% Similarity=0.161 Sum_probs=259.4
Q ss_pred EEEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002267 51 VRIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSG 126 (945)
Q Consensus 51 i~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 126 (945)
|+||++.|+| +..|+...+|+++|+++||+.||+ .|++|++...|+++++..+.+.+.+|+++ +|.+|||+.+|.
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 6899999999 456788999999999999999998 59999999999999999999999999996 999999998888
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDA 206 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 206 (945)
.+.++.++++..++|+|+++++++.++....|++||+.+++..++..+++++.+.||+++++++.++.+|+...+.+++.
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~ 159 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKA 159 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHH
Confidence 88888899999999999987666655544468999999999999999999999999999999999999999999999999
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTE 286 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 286 (945)
+++.|+++.....++ .+..|+..++.++++.++|+|++......+..++++++++|+..+ ++...+..... .
T Consensus 160 ~~~~G~~~~~~~~~~--~~~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~---~~~~~~~~~~~-~-- 231 (336)
T cd06326 160 LAARGLKPVATASYE--RNTADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQ---FYNLSFVGADA-L-- 231 (336)
T ss_pred HHHcCCCeEEEEeec--CCcccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCc---EEEEeccCHHH-H--
Confidence 999999988776776 456789999999998899999999988889999999999998642 22222221110 0
Q ss_pred CCChhHHhhhcceeEEEee----cCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccc
Q 002267 287 PVDIDTMNLLQGVVALRHH----TPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTF 362 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~----~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~ 362 (945)
........+|++....+ ..+.+..++|.++|++++ +..+++.++..+||+++++++|++++. ++.
T Consensus 232 --~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~----~~~~~~~~~~~~y~~~~~~~~a~~~~g---~~~-- 300 (336)
T cd06326 232 --ARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYG----PGAPPSYVSLEGYIAAKVLVEALRRAG---PDP-- 300 (336)
T ss_pred --HHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhC----CCCCCCeeeehhHHHHHHHHHHHHHcC---CCC--
Confidence 01223456787654221 223567899999999887 234677888999999999999999842 111
Q ss_pred cCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccc-cceeeEEEccC
Q 002267 363 SNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFT-GLSGEIRFDAD 411 (945)
Q Consensus 363 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~-G~sG~v~fd~~ 411 (945)
+++.|.++|++++.. +..|.++|++.
T Consensus 301 -----------------------~~~~v~~al~~~~~~~~~g~~~~~~~~ 327 (336)
T cd06326 301 -----------------------TRESLLAALEAMGKFDLGGFRLDFSPG 327 (336)
T ss_pred -----------------------CHHHHHHHHHhcCCCCCCCeEEecCcc
Confidence 478999999998864 44448999753
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=2.2e-29 Score=277.00 Aligned_cols=302 Identities=18% Similarity=0.175 Sum_probs=245.8
Q ss_pred EEEEEeccCC---ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHH
Q 002267 52 RIGALFTYDS---VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIA 128 (945)
Q Consensus 52 ~IG~l~~l~~---~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 128 (945)
+||++.|++. ..|.....|+++|++++| |++++++++|+++ +..+...+.+|++++|.+||||.+|..+
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in-------G~~i~l~~~D~~~-~~~a~~~~~~li~~~V~~iiG~~~s~~~ 72 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN-------GASIELRVYDTAG-AAGAAAAARQAVAEGADIIVGPLLKENV 72 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc-------CCCceEEEEeCCC-cccHHHHHHHHHHcCCCEEEccCCHHHH
Confidence 5999999984 578889999999999999 6889999999999 9999999999998899999999999999
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHh
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALS 208 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 208 (945)
.++++++++.+||+|+++++.+ +.. .|++||+.+++..++.++++++...|+++|++++.+++||++..+.+.+.++
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 9999999999999999765443 322 5899999999999999999998878999999999999999999999999999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccC---------------------CceEEEEEcChh-hHHHHHHHHHhCCCC
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLM---------------------ESRVFVVHVNPD-TGLTIFSVAKSLGMT 266 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---------------------~~~vivl~~~~~-~~~~~~~~a~~~g~~ 266 (945)
+.|++|+....++ .+..|++.++.+|++. ++|+|++.+.+. ++..+.++++..+..
T Consensus 150 ~~G~~vv~~~~~~--~~~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~ 227 (336)
T cd06339 150 QLGGTVVAIESYD--PSPTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLFYYGV 227 (336)
T ss_pred HcCCceeeeEecC--CCHHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhhhccC
Confidence 9999999988888 6889999999999988 999999988886 777777777765531
Q ss_pred CCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCC-chhHHHHHHHHHH
Q 002267 267 AGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGF-NSYALYAYDSVWL 345 (945)
Q Consensus 267 ~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~-~~~~~~~YDav~~ 345 (945)
..+..+++++.+....-. +...+..+|++...+.. ....+|.++|+++| +..| +.++..+|||+.+
T Consensus 228 ~~~~~~~g~~~~~~~~~~-----~~~g~~~~g~~~~~~~~---~~~~~f~~~y~~~~-----~~~p~~~~~a~~YDa~~l 294 (336)
T cd06339 228 PGDVPLYGTSRWYSGTPA-----PLRDPDLNGAWFADPPW---LLDANFELRYRAAY-----GWPPLSRLAALGYDAYAL 294 (336)
T ss_pred cCCCCEEEeccccCCCCC-----cccCcccCCcEEeCCCc---ccCcchhhhHHHHh-----cCCCCchHHHHHHhHHHH
Confidence 123357777765543111 11124567877655422 22348999999998 5567 8999999999999
Q ss_pred HHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHHHH-hcccccceeeEEEccCCCC
Q 002267 346 VAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLL-RMNFTGLSGEIRFDADKNL 414 (945)
Q Consensus 346 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~-~~~f~G~sG~v~fd~~g~~ 414 (945)
++.++++. +. +. +|. ...|+|++|.++|+++|+.
T Consensus 295 ~~~~~~~~----~~--------------------------~~-----al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 295 AAALAQLG----QG--------------------------DA-----ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred HHHHHHcc----cc--------------------------cc-----ccCCCCccccCcceEEECCCCeE
Confidence 98877762 10 01 233 2359999999999999874
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=99.97 E-value=4e-29 Score=272.79 Aligned_cols=292 Identities=17% Similarity=0.123 Sum_probs=230.9
Q ss_pred ccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHHHHhhcccCccEE
Q 002267 64 GRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVISHVVNELNVPLL 143 (945)
Q Consensus 64 g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~va~~~~~~~iP~I 143 (945)
+....+|++||+|+||+.||++ |++|+++..|. ++|..+++.+.+|++++|.+|+|+.+|+.+.++.+++++.++|+|
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 4678999999999999999997 89999999985 789999999999998899999999999999999999999999999
Q ss_pred ecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCC
Q 002267 144 SFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSP 222 (945)
Q Consensus 144 s~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~ 222 (945)
+++++++.++. ..+||+||+.|++..++.++++++...+.|++++|+.|++||+...+.+++.+++.|++|+..+.++.
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 99999999987 46899999999999999999999877799999999999999999999999999999999999888874
Q ss_pred CCC--hHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhccee
Q 002267 223 GAS--RSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVV 300 (945)
Q Consensus 223 ~~~--~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~ 300 (945)
..+ ..|++......+.+++|+|++.....+....+.... +. .... ....|+.
T Consensus 168 ~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~--~~---~~~~---------------------~g~~G~~ 221 (347)
T TIGR03863 168 SGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT--WL---PRPV---------------------AGSAGLV 221 (347)
T ss_pred CCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--cc---cccc---------------------ccccCcc
Confidence 311 235543233334589999999765543322111000 00 0000 1112332
Q ss_pred EEEe-ecCCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCCCCCccccC
Q 002267 301 ALRH-HTPDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLS 379 (945)
Q Consensus 301 ~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 379 (945)
.... +..+.+..++|.++|+++| +..|+.++..+||+|++++.|++++.+.
T Consensus 222 ~~~~~~~~~~~~~~~f~~~f~~~~-----g~~p~~~~a~aY~av~~~a~Ai~~AGs~----------------------- 273 (347)
T TIGR03863 222 PTAWHRAWERWGATQLQSRFEKLA-----GRPMTELDYAAWLAVRAVGEAVTRTRSA----------------------- 273 (347)
T ss_pred ccccCCcccchhHHHHHHHHHHHh-----CCCCChHHHHHHHHHHHHHHHHHHhcCC-----------------------
Confidence 2111 1223466799999999998 5667888999999999999999996321
Q ss_pred CccccCchHHHHHHHHhccc--cccee-eEEEcc-CCCCCCC
Q 002267 380 SLRVFDGGQQFLQTLLRMNF--TGLSG-EIRFDA-DKNLVNP 417 (945)
Q Consensus 380 ~~~~~~~~~~l~~~l~~~~f--~G~sG-~v~fd~-~g~~~~~ 417 (945)
++++|.++|++.++ .+..| +++|++ ||+...+
T Consensus 274 ------d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~~~ 309 (347)
T TIGR03863 274 ------DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLRQP 309 (347)
T ss_pred ------CHHHHHHHHcCCCceecccCCCcceeeCCCcccccc
Confidence 58999999999877 57887 699986 7776544
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=4.6e-27 Score=260.66 Aligned_cols=309 Identities=15% Similarity=0.142 Sum_probs=251.0
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||+++|++ +..|.....|+++|++++|+.||+ .|+++++++.|+++++..+.+.+.+|+++ +|.+|||+.++..
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 599999998 567889999999999999999998 58999999999999999999999999998 9999999998887
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC-cccchHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD-YGRNGISVLGDA 206 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~ 206 (945)
...+ +.+++.++|+|+++++++.++. .|++|++.+++..++.++++++...+.+++++++.++. ||+...+.+++.
T Consensus 80 ~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~ 156 (341)
T cd06341 80 GSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARS 156 (341)
T ss_pred hhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHH
Confidence 7766 8899999999998777666553 57889999999999999999998888999999987665 999999999999
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTE 286 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 286 (945)
+++.|+++.....++ .+..|+..++.++++.++|+|++......+..++++++++|+..+.. +........ .
T Consensus 157 ~~~~G~~v~~~~~~~--~~~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~~--~~~~~~~~~--~-- 228 (341)
T cd06341 157 LAAAGVSVAGIVVIT--ATAPDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPKVV--LSGTCYDPA--L-- 228 (341)
T ss_pred HHHcCCccccccccC--CCCCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCCEE--EecCCCCHH--H--
Confidence 999999998776666 45678999999999999999999999889999999999999876422 111111111 0
Q ss_pred CCChhHHhhhcceeEEEeecC---CCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCccccc
Q 002267 287 PVDIDTMNLLQGVVALRHHTP---DTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGKFTFS 363 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 363 (945)
.+...+..+|++...++.| +.+..+.|.+.+++... ..+..++.++..+||+++++++|++++.. .
T Consensus 229 --~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~--~~~~~~~~~~~~~yda~~~~~~a~~~ag~---~---- 297 (341)
T cd06341 229 --LAAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAP--QLDPPEQGFALIGYIAADLFLRGLSGAGG---C---- 297 (341)
T ss_pred --HHhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCC--CCCCCcchHHHHHHHHHHHHHHHHHhcCC---C----
Confidence 0122356789888877766 35777888876664431 11346888999999999999999999521 1
Q ss_pred CCCCCCCCCCCccccCCccccCchHH-HHHHHHhccccccee
Q 002267 364 NDPKLHDTNGSMLNLSSLRVFDGGQQ-FLQTLLRMNFTGLSG 404 (945)
Q Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~l~~~~f~G~sG 404 (945)
.+++. +.++|++++.....|
T Consensus 298 ---------------------~~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 298 ---------------------PTRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred ---------------------CChHHHHHHHhhcCCCCCCCC
Confidence 03666 999999998654444
No 80
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=99.95 E-value=6.8e-27 Score=254.39 Aligned_cols=223 Identities=36% Similarity=0.568 Sum_probs=205.5
Q ss_pred EEEEEeccCC-----ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-----CcEEEEc
Q 002267 52 RIGALFTYDS-----VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-----EVVAAIG 121 (945)
Q Consensus 52 ~IG~l~~l~~-----~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-----~v~aiiG 121 (945)
+||++++.+. ..+.....++..|++++|+. ++|+++++.++|++|++..+...+.+++++ ++.+|+|
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~---~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG 77 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINND---LPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIG 77 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhcc---CCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEEC
Confidence 4899999874 34556788899999999988 579999999999999999999999999974 8999999
Q ss_pred cCChhHHHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchH
Q 002267 122 PQSSGIAHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGI 200 (945)
Q Consensus 122 p~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~ 200 (945)
|.++..+.+++++++.+++|+|+++++++.+++ ..+|+++|+.|++..++.++++++++++|++|+++|+++++|....
T Consensus 78 ~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~~~~~ 157 (298)
T cd06269 78 PSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYGRRLL 157 (298)
T ss_pred CCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhhHHHH
Confidence 999999999999999999999999999998887 5789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCcc
Q 002267 201 SVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPS 280 (945)
Q Consensus 201 ~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~ 280 (945)
+.+++.+++.|+++.....++ ....++...+++++..+++|||+++.++++..++++++++||+ .+++||.++.+..
T Consensus 158 ~~~~~~~~~~~~~v~~~~~~~--~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~~~~~~~ 234 (298)
T cd06269 158 ELLEEELEKNGICVAFVESIP--DGSEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWIITDLWLT 234 (298)
T ss_pred HHHHHHHHHCCeeEEEEEEcC--CCHHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEEEChhhc
Confidence 999999999999999988887 4558999999999999999999999999999999999999999 8899999986654
No 81
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.95 E-value=1.6e-26 Score=252.93 Aligned_cols=278 Identities=18% Similarity=0.277 Sum_probs=230.4
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||+++|+| +..|.....|+++|+++||+ ||+ +|+++++++.|+++++..+.+.+.+|+++ +|.+|||+.++..
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 599999999 56788899999999999999 888 59999999999999999999999999986 9999999998888
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDAL 207 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 207 (945)
+.++.+.+.+.++|+|+++++++.++ ..++|+||+.+++..++..+++++.+.||++|++++.++.+|+...+.+++.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~ 157 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALA 157 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHH
Confidence 88888999999999999877654443 34689999999999999999999999999999999999899999999999999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEP 287 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 287 (945)
++.|+++.....++ .+..|+...+.+++..++|+|++......+..+++++++.|+..+ ++.++..... +.
T Consensus 158 ~~~G~~v~~~~~~~--~~~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~~~~-~~--- 228 (312)
T cd06333 158 PKYGIEVVADERYG--RTDTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP---IYQTHGVASP-DF--- 228 (312)
T ss_pred HHcCCEEEEEEeeC--CCCcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---EEeecCcCcH-HH---
Confidence 99999998777776 345678889999988889999998888888889999999998653 3333322211 00
Q ss_pred CChhHHhhhcceeEEEee------cCC----CchhhHHHHHHHhhhcCCCCCCC-CchhHHHHHHHHHHHH
Q 002267 288 VDIDTMNLLQGVVALRHH------TPD----TDLKKNFISRWKNLKYKENSPSG-FNSYALYAYDSVWLVA 347 (945)
Q Consensus 288 ~~~~~~~~~~G~~~~~~~------~~~----~~~~~~f~~~~~~~~~~~~~~~~-~~~~~~~~YDav~~la 347 (945)
.+...+..+|++.+..+ .|+ .+..++|.++|+++| +.. ++.++..+||++++++
T Consensus 229 -~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~-----g~~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 229 -LRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKY-----GAGSVSTFGGHAYDALLLLA 293 (312)
T ss_pred -HHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHh-----CCCCCCchhHHHHHHHHHHH
Confidence 02223567887765422 232 356899999999998 444 8889999999999998
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=9.4e-27 Score=253.35 Aligned_cols=280 Identities=30% Similarity=0.414 Sum_probs=238.7
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 127 (945)
+||+++|++ +..|.....|+++|++++|+++|+ +|+++++++.|+++++..+.+.+.+++++ +|.+||||.++..
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~-~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~ 79 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGI-PGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGV 79 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCC-CCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHH
Confidence 599999998 456788999999999999999976 59999999999999999999999999998 9999999999999
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDA 206 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 206 (945)
+.+++++++..+||+|++.+.++.+++ ..+|++||+.|++..++..+++++.+++|++|++++.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~ 159 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAA 159 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHH
Confidence 999999999999999999887776665 4689999999999999999999999999999999999988999999999999
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTE 286 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 286 (945)
+++.|+++.....++ .+.+++...++++++.++|+|+++..+..+..++++++++|+. +++.|+..+.+......
T Consensus 160 ~~~~g~~i~~~~~~~--~~~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~-- 234 (299)
T cd04509 160 FKKKGGTVVGEEYYP--LGTTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLSDVLL-- 234 (299)
T ss_pred HHHcCCEEEEEecCC--CCCccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccCHHHH--
Confidence 999999998776666 3447888999999888899999999889999999999999998 78999998865433221
Q ss_pred CCChhHHhhhcceeEEEeecCCCc--hhhHHH---HHHHhhhcCCCCCCCCchhHHHHHHHHHH
Q 002267 287 PVDIDTMNLLQGVVALRHHTPDTD--LKKNFI---SRWKNLKYKENSPSGFNSYALYAYDSVWL 345 (945)
Q Consensus 287 ~~~~~~~~~~~G~~~~~~~~~~~~--~~~~f~---~~~~~~~~~~~~~~~~~~~~~~~YDav~~ 345 (945)
....+..+|+++..++.+..+ ..+.|. ..+++.+ +..++.++.++||++++
T Consensus 235 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~yda~~~ 290 (299)
T cd04509 235 ---EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKY-----EDQPDYFAALAYDAVLL 290 (299)
T ss_pred ---HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHh-----CCCCChhhhhhcceeee
Confidence 123466789988887766543 333333 3444443 56788999999999988
No 83
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=99.94 E-value=7.4e-25 Score=238.28 Aligned_cols=280 Identities=26% Similarity=0.361 Sum_probs=238.8
Q ss_pred EEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHH
Q 002267 52 RIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIA 128 (945)
Q Consensus 52 ~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 128 (945)
+||+++|++ +..|.....|+++|++++|+.+|+ +|+++++.++|+++++..+.+.+.++++++|.+||||.++..+
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 567889999999999999999987 5999999999999999999999999999999999999999888
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcC-CeEEEEEEEeCCcccchHHHHHHHH
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYG-WREVIAIFVDDDYGRNGISVLGDAL 207 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~~~~~~l~~~l 207 (945)
..+.+.+...+||+|++.+..+.+.+..+|++|++.+++..++.++++++...+ |++|++++.++.++....+.+.+++
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 899999999999999998877766544579999999999999999999998887 9999999999889999999999999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccccCCCCC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVLDSTEP 287 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 287 (945)
++.|+++.....++ .+..++...+++++..++++|++.+.+..+..+++++++.|+ +..|+..+.+......
T Consensus 160 ~~~g~~i~~~~~~~--~~~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~~~~~--- 231 (298)
T cd06268 160 KKLGGEVVAEETYP--PGATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---KVPIVGGDGAAAPALL--- 231 (298)
T ss_pred HHcCCEEEEEeccC--CCCccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---CCcEEecCccCCHHHH---
Confidence 99999998877766 345778999999998899999999888999999999999997 3467777655432111
Q ss_pred CChhHHhhhcceeEEEeecCCC--chhhHHH-HHHHhhhcCCCCCCCCchhHHHHHHHHHHHH
Q 002267 288 VDIDTMNLLQGVVALRHHTPDT--DLKKNFI-SRWKNLKYKENSPSGFNSYALYAYDSVWLVA 347 (945)
Q Consensus 288 ~~~~~~~~~~G~~~~~~~~~~~--~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~YDav~~la 347 (945)
+...+..+|+++..++.+.. +....|. ++|++.+ +..++.++..+||++++++
T Consensus 232 --~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 232 --ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKY-----GRPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred --HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHh-----CCCcccchHHHHHHHHHHc
Confidence 12235678988888776543 3445565 7788877 6778999999999999998
No 84
>cd06369 PBP1_GC_C_enterotoxin_receptor Ligand-binding domain of the membrane guanylyl cyclase C. Ligand-binding domain of the membrane guanylyl cyclase C (GC-C or StaR). StaR is a key receptor for the STa (Escherichia coli Heat Stable enterotoxin), a potent stimulant of intestinal chloride and bicarbonate secretion that cause acute secretory diarrhea. The catalytic domain of the STa/guanylin receptor type membrane GC is highly similar to those of the natriuretic peptide receptor (NPR) type and sensory organ-specific type membrane GCs (GC-D, GC-E and GC-F). The GC-C receptor is mainly expressed in the intestine of most vertebrates, but is also found in the kidney and other organs. Moreover, GC-C is activated by guanylin and uroguanylin, endogenous peptide ligands synthesized in the intestine and kidney. Consequently, the receptor activation results in increased cGMP levels and phosphorylation of the CFTR chloride channel and secretion.
Probab=99.93 E-value=1.4e-23 Score=219.06 Aligned_cols=323 Identities=15% Similarity=0.215 Sum_probs=247.6
Q ss_pred cchHHHHHHHHHHHhcCCCCCCCcEEEE----------EEecCCC--ChHHHHHHHHHHHhc--CcEEEEccCChhHHHH
Q 002267 65 RAAGPAIAAAVDDVNSDPSILPGTTLNF----------VIRDTNC--SGFVGTMEALQLMEN--EVVAAIGPQSSGIAHV 130 (945)
Q Consensus 65 ~~~~~a~~~Ave~iN~~~~il~g~~l~l----------~~~D~~~--~~~~a~~~a~~li~~--~v~aiiGp~~s~~~~~ 130 (945)
+..+.|++.|++.+++.. ..+|..+.+ ++.+.+| +.-++++...+|..+ .-.+++||.|.-.+.+
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 356788999998887754 335777777 6666665 445677777777765 5789999999999999
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH------HHcCCeEEEEEEEeCCcccch---HH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV------EYYGWREVIAIFVDDDYGRNG---IS 201 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l------~~~~w~~v~ii~~d~~~g~~~---~~ 201 (945)
++.+...+++|+||-++.. ++-...+++-|+.|+....+..+.++. ++++|++.. ||.++.-.++. ++
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 9999999999999965533 443445799999999999999999999 489998665 99776544433 56
Q ss_pred HHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCccc
Q 002267 202 VLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSV 281 (945)
Q Consensus 202 ~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~ 281 (945)
++....+.-+..+...+.+ .+.+++..++++++ .++||||+|+++++.++++.+ ++...+|++|..|.....
T Consensus 174 al~a~~~~f~~~~~~~~~l---~~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDlF~~s 245 (380)
T cd06369 174 ALEAGVAYFSSALKFKELL---RTEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDLFNDV 245 (380)
T ss_pred hhhhhhhhhhhcccceeee---cCchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEecccch
Confidence 6666666555555544443 35688899998875 678999999999999999886 444569999999866543
Q ss_pred cCCCCCCChhHHhhhcceeEEEeecCCCchhhHHHHHHHhhhcCCCCCCCCc-hhHHHHHHHHHHHHHHHHHHHhcCCcc
Q 002267 282 LDSTEPVDIDTMNLLQGVVALRHHTPDTDLKKNFISRWKNLKYKENSPSGFN-SYALYAYDSVWLVAHALDALLNEGGKF 360 (945)
Q Consensus 282 ~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~-~~~~~~YDav~~la~Al~~~~~~~~~~ 360 (945)
.- .+....++++.++.+++..|+.+.++++ ..+ +.... .+++..||||+++|+||++++..+++.
T Consensus 246 y~----~d~~a~~amqsVLvIT~~~p~~~~~~~~-----~~f-----n~~l~~~~aa~fyDaVLLYa~AL~EtL~~G~~~ 311 (380)
T cd06369 246 YY----ENTTSPPYMRNVLVLTLPPRNSTNNSSF-----TTD-----NSLLKDDYVAAYHDGVLLFGHVLKKFLESQEGV 311 (380)
T ss_pred hc----cCcchHHHHhceEEEecCCCCCcccccC-----CCC-----CcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 32 1234567899999999888866554431 111 22222 899999999999999999999876652
Q ss_pred cccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCCCCCCcEEEEEee--ccceEEEEEecCC
Q 002267 361 TFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKNLVNPAYDVLNIG--GTGSRRIGYWSNY 438 (945)
Q Consensus 361 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~~~~~~y~i~~~~--~~~~~~Vg~w~~~ 438 (945)
++.++.+.|+|.+|+|++|.|++|+|||| ..+|.++.+. .++++.||.|+..
T Consensus 312 -------------------------~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~t~ 365 (380)
T cd06369 312 -------------------------QTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFDTS 365 (380)
T ss_pred -------------------------CcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEECC
Confidence 23789999999999999999999999996 5899998875 3689999999875
Q ss_pred C
Q 002267 439 S 439 (945)
Q Consensus 439 ~ 439 (945)
.
T Consensus 366 ~ 366 (380)
T cd06369 366 T 366 (380)
T ss_pred C
Confidence 4
No 85
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.86 E-value=1e-20 Score=199.15 Aligned_cols=220 Identities=25% Similarity=0.428 Sum_probs=187.7
Q ss_pred CCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002267 484 GMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGD 563 (945)
Q Consensus 484 g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 563 (945)
.++|+|++ ..+|+||.+.+ ++.+.|+++|+++++++++|.+ +++++ .+|.+++.++.+|++|+++++
T Consensus 24 ~~~l~v~~--~~~~~P~~~~~--~g~~~G~~vdl~~~ia~~lg~~--~~~~~-------~~~~~~~~~l~~G~vDi~~~~ 90 (247)
T PRK09495 24 DKKLVVAT--DTAFVPFEFKQ--GDKYVGFDIDLWAAIAKELKLD--YTLKP-------MDFSGIIPALQTKNVDLALAG 90 (247)
T ss_pred CCeEEEEe--CCCCCCeeecC--CCceEEEeHHHHHHHHHHhCCc--eEEEe-------CCHHHHHHHHhCCCcCEEEec
Confidence 46899998 44688888764 5778999999999999999977 55554 459999999999999999888
Q ss_pred EEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccch
Q 002267 564 ITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQL 643 (945)
Q Consensus 564 ~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 643 (945)
++.+++|.+.++||.||+.+++.+++++..
T Consensus 91 ~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~-------------------------------------------------- 120 (247)
T PRK09495 91 ITITDERKKAIDFSDGYYKSGLLVMVKANN-------------------------------------------------- 120 (247)
T ss_pred CccCHHHHhhccccchheecceEEEEECCC--------------------------------------------------
Confidence 999999999999999999999999997654
Q ss_pred hhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCchH
Q 002267 644 VTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSFA 723 (945)
Q Consensus 644 ~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~~ 723 (945)
..+++++||. |++||+..|+..
T Consensus 121 --------------------------------------------------------~~~~~~~dL~--g~~I~v~~g~~~ 142 (247)
T PRK09495 121 --------------------------------------------------------NDIKSVKDLD--GKVVAVKSGTGS 142 (247)
T ss_pred --------------------------------------------------------CCCCChHHhC--CCEEEEecCchH
Confidence 3588999996 889999999988
Q ss_pred HHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCc-cEEEeCccccccceEEEecCCCc
Q 002267 724 WNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNC-EFRTVGQEFTKSGWGFAFQRDSP 802 (945)
Q Consensus 724 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~k~sp 802 (945)
..++... .+..+++.+++.++++++|.+ |++|+++.+.....+++++... ++..++......++++++++++.
T Consensus 143 ~~~l~~~--~~~~~i~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 216 (247)
T PRK09495 143 VDYAKAN--IKTKDLRQFPNIDNAYLELGT----GRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGSE 216 (247)
T ss_pred HHHHHhc--CCCCceEEcCCHHHHHHHHHc----CceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcHH
Confidence 8888543 344567788899999999999 9999999998888888776333 57777766666789999999989
Q ss_pred chHHHHHHHHhccccccHHHHHHHhcCC
Q 002267 803 LAIDLSTAILQLSENGDLQKIHNKWLTY 830 (945)
Q Consensus 803 l~~~i~~~i~~l~e~G~~~~i~~~w~~~ 830 (945)
+++.+|++|.++.++|.+++|.+||+..
T Consensus 217 l~~~~n~al~~~~~~g~~~~i~~k~~~~ 244 (247)
T PRK09495 217 LREKVNGALKTLKENGTYAEIYKKWFGT 244 (247)
T ss_pred HHHHHHHHHHHHHHCCcHHHHHHHHcCC
Confidence 9999999999999999999999999973
No 86
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.86 E-value=1.7e-20 Score=201.80 Aligned_cols=225 Identities=19% Similarity=0.230 Sum_probs=187.0
Q ss_pred CCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHH----hCCC-CccEEEEEcCCCCCCCCHHHHHHHHHcCccc
Q 002267 484 GMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVN----LLPY-PVPHNYIMYGNGKRNPIYNDIVQQVALNKFD 558 (945)
Q Consensus 484 g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~----~l~~-~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D 558 (945)
.+.|+||+ .+.|+||.+.++ ++.+.||++|++++|++ ++|. .+++++++ .+|..++..|..|++|
T Consensus 39 ~g~L~Vg~--~~~~pP~~f~~~-~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~-------~~~~~~i~~L~~G~~D 108 (302)
T PRK10797 39 NGVIVVGH--RESSVPFSYYDN-QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIP-------ITSQNRIPLLQNGTFD 108 (302)
T ss_pred CCeEEEEE--cCCCCCcceECC-CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEE-------cChHhHHHHHHCCCcc
Confidence 46699999 456889888764 67899999997777655 6664 35688887 4578899999999999
Q ss_pred EEEecEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCC
Q 002267 559 AAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGP 638 (945)
Q Consensus 559 ~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 638 (945)
++++.+++|++|.+.++||.||+.++..+++++..
T Consensus 109 i~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~--------------------------------------------- 143 (302)
T PRK10797 109 FECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG--------------------------------------------- 143 (302)
T ss_pred EEecCCccCcchhhcceecccEeeccEEEEEECCC---------------------------------------------
Confidence 99999999999999999999999999999998754
Q ss_pred CccchhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEe
Q 002267 639 PSQQLVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQ 718 (945)
Q Consensus 639 ~~~~~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~ 718 (945)
.|++++||. |++||+.
T Consensus 144 --------------------------------------------------------------~i~sl~dL~--Gk~V~v~ 159 (302)
T PRK10797 144 --------------------------------------------------------------DIKDFADLK--GKAVVVT 159 (302)
T ss_pred --------------------------------------------------------------CCCChHHcC--CCEEEEe
Confidence 478899996 8999999
Q ss_pred eCchHHHHHHHhhc--cccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccC-Cc-cEEEeCccccccceE
Q 002267 719 DGSFAWNYLVDELK--IAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKT-NC-EFRTVGQEFTKSGWG 794 (945)
Q Consensus 719 ~~s~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~ 794 (945)
.|+....++..... .+..+++.+.+.++.+++|.. |++|+++.+...+.+.+.+. .. .++++++.+...+++
T Consensus 160 ~gs~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~----GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~ 235 (302)
T PRK10797 160 SGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLES----GRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYG 235 (302)
T ss_pred CCCcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHc----CCceEEEccHHHHHHHHHcCCCCcceEECCccCCcCcee
Confidence 99988887754221 123567889999999999999 99999999987766544331 23 578888777778899
Q ss_pred EEecCCCc-chHHHHHHHHhccccccHHHHHHHhcCCC
Q 002267 795 FAFQRDSP-LAIDLSTAILQLSENGDLQKIHNKWLTYN 831 (945)
Q Consensus 795 ~~~~k~sp-l~~~i~~~i~~l~e~G~~~~i~~~w~~~~ 831 (945)
++++++++ ++..+|++|.++.++|.+++|.+||+...
T Consensus 236 ~a~~k~~~~L~~~in~~L~~l~~~G~l~~i~~kw~~~~ 273 (302)
T PRK10797 236 CMLRKDDPQFKKLMDDTIAQAQTSGEAEKWFDKWFKNP 273 (302)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHhCchHHHHHHHHcCCC
Confidence 99999887 99999999999999999999999999843
No 87
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region, the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition, at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homologue with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 3N26_A 3QAX_A 3I6V_A 2VHA_B 2IA4_B 2Q89_A 2Q88_A 2YJP_C 1II5_A 1IIW_A ....
Probab=99.84 E-value=2.2e-20 Score=194.02 Aligned_cols=222 Identities=25% Similarity=0.364 Sum_probs=183.3
Q ss_pred eEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEE
Q 002267 487 LRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITI 566 (945)
Q Consensus 487 l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~ 566 (945)
||||+ ...++||.+.+. ++.+.|+++||++++++++|+++++... +|.+++.+|.+|++|+++++++.
T Consensus 1 l~V~~--~~~~~P~~~~~~-~~~~~G~~~dl~~~i~~~~g~~~~~~~~---------~~~~~~~~l~~g~~D~~~~~~~~ 68 (225)
T PF00497_consen 1 LRVGV--DEDYPPFSYIDE-DGEPSGIDVDLLRAIAKRLGIKIEFVPM---------PWSRLLEMLENGKADIIIGGLSI 68 (225)
T ss_dssp EEEEE--ESEBTTTBEEET-TSEEESHHHHHHHHHHHHHTCEEEEEEE---------EGGGHHHHHHTTSSSEEESSEB-
T ss_pred CEEEE--cCCCCCeEEECC-CCCEEEEhHHHHHHHHhhcccccceeec---------ccccccccccccccccccccccc
Confidence 68999 346889998875 7899999999999999999988555443 49999999999999999999999
Q ss_pred ecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccchhhH
Q 002267 567 VTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQLVTI 646 (945)
Q Consensus 567 t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 646 (945)
+.+|.+.++||.||+....++++++.+...
T Consensus 69 ~~~r~~~~~~s~p~~~~~~~~~~~~~~~~~-------------------------------------------------- 98 (225)
T PF00497_consen 69 TPERAKKFDFSDPYYSSPYVLVVRKGDAPP-------------------------------------------------- 98 (225)
T ss_dssp BHHHHTTEEEESESEEEEEEEEEETTSTCS--------------------------------------------------
T ss_pred cccccccccccccccchhheeeeccccccc--------------------------------------------------
Confidence 999999999999999999999999753110
Q ss_pred HHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCchHHHH
Q 002267 647 FWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSFAWNY 726 (945)
Q Consensus 647 ~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~~~~~ 726 (945)
...+++++||. +.+||+..|+....+
T Consensus 99 ----------------------------------------------------~~~~~~~~dl~--~~~i~~~~g~~~~~~ 124 (225)
T PF00497_consen 99 ----------------------------------------------------IKTIKSLDDLK--GKRIGVVRGSSYADY 124 (225)
T ss_dssp ----------------------------------------------------TSSHSSGGGGT--TSEEEEETTSHHHHH
T ss_pred ----------------------------------------------------cccccchhhhc--CcccccccchhHHHH
Confidence 14677888995 789999999988888
Q ss_pred HHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCc-cEEEeCccccccceEEEecCCCc-ch
Q 002267 727 LVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNC-EFRTVGQEFTKSGWGFAFQRDSP-LA 804 (945)
Q Consensus 727 l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~k~sp-l~ 804 (945)
+.+.... ..+++.+.+.++++++|.+ |++|+++.+...+.+++++... ............++++++.++.+ +.
T Consensus 125 l~~~~~~-~~~~~~~~~~~~~~~~l~~----g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 199 (225)
T PF00497_consen 125 LKQQYPS-NINIVEVDSPEEALEALLS----GRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELL 199 (225)
T ss_dssp HHHHTHH-TSEEEEESSHHHHHHHHHT----TSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHH
T ss_pred hhhhccc-hhhhcccccHHHHHHHHhc----CCeeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccHHH
Confidence 8653311 4567788999999999999 9999999999999999888444 23332455556677777776555 99
Q ss_pred HHHHHHHHhccccccHHHHHHHhcC
Q 002267 805 IDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 805 ~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
+.||++|.++.++|.+++|.+||++
T Consensus 200 ~~~n~~i~~l~~~G~~~~i~~ky~g 224 (225)
T PF00497_consen 200 EIFNKAIRELKQSGEIQKILKKYLG 224 (225)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHS
T ss_pred HHHHHHHHHHHhCcHHHHHHHHHcC
Confidence 9999999999999999999999986
No 88
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.84 E-value=1.5e-19 Score=191.72 Aligned_cols=223 Identities=19% Similarity=0.319 Sum_probs=178.8
Q ss_pred CCCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002267 483 NGMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVG 562 (945)
Q Consensus 483 ~g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~ 562 (945)
..++|+|++ .+.|+||.+.++ ++.+.|+++||++++++++|.++ ++++ ..|+.++.++..|++|++++
T Consensus 24 ~~~~l~v~~--~~~~pPf~~~~~-~g~~~G~~vdl~~~ia~~lg~~~--~~~~-------~~~~~~~~~l~~g~~Di~~~ 91 (260)
T PRK15010 24 LPETVRIGT--DTTYAPFSSKDA-KGDFVGFDIDLGNEMCKRMQVKC--TWVA-------SDFDALIPSLKAKKIDAIIS 91 (260)
T ss_pred cCCeEEEEe--cCCcCCceeECC-CCCEEeeeHHHHHHHHHHhCCce--EEEe-------CCHHHHHHHHHCCCCCEEEe
Confidence 347899998 446889998764 67899999999999999999774 4444 45999999999999999999
Q ss_pred cEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccc
Q 002267 563 DITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQ 642 (945)
Q Consensus 563 ~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 642 (945)
.+..+++|.+.++||.||+.++.++++++..
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 122 (260)
T PRK15010 92 SLSITDKRQQEIAFSDKLYAADSRLIAAKGS------------------------------------------------- 122 (260)
T ss_pred cCcCCHHHHhhcccccceEeccEEEEEECCC-------------------------------------------------
Confidence 8999999999999999999999999998765
Q ss_pred hhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCch
Q 002267 643 LVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSF 722 (945)
Q Consensus 643 ~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~ 722 (945)
+...+++||. |++||+..|+.
T Consensus 123 ---------------------------------------------------------~~~~~~~dl~--g~~Igv~~gs~ 143 (260)
T PRK15010 123 ---------------------------------------------------------PIQPTLDSLK--GKHVGVLQGST 143 (260)
T ss_pred ---------------------------------------------------------CCCCChhHcC--CCEEEEecCch
Confidence 1223678885 88999999998
Q ss_pred HHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHH-HhccCCc-cEEEeCccc-----cccceEE
Q 002267 723 AWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIEL-FMSKTNC-EFRTVGQEF-----TKSGWGF 795 (945)
Q Consensus 723 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~-~~~~~~~-~~~~~~~~~-----~~~~~~~ 795 (945)
...++.........+++.+.+.++++++|.+ |++|+++.+.....+ ++.+... ++......+ ...++++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (260)
T PRK15010 144 QEAYANETWRSKGVDVVAYANQDLVYSDLAA----GRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGV 219 (260)
T ss_pred HHHHHHHhcccCCceEEecCCHHHHHHHHHc----CCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEE
Confidence 7777754332223456678889999999999 999999998776654 3343222 455554322 2234678
Q ss_pred EecCCCc-chHHHHHHHHhccccccHHHHHHHhcC
Q 002267 796 AFQRDSP-LAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 796 ~~~k~sp-l~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
+++++.+ |+..+|++|.++.++|.+++|.+||++
T Consensus 220 a~~~~~~~L~~~ln~~l~~l~~~G~~~~i~~ky~~ 254 (260)
T PRK15010 220 GLRKDDAELTAAFNKALGELRQDGTYDKMAKKYFD 254 (260)
T ss_pred EEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 9998876 999999999999999999999999997
No 89
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.83 E-value=2.7e-19 Score=188.63 Aligned_cols=219 Identities=15% Similarity=0.247 Sum_probs=179.9
Q ss_pred CCCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhC-CCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEE
Q 002267 483 NGMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLL-PYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAV 561 (945)
Q Consensus 483 ~g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l-~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~ 561 (945)
+.+.|+||+. .+++||.+.+..++.+.||++|+++++++++ |..+++++.+ -+|...+.+|.+|++|+++
T Consensus 36 ~~g~l~vg~~--~~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~ 106 (259)
T PRK11917 36 SKGQLIVGVK--NDVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVA-------VNAKTRGPLLDNGSVDAVI 106 (259)
T ss_pred hCCEEEEEEC--CCCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEE-------cChhhHHHHHHCCCccEEE
Confidence 4578999994 5688998865446889999999999999994 8666677765 3467777999999999999
Q ss_pred ecEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCcc
Q 002267 562 GDITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQ 641 (945)
Q Consensus 562 ~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 641 (945)
+.+++|++|.+.++||.||+.++..+++++..
T Consensus 107 ~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~------------------------------------------------ 138 (259)
T PRK11917 107 ATFTITPERKRIYNFSEPYYQDAIGLLVLKEK------------------------------------------------ 138 (259)
T ss_pred ecccCChhhhheeeeccCceeeceEEEEECCC------------------------------------------------
Confidence 99999999999999999999999999998765
Q ss_pred chhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCc
Q 002267 642 QLVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGS 721 (945)
Q Consensus 642 ~~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s 721 (945)
++++++||. |++||+..|+
T Consensus 139 -----------------------------------------------------------~~~s~~dL~--g~~V~v~~gs 157 (259)
T PRK11917 139 -----------------------------------------------------------NYKSLADMK--GANIGVAQAA 157 (259)
T ss_pred -----------------------------------------------------------CCCCHHHhC--CCeEEEecCC
Confidence 478899996 8999999999
Q ss_pred hHHHHHHHhhc--cccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCccccccceEEEecC
Q 002267 722 FAWNYLVDELK--IAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQEFTKSGWGFAFQR 799 (945)
Q Consensus 722 ~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k 799 (945)
.....+.+... ....+++.+++..+.+++|.. |++|+++.+...+..+..+ +..++.+.+...+++++++|
T Consensus 158 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~----GrvDa~~~d~~~~~~~~~~---~~~~~~~~~~~~~~~~a~~k 230 (259)
T PRK11917 158 TTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDA----KRVDAFSVDKSILLGYVDD---KSEILPDSFEPQSYGIVTKK 230 (259)
T ss_pred cHHHHHHHhhHhcCCceeEEecCCHHHHHHHHHc----CCCcEEEecHHHHHHhhhc---CCeecCCcCCCCceEEEEeC
Confidence 87766543221 112356678899999999999 9999999998877665554 23566667777889999999
Q ss_pred CCc-chHHHHHHHHhccccccHHHHHHHhc
Q 002267 800 DSP-LAIDLSTAILQLSENGDLQKIHNKWL 828 (945)
Q Consensus 800 ~sp-l~~~i~~~i~~l~e~G~~~~i~~~w~ 828 (945)
+++ +...+|+.|.++.. .+++|.+||-
T Consensus 231 ~~~~l~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 231 DDPAFAKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred CCHHHHHHHHHHHHHHHH--HHHHHHHHhC
Confidence 988 99999999999864 7999999993
No 90
>PRK11260 cystine transporter subunit; Provisional
Probab=99.83 E-value=1.7e-19 Score=191.84 Aligned_cols=222 Identities=18% Similarity=0.315 Sum_probs=188.3
Q ss_pred CCCCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEE
Q 002267 482 NNGMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAV 561 (945)
Q Consensus 482 ~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~ 561 (945)
...+.|+||+. ..++||.+.+. ++.+.|+.+|+++.+++++|.+ +++++ ..|.+++.+|.+|++|+++
T Consensus 38 ~~~~~l~v~~~--~~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~--~e~~~-------~~~~~~~~~l~~G~~D~~~ 105 (266)
T PRK11260 38 KERGTLLVGLE--GTYPPFSFQGE-DGKLTGFEVEFAEALAKHLGVK--ASLKP-------TKWDGMLASLDSKRIDVVI 105 (266)
T ss_pred hcCCeEEEEeC--CCcCCceEECC-CCCEEEehHHHHHHHHHHHCCe--EEEEe-------CCHHHHHHHHhcCCCCEEE
Confidence 45578999984 45888887664 6789999999999999999977 45454 3599999999999999999
Q ss_pred ecEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCcc
Q 002267 562 GDITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQ 641 (945)
Q Consensus 562 ~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 641 (945)
++++.+++|.+.+.||.||+..+..+++++.+.
T Consensus 106 ~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~----------------------------------------------- 138 (266)
T PRK11260 106 NQVTISDERKKKYDFSTPYTVSGIQALVKKGNE----------------------------------------------- 138 (266)
T ss_pred eccccCHHHHhccccCCceeecceEEEEEcCCc-----------------------------------------------
Confidence 888999999999999999999999999886541
Q ss_pred chhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCc
Q 002267 642 QLVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGS 721 (945)
Q Consensus 642 ~~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s 721 (945)
..+++++||. +++||+..|+
T Consensus 139 ----------------------------------------------------------~~~~~~~dL~--g~~Igv~~G~ 158 (266)
T PRK11260 139 ----------------------------------------------------------GTIKTAADLK--GKKVGVGLGT 158 (266)
T ss_pred ----------------------------------------------------------CCCCCHHHcC--CCEEEEecCC
Confidence 2578899985 8899999999
Q ss_pred hHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCc-cEEEeCccccccceEEEecCC
Q 002267 722 FAWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNC-EFRTVGQEFTKSGWGFAFQRD 800 (945)
Q Consensus 722 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~k~ 800 (945)
....++.+ +.+..++..+++..+++++|.+ |++|+++.+.....+++.+ .. .+.+....+...+++++++++
T Consensus 159 ~~~~~l~~--~~~~~~i~~~~~~~~~l~~L~~----GrvD~~i~d~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~~ 231 (266)
T PRK11260 159 NYEQWLRQ--NVQGVDVRTYDDDPTKYQDLRV----GRIDAILVDRLAALDLVKK-TNDTLAVAGEAFSRQESGVALRKG 231 (266)
T ss_pred cHHHHHHH--hCCCCceEecCCHHHHHHHHHc----CCCCEEEechHHHHHHHHh-CCCcceecCCccccCceEEEEeCC
Confidence 88888854 3445667889999999999999 9999999998888887776 44 355555666678899999998
Q ss_pred Cc-chHHHHHHHHhccccccHHHHHHHhcC
Q 002267 801 SP-LAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 801 sp-l~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
++ ++..+|++|.++.++|.+++|.+||+.
T Consensus 232 ~~~l~~~ln~~l~~~~~~g~~~~i~~k~~~ 261 (266)
T PRK11260 232 NPDLLKAVNQAIAEMQKDGTLKALSEKWFG 261 (266)
T ss_pred CHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 87 999999999999999999999999997
No 91
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.82 E-value=4.5e-19 Score=186.40 Aligned_cols=217 Identities=21% Similarity=0.428 Sum_probs=178.5
Q ss_pred CCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002267 484 GMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGD 563 (945)
Q Consensus 484 g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 563 (945)
..+||||+. ..++||.+.+. ++.+.|+++|+++++++++|.+++| +. .+|..++..+.+|++|+++++
T Consensus 20 ~~~l~v~~~--~~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~--~~-------~~~~~~~~~l~~g~~D~~~~~ 87 (243)
T PRK15007 20 AETIRFATE--ASYPPFESIDA-NNQIVGFDVDLAQALCKEIDATCTF--SN-------QAFDSLIPSLKFRRVEAVMAG 87 (243)
T ss_pred CCcEEEEeC--CCCCCceeeCC-CCCEEeeeHHHHHHHHHHhCCcEEE--Ee-------CCHHHHhHHHhCCCcCEEEEc
Confidence 468999993 56889988764 6789999999999999999988544 43 459999999999999999888
Q ss_pred EEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccch
Q 002267 564 ITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQL 643 (945)
Q Consensus 564 ~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 643 (945)
++.+++|.+.++||.||+..+..++.+..
T Consensus 88 ~~~~~~r~~~~~fs~p~~~~~~~~v~~~~--------------------------------------------------- 116 (243)
T PRK15007 88 MDITPEREKQVLFTTPYYDNSALFVGQQG--------------------------------------------------- 116 (243)
T ss_pred CccCHHHhcccceecCccccceEEEEeCC---------------------------------------------------
Confidence 88999999999999999998877765432
Q ss_pred hhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCchH
Q 002267 644 VTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSFA 723 (945)
Q Consensus 644 ~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~~ 723 (945)
.+++++||. +.+||+..|+..
T Consensus 117 ---------------------------------------------------------~~~~~~dL~--g~~Igv~~g~~~ 137 (243)
T PRK15007 117 ---------------------------------------------------------KYTSVDQLK--GKKVGVQNGTTH 137 (243)
T ss_pred ---------------------------------------------------------CCCCHHHhC--CCeEEEecCcHH
Confidence 356789995 889999999988
Q ss_pred HHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCcc-----ccccceEEEec
Q 002267 724 WNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQE-----FTKSGWGFAFQ 798 (945)
Q Consensus 724 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~ 798 (945)
.+++.+. .+..+++.+++.++.+++|.+ |++|+++.+...+.+++++ +..+..++.. ....+++++++
T Consensus 138 ~~~l~~~--~~~~~~~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 210 (243)
T PRK15007 138 QKFIMDK--HPEITTVPYDSYQNAKLDLQN----GRIDAVFGDTAVVTEWLKD-NPKLAAVGDKVTDKDYFGTGLGIAVR 210 (243)
T ss_pred HHHHHHh--CCCCeEEEcCCHHHHHHHHHc----CCCCEEEeCHHHHHHHHhc-CCCceeecCcccccccCCcceEEEEe
Confidence 8887643 344567778899999999999 9999999998888887776 4545444322 22345789999
Q ss_pred CCCc-chHHHHHHHHhccccccHHHHHHHhcC
Q 002267 799 RDSP-LAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 799 k~sp-l~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
++.+ ++..||++|.++.++|.++++.+||+.
T Consensus 211 ~~~~~l~~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 211 QGNTELQQKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred CCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 8776 999999999999999999999999985
No 92
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.81 E-value=8.9e-19 Score=185.10 Aligned_cols=219 Identities=22% Similarity=0.429 Sum_probs=182.8
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
++|+|++ ...|+||.+.++ ++++.|+++|+++++++.+|.+ +++++ .+|.+++.++.+|++|++++++
T Consensus 24 ~~l~v~~--~~~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~--~~~~~-------~~~~~~~~~l~~G~~D~~~~~~ 91 (250)
T TIGR01096 24 GSVRIGT--ETGYPPFESKDA-NGKLVGFDVDLAKALCKRMKAK--CKFVE-------QNFDGLIPSLKAKKVDAIMATM 91 (250)
T ss_pred CeEEEEE--CCCCCCceEECC-CCCEEeehHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhCCCcCEEEecC
Confidence 6899999 456889988764 6889999999999999999977 55555 4699999999999999998888
Q ss_pred EEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccchh
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQLV 644 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 644 (945)
..+.+|.+.+.||.||+.++..++++...
T Consensus 92 ~~~~~r~~~~~~s~p~~~~~~~~~~~~~~--------------------------------------------------- 120 (250)
T TIGR01096 92 SITPKRQKQIDFSDPYYATGQGFVVKKGS--------------------------------------------------- 120 (250)
T ss_pred ccCHHHhhccccccchhcCCeEEEEECCC---------------------------------------------------
Confidence 88999999999999999999999998765
Q ss_pred hHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCchHH
Q 002267 645 TIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSFAW 724 (945)
Q Consensus 645 ~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~~~ 724 (945)
+.+.+++||. |.+||+..|+...
T Consensus 121 -------------------------------------------------------~~~~~~~dl~--g~~i~~~~g~~~~ 143 (250)
T TIGR01096 121 -------------------------------------------------------DLAKTLEDLD--GKTVGVQSGTTHE 143 (250)
T ss_pred -------------------------------------------------------CcCCChHHcC--CCEEEEecCchHH
Confidence 2346788886 8899999999888
Q ss_pred HHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCC--ccEEEeCccccc-----cceEEEe
Q 002267 725 NYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTN--CEFRTVGQEFTK-----SGWGFAF 797 (945)
Q Consensus 725 ~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~--~~~~~~~~~~~~-----~~~~~~~ 797 (945)
.++.+.... ..+++.+.+.++++++|.+ |++|+++.+...+.+++++.. .++.+++..+.. ..+++++
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 888654321 3467778999999999999 999999999999888877622 136666544332 2478999
Q ss_pred cCCCc-chHHHHHHHHhccccccHHHHHHHhc
Q 002267 798 QRDSP-LAIDLSTAILQLSENGDLQKIHNKWL 828 (945)
Q Consensus 798 ~k~sp-l~~~i~~~i~~l~e~G~~~~i~~~w~ 828 (945)
+++++ ++..+|++|.++.++|.+++|.+||+
T Consensus 219 ~~~~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 219 RKGDTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred eCCCHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 99887 99999999999999999999999996
No 93
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.81 E-value=8.6e-19 Score=185.67 Aligned_cols=224 Identities=16% Similarity=0.282 Sum_probs=177.6
Q ss_pred CCCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002267 483 NGMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVG 562 (945)
Q Consensus 483 ~g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~ 562 (945)
...+|+|++ .+.|+||.+.++ ++.+.|+++||++++++++|.+++++. ..|+.++.++.+|++|++++
T Consensus 24 ~~~~l~v~~--~~~~~P~~~~~~-~g~~~G~~vdi~~~ia~~lg~~i~~~~---------~pw~~~~~~l~~g~~D~~~~ 91 (259)
T PRK15437 24 IPQNIRIGT--DPTYAPFESKNS-QGELVGFDIDLAKELCKRINTQCTFVE---------NPLDALIPSLKAKKIDAIMS 91 (259)
T ss_pred cCCeEEEEe--CCCCCCcceeCC-CCCEEeeeHHHHHHHHHHcCCceEEEe---------CCHHHHHHHHHCCCCCEEEe
Confidence 347899998 445889988764 678999999999999999998855544 34999999999999999999
Q ss_pred cEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccc
Q 002267 563 DITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQ 642 (945)
Q Consensus 563 ~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 642 (945)
+++.|++|.+.++||.||...+.++++++..
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 122 (259)
T PRK15437 92 SLSITEKRQQEIAFTDKLYAADSRLVVAKNS------------------------------------------------- 122 (259)
T ss_pred cCCCCHHHhhhccccchhhcCceEEEEECCC-------------------------------------------------
Confidence 9999999999999999999999999998765
Q ss_pred hhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCch
Q 002267 643 LVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSF 722 (945)
Q Consensus 643 ~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~ 722 (945)
+...+++||. |.+||+..|+.
T Consensus 123 ---------------------------------------------------------~~~~~~~dl~--g~~Igv~~g~~ 143 (259)
T PRK15437 123 ---------------------------------------------------------DIQPTVESLK--GKRVGVLQGTT 143 (259)
T ss_pred ---------------------------------------------------------CCCCChHHhC--CCEEEEecCcH
Confidence 1224688885 88999999998
Q ss_pred HHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHH-HhccC-CccEEEeC-----ccccccceEE
Q 002267 723 AWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIEL-FMSKT-NCEFRTVG-----QEFTKSGWGF 795 (945)
Q Consensus 723 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~-~~~~~-~~~~~~~~-----~~~~~~~~~~ 795 (945)
...++.........+++.+.+.++.+++|.+ |++|+++.+.....+ ++++. ..++.+.+ +.+...++++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~----grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i 219 (259)
T PRK15437 144 QETFGNEHWAPKGIEIVSYQGQDNIYSDLTA----GRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGM 219 (259)
T ss_pred HHHHHHhhccccCceEEecCCHHHHHHHHHc----CCccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEE
Confidence 8777754332223567788899999999999 999999988766543 33331 12343322 2223345678
Q ss_pred EecCCCc-chHHHHHHHHhccccccHHHHHHHhcCC
Q 002267 796 AFQRDSP-LAIDLSTAILQLSENGDLQKIHNKWLTY 830 (945)
Q Consensus 796 ~~~k~sp-l~~~i~~~i~~l~e~G~~~~i~~~w~~~ 830 (945)
+++++.+ +++.+|++|.++..+|.+++|.+||++.
T Consensus 220 a~~~~~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~~ 255 (259)
T PRK15437 220 GLRKEDNELREALNKAFAEMRADGTYEKLAKKYFDF 255 (259)
T ss_pred EEeCCCHHHHHHHHHHHHHHHHCCcHHHHHHHhcCC
Confidence 8887766 9999999999999999999999999983
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=99.80 E-value=1.6e-18 Score=185.08 Aligned_cols=223 Identities=17% Similarity=0.190 Sum_probs=179.8
Q ss_pred CCCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCC-ccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEE
Q 002267 483 NGMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYP-VPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAV 561 (945)
Q Consensus 483 ~g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~-~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~ 561 (945)
..+.|+|++. +++||.+.+. ++.+.|+++||++++++++|.+ ++++. ..|++++..+.+|++|+++
T Consensus 31 ~~~~l~v~~~---~~pP~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~~---------~~w~~~~~~l~~G~~Di~~ 97 (275)
T TIGR02995 31 EQGFARIAIA---NEPPFTYVGA-DGKVSGAAPDVARAIFKRLGIADVNASI---------TEYGALIPGLQAGRFDAIA 97 (275)
T ss_pred hCCcEEEEcc---CCCCceeECC-CCceecchHHHHHHHHHHhCCCceeecc---------CCHHHHHHHHHCCCcCEEe
Confidence 4467999984 4678887654 6788999999999999999975 33333 4599999999999999998
Q ss_pred ecEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCcc
Q 002267 562 GDITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQ 641 (945)
Q Consensus 562 ~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 641 (945)
+++++|++|.+.++||.||+.+..++++++...
T Consensus 98 ~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~----------------------------------------------- 130 (275)
T TIGR02995 98 AGLFIKPERCKQVAFTQPILCDAEALLVKKGNP----------------------------------------------- 130 (275)
T ss_pred ecccCCHHHHhccccccceeecceeEEEECCCC-----------------------------------------------
Confidence 889999999999999999999999999987651
Q ss_pred chhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhc-CCCCeEEeeC
Q 002267 642 QLVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLIS-STEPIGVQDG 720 (945)
Q Consensus 642 ~~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~-~~~~v~~~~~ 720 (945)
..+++++||.. .+.+||+..|
T Consensus 131 ----------------------------------------------------------~~i~~~~dl~~~~g~~Igv~~g 152 (275)
T TIGR02995 131 ----------------------------------------------------------KGLKSYKDIAKNPDAKIAAPGG 152 (275)
T ss_pred ----------------------------------------------------------CCCCCHHHhccCCCceEEEeCC
Confidence 24678888854 3688999999
Q ss_pred chHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCc-cEEEeCcc---ccccceEEE
Q 002267 721 SFAWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNC-EFRTVGQE---FTKSGWGFA 796 (945)
Q Consensus 721 s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~---~~~~~~~~~ 796 (945)
+...+++.+ .+.+..+++.+++.++++++|.+ |++|+++.+...+.+++++... ++..+... .....++++
T Consensus 153 ~~~~~~l~~-~~~~~~~i~~~~~~~~~i~~L~~----grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 227 (275)
T TIGR02995 153 GTEEKLARE-AGVKREQIIVVPDGQSGLKMVQD----GRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAA 227 (275)
T ss_pred cHHHHHHHH-cCCChhhEEEeCCHHHHHHHHHc----CCCCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEE
Confidence 998888854 34444567788999999999999 9999999999988888765222 44443321 111233788
Q ss_pred ecCCCc-chHHHHHHHHhccccccHHHHHHHhc
Q 002267 797 FQRDSP-LAIDLSTAILQLSENGDLQKIHNKWL 828 (945)
Q Consensus 797 ~~k~sp-l~~~i~~~i~~l~e~G~~~~i~~~w~ 828 (945)
++++.+ |.+.||++|.++.++|.+++|.+||-
T Consensus 228 ~~~~~~~l~~~~n~~l~~~~~sG~~~~i~~ky~ 260 (275)
T TIGR02995 228 FRPEDKELRDAFNVELAKLKESGEFAKIIAPYG 260 (275)
T ss_pred ECCCCHHHHHHHHHHHHHHHhChHHHHHHHHhC
Confidence 888766 99999999999999999999999993
No 95
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.75 E-value=2.1e-17 Score=189.37 Aligned_cols=222 Identities=18% Similarity=0.164 Sum_probs=176.2
Q ss_pred CCCCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEE
Q 002267 482 NNGMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAV 561 (945)
Q Consensus 482 ~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~ 561 (945)
...+.|||++... |+.+.++ ++...||++|+++++++++|.+++++.. .+|++++.+|.+|++|+++
T Consensus 40 ~~~g~LrVg~~~~----P~~~~~~-~~~~~G~~~DLl~~ia~~LGv~~e~v~~--------~~~~~ll~aL~~G~iDi~~ 106 (482)
T PRK10859 40 QERGELRVGTINS----PLTYYIG-NDGPTGFEYELAKRFADYLGVKLEIKVR--------DNISQLFDALDKGKADLAA 106 (482)
T ss_pred HhCCEEEEEEecC----CCeeEec-CCCcccHHHHHHHHHHHHhCCcEEEEec--------CCHHHHHHHHhCCCCCEEe
Confidence 3457899999632 3333222 2334999999999999999988555422 5799999999999999998
Q ss_pred ecEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCcc
Q 002267 562 GDITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQ 641 (945)
Q Consensus 562 ~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 641 (945)
+++++|++|.+.++||.||+....++++++..
T Consensus 107 ~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~------------------------------------------------ 138 (482)
T PRK10859 107 AGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQ------------------------------------------------ 138 (482)
T ss_pred ccCcCChhhhccCcccCCceeeeEEEEEeCCC------------------------------------------------
Confidence 88999999999999999999999999998765
Q ss_pred chhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCc
Q 002267 642 QLVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGS 721 (945)
Q Consensus 642 ~~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s 721 (945)
..+++++||. |++|++..|+
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 4678999997 8999999999
Q ss_pred hHHHHHHHhh-cccccc--ceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCccccccceEEEec
Q 002267 722 FAWNYLVDEL-KIAESR--LVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQEFTKSGWGFAFQ 798 (945)
Q Consensus 722 ~~~~~l~~~~-~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 798 (945)
.....+.... ..+... ...+.+.++++++|.+ |++|+++.+...+.+.... +.++.+........+++++++
T Consensus 159 ~~~~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~----G~iDa~v~d~~~~~~~~~~-~p~l~v~~~l~~~~~~~~av~ 233 (482)
T PRK10859 159 SHVETLQELKKKYPELSWEESDDKDSEELLEQVAE----GKIDYTIADSVEISLNQRY-HPELAVAFDLTDEQPVAWALP 233 (482)
T ss_pred cHHHHHHHHHHhCCCceEEecCCCCHHHHHHHHHC----CCCCEEEECcHHHHHHHHh-CCCceeeeecCCCceeEEEEe
Confidence 8887775321 112222 3446789999999999 9999999998776654333 556666544445567899999
Q ss_pred C-CCc-chHHHHHHHHhccccccHHHHHHHhcC
Q 002267 799 R-DSP-LAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 799 k-~sp-l~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
| +.+ |+..+|++|.++.++|.+++|.+||+.
T Consensus 234 k~~~~~L~~~ln~~L~~i~~~G~l~~L~~kyfg 266 (482)
T PRK10859 234 PSGDDSLYAALLDFFNQIKEDGTLARLEEKYFG 266 (482)
T ss_pred CCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHhh
Confidence 9 455 999999999999999999999999998
No 96
>PF00060 Lig_chan: Ligand-gated ion channel; InterPro: IPR001320 The ability of synapses to modify their synaptic strength in response to activity is a fundamental property of the nervous system and may be an essential component of learning and memory. There are three classes of ionotropic glutamate receptor, namely NMDA (N-methyl-D-aspartate), AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazole-4-propionic acid) and kainate receptors. They are believed to play critical roles in synaptic plasticity. At many synapses in the brain, transient activation of NMDA receptors leads to a persistent modification in the strength of synaptic transmission mediated by AMPA receptors and kainate receptors can act as the induction trigger for long-term changes in synaptic transmission [].; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 3FAT_A 3KFM_A 3KEI_A 3EN3_A 3EPE_B 3FAS_A 2F34_A 3C34_B 3S2V_A 3GBB_B ....
Probab=99.72 E-value=8.9e-19 Score=168.44 Aligned_cols=107 Identities=32% Similarity=0.538 Sum_probs=82.2
Q ss_pred chhhHHHHHHHHHHHHhhhheeecccCCCCCC-------CCccchhhHHHHHHHHhhccc-cCcccccchhhHHHHHHHH
Q 002267 606 TIPMWLVTGGFFLFVGAVVWILEHRFNNEFRG-------PPSQQLVTIFWFSFSTMFFSH-RENTVSSLGRVVLIVWLFV 677 (945)
Q Consensus 606 ~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~-~~~p~s~~~R~~~~~w~~~ 677 (945)
++++|++++++++++++++|++++..+.+++. ....++.+++|++++++++|+ ...|++.++|++.++|+++
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 57899999999999999999999988777665 233568899999999999665 5689999999999999999
Q ss_pred HHhhhhhhhhhhheeeeeccccCCCCChHHhhcCC
Q 002267 678 VLIINSSYTASLTSILTVQQLTSQIEGIDSLISST 712 (945)
Q Consensus 678 ~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~ 712 (945)
+++++++|+|+|+|+||.++++++|+|++||.+++
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 99999999999999999999999999999999766
No 97
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.70 E-value=5.5e-16 Score=200.52 Aligned_cols=216 Identities=15% Similarity=0.170 Sum_probs=178.1
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
++|+|++ .+.|+||.+.+. ++.+.||++|+++++++++|.+ ++++++ .+|..+...|.+|++|++.+ +
T Consensus 302 ~~l~v~~--~~~~pP~~~~d~-~g~~~G~~~Dll~~i~~~~g~~--~~~v~~------~~~~~~~~~l~~g~~D~i~~-~ 369 (1197)
T PRK09959 302 PDLKVLE--NPYSPPYSMTDE-NGSVRGVMGDILNIITLQTGLN--FSPITV------SHNIHAGTQLNPGGWDIIPG-A 369 (1197)
T ss_pred CceEEEc--CCCCCCeeEECC-CCcEeeehHHHHHHHHHHHCCe--EEEEec------CCHHHHHHHHHCCCceEeec-c
Confidence 5699988 677999999875 6899999999999999999976 666653 56888999999999998765 5
Q ss_pred EEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccchh
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQLV 644 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 644 (945)
..|++|.+.++||.||+.+..++++++...
T Consensus 370 ~~t~~r~~~~~fs~py~~~~~~~v~~~~~~-------------------------------------------------- 399 (1197)
T PRK09959 370 IYSEDRENNVLFAEAFITTPYVFVMQKAPD-------------------------------------------------- 399 (1197)
T ss_pred cCCccccccceeccccccCCEEEEEecCCC--------------------------------------------------
Confidence 679999999999999999999999875431
Q ss_pred hHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCchHH
Q 002267 645 TIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSFAW 724 (945)
Q Consensus 645 ~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~~~ 724 (945)
.+. ++. .|++||+..|+...
T Consensus 400 --------------------------------------------------------~~~---~~~-~g~~vav~~g~~~~ 419 (1197)
T PRK09959 400 --------------------------------------------------------SEQ---TLK-KGMKVAIPYYYELH 419 (1197)
T ss_pred --------------------------------------------------------Ccc---ccc-cCCEEEEeCCcchH
Confidence 111 222 48899999999888
Q ss_pred HHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCc-c-EEEeCccccccceEEEecCCCc
Q 002267 725 NYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNC-E-FRTVGQEFTKSGWGFAFQRDSP 802 (945)
Q Consensus 725 ~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~k~sp 802 (945)
+++... .+..+++.+++.++++++|.+ |++|+++.+.....|++++.+. + +......+....++|+++|+.|
T Consensus 420 ~~~~~~--~p~~~~~~~~~~~~~l~av~~----G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~~~ 493 (1197)
T PRK09959 420 SQLKEM--YPEVEWIKVDNASAAFHKVKE----GELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRGEP 493 (1197)
T ss_pred HHHHHH--CCCcEEEEcCCHHHHHHHHHc----CCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCCCH
Confidence 887653 355788999999999999999 9999999999999998877322 2 2333344556678999999988
Q ss_pred -chHHHHHHHHhccccccHHHHHHHhcC
Q 002267 803 -LAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 803 -l~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
|...+|++|..+.++ .+++|.+||+.
T Consensus 494 ~L~~~lnk~l~~i~~~-~~~~i~~kW~~ 520 (1197)
T PRK09959 494 ELKDIINKALNAIPPS-EVLRLTEKWIK 520 (1197)
T ss_pred HHHHHHHHHHHhCCHH-HHHHHHhhccc
Confidence 999999999999999 78899999987
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=99.69 E-value=4.6e-16 Score=163.03 Aligned_cols=209 Identities=17% Similarity=0.201 Sum_probs=156.1
Q ss_pred ceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHH---HHHHcCcccEEEe
Q 002267 486 PLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIV---QQVALNKFDAAVG 562 (945)
Q Consensus 486 ~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i---~~l~~g~~D~~~~ 562 (945)
+|+||+ .+.|+||.+.+. .||++||++++++++|++ +++++ ..|++++ ..|.+|++|++++
T Consensus 1 ~l~vg~--~~~~pPf~~~~~-----~Gfdvdl~~~ia~~lg~~--~~~~~-------~~~~~~~~~~~~L~~g~~Dii~~ 64 (246)
T TIGR03870 1 TLRVCA--ATKEAPYSTKDG-----SGFENKIAAALAAAMGRK--VVFVW-------LAKPAIYLVRDGLDKKLCDVVLG 64 (246)
T ss_pred CeEEEe--CCCCCCCccCCC-----CcchHHHHHHHHHHhCCC--eEEEE-------eccchhhHHHHHHhcCCccEEEe
Confidence 489999 567999998641 699999999999999987 55554 3477765 6999999999984
Q ss_pred cEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccc
Q 002267 563 DITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQ 642 (945)
Q Consensus 563 ~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 642 (945)
++++++| ++||.||+.++.++++++.+.
T Consensus 65 -~~~t~~r---~~fS~PY~~~~~~~v~~k~~~------------------------------------------------ 92 (246)
T TIGR03870 65 -LDTGDPR---VLTTKPYYRSSYVFLTRKDRN------------------------------------------------ 92 (246)
T ss_pred -CCCChHH---HhcccCcEEeeeEEEEeCCCC------------------------------------------------
Confidence 8777776 679999999999999998761
Q ss_pred hhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHH--hhcCCC-CeEEee
Q 002267 643 LVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDS--LISSTE-PIGVQD 719 (945)
Q Consensus 643 ~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~d--L~~~~~-~v~~~~ 719 (945)
..+++++| |. |+ +||+..
T Consensus 93 ---------------------------------------------------------~~~~~~~d~~L~--g~~~vgv~~ 113 (246)
T TIGR03870 93 ---------------------------------------------------------LDIKSWNDPRLK--KVSKIGVIF 113 (246)
T ss_pred ---------------------------------------------------------CCCCCccchhhc--cCceEEEec
Confidence 24677765 54 87 999999
Q ss_pred CchHHHHHHHhhccc-----cccceecC---------CHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccE--EE
Q 002267 720 GSFAWNYLVDELKIA-----ESRLVKLK---------NMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEF--RT 783 (945)
Q Consensus 720 ~s~~~~~l~~~~~~~-----~~~~~~~~---------~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~--~~ 783 (945)
|+....++++..... ..++..+. +..+++++|.. |++|+++.+.+.+.+++.+...++ ..
T Consensus 114 gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~----GrvDa~i~~~~~~~~~~~~~~~~~~~~~ 189 (246)
T TIGR03870 114 GSPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVAT----GKADLAVAFAPEVARYVKASPEPLRMTV 189 (246)
T ss_pred CChHHHHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHc----CCCCEEEeeHHhHHHHHHhCCCCceEEe
Confidence 999998886422110 11222222 35789999999 999999998777777766522223 23
Q ss_pred eCccc-------c--ccceEEEecCCCc-chHHHHHHHHhccccccHHHHHHHh
Q 002267 784 VGQEF-------T--KSGWGFAFQRDSP-LAIDLSTAILQLSENGDLQKIHNKW 827 (945)
Q Consensus 784 ~~~~~-------~--~~~~~~~~~k~sp-l~~~i~~~i~~l~e~G~~~~i~~~w 827 (945)
+.+.. . ..+++++++|+.+ |++.||++|.+|. |.+++|..+|
T Consensus 190 ~~~~~~~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 190 IPDDATRSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred ccccccccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 33221 1 1135899999998 9999999999999 4899999988
No 99
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=99.68 E-value=4.9e-16 Score=165.45 Aligned_cols=230 Identities=13% Similarity=0.154 Sum_probs=165.0
Q ss_pred CCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhC-CCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002267 484 GMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLL-PYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVG 562 (945)
Q Consensus 484 g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l-~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~ 562 (945)
.++|++++ .+|+||.+.+. ++...|+..++++++++++ +++++++. ..|++++.++ .|+.|.++.
T Consensus 17 ~~~l~~~~---~~~pPf~~~~~-~~~~~G~~~~i~~~i~~~~~~~~~~~~~---------~pw~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 17 KEAITWIV---NDFPPFFIFSG-PSKGRGVFDVILQEIRRALPQYEHRFVR---------VSFARSLKEL-QGKGGVCTV 82 (268)
T ss_pred cceeEEEe---cccCCeeEeCC-CCCCCChHHHHHHHHHHHcCCCceeEEE---------CCHHHHHHHH-hcCCCeEEe
Confidence 46899888 46788887653 5778999999999999998 87755554 4599999999 788888877
Q ss_pred cEEEecCcceeEEecccccc-cceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCcc
Q 002267 563 DITIVTNRTKLVDFTQPYME-SGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQ 641 (945)
Q Consensus 563 ~~~~t~~r~~~~dfs~p~~~-~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 641 (945)
++++|++|.+.++||.||+. ...++++++.....-
T Consensus 83 ~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~~-------------------------------------------- 118 (268)
T TIGR02285 83 NLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAGV-------------------------------------------- 118 (268)
T ss_pred eccCCcchhhceeecCCccccCCceEEEccchhhhc--------------------------------------------
Confidence 79999999999999999975 578888887541100
Q ss_pred chhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhc-CCCCeEEeeC
Q 002267 642 QLVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLIS-STEPIGVQDG 720 (945)
Q Consensus 642 ~~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~-~~~~v~~~~~ 720 (945)
..+.....++.+|.+ +|+++|+..|
T Consensus 119 ------------------------------------------------------~~~~d~~~~~~~l~~l~g~~vgv~~g 144 (268)
T TIGR02285 119 ------------------------------------------------------RDEQDGDVDLKKLLASKKKRLGVIAS 144 (268)
T ss_pred ------------------------------------------------------cccCCCCccHHHHhcCCCeEEEEecc
Confidence 000010112333321 3678999987
Q ss_pred chHHHHHHH---hhcc-ccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCC--c-cEEEeCccc--ccc
Q 002267 721 SFAWNYLVD---ELKI-AESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTN--C-EFRTVGQEF--TKS 791 (945)
Q Consensus 721 s~~~~~l~~---~~~~-~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~--~-~~~~~~~~~--~~~ 791 (945)
+.....+.+ ..+. ...++..+.+.++++++|.. |++|+++.+...+.+++++.. . .+....... ...
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~----GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (268)
T TIGR02285 145 RSYGQQIDDILSDSGYQHNTRIIGNAAMGNLFKMLEK----GRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHI 220 (268)
T ss_pred eeccHHHHHHHHhCCcccceeeeccchHHHHHHHHHc----CCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccce
Confidence 755333222 1111 11245556778889999999 999999999998888876422 1 344443211 223
Q ss_pred ceEEEecCCC---cchHHHHHHHHhccccccHHHHHHHhcC
Q 002267 792 GWGFAFQRDS---PLAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 792 ~~~~~~~k~s---pl~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
+++++++|+. .++..||++|.+|.++|.+++|.+||+.
T Consensus 221 ~~~i~~~k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~~~ 261 (268)
T TIGR02285 221 SVWVACPKTEWGRKVIADIDQALSELNVDPKYYKYFDRWLS 261 (268)
T ss_pred EEEEEeCCCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhCC
Confidence 5788999864 3999999999999999999999999997
No 100
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.66 E-value=3.7e-15 Score=160.00 Aligned_cols=225 Identities=22% Similarity=0.305 Sum_probs=181.0
Q ss_pred CCCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002267 483 NGMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVG 562 (945)
Q Consensus 483 ~g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~ 562 (945)
....++|++... ..+||.+.+.+.+.+.||++|+.+++++.++......+.+ ..|.+++..+..|++|+++.
T Consensus 32 ~~~~~~v~~~~~-~~~p~~~~~~~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~~ 103 (275)
T COG0834 32 ARGKLRVGTEAT-YAPPFEFLDAKGGKLVGFDVDLAKAIAKRLGGDKKVEFVP-------VAWDGLIPALKAGKVDIIIA 103 (275)
T ss_pred hcCeEEEEecCC-CCCCcccccCCCCeEEeeeHHHHHHHHHHhCCcceeEEec-------cchhhhhHHHhcCCcCEEEe
Confidence 456788888532 3448888775335999999999999999998764345543 57999999999999999999
Q ss_pred cEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccc
Q 002267 563 DITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQ 642 (945)
Q Consensus 563 ~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 642 (945)
.+++|.+|.+.++||.||+..+..+++++.+.
T Consensus 104 ~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~------------------------------------------------ 135 (275)
T COG0834 104 GMTITPERKKKVDFSDPYYYSGQVLLVKKDSD------------------------------------------------ 135 (275)
T ss_pred ccccCHHHhccccccccccccCeEEEEECCCC------------------------------------------------
Confidence 99999999999999999999999999988771
Q ss_pred hhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCch
Q 002267 643 LVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSF 722 (945)
Q Consensus 643 ~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~ 722 (945)
..+.+++||. |+++|++.|+.
T Consensus 136 ---------------------------------------------------------~~~~~~~DL~--gk~v~v~~gt~ 156 (275)
T COG0834 136 ---------------------------------------------------------IGIKSLEDLK--GKKVGVQLGTT 156 (275)
T ss_pred ---------------------------------------------------------cCcCCHHHhC--CCEEEEEcCcc
Confidence 1278999997 89999999998
Q ss_pred --HHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHH--hccCCcc-EEEeCccccc-cceEEE
Q 002267 723 --AWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELF--MSKTNCE-FRTVGQEFTK-SGWGFA 796 (945)
Q Consensus 723 --~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~-~~~~~~ 796 (945)
...... .......++.+++..+.+.+|.. |++|+++.+.+.+.+. ..+ ..+ .......... .+++++
T Consensus 157 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~al~~----Gr~Da~~~d~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~ 229 (275)
T COG0834 157 DEAEEKAK--KPGPNAKIVAYDSNAEALLALKN----GRADAVVSDSAVLAGLKLLKK-NPGLYVLLVFPGLSVEYLGIA 229 (275)
T ss_pred hhHHHHHh--hccCCceEEeeCCHHHHHHHHHc----CCccEEEcchHhhhhhhhhhc-CCCCceeeeccCCCcceeEEE
Confidence 333332 22334678889999999999999 9999999999988884 333 222 2233333333 689999
Q ss_pred ecCC--CcchHHHHHHHHhccccccHHHHHHHhcC
Q 002267 797 FQRD--SPLAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 797 ~~k~--spl~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
++++ ..+.+.+|+.|.++.++|.+++|.++|+.
T Consensus 230 ~~~~~~~~l~~~in~~l~~l~~~G~~~~i~~kw~~ 264 (275)
T COG0834 230 LRKGDDPELLEAVNKALKELKADGTLQKISDKWFG 264 (275)
T ss_pred eccCCcHHHHHHHHHHHHHHHhCccHHHHHHHhcC
Confidence 9998 46999999999999999999999999998
No 101
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=99.64 E-value=7.3e-15 Score=151.03 Aligned_cols=215 Identities=26% Similarity=0.448 Sum_probs=177.1
Q ss_pred eEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEE
Q 002267 487 LRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITI 566 (945)
Q Consensus 487 l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~ 566 (945)
|+|++. +.++||...+. ++...|++.|+++.+.+++|.+ +++.+ ..|.+++.+|.+|++|+++.....
T Consensus 1 l~i~~~--~~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~~ 68 (218)
T cd00134 1 LTVGTA--GTYPPFSFRDA-NGELTGFDVDLAKAIAKELGVK--VKFVE-------VDWDGLITALKSGKVDLIAAGMTI 68 (218)
T ss_pred CEEecC--CCCCCeeEECC-CCCEEeeeHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhcCCcCEEeecCcC
Confidence 578884 45788888764 7899999999999999999966 55554 339999999999999999987777
Q ss_pred ecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccchhhH
Q 002267 567 VTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQLVTI 646 (945)
Q Consensus 567 t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 646 (945)
+.+|...+.|+.|+.....++++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------------------------- 95 (218)
T cd00134 69 TPERAKQVDFSDPYYKSGQVILVKKGS----------------------------------------------------- 95 (218)
T ss_pred CHHHHhhccCcccceeccEEEEEECCC-----------------------------------------------------
Confidence 888988899999999999999998776
Q ss_pred HHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCchHHHH
Q 002267 647 FWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSFAWNY 726 (945)
Q Consensus 647 ~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~~~~~ 726 (945)
++.+++||. |.++++..|+....+
T Consensus 96 ------------------------------------------------------~~~~~~dl~--g~~i~~~~~~~~~~~ 119 (218)
T cd00134 96 ------------------------------------------------------PIKSVKDLK--GKKVAVQKGSTAEKY 119 (218)
T ss_pred ------------------------------------------------------CCCChHHhC--CCEEEEEcCchHHHH
Confidence 455889996 888999988877777
Q ss_pred HHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCcc--ccccceEEEecCCCc-c
Q 002267 727 LVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQE--FTKSGWGFAFQRDSP-L 803 (945)
Q Consensus 727 l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~k~sp-l 803 (945)
+.+... ...+..+.+.++.++.|.+ |++|+++.+.....+...+..+++.++... .....++++..++++ +
T Consensus 120 ~~~~~~--~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l 193 (218)
T cd00134 120 LKKALP--EAKVVSYDDNAEALAALEN----GRADAVIVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVAVGKDNKEL 193 (218)
T ss_pred HHHhCC--cccEEEeCCHHHHHHHHHc----CCccEEEeccHHHHHHHHhcCCCcEEeccccCCCccceEEEEcCCCHHH
Confidence 765332 3456778899999999999 899999999988888776623667777653 344556777777774 9
Q ss_pred hHHHHHHHHhccccccHHHHHHHhc
Q 002267 804 AIDLSTAILQLSENGDLQKIHNKWL 828 (945)
Q Consensus 804 ~~~i~~~i~~l~e~G~~~~i~~~w~ 828 (945)
...++++|.++.++|.++.+.+||+
T Consensus 194 ~~~~~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 194 LDAVNKALKELRADGELKKISKKWF 218 (218)
T ss_pred HHHHHHHHHHHHhCccHHHHHHhhC
Confidence 9999999999999999999999996
No 102
>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=99.64 E-value=2.1e-14 Score=152.87 Aligned_cols=217 Identities=24% Similarity=0.365 Sum_probs=179.2
Q ss_pred EEEEEeccC--CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHH
Q 002267 52 RIGALFTYD--SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 129 (945)
+||+++|.+ ..++.....|++.|++++ |..+++.+.|+++++....+.+.++..+++.+|||+.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI--------GRGLEVILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh--------CCceEEEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHH
Confidence 589999987 566677888999888887 4678889999999998888889999988999999999887776
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC-CcccchHHHHHHHHh
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD-DYGRNGISVLGDALS 208 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~l~ 208 (945)
.+...+...++|+|++....+... .+++++++.+++..++..+++++.+.+|+++++++.+. .++....+.+++.++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 688888999999999877665544 56899999999999999999999999999999999877 677788899999999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccC-CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCcc
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLM-ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPS 280 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~-~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~ 280 (945)
+.|.++......+.. ...++......+++. ++++|+++.. ..+..+++++++.|+.++++.|++.+.+..
T Consensus 151 ~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~~ 221 (269)
T cd01391 151 KAGIEVVAIEYGDLD-TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSPA 221 (269)
T ss_pred hcCcEEEeccccCCC-ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEecccccc
Confidence 999877654444421 225677777777766 6899988877 889999999999999855677887765543
No 103
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.64 E-value=3.7e-15 Score=192.89 Aligned_cols=222 Identities=13% Similarity=0.107 Sum_probs=182.5
Q ss_pred CCCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002267 483 NGMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVG 562 (945)
Q Consensus 483 ~g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~ 562 (945)
+.++|+||+ .+++.|+.+..+.++.+.||.+|+++.+++.+|.+ +++++. .+|.+++.++.+|++|++.+
T Consensus 54 ~~~~l~vgv--~~~~~p~~~~~~~~g~~~G~~~D~l~~ia~~lG~~--~e~v~~------~~~~~~l~~l~~g~iDl~~~ 123 (1197)
T PRK09959 54 SKKNLVIAV--HKSQTATLLHTDSQQRVRGINADYLNLLKRALNIK--LTLREY------ADHQKAMDALEEGEVDIVLS 123 (1197)
T ss_pred hCCeEEEEe--cCCCCCCceeecCCCccceecHHHHHHHHHhcCCc--eEEEeC------CCHHHHHHHHHcCCCcEecC
Confidence 456899999 44555554443237889999999999999999966 777653 47999999999999999999
Q ss_pred cEEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccc
Q 002267 563 DITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQ 642 (945)
Q Consensus 563 ~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 642 (945)
.++.+++|.+.++||.||+....++++++..
T Consensus 124 ~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~------------------------------------------------- 154 (1197)
T PRK09959 124 HLVASPPLNDDIAATKPLIITFPALVTTLHD------------------------------------------------- 154 (1197)
T ss_pred ccccccccccchhcCCCccCCCceEEEeCCC-------------------------------------------------
Confidence 8999999999999999999999999998765
Q ss_pred hhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCch
Q 002267 643 LVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSF 722 (945)
Q Consensus 643 ~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~ 722 (945)
.+++++|+. ++++++..|+.
T Consensus 155 ----------------------------------------------------------~~~~~~~l~--~~~i~~~~g~~ 174 (1197)
T PRK09959 155 ----------------------------------------------------------SMRPLTSSK--PVNIARVANYP 174 (1197)
T ss_pred ----------------------------------------------------------CCCCccccc--CeEEEEeCCCC
Confidence 355666774 78899999998
Q ss_pred HHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCc-cEEEeCcc-ccccceEEEecCC
Q 002267 723 AWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNC-EFRTVGQE-FTKSGWGFAFQRD 800 (945)
Q Consensus 723 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~k~ 800 (945)
..+++++. ++..+++.|++..+++++|.. |++|+++++...+.+++++... ++.++... .......++++++
T Consensus 175 ~~~~~~~~--~p~~~i~~~~s~~~al~av~~----G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 248 (1197)
T PRK09959 175 PDEVIHQS--FPKATIISFTNLYQALASVSA----GQNDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFLTRKE 248 (1197)
T ss_pred CHHHHHHh--CCCCEEEeCCCHHHHHHHHHc----CCCCEEEccHHHHHHHHhcccccceEEEeeccCCCCceeEEEcCC
Confidence 88888653 466889999999999999999 9999999999999998876322 45555322 2233456888999
Q ss_pred Cc-chHHHHHHHHhccccccHHHHHHHhcCC
Q 002267 801 SP-LAIDLSTAILQLSENGDLQKIHNKWLTY 830 (945)
Q Consensus 801 sp-l~~~i~~~i~~l~e~G~~~~i~~~w~~~ 830 (945)
.+ |...+|++|..+.++|.. +|.+||+..
T Consensus 249 ~~~L~~~lnkal~~i~~~~~~-~i~~kW~~~ 278 (1197)
T PRK09959 249 SVILNEVLNRFVDALTNEVRY-EVSQNWLDT 278 (1197)
T ss_pred cHHHHHHHHHHHHhCCHHHHH-HHHHhccCC
Confidence 88 889999999999999987 999999974
No 104
>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=99.63 E-value=9.3e-15 Score=152.36 Aligned_cols=212 Identities=15% Similarity=0.172 Sum_probs=159.0
Q ss_pred ceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEE
Q 002267 486 PLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDIT 565 (945)
Q Consensus 486 ~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~ 565 (945)
.||||+ .+.|+||.+.+ ..|+++||++++++++|.++++++.++ .+..++..+.+|++|++++
T Consensus 1 ~l~v~~--~~~~~P~~~~~-----~~G~~~el~~~i~~~~g~~i~~~~~~~-------~~~~~~~~l~~g~~Di~~~--- 63 (232)
T TIGR03871 1 ALRVCA--DPNNLPFSNEK-----GEGFENKIAQLLADDLGLPLEYTWFPQ-------RRGFVRNTLNAGRCDVVIG--- 63 (232)
T ss_pred CeEEEe--CCCCCCccCCC-----CCchHHHHHHHHHHHcCCceEEEecCc-------chhhHHHHHhcCCccEEEe---
Confidence 378888 56688887632 369999999999999998877766542 2344567899999999876
Q ss_pred EecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccchhh
Q 002267 566 IVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQLVT 645 (945)
Q Consensus 566 ~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 645 (945)
+++|.+.++||.||+..+.++++++.+.
T Consensus 64 -~~~r~~~~~fs~py~~~~~~lv~~~~~~--------------------------------------------------- 91 (232)
T TIGR03871 64 -VPAGYEMVLTTRPYYRSTYVFVTRKDSL--------------------------------------------------- 91 (232)
T ss_pred -ccCccccccccCCcEeeeEEEEEeCCCc---------------------------------------------------
Confidence 4678888999999999999999987751
Q ss_pred HHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCchHHH
Q 002267 646 IFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSFAWN 725 (945)
Q Consensus 646 ~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~~~~ 725 (945)
..+++++|+.-.+.+||+..|+...+
T Consensus 92 ------------------------------------------------------~~~~~~~d~~l~g~~V~v~~g~~~~~ 117 (232)
T TIGR03871 92 ------------------------------------------------------LDVKSLDDPRLKKLRIGVFAGTPPAH 117 (232)
T ss_pred ------------------------------------------------------ccccchhhhhhcCCeEEEEcCChHHH
Confidence 25778888322388999999999888
Q ss_pred HHHHhhccccccce---------ecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCcc------ccc
Q 002267 726 YLVDELKIAESRLV---------KLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQE------FTK 790 (945)
Q Consensus 726 ~l~~~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~------~~~ 790 (945)
++.+ .+.. .++. ...+..+.+.+|.. |++|+++.+.....+++++.+.++.+.... ...
T Consensus 118 ~l~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~----G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 191 (232)
T TIGR03871 118 WLAR-HGLV-ENVVGYSLFGDYRPESPPGRMVEDLAA----GEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFD 191 (232)
T ss_pred HHHh-cCcc-cccccccccccccccCCHHHHHHHHHc----CCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCcc
Confidence 8854 2221 1111 13477899999999 999999999888887776533344443321 123
Q ss_pred cceEEEecCCCc-chHHHHHHHHhccccccHHHHHHHhc
Q 002267 791 SGWGFAFQRDSP-LAIDLSTAILQLSENGDLQKIHNKWL 828 (945)
Q Consensus 791 ~~~~~~~~k~sp-l~~~i~~~i~~l~e~G~~~~i~~~w~ 828 (945)
.+++++++++.+ ++..||++|.++. |.+++|.+||.
T Consensus 192 ~~~~~~~~~~~~~l~~~~n~~l~~~~--~~~~~i~~kyg 228 (232)
T TIGR03871 192 YRIAMGVRKGDKAWKDELNAVLDRRQ--AEIDAILREYG 228 (232)
T ss_pred ceEEEEEecCCHHHHHHHHHHHHHHH--HHHHHHHHHcC
Confidence 457888998877 9999999999985 47999999994
No 105
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.63 E-value=1.6e-14 Score=148.36 Aligned_cols=216 Identities=25% Similarity=0.458 Sum_probs=180.0
Q ss_pred ceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEE
Q 002267 486 PLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDIT 565 (945)
Q Consensus 486 ~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~ 565 (945)
+|+||+. +.++||...+. ++...|+.+|+++.+.+++|.+ +++.+ ..|..++.++.+|++|++++...
T Consensus 1 ~l~v~~~--~~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 1 TLRVGTN--GDYPPFSFADE-DGELTGFDVDLAKAIAKELGLK--VEFVE-------VSFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred CEEEEec--CCCCCcEEECC-CCCcccchHHHHHHHHHHhCCe--EEEEe-------ccHHHHHHHHHCCcccEEecccc
Confidence 4889995 56788887664 6779999999999999999966 55555 35999999999999999998777
Q ss_pred EecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccchhh
Q 002267 566 IVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQLVT 645 (945)
Q Consensus 566 ~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 645 (945)
.+.+|...+.++.|+...+.++++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------------------------------------- 96 (219)
T smart00062 69 ITPERAKQVDFSDPYYKSGQVILVRKDS---------------------------------------------------- 96 (219)
T ss_pred CCHHHHhheeeccceeeceeEEEEecCC----------------------------------------------------
Confidence 7788888899999999999999988665
Q ss_pred HHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCchHHH
Q 002267 646 IFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSFAWN 725 (945)
Q Consensus 646 ~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~~~~ 725 (945)
++.+++||. |+++++..|+....
T Consensus 97 -------------------------------------------------------~~~~~~dL~--g~~i~~~~g~~~~~ 119 (219)
T smart00062 97 -------------------------------------------------------PIKSLEDLK--GKKVAVVAGTTGEE 119 (219)
T ss_pred -------------------------------------------------------CCCChHHhC--CCEEEEecCccHHH
Confidence 578999995 88999999888887
Q ss_pred HHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCC-ccEEEeCccccc-cceEEEecCCCc-
Q 002267 726 YLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTN-CEFRTVGQEFTK-SGWGFAFQRDSP- 802 (945)
Q Consensus 726 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~-~~~~~~~~k~sp- 802 (945)
++... ....++..+.+..+.+.+|.+ |++|+++...+...+...+.. +++.++...... ..++++++++++
T Consensus 120 ~~~~~--~~~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 193 (219)
T smart00062 120 LLKKL--YPEAKIVSYDSQAEALAALKA----GRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPE 193 (219)
T ss_pred HHHHh--CCCceEEEcCCHHHHHHHhhc----CcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCHH
Confidence 77543 233466778888999999999 999999999998888776622 467777655554 788999999987
Q ss_pred chHHHHHHHHhccccccHHHHHHHhc
Q 002267 803 LAIDLSTAILQLSENGDLQKIHNKWL 828 (945)
Q Consensus 803 l~~~i~~~i~~l~e~G~~~~i~~~w~ 828 (945)
+.+.+++.|.++.++|.++++.++|+
T Consensus 194 ~~~~~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 194 LLDKINKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred HHHHHHHHHHHHHhCchHHHHHhccC
Confidence 99999999999999999999999986
No 106
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=99.38 E-value=2.1e-11 Score=139.78 Aligned_cols=299 Identities=17% Similarity=0.210 Sum_probs=165.7
Q ss_pred CceEEEEEEeccCC---ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCC
Q 002267 48 PSSVRIGALFTYDS---VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQS 124 (945)
Q Consensus 48 ~~~i~IG~l~~l~~---~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~ 124 (945)
..+-+|++++|+++ ..|...+.|+..|. +... +.+.++.++||..+.. .....+.+.+|+..||||..
T Consensus 217 ~~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~~----~~~~~l~~~Dt~~~~~--~~~~~~a~~~ga~~ViGPL~ 287 (536)
T PF04348_consen 217 APPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YADA----DSRPELRFYDTNADSA--DALYQQAVADGADFVIGPLL 287 (536)
T ss_dssp -----EEEEE--SSTTHHHHHHHHHHHHHHH------T----T--S-EEEEETTTS-H--HHHHHHHHHTT--EEE---S
T ss_pred CCccCEEEEeCCCCchhHHHHHHHHHHHHhh---cccc----cCCCceEEecCCCCCH--HHHHHHHHHcCCCEEEcCCC
Confidence 34568999999994 44678888888888 2221 3567888999987633 33456677789999999998
Q ss_pred hhHHHHHHHhhcc--cCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHH
Q 002267 125 SGIAHVISHVVNE--LNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISV 202 (945)
Q Consensus 125 s~~~~~va~~~~~--~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 202 (945)
-.....++..-.. -.||++.....+.. .. -+.++...-+....+..+|+.+..-|+++..|++.++++|+...++
T Consensus 288 k~~V~~l~~~~~~~~~~vp~LaLN~~~~~-~~--~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~a 364 (536)
T PF04348_consen 288 KSNVEALAQLPQLQAQPVPVLALNQPDNS-QA--PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEA 364 (536)
T ss_dssp HHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHH
T ss_pred HHHHHHHHhcCcccccCCceeeccCCCcc-cC--ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHH
Confidence 8877777665542 58999987665543 11 2556666667777899999999999999999999999999999999
Q ss_pred HHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCCCcccc
Q 002267 203 LGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDWLPSVL 282 (945)
Q Consensus 203 l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~ 282 (945)
|.+.+++.|+.+.....+. ...++...++.-...+.|.|++.+.+.++..+--...-. .......+.++...+.
T Consensus 365 F~~~W~~~gg~~~~~~~~~---~~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~--~a~~lPvyatS~~~~g- 438 (536)
T PF04348_consen 365 FNQQWQALGGQVAEVSYYG---SPADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH--FAGDLPVYATSRSYSG- 438 (536)
T ss_dssp HHHHHHHHHSS--EEEEES---STTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT---T-TT-EEEE-GGG--H-
T ss_pred HHHHHHHcCCCceeeEecC---CHHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc--cCCCCCEEEeccccCC-
Confidence 9999999998887666665 457888888866667899999999999988887666432 1223334444322111
Q ss_pred CCCCCCChhHHhhhcceeEEEee-c--CCCchhhHHHHHHHhhhcCCCCCCCCchhHHHHHHHHHHHHHHHHHHHhcCCc
Q 002267 283 DSTEPVDIDTMNLLQGVVALRHH-T--PDTDLKKNFISRWKNLKYKENSPSGFNSYALYAYDSVWLVAHALDALLNEGGK 359 (945)
Q Consensus 283 ~~~~~~~~~~~~~~~G~~~~~~~-~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~ 359 (945)
..++.....++|+...... . +..+..+.+.+.|.+. ........+.+|||..++.+ +.
T Consensus 439 ----~~~~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~------~~~~~RL~AlG~DA~~L~~~-l~-------- 499 (536)
T PF04348_consen 439 ----SPNPSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNA------SNSLQRLYALGIDAYRLAPR-LP-------- 499 (536)
T ss_dssp ----HT-HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT-------HHHHHHHHHHHHHHHHHHT-HH--------
T ss_pred ----CCCcchhhhhcCCEEeccccccCCCchHHHHHHhhccCC------ccHHHHHHHHHHHHHHHHHH-HH--------
Confidence 1124455678998877543 2 2223333333333321 11122334566776554422 11
Q ss_pred ccccCCCCCCCCCCCccccCCccccCchHHHHHHHHhcccccceeeEEEccCCC
Q 002267 360 FTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQTLLRMNFTGLSGEIRFDADKN 413 (945)
Q Consensus 360 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~sG~v~fd~~g~ 413 (945)
-++.+....+.|.||.+++|++|.
T Consensus 500 ------------------------------~l~~~~~~~~~G~TG~L~~~~~g~ 523 (536)
T PF04348_consen 500 ------------------------------QLRQFPGYRLDGLTGQLSLDEDGR 523 (536)
T ss_dssp ------------------------------HHHHSTT--EEETTEEEEE-TT-B
T ss_pred ------------------------------HHhhCCCCcccCCceeEEECCCCe
Confidence 122333456999999999999885
No 107
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.33 E-value=7e-12 Score=118.08 Aligned_cols=123 Identities=34% Similarity=0.524 Sum_probs=106.9
Q ss_pred CCCChHHhhcC-CCCeEEeeCchHHHHHHHhhccc------c---ccceecCCHHHHHHHHhcCCCCCceeEEecchhhH
Q 002267 701 QIEGIDSLISS-TEPIGVQDGSFAWNYLVDELKIA------E---SRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYI 770 (945)
Q Consensus 701 ~i~~~~dL~~~-~~~v~~~~~s~~~~~l~~~~~~~------~---~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~ 770 (945)
+|++++||..+ +.+||++.|++...++++..... . .+++.+++..+++.+|.. |+ ||++.+.+.+
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 47899999843 37899999999999986533210 0 256678999999999999 89 9999999999
Q ss_pred HHHhccCCccEEEeCccccccceEEEecCCCcchHHHHHHHHhccccccHHHHHHHhcC
Q 002267 771 ELFMSKTNCEFRTVGQEFTKSGWGFAFQRDSPLAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 771 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
.++.++ .|++.++++.+...+++++++|+++|++.+|.+|.++.++|.++++.++|+.
T Consensus 76 ~~~~~~-~~~~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 76 DYELSQ-NCDLMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred HHHHhC-CCCeEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 998887 7999999888888899999999999999999999999999999999999985
No 108
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.32 E-value=1.4e-11 Score=125.91 Aligned_cols=219 Identities=17% Similarity=0.146 Sum_probs=176.2
Q ss_pred CCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002267 484 GMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGD 563 (945)
Q Consensus 484 g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 563 (945)
.+.|||++.+. |..+... ++...|+++++.+++++.||.+ .+..+. .+-+.++.+|.+|++|++..+
T Consensus 22 rGvLrV~tins----p~sy~~~-~~~p~G~eYelak~Fa~yLgV~--Lki~~~------~n~dqLf~aL~ng~~DL~Aag 88 (473)
T COG4623 22 RGVLRVSTINS----PLSYFED-KGGPTGLEYELAKAFADYLGVK--LKIIPA------DNIDQLFDALDNGNADLAAAG 88 (473)
T ss_pred cCeEEEEeecC----ccceecc-CCCccchhHHHHHHHHHHhCCe--EEEEec------CCHHHHHHHHhCCCcceeccc
Confidence 46799999766 3333222 4566799999999999999966 555553 567999999999999999999
Q ss_pred EEEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccch
Q 002267 564 ITIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQL 643 (945)
Q Consensus 564 ~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 643 (945)
+....+|.+.+.....|+..+..+|.++..
T Consensus 89 l~~~~~~l~~~~~gP~y~svs~qlVyRkG~-------------------------------------------------- 118 (473)
T COG4623 89 LLYNSERLKNFQPGPTYYSVSQQLVYRKGQ-------------------------------------------------- 118 (473)
T ss_pred ccCChhHhcccCCCCceecccHHHHhhcCC--------------------------------------------------
Confidence 999999999999999999999999988877
Q ss_pred hhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCchH
Q 002267 644 VTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGSFA 723 (945)
Q Consensus 644 ~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s~~ 723 (945)
...+++++|. |..+.+..|+..
T Consensus 119 --------------------------------------------------------~Rp~~l~~L~--g~~i~v~~gs~~ 140 (473)
T COG4623 119 --------------------------------------------------------YRPRSLGQLK--GRQITVAKGSAH 140 (473)
T ss_pred --------------------------------------------------------CCCCCHHHcc--CceeeccCCcHH
Confidence 4567889997 777888899876
Q ss_pred HHHHHHhh--ccccccceec---CCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCccccccceEEEec
Q 002267 724 WNYLVDEL--KIAESRLVKL---KNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQEFTKSGWGFAFQ 798 (945)
Q Consensus 724 ~~~l~~~~--~~~~~~~~~~---~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 798 (945)
.+.++... ..| ..+... .+.+|.++.|.. |.+++.+.+...+..+-+- ++++.+.-+.-...+.++++|
T Consensus 141 ~~~l~~lk~~kyP-~l~~k~d~~~~~~dLle~v~~----Gkldytiads~~is~~q~i-~P~laVafd~tde~~v~Wy~~ 214 (473)
T COG4623 141 VEDLKLLKETKYP-ELIWKVDDKLGVEDLLEMVAE----GKLDYTIADSVEISLFQRV-HPELAVAFDLTDEQPVAWYLP 214 (473)
T ss_pred HHHHHHHHHhhcc-hhhhhhcccccHHHHHHHHhc----CCcceeeeccHHHHHHHHh-CccceeeeecccccCceeecc
Confidence 66554321 122 222222 367899999999 9999999999988887555 778877766666688999999
Q ss_pred CCCc--chHHHHHHHHhccccccHHHHHHHhcC
Q 002267 799 RDSP--LAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 799 k~sp--l~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
++.. |...++..+..+.|.|.++++++||++
T Consensus 215 ~~dd~tL~a~ll~F~~~~~e~g~larleeky~g 247 (473)
T COG4623 215 RDDDSTLSAALLDFLNEAKEDGLLARLEEKYLG 247 (473)
T ss_pred CCchHHHHHHHHHHHHHhhcchHHHHHHHHHhc
Confidence 9644 999999999999999999999999997
No 109
>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=98.91 E-value=1.6e-08 Score=107.01 Aligned_cols=199 Identities=16% Similarity=0.128 Sum_probs=140.3
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
.+|+||+ .+.+.|+.. .+...++.+.+++++|.+++++.. ++|+.++..+..|++|+++.+.
T Consensus 32 ~~l~vg~--~~~~~~~~~--------~~~~~~l~~~l~~~~g~~v~~~~~--------~~~~~~~~~l~~g~~Di~~~~~ 93 (254)
T TIGR01098 32 KELNFGI--LPGENASNL--------TRRWEPLADYLEKKLGIKVQLFVA--------TDYSAVIEAMRFGRVDIAWFGP 93 (254)
T ss_pred CceEEEE--CCCCCHHHH--------HHHHHHHHHHHHHHhCCcEEEEeC--------CCHHHHHHHHHcCCccEEEECc
Confidence 5799999 444544432 345679999999999987544432 5799999999999999998655
Q ss_pred EEec---CcceeEEeccccccc------ceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCC
Q 002267 565 TIVT---NRTKLVDFTQPYMES------GLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEF 635 (945)
Q Consensus 565 ~~t~---~r~~~~dfs~p~~~~------~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~ 635 (945)
.... +|....+|+.||... ...+++++..
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~------------------------------------------ 131 (254)
T TIGR01098 94 SSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADS------------------------------------------ 131 (254)
T ss_pred HHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCC------------------------------------------
Confidence 4332 456667788876543 2456666543
Q ss_pred CCCCccchhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCe
Q 002267 636 RGPPSQQLVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPI 715 (945)
Q Consensus 636 ~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v 715 (945)
+|++++||. |++|
T Consensus 132 -----------------------------------------------------------------~i~~~~dL~--gk~I 144 (254)
T TIGR01098 132 -----------------------------------------------------------------PIKSLKDLK--GKTF 144 (254)
T ss_pred -----------------------------------------------------------------CCCChHHhc--CCEE
Confidence 688999996 8889
Q ss_pred EEee-CchH-----HHHHHHhhcccc----ccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCC---ccEE
Q 002267 716 GVQD-GSFA-----WNYLVDELKIAE----SRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTN---CEFR 782 (945)
Q Consensus 716 ~~~~-~s~~-----~~~l~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~---~~~~ 782 (945)
++.. ++.. ..++.+..+... .++....+..+.+++|.+ |++|+.+.+.+....+..+.. -++.
T Consensus 145 ~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~----G~~Da~~~~~~~~~~~~~~~~~~~~~~~ 220 (254)
T TIGR01098 145 AFGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVAN----GKVDAATNNSSAIGRLKKRGPSDMKKVR 220 (254)
T ss_pred EeeCCCCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHc----CCCCeEEecHHHHHHHHHhCccchhheE
Confidence 9874 3321 233443333221 345555667889999999 999999999888877665521 2577
Q ss_pred EeCccccccceEEEecCC-Cc-chHHHHHHHHhc
Q 002267 783 TVGQEFTKSGWGFAFQRD-SP-LAIDLSTAILQL 814 (945)
Q Consensus 783 ~~~~~~~~~~~~~~~~k~-sp-l~~~i~~~i~~l 814 (945)
++.+.....+++++++++ .+ +++.+|++|+.|
T Consensus 221 ~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 221 VIWKSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred EEEecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 887666666789999999 54 999999999764
No 110
>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=98.89 E-value=7.5e-08 Score=102.29 Aligned_cols=205 Identities=12% Similarity=0.041 Sum_probs=147.5
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
+||+++|.+ ..+......|++.++++. | +++.+.|+.+++....+.+.+++.+++.+||+...+.....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~--------g--~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA--------G--YQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc--------C--CeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh
Confidence 589999985 555567778888777772 4 45567788888888888888888889998887666555544
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC--cccchHHHHHHHHh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD--YGRNGISVLGDALS 208 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 208 (945)
..+.+...++|+|.+....+. .+++++...++...+..+++++...+-++|+++..+.. ++....+.+++.++
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 577888899999998665442 25667788888889999999998888999999986544 56667889999998
Q ss_pred hcC-cEEEEeecCCCCCChHHHHHHHHhhccCC--ceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 209 KKR-AKISYKAPFSPGASRSAINSLLVGANLME--SRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 209 ~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+.| .++....... .+.++....+.++.+.+ +++++... ...+..+++++.+.|+..++.+-+.
T Consensus 146 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~-~~~a~~~~~~~~~~g~~i~~~i~i~ 211 (264)
T cd01537 146 EAGPIEIVLVQEGD--WDAEKGYQAAEELLTAHPDPTAIFAAN-DDMALGALRALREAGLRVPDDISVI 211 (264)
T ss_pred HcCCcChhhhccCC--CCHHHHHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHhCCCCCCCeEEE
Confidence 887 4443322222 35566667777776665 55665543 3567778899999998644434333
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=98.81 E-value=5e-07 Score=96.20 Aligned_cols=205 Identities=13% Similarity=0.093 Sum_probs=140.4
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCCh-hHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSS-GIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~~~ 129 (945)
+||++.|.. ..+......+++.++++. | +++.+.|+..++........+++.+++.+||+...+ ....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~--------g--~~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL--------G--VELIVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc--------C--ceEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 589999874 555567788888887772 4 444556777788888888888888899988764333 3333
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeC--CcccchHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDD--DYGRNGISVLGD 205 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 205 (945)
...+.+...++|+|......+. .+.+..+.+++...+..+++++... |-+++++++.+. .++....+.+++
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 3556667789999987554332 1345566777777788888887666 889999998654 477777899999
Q ss_pred HHhhc-CcEEEEeecCCCCCChHHHHHHHHhhccCCc--eEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEe
Q 002267 206 ALSKK-RAKISYKAPFSPGASRSAINSLLVGANLMES--RVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIAT 275 (945)
Q Consensus 206 ~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~--~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 275 (945)
.+++. |.++....... .+..+....+.++.+..+ ++|+. ++...+..+++++++.|+. ++...++.
T Consensus 146 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~i~~-~~d~~a~~~~~~l~~~g~~-~~i~ivg~ 214 (267)
T cd01536 146 ALKEYPDIEIVAVQDGN--WDREKALQAMEDLLQANPDIDAIFA-ANDSMALGAVAALKAAGRK-GDVKIVGV 214 (267)
T ss_pred HHHhCCCcEEEEEecCC--CcHHHHHHHHHHHHHhCCCccEEEE-ecCCchHHHHHHHHhcCCC-CCceEEec
Confidence 99998 46665433222 344556677777765544 44443 4446777899999999875 34444443
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=98.73 E-value=5.1e-07 Score=95.84 Aligned_cols=205 Identities=11% Similarity=0.009 Sum_probs=140.4
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
+||++.|.. ..+......+++.+.++. |+++ .+.|...++.+..+...+++.+++.+|+....+..+..
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 488999885 555556677777777662 4444 45677788888888888999889988887666555555
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHHHHHh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLGDALS 208 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 208 (945)
.+.+...++|+|.+....+. +.+.....++...+..+++++...|.+++++++.+. .++....+.+.+.++
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 66788899999987654332 345566777777888888888777999999998654 366677788999998
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccCC--ceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLME--SRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+.|..+..........+..+....+.++.... +++|+. .+...+..+.+++++.|+..++.+.+.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~~~~i~i~ 210 (264)
T cd06267 144 EAGIPLDEELIVEGDFSEESGYEAARELLASGERPTAIFA-ANDLMAIGALRALRELGLRVPEDVSVV 210 (264)
T ss_pred HcCCCCCcceEEecccchhhHHHHHHHHHhcCCCCcEEEE-cCcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 88853322111221123455566666666555 566664 355567788888999898644444333
No 113
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.72 E-value=5.9e-08 Score=103.44 Aligned_cols=164 Identities=20% Similarity=0.227 Sum_probs=132.2
Q ss_pred CCHHHHHHHHHcCcccEEEecEEEecCcceeEEeccc--ccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHH
Q 002267 543 PIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQP--YMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFV 620 (945)
Q Consensus 543 ~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p--~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~ 620 (945)
.+|.+++..|.+|++|+++.+..++.+|.+.++|+.| |....+++++|...
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 4589999999999999999999989999888999988 77788888888765
Q ss_pred HhhhheeecccCCCCCCCCccchhhHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccC
Q 002267 621 GAVVWILEHRFNNEFRGPPSQQLVTIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTS 700 (945)
Q Consensus 621 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~ 700 (945)
T Consensus 104 -------------------------------------------------------------------------------- 103 (287)
T PRK00489 104 -------------------------------------------------------------------------------- 103 (287)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCChHHhhcCCCCeEEeeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCcc
Q 002267 701 QIEGIDSLISSTEPIGVQDGSFAWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCE 780 (945)
Q Consensus 701 ~i~~~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~ 780 (945)
+|++++||. |+++++..+.....++.+ .+. ..+++.+.+..|. ++.. |..|++++..........+ +
T Consensus 104 ~i~sl~DL~--Gk~ia~~~~~~~~~~l~~-~gi-~~~iv~~~gs~ea--a~~~----G~aDaivd~~~~~~~l~~~---~ 170 (287)
T PRK00489 104 DWQGVEDLA--GKRIATSYPNLTRRYLAE-KGI-DAEVVELSGAVEV--APRL----GLADAIVDVVSTGTTLRAN---G 170 (287)
T ss_pred CCCChHHhC--CCEEEEcCcHHHHHHHHH-cCC-ceEEEECCCchhh--hhcC----CcccEEEeeHHHHHHHHHC---C
Confidence 578899996 889999888888888854 343 2456667666664 5555 8999999887777765543 4
Q ss_pred EEEeCccccccceEEEecC--CCc-chHHHHHHHHhccccccHHHHHHHhcC
Q 002267 781 FRTVGQEFTKSGWGFAFQR--DSP-LAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 781 ~~~~~~~~~~~~~~~~~~k--~sp-l~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
+.++ +.+.....+++.+| .+| ....++..+.++ .|.+..+.+|||.
T Consensus 171 L~~v-~~~~~~~~~li~~k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~ 219 (287)
T PRK00489 171 LKIV-EVILRSEAVLIARKGWLDPEKQEKIDQLLTRL--QGVLRARESKYLM 219 (287)
T ss_pred CEEE-EeeeeeeEEEEEcccccChhHHHHHHHHHHHH--HHHHHhhceEEEE
Confidence 6666 46666778999998 666 788899999999 5999999999998
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=98.70 E-value=9.8e-07 Score=94.85 Aligned_cols=201 Identities=13% Similarity=0.092 Sum_probs=137.2
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVI 131 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 131 (945)
+||++.+.+..+-.....|++ +++++.|+.+ |.++++.+.|+..++........+++++++.+||+..++. ....
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 589999866443334444444 5666666654 7999999999999999988888899888999999865432 2222
Q ss_pred HHhhcccCccEEecccCCCCCC----CCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeC-CcccchHHHHH
Q 002267 132 SHVVNELNVPLLSFGATDPTLT----SLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDD-DYGRNGISVLG 204 (945)
Q Consensus 132 a~~~~~~~iP~Is~~a~~~~ls----~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~ 204 (945)
.....++|+|.++..++... ....+....+..++...+..+++++... |.+++++++.+. .++....+.++
T Consensus 76 --~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 --ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred --HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 25677999998765433211 1111222223445666677788887765 999999998653 36667788999
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCC
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGM 265 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~ 265 (945)
+.+++.|+++.... . .+..++...++++.. ++|+|+...+ ..+..+++++++.|+
T Consensus 154 ~~~~~~g~~~~~~~-~---~~~~~~~~~~~~~~~-~~dai~~~~d-~~a~~~~~~~~~~~~ 208 (281)
T cd06325 154 KAAAKLGIEVVEAT-V---SSSNDVQQAAQSLAG-KVDAIYVPTD-NTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHhCCCEEEEEe-c---CCHHHHHHHHHHhcc-cCCEEEEcCc-hhHHhHHHHHHHHHH
Confidence 99999999876532 2 245667777888764 3687776544 466678888887765
No 115
>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=98.63 E-value=3.6e-06 Score=89.99 Aligned_cols=201 Identities=12% Similarity=0.070 Sum_probs=137.1
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhH-HH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGI-AH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~-~~ 129 (945)
|||+++|.. ..+-.....|++.++++. +. .|+++++.+.|+..++....+...+++.+++.+||....+.. ..
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 589998754 222234555665555542 11 267889999999999998888888999889999887444432 23
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEe--CCcccchHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVD--DDYGRNGISVLGD 205 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d--~~~g~~~~~~l~~ 205 (945)
.....+...++|+|.+....+ . +.+.++.+++...+..+++++... |-++++++..+ ...+....+.+++
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 345666778999998754321 1 456778888888888899887665 78899999743 3345566788999
Q ss_pred HHhhcC-cEEEEeecCCCCCChHHHHHHHHhhccCCc--eEEEEEcChhhHHHHHHHHHhCCCCC
Q 002267 206 ALSKKR-AKISYKAPFSPGASRSAINSLLVGANLMES--RVFVVHVNPDTGLTIFSVAKSLGMTA 267 (945)
Q Consensus 206 ~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~--~vivl~~~~~~~~~~~~~a~~~g~~~ 267 (945)
++++.+ +++......+ .+.++....+.++.+..+ ++|+...+ . +..+++++++.|+..
T Consensus 150 a~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d-~-A~g~~~al~~~g~~~ 210 (272)
T cd06300 150 VLKEYPGIKIVGEVYGD--WDQAVAQKAVADFLASNPDVDGIWTQGG-D-AVGAVQAFEQAGRDI 210 (272)
T ss_pred HHHHCCCcEEEeecCCC--CCHHHHHHHHHHHHHhCCCcCEEEecCC-C-cHHHHHHHHHcCCCC
Confidence 999887 7765432222 344556667777765544 55444433 3 889999999999844
No 116
>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=98.62 E-value=2.3e-08 Score=77.80 Aligned_cols=47 Identities=21% Similarity=0.460 Sum_probs=37.8
Q ss_pred CCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCC-----CCCCCHHHHHHHHHc
Q 002267 506 SPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNG-----KRNPIYNDIVQQVAL 554 (945)
Q Consensus 506 ~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~-----~~~~~~~~~i~~l~~ 554 (945)
++.++.|||+||+++|++.|||+ |++...+++ .+|++|+|++++|.+
T Consensus 14 g~~~~eGyciDll~~la~~l~F~--y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 14 GNDRYEGYCIDLLEELAEELNFT--YEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp GGGGEESHHHHHHHHHHHHHT-E--EEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CCccEEEEHHHHHHHHHHHcCCe--EEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 46789999999999999999998 666654443 368999999999874
No 117
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.57 E-value=4.5e-06 Score=90.21 Aligned_cols=296 Identities=15% Similarity=0.154 Sum_probs=183.1
Q ss_pred CCceEEEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccC
Q 002267 47 RPSSVRIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQ 123 (945)
Q Consensus 47 ~~~~i~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~ 123 (945)
...+=+|++++|++ +..|.....|+..|-. -|+.. ++-..++.++||...+..++ ..+....++..||||.
T Consensus 254 ~~~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~~---~~~~~~~~i~dT~~~~l~~i--~aqaqq~G~~~VVGPL 327 (604)
T COG3107 254 QASPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APATQ---TAQVAELKIYDTSAQPLDAI--LAQAQQDGADFVVGPL 327 (604)
T ss_pred cCCchheeEEeccCChhHHHHHHHHHHHHHhcc-CcccC---CccccceeeccCCcccHHHH--HHHHHhcCCcEEeccc
Confidence 34567999999999 5567788888887765 12221 23337888999987665543 2233445999999999
Q ss_pred ChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHH
Q 002267 124 SSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVL 203 (945)
Q Consensus 124 ~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 203 (945)
.-.....+..--. ..||++....++.. ...+.+....-+....++..|+.+-.-|.+...++.+.+++|+..+++|
T Consensus 328 lK~nVe~L~~~~q-~~i~vLALN~~~n~---r~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~AF 403 (604)
T COG3107 328 LKPNVEALLASNQ-QPIPVLALNQPENS---RNPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLGDRVANAF 403 (604)
T ss_pred cchhHHHHHhCcC-CCCceeeecCCccc---cCcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHHHHHHHHH
Confidence 9888776654443 67888865433321 1234444445555556888889888889999999999999999999999
Q ss_pred HHHHhhcCcEEEEeecCCCCCChHHHHHHH-----------------------HhhccCC-ceEEEEEcChhhHHHHHHH
Q 002267 204 GDALSKKRAKISYKAPFSPGASRSAINSLL-----------------------VGANLME-SRVFVVHVNPDTGLTIFSV 259 (945)
Q Consensus 204 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l-----------------------~~l~~~~-~~vivl~~~~~~~~~~~~~ 259 (945)
.+++++.|...+....+. +..+...-+ ..+.+.. .|.|++...+.++..|=-.
T Consensus 404 ~~~Wq~~gg~~v~~~~fg---~~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~IKP~ 480 (604)
T COG3107 404 NQEWQKLGGGTVLQQKFG---STSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELALIKPM 480 (604)
T ss_pred HHHHHHhcCCchhHhhcC---cHHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhHHhhH
Confidence 999999988444333332 111111111 1122233 7888888888887766554
Q ss_pred HHhCCCCCCCeEEEEeCCCccccCCCCCCChhHHhhhcceeEEEe-e--cCCCchhhHHHHHHHhhhcCCCCCCCCchhH
Q 002267 260 AKSLGMTAGSYVWIATDWLPSVLDSTEPVDIDTMNLLQGVVALRH-H--TPDTDLKKNFISRWKNLKYKENSPSGFNSYA 336 (945)
Q Consensus 260 a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~-~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 336 (945)
..-.+.... -..+.++-.. ....+ ++....++|+..-.. + .+..+..++....|...
T Consensus 481 ia~~~~~~~-~p~yaSSr~~--~gT~~---P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~~-------------- 540 (604)
T COG3107 481 IAMANGSDS-PPLYASSRSS--QGTNG---PDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPND-------------- 540 (604)
T ss_pred HHhhcCCCC-cceeeecccc--ccCCC---ccHHHhccCccccCCchhcCCCchHHHHHHHhcCCc--------------
Confidence 443332221 1223333211 12222 466677888754322 2 23455566666665542
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCcccccCCCCCCCCCCCccccCCccccCchHHHHHH------HHhcccccceeeEEEcc
Q 002267 337 LYAYDSVWLVAHALDALLNEGGKFTFSNDPKLHDTNGSMLNLSSLRVFDGGQQFLQT------LLRMNFTGLSGEIRFDA 410 (945)
Q Consensus 337 ~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~------l~~~~f~G~sG~v~fd~ 410 (945)
|-.+.++|.+++.- .|..+ ..+...+|+||.++.|+
T Consensus 541 ---~sl~RLyAmGvDAw-----------------------------------rLan~f~elrqV~G~~i~G~TG~Lsad~ 582 (604)
T COG3107 541 ---YSLARLYAMGVDAW-----------------------------------RLANHFSELRQVPGYQIDGLTGTLSADP 582 (604)
T ss_pred ---hHHHHHHHhcchHH-----------------------------------HHHHHhHHhhcCCCcccccccceeecCC
Confidence 44556666666651 22222 22345789999999998
Q ss_pred CCC
Q 002267 411 DKN 413 (945)
Q Consensus 411 ~g~ 413 (945)
+..
T Consensus 583 ~c~ 585 (604)
T COG3107 583 DCV 585 (604)
T ss_pred Cce
Confidence 874
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=98.56 E-value=1e-05 Score=86.54 Aligned_cols=207 Identities=10% Similarity=0.026 Sum_probs=132.2
Q ss_pred EEEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EccCChhHHH
Q 002267 52 RIGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAA-IGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~~~ 129 (945)
+||++.|- +..+-.....+++.+.++. |+++.+...|+..++..-.+....+++++|.+| +.|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKL--------GVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHh--------CCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH
Confidence 58999984 4444345666777777662 678887777777788777777788888888874 5665544444
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeC--CcccchHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDD--DYGRNGISVLGD 205 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 205 (945)
.....+.+.++|+|.+....+ ....+ .+..++...+..+++++... |.++++++.... .......+.+.+
T Consensus 73 ~~~~~~~~~~iPvV~~~~~~~---~~~~~---~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 73 PAVERAKKKGIPVVNVNDKLI---PNATA---FVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHHHCCCeEEEECCCCC---Cccce---EEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 455667788999998654321 11112 24566666688888877655 889999997532 223444688999
Q ss_pred HHhhc-CcEEEEeecCCCCCChHHHHHHHHhhccCCceEEE-EEcChhhHHHHHHHHHhCCCCCCCeEEEEe
Q 002267 206 ALSKK-RAKISYKAPFSPGASRSAINSLLVGANLMESRVFV-VHVNPDTGLTIFSVAKSLGMTAGSYVWIAT 275 (945)
Q Consensus 206 ~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv-l~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 275 (945)
++++. |+++....... .+..+....++++....+++-. ++.+...+..+++++++.|.. ++...++.
T Consensus 147 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~-~di~vig~ 215 (275)
T cd06320 147 AIKKASGIEVVASQPAD--WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ-GKVLVVGT 215 (275)
T ss_pred HHhhCCCcEEEEecCCC--ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC-CCeEEEec
Confidence 99998 98875432211 2334445566665544443322 334556677788888998875 33334433
No 119
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.48 E-value=3e-05 Score=79.93 Aligned_cols=203 Identities=12% Similarity=0.088 Sum_probs=142.1
Q ss_pred CCceEEEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCc-EEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCCh
Q 002267 47 RPSSVRIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGT-TLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSS 125 (945)
Q Consensus 47 ~~~~i~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~-~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s 125 (945)
..++++||+....+.+.-.....|++-|+.+. |+ .+++.+...++|+..+.+.++++..++.++|++-. +
T Consensus 27 ~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~--------G~~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~i~-t 97 (322)
T COG2984 27 AADQITVAITQFVEHPALDAAREGVKEALKDA--------GYKNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVAIA-T 97 (322)
T ss_pred cccceeEEEEEeecchhHHHHHHHHHHHHHhc--------CccCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEecC-C
Confidence 34567899998887555456778888888775 34 68888899999999999999999998777777643 3
Q ss_pred hHHHHHHHhhcccCccEEecccCCCCCCC--C--CCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEe-CCcccc
Q 002267 126 GIAHVISHVVNELNVPLLSFGATDPTLTS--L--QYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVD-DDYGRN 198 (945)
Q Consensus 126 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~--~--~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d-~~~g~~ 198 (945)
..+..+..-. .++|+|-.+.+++.-.. + .-|---=|.-||..-...-.++++.. +.++|+++|.. .+....
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 3444333332 33999976666654322 1 12222335566766666667777664 88999999965 447788
Q ss_pred hHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChh---hHHHHHHHHHhCCC
Q 002267 199 GISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPD---TGLTIFSVAKSLGM 265 (945)
Q Consensus 199 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~---~~~~~~~~a~~~g~ 265 (945)
..+.++..+++.|++|... .++ +..|+...++.+. .++|+|++.++.. ....++..+.+.+.
T Consensus 176 l~eelk~~A~~~Gl~vve~-~v~---~~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 176 LVEELKKEARKAGLEVVEA-AVT---SVNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHCCCEEEEE-ecC---cccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhCC
Confidence 8999999999999998754 332 4566777777665 6789999987543 34455666776664
No 120
>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=98.38 E-value=2.6e-05 Score=82.99 Aligned_cols=200 Identities=13% Similarity=0.096 Sum_probs=126.5
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||+++|-. ..+-.....+++.++++. |+.+.+ .++..++....+...+++.+++.+||....+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 70 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARAA--------GYSLLL--ATTDYDAEREADAVETLLRQRVDGLILTVADAATSP 70 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHHC--------CCEEEE--eeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCchH
Confidence 378888753 333334555666555441 555554 456667777777777888888988885333322233
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe---CCcccchHHHHHHHH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD---DDYGRNGISVLGDAL 207 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d---~~~g~~~~~~l~~~l 207 (945)
....+...++|+|......+ ...+++ ..++...+..+++++...|.++++++..+ .+++....+.+.+.+
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~----~~~~~v---~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (266)
T cd06282 71 ALDLLDAERVPYVLAYNDPQ----PGRPSV---SVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRARQRYAGYRAAM 143 (266)
T ss_pred HHHHHhhCCCCEEEEeccCC----CCCCEE---eeCcHHHHHHHHHHHHHcCcccEEEeccccccCchHHHHHHHHHHHH
Confidence 55677888999988644322 223433 35667778888888877899999999743 335666778899999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhh-ccC-CceEEEEEcChhhHHHHHHHHHhCCCCCCCeE
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGA-NLM-ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYV 271 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l-~~~-~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~ 271 (945)
++.|+++......+ .+..+....+.++ ++. .+++|+. .+...+..+++++++.|+..++-+
T Consensus 144 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di 206 (266)
T cd06282 144 RAAGLAPLPPVEIP--FNTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDL 206 (266)
T ss_pred HHcCCCCCccccCC--CcHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCce
Confidence 99987654322222 2333333444443 332 4666665 556667789999999998654433
No 121
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=98.31 E-value=7.7e-05 Score=79.39 Aligned_cols=204 Identities=13% Similarity=0.099 Sum_probs=128.3
Q ss_pred EEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEE-EEccCChhHHHH
Q 002267 53 IGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVA-AIGPQSSGIAHV 130 (945)
Q Consensus 53 IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~a-iiGp~~s~~~~~ 130 (945)
||+++|- +..+-.....+++.++++. |+.+ .+.++..++....+...+++.+++.+ |++|..+.....
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~ 71 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKEL--------GYEL--TVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVP 71 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHc--------CceE--EecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHH
Confidence 7888874 4445556777877777762 4455 45667778877777777888878887 556655554444
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEe--CCcccchHHHHHHH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVD--DDYGRNGISVLGDA 206 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d--~~~g~~~~~~l~~~ 206 (945)
....+...++|+|......+ ..+.+-.+..++...+..+++++... |-+++++++.+ ..++....+.+.++
T Consensus 72 ~l~~l~~~~ipvv~~~~~~~-----~~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~ 146 (268)
T cd06323 72 AVKAANEAGIPVFTIDREAN-----GGEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEV 146 (268)
T ss_pred HHHHHHHCCCcEEEEccCCC-----CCceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHH
Confidence 45556778999998754322 11223345555565678788877665 78999999753 34556667889999
Q ss_pred Hhhc-CcEEEEeecCCCCCChHHHHHHHHhhccCC--ceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 207 LSKK-RAKISYKAPFSPGASRSAINSLLVGANLME--SRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 207 l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
+++. |+++....... .+..+....+.++.... +++| ++.+...+..+++++++.|+ ++...++.+
T Consensus 147 l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~--~di~iig~d 214 (268)
T cd06323 147 VDKYPGLKVVASQPAD--FDRAKGLNVMENILQAHPDIKGV-FAQNDEMALGAIEALKAAGK--DDVKVVGFD 214 (268)
T ss_pred HHhCCCcEEEecccCC--CCHHHHHHHHHHHHHHCCCcCEE-EEcCCchHHHHHHHHHHcCC--CCcEEEEeC
Confidence 9984 77765322111 23333334454544333 4553 44555566678889999987 444455443
No 122
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.27 E-value=0.00026 Score=76.63 Aligned_cols=208 Identities=13% Similarity=0.107 Sum_probs=125.0
Q ss_pred eEEEEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcE-EEEccCChhH
Q 002267 50 SVRIGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVV-AAIGPQSSGI 127 (945)
Q Consensus 50 ~i~IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~-aiiGp~~s~~ 127 (945)
.-+||+++|. +..+-.....+++.++++. |+++. +.|+..++....+...+++.+++. +|++|..+..
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~--------G~~~~--~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~ 95 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKL--------GYNLV--VLDSQNNPAKELANVQDLTVRGTKILLINPTDSDA 95 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHc--------CCeEE--EecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHH
Confidence 4579999984 3334446677777777763 44554 466777787777777778777776 4556655554
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHH-cCCe-EEEEEEEeC--CcccchHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEY-YGWR-EVIAIFVDD--DYGRNGISVL 203 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~-~~w~-~v~ii~~d~--~~g~~~~~~l 203 (945)
.......+...++|+|.+..... ..+.+....+++..-+..+++++.. .+.+ +++++..+. ...+...+.+
T Consensus 96 ~~~~l~~~~~~~ipvV~~~~~~~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~gf 170 (295)
T PRK10653 96 VGNAVKMANQANIPVITLDRGAT-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEGF 170 (295)
T ss_pred HHHHHHHHHHCCCCEEEEccCCC-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHHH
Confidence 44555677778999998753221 1123344555555556778886644 4543 566555322 2334567889
Q ss_pred HHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEE-EEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 204 GDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVF-VVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 204 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi-vl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
.+++++.|+.+....... .+..+....+.++.+..++.- +++.+...+..+++++++.|+ .+...++.|
T Consensus 171 ~~al~~~g~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~--~dv~vig~d 240 (295)
T PRK10653 171 KQAVAAHKFNVLASQPAD--FDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK--SDVMVVGFD 240 (295)
T ss_pred HHHHhhCCCEEEEecCCC--CCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC--CceEEEEeC
Confidence 999999998764321111 233334445556554444322 333455566678999999997 244444433
No 123
>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=98.22 E-value=0.00015 Score=77.66 Aligned_cols=208 Identities=11% Similarity=0.078 Sum_probs=125.6
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAA-IGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~~~ 129 (945)
+||++.|.. ..+-.....+++.+.++. |+++ .+.++..++....+...+++.+++.+| ++|..+....
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 478888753 333234455555555542 4455 456777888877777778888888777 5666555445
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc------CCeEEEEEEEe--CCcccchHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY------GWREVIAIFVD--DDYGRNGIS 201 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~------~w~~v~ii~~d--~~~g~~~~~ 201 (945)
.....+...++|+|.+.... .+ ..++..+.+++..-+..+++++... |-++++++..+ ...+....+
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 56677788899999864321 11 1233345555555566677755433 66899999743 344566678
Q ss_pred HHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceE-EEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 202 VLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRV-FVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 202 ~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~v-ivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
.+++.+++.|+.+.... .....+..+....++++.+..++. .|++.....+..+++++++.|+. .+...++.+
T Consensus 146 gf~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~-~di~vvg~d 219 (277)
T cd06319 146 GFKEAMKEAGCDLAGIR-QQKDFSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT-GKVLLICFD 219 (277)
T ss_pred HHHHHHHhcCCceEeec-cCCCCCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC-CCEEEEEcC
Confidence 89999999998754221 111123334444555554444443 23334555567889999999986 344344433
No 124
>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=98.21 E-value=7e-05 Score=79.73 Aligned_cols=198 Identities=18% Similarity=0.117 Sum_probs=126.3
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--ccCChhHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI--GPQSSGIA 128 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s~~~ 128 (945)
.||++.|.. ..+-.....+++.++++. |+.+.+ .|++.++....+....+++++|.++| ++..+
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~--- 67 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH--------GYTLLV--ASSGYDLDREYAQARKLLERGVDGLALIGLDHS--- 67 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC---
Confidence 489999853 333345566676666663 455544 67888888877788888887776654 43322
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe---CCcccchHHHHHH
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD---DDYGRNGISVLGD 205 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d---~~~g~~~~~~l~~ 205 (945)
......+...++|+|......+ ....++ ...++...+..+++.+...|.++|++|... +.++......+.+
T Consensus 68 ~~~~~~l~~~~iPvv~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~ 141 (268)
T cd06273 68 PALLDLLARRGVPYVATWNYSP---DSPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRA 141 (268)
T ss_pred HHHHHHHHhCCCCEEEEcCCCC---CCCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHH
Confidence 2334566778999998754322 122333 445677778888888877799999999743 2345567888999
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCC
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGS 269 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~ 269 (945)
++++.++.+.....+....+.++....+.++.+ ..+++|+. ++...+..+++++++.|+..++
T Consensus 142 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~ 206 (268)
T cd06273 142 ALAEAGLELPELWQVEAPYSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPE 206 (268)
T ss_pred HHHHcCCCCCHHHeeeCCCcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCC
Confidence 999988654322222211233333445555543 34677665 5666777889999999986543
No 125
>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=98.21 E-value=0.00012 Score=78.27 Aligned_cols=209 Identities=12% Similarity=0.087 Sum_probs=126.3
Q ss_pred EEEEEecc--CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHH
Q 002267 52 RIGALFTY--DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIA 128 (945)
Q Consensus 52 ~IG~l~~l--~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~ 128 (945)
.||+++|. +..+......|++.+.++. |+.+ .+.++..++....+....++.+++.+|| .+..+...
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~--------g~~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED--------GVEV--IVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAY 70 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc--------CCEE--EEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCcccc
Confidence 37888886 3556667788888888772 4454 4567777888877777788888888774 44444433
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEe-cCChhHHHHHHHHHHHHc--CCeEEEEEEEeCCc--ccchHHHH
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRT-TQSDYYQMHAVADLVEYY--GWREVIAIFVDDDY--GRNGISVL 203 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~-~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l 203 (945)
......+...++|+|.+....+ ....++++.. .+++...+...++.+.+. |-++|++++.+.++ +....+.+
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 4455667789999997654321 2233444333 344455666677766443 77899999754333 33445788
Q ss_pred HHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhc-c--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEe
Q 002267 204 GDALSKKRAKISYKAPFSPGASRSAINSLLVGAN-L--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIAT 275 (945)
Q Consensus 204 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~-~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 275 (945)
+++++++|..+..........+..+....+.++- + .++++|+. .+...+..+++++++.|+. .+...++.
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~-~dv~v~g~ 220 (275)
T cd06317 148 EDELAEVCPGVEVLDTQPADWDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA-GGIVIVGA 220 (275)
T ss_pred HHHHHhhCCCCEEEeccCCCCCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc-CCcEEEEe
Confidence 8999988643322211211122223223334332 2 24677774 4455578899999999986 34444443
No 126
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.15 E-value=0.00034 Score=74.66 Aligned_cols=208 Identities=12% Similarity=0.088 Sum_probs=131.5
Q ss_pred EEEEEeccC--CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhHH
Q 002267 52 RIGALFTYD--SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSGIA 128 (945)
Q Consensus 52 ~IG~l~~l~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~ 128 (945)
+||++.|.. ..+-.....+++.|+++. |+.+.+...|. .++....+...+++.+++.+||. |......
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 588888864 344456777888777773 56665544333 37777777777888888887775 3333323
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHH-cCCeEEEEEEEe--CCcccchHHHHHH
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEY-YGWREVIAIFVD--DDYGRNGISVLGD 205 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~-~~w~~v~ii~~d--~~~g~~~~~~l~~ 205 (945)
......+...++|+|......+... ..+.+..+..++...+..+++++.+ .|-++++++..+ +..+....+.+.+
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 3444556778999998754322211 1245566778888889999998877 899999998743 3344566788999
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEe
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIAT 275 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 275 (945)
++++.++.+... ....+..+....++++... ++++|+. .....+..+++.+++.|+. +....++.
T Consensus 150 ~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~aI~~-~~d~~a~g~~~al~~~g~~-~di~vvg~ 216 (271)
T cd06312 150 GLGGAGITEEVI---ETGADPTEVASRIAAYLRANPDVDAVLT-LGAPSAAPAAKALKQAGLK-GKVKLGGF 216 (271)
T ss_pred HHHhcCceeeEe---ecCCCHHHHHHHHHHHHHhCCCccEEEE-eCCccchHHHHHHHhcCCC-CCeEEEEe
Confidence 999888754321 1112333334445554333 3555444 4455677888888998876 34444443
No 127
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=98.12 E-value=0.00028 Score=75.34 Aligned_cols=208 Identities=14% Similarity=0.017 Sum_probs=125.9
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcc-CChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGP-QSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp-~~s~~~~ 129 (945)
+||++.|.. ..+-.....+++-+.++. |+++.+ .++..++....+....++.+++.+||.. ..+....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~ 70 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEAL--------GGDLRV--YDAGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLK 70 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHc--------CCEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhH
Confidence 478888743 333345666776666653 555544 5777888877777778888889888763 3333334
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHH--cCCeEEEEEEEe-CCcccchHHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEY--YGWREVIAIFVD-DDYGRNGISVLGDA 206 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~--~~w~~v~ii~~d-~~~g~~~~~~l~~~ 206 (945)
.+...+...++|+|.+....+. +.+..+..++...+..+++++.. .|.++|+++... ..........+.+.
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 4455667889999987543221 22334566777778878887654 588999999743 22233345677888
Q ss_pred HhhcC-cEEEEeecCCCCCChHHHHHHHHhhccCCceE---EEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 207 LSKKR-AKISYKAPFSPGASRSAINSLLVGANLMESRV---FVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 207 l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~v---ivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
+++.+ +++..........+.++....++++....++. .|++.+...+..++.++++.|... +...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~-di~iig~d 217 (273)
T cd06305 145 LKAYPGIKEVAELGDVSNNTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRTD-EIKIYGVD 217 (273)
T ss_pred HHHCCCcEEecccccccccchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCCC-CceEEEec
Confidence 88877 65543221111122333444555554334433 333345556777888999999763 44444444
No 128
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=98.11 E-value=0.00037 Score=74.31 Aligned_cols=209 Identities=14% Similarity=0.063 Sum_probs=127.7
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
+||+++|-. ..+-.....|++-+.++. .|+. +.+.++..++..-.+....+++++|.++| .|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-------~~~~--~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 71 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL-------GGVE--LQFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATA 71 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc-------CCcE--EEEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhH
Confidence 588998753 333345556666665551 1444 44567777888777778888888888775 565554444
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeC--CcccchHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDD--DYGRNGISVLGD 205 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 205 (945)
.+...+...++|+|......+.. .+.+..+..++...+..+++.+... +-+++++|.... .....-.+.+.+
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 55566788999999865432211 1234456677777778888876544 456999987532 233445688899
Q ss_pred HHhhcC-cEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 206 ALSKKR-AKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 206 ~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
++++.| +++... .....+.......++++... .+++| ++.+...+..+++.+++.|..+++...++.|
T Consensus 148 ~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d 218 (272)
T cd06301 148 VLAKYPDIKVVEE--QTANWSRAEAMDLMENWLSSGGKIDAV-VANNDEMALGAIMALKAAGKSDKDVPVAGID 218 (272)
T ss_pred HHHHCCCcEEEec--CCCCccHHHHHHHHHHHHHhCCCCCEE-EECCCchHHHHHHHHHHcCCCCCCcEEEeeC
Confidence 999887 544322 11112222233444444322 35654 4455666778899999999874355555544
No 129
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=98.10 E-value=3.7e-05 Score=82.84 Aligned_cols=116 Identities=17% Similarity=0.213 Sum_probs=75.7
Q ss_pred CCCChHHhhcCCCCeEEe-eCchHHH-----HHHHhhccccc---cceecC-CHHHHHHHHhcCCCCCceeEEecchhhH
Q 002267 701 QIEGIDSLISSTEPIGVQ-DGSFAWN-----YLVDELKIAES---RLVKLK-NMEEYSIALARGPKGGGVAAIVDELPYI 770 (945)
Q Consensus 701 ~i~~~~dL~~~~~~v~~~-~~s~~~~-----~l~~~~~~~~~---~~~~~~-~~~~~~~~l~~~~~~g~~~a~~~~~~~~ 770 (945)
+|++++||. |.+|++. .++.... .+.+..+.... +.+.+. +..+.+.+|.. |++|+.+.+.+.+
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 689999995 8889986 3443221 22222333211 233444 67889999999 9999999988877
Q ss_pred HHHhccCC----ccEEEeCccccccceEEEecCCC-c-chHHHHHHHHhccccccHHH
Q 002267 771 ELFMSKTN----CEFRTVGQEFTKSGWGFAFQRDS-P-LAIDLSTAILQLSENGDLQK 822 (945)
Q Consensus 771 ~~~~~~~~----~~~~~~~~~~~~~~~~~~~~k~s-p-l~~~i~~~i~~l~e~G~~~~ 822 (945)
..+..+.. .++.+..........+++++++- + +.+.+++++.++.+++..++
T Consensus 200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~ 257 (288)
T TIGR03431 200 DRMIRKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACF 257 (288)
T ss_pred HHHHHcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHH
Confidence 77665322 12444432111224578889984 3 99999999999999966554
No 130
>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=98.08 E-value=0.00069 Score=72.28 Aligned_cols=209 Identities=10% Similarity=-0.019 Sum_probs=122.5
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 129 (945)
|||++.|.- ..+-.....+++.+.++ .|+++.+...++..++....+...+++.+++.+||- +.......
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE--------LGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH--------cCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhH
Confidence 589998752 22223444555555444 167777665555567777777777788878887765 32222223
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeCCc--ccchHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDDDY--GRNGISVLGD 205 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l~~ 205 (945)
.....+...++|+|......+ +. .+ +--+..++...+..+++++... |.++++++.....+ .....+.+++
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~---~~-~~-~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLN---SD-IA-VSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCC---CC-cc-eEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 344555678999998643221 10 11 2224455555667778777555 89999999744332 2335678889
Q ss_pred HHhhc-CcEEEEeecCCCCCChHHHHHHHHhhccCCceE-EEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 206 ALSKK-RAKISYKAPFSPGASRSAINSLLVGANLMESRV-FVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 206 ~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~v-ivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
++++. |+.+....... .+..+-...+.++....+++ .|++.+...+..+++.+++.|+. ++...++.|
T Consensus 148 a~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 148 GLKEYPGIEIVATQYSD--SDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred HHHhCCCcEEEecccCC--cCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 99988 87764321111 22233334555554333332 34445666788899999999985 455555544
No 131
>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=98.07 E-value=0.00024 Score=75.13 Aligned_cols=202 Identities=12% Similarity=0.097 Sum_probs=139.3
Q ss_pred EEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHHH
Q 002267 53 IGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAHV 130 (945)
Q Consensus 53 IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~~ 130 (945)
||++.|.. ..+......|++.|.++. |..+.+. .|...++..-.+...+++.+++.+|| .|..+.....
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~-~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKEL--------GYEVEIV-FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHH--------TCEEEEE-EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHc--------CCEEEEe-CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHH
Confidence 68888876 445667889999999997 4566666 89999998888999999999888775 6677666667
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHH-cCC-eEEEEEEEeCC--cccchHHHHHHH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEY-YGW-REVIAIFVDDD--YGRNGISVLGDA 206 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~-~~w-~~v~ii~~d~~--~g~~~~~~l~~~ 206 (945)
..+-+...+||+|.+... .....+......+++...+..+++++.. .+- .+|+++..... ......+.+.+.
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 777788889999986554 1112345566777888889999997744 332 67777754332 233457888888
Q ss_pred Hhh-cCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCC
Q 002267 207 LSK-KRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAG 268 (945)
Q Consensus 207 l~~-~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~ 268 (945)
+++ .++++...... ...+.++....+.++...++-..|++++...+..+.+++++.|+.+.
T Consensus 148 l~~~~~~~~~~~~~~-~~~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPGVEIVDEYEY-TDWDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTTEEEEEEEEE-CTTSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTTT
T ss_pred Hhhcceeeeeeeeec-cCCCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCccc
Confidence 888 46676653222 12455555555555554443233355777778889999999998543
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=98.02 E-value=0.00031 Score=74.83 Aligned_cols=208 Identities=14% Similarity=0.079 Sum_probs=125.9
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLM-ENEVVAAIGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li-~~~v~aiiGp~~s~~~~ 129 (945)
.||++.|-. ..+......|++.++++. |+.+.+...|... ......+.+++ ..++.+||....+....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (270)
T cd01545 1 LIGLLYDNPSPGYVSEIQLGALDACRDT--------GYQLVIEPCDSGS--PDLAERVRALLQRSRVDGVILTPPLSDNP 70 (270)
T ss_pred CEEEEEcCCCcccHHHHHHHHHHHHHhC--------CCeEEEEeCCCCc--hHHHHHHHHHHHHCCCCEEEEeCCCCCcc
Confidence 378998764 555667778888887752 6777776655432 22344555544 56888888744432234
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcc--cchHHHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYG--RNGISVLGDAL 207 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g--~~~~~~l~~~l 207 (945)
...+.+...++|+|.+....+. ...++ ...++...+..+++.+...|.++++++..+..+. ......+.+++
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 4456677789999987654321 22233 3345666667788888778999999998654432 23367788899
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCC-eEEEEeC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGS-YVWIATD 276 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~-~~wi~~~ 276 (945)
++.|+.+..........+..+....+.++.+ .++++|+ +.+...+..+++++++.|...++ ...++.|
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~~i~vig~d 215 (270)
T cd01545 145 AEAGLPLDPELVAQGDFTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPDDLSVVGFD 215 (270)
T ss_pred HHcCCCCChhhEEeCCCChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 8888765210011111122222234444432 3467766 45567788999999999986443 4445444
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=97.97 E-value=0.00088 Score=71.51 Aligned_cols=208 Identities=13% Similarity=0.059 Sum_probs=125.3
Q ss_pred EEEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
+||++.|- +..+-.....+++-+.++. |+++.+ .++..+...-.+....++.+++.+|| .|.......
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 70 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEKR--------GFDLKF--ADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWD 70 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHhc--------CCEEEE--eCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccch
Confidence 48888884 4333334555555555552 555554 56666776666677778888887664 444433323
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeCC--cccchHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDDD--YGRNGISVLGD 205 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~l~~ 205 (945)
.....+...++|+|.+....+.. ...+++.++.+++...+..+++++... |-++++++..+.. ......+.+.+
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 44456677899999876432211 112456778888888888888877665 8889999975432 22344678889
Q ss_pred HHhhc-CcEEEEeecCCCCCChHHHHHHHHhhccC---CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 206 ALSKK-RAKISYKAPFSPGASRSAINSLLVGANLM---ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 206 ~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
++++. +.++....... .+..+....+.++... .+++|+ +.+...+..+++++++.|+..++-+-+.
T Consensus 149 ~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~aI~-~~~d~~a~g~~~a~~~~g~~ip~di~ii 218 (273)
T cd06309 149 VIKKYPNMKIVASQTGD--FTRAKGKEVMEALLKAHGDDIDAVY-AHNDEMALGAIQAIKAAGKKPGKDIKIV 218 (273)
T ss_pred HHHHCCCCEEeeccCCc--ccHHHHHHHHHHHHHhCCCCccEEE-ECCcHHHHHHHHHHHHcCCCCCCCeEEE
Confidence 99887 45544221111 2333333444444333 355553 3455566678899999998755444443
No 134
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=97.96 E-value=0.0031 Score=69.78 Aligned_cols=200 Identities=9% Similarity=-0.007 Sum_probs=117.4
Q ss_pred CceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCCh
Q 002267 48 PSSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSS 125 (945)
Q Consensus 48 ~~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s 125 (945)
..+-+||++.|-. ..+-.....+++-++++. |+++.+...++..+...-.+....++++++.+|| .|...
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 3578999999864 333335566777666653 5665554333333444444566677777887665 44443
Q ss_pred hHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc-----CCeEEEEEEEeC--Ccccc
Q 002267 126 GIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY-----GWREVIAIFVDD--DYGRN 198 (945)
Q Consensus 126 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~-----~w~~v~ii~~d~--~~g~~ 198 (945)
....... .+...++|+|.+..... ++. ....+..++...+...++++... |-++++++..+. .....
T Consensus 116 ~~~~~~l-~~~~~giPvV~~~~~~~--~~~---~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 116 DGLNPDL-ELQAANIPVIALVNGID--SPQ---VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred HHhHHHH-HHHHCCCCEEEecCCCC--Ccc---ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 3322222 45678999997632211 111 12335667777777777766443 578999987432 22334
Q ss_pred hHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCC
Q 002267 199 GISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGM 265 (945)
Q Consensus 199 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~ 265 (945)
-.+.+++.+++.|+++.... .. ..+.+.-...++++.+ .++++|+ +....+..+++.+++.|+
T Consensus 190 R~~Gf~~~l~~~~i~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~ 254 (343)
T PRK10936 190 VEQGFRAAIAGSDVRIVDIA-YG-DNDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNL 254 (343)
T ss_pred HHHHHHHHHhcCCCEEEEee-cC-CCcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCC
Confidence 46788999998898875421 11 1222233334444432 3467776 345667778889999887
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=97.84 E-value=0.00084 Score=71.37 Aligned_cols=208 Identities=12% Similarity=0.092 Sum_probs=124.0
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||+++|-. ..+-.....|++.+.++. |+++. +.++..++..-.+...+++++++.+||...+......
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 378888753 334445677777776653 45553 3455566766666677777788888876444333333
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHHHHHh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLGDALS 208 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 208 (945)
....+...++|+|.+....+ +...+ ...+++...+..+++.+...|-++|+++..+. .......+.+.+.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVA---GAPFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCC---CCCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 55667788999998743322 11122 24456666777788877777889999887432 344556788999998
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCC-eEEEEeC
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGS-YVWIATD 276 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~-~~wi~~~ 276 (945)
+.|..+.....+....+.......++++... ++++|+. .+...+..+++++++.|+..++ ...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~p~di~iig~d 214 (268)
T cd06289 145 EAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAIVC-FNDLVAFGAMSGLRRAGLTPGRDIAVVGFD 214 (268)
T ss_pred HcCCCCCchhEEecCcchhhHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 8885322111111111222233444444333 4566553 4555577789999999986543 3444433
No 136
>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=97.84 E-value=0.00096 Score=70.91 Aligned_cols=205 Identities=12% Similarity=0.070 Sum_probs=123.9
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--ccCChhHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI--GPQSSGIA 128 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s~~~ 128 (945)
+||+++|-. ..+-.....+++-++++. |+.+.+.. +..++..-.+....+++.++.+|| ++..+
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~--~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~--- 67 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY--------KYNIILSN--SDNDKEKELKVLNNLLAKQVDGIIFMGGKIS--- 67 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc--------CCeEEEEe--CCCCHHHHHHHHHHHHHhcCCEEEEeCCCCc---
Confidence 378888753 333334555666555542 56666553 445666656666677777887776 32222
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC---CcccchHHHHHH
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD---DYGRNGISVLGD 205 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~l~~ 205 (945)
..+...+...++|+|.+....+ ....++ ..+++...+..+++++...|-++++++..+. .++....+.+++
T Consensus 68 ~~~~~~l~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~gf~~ 141 (268)
T cd06298 68 EEHREEFKRSPTPVVLAGSVDE---DNELPS---VNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSINGDERLAGYKE 141 (268)
T ss_pred HHHHHHHhcCCCCEEEEccccC---CCCCCE---EEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccchhHHHHHHHH
Confidence 2344556667999998754322 112232 4556666777788888777999999997443 356677889999
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCC-ceEEEEEcChhhHHHHHHHHHhCCCCCCC-eEEEEeC
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLME-SRVFVVHVNPDTGLTIFSVAKSLGMTAGS-YVWIATD 276 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vivl~~~~~~~~~~~~~a~~~g~~~~~-~~wi~~~ 276 (945)
++++.|+++..........+.......+.++.+.. +++|+. .+...+..+++++++.|+..++ ..+++.|
T Consensus 142 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~vvg~d 213 (268)
T cd06298 142 ALSEANIEFDESLIFEGDYTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDFEIIGFN 213 (268)
T ss_pred HHHHcCCCCCHHHeEeCCCChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEeec
Confidence 99998875422111111112222334455554443 677775 4555577899999999987543 4445444
No 137
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.78 E-value=0.006 Score=66.87 Aligned_cols=209 Identities=13% Similarity=0.119 Sum_probs=133.9
Q ss_pred eEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EccCChhH
Q 002267 50 SVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAA-IGPQSSGI 127 (945)
Q Consensus 50 ~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~ 127 (945)
..+||++.+.. ..+-..+..|++-+.+++ |....+...|.+.|+..-.+...+++.+++.+| |.|.++..
T Consensus 33 ~~~i~~~~~~~~~~f~~~~~~g~~~~a~~~--------g~~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~ 104 (322)
T COG1879 33 GKTIGVVVPTLGNPFFQAVRKGAEAAAKKL--------GVVVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPDA 104 (322)
T ss_pred CceEEEEeccCCChHHHHHHHHHHHHHHHc--------CCcEEEEecccccChHHHHHHHHHHHHcCCCEEEEcCCChhh
Confidence 38899998865 334445556665555554 335777788888999988899999998888666 57888998
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH-HHcCC-eEEEEEEEe--CCcccchHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV-EYYGW-REVIAIFVD--DDYGRNGISVL 203 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l-~~~~w-~~v~ii~~d--~~~g~~~~~~l 203 (945)
......-+...+||+|++....+.- .........+....+...++++ ++++- -+++++... ......-...+
T Consensus 105 ~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G~ 180 (322)
T COG1879 105 LTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKGF 180 (322)
T ss_pred hHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhhH
Confidence 8999999999999999875543322 1222333335555555666665 44432 345555533 33344567888
Q ss_pred HHHHhhcCc--EEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC-hhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 204 GDALSKKRA--KISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-PDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 204 ~~~l~~~g~--~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
++.+++.+. .+... ...+.+.+.-......+....|++-.+++. ...+....+++++.|... .+.+.
T Consensus 181 ~~~l~~~~~~~~v~~~--~~~~~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~--~v~v~ 250 (322)
T COG1879 181 RDALKEHPPDIEVVDV--QTGDWDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG--DVVVV 250 (322)
T ss_pred HHHHHhCCCcEEEeec--cCCcccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC--ceEEE
Confidence 999998874 44432 222234444445666666677786666544 444556667777778755 34443
No 138
>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=97.76 E-value=0.0018 Score=68.70 Aligned_cols=197 Identities=12% Similarity=0.005 Sum_probs=117.4
Q ss_pred EEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHH
Q 002267 53 IGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVI 131 (945)
Q Consensus 53 IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 131 (945)
||++.|-. ..+-.....+++-|+++. |+++ .+.|+..++....+....++.++|.+||......... .
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~--------g~~~--~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~ 70 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREA--------GYGV--LLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT-A 70 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHc--------CCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH-H
Confidence 78888764 223334556666666652 5555 4567777777666666667777888877632221211 2
Q ss_pred HHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe--CCcccchHHHHHHHHhh
Q 002267 132 SHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD--DDYGRNGISVLGDALSK 209 (945)
Q Consensus 132 a~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~ 209 (945)
.... ..++|+|......+ . +.+.....++...+..+++++...|.++++++..+ +..+....+.|.+.+++
T Consensus 71 ~~~~-~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~ 143 (267)
T cd06284 71 LTAL-AKLPPIVQACEYIP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLARDRLEGYRQALAE 143 (267)
T ss_pred HHHH-hcCCCEEEEecccC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhHHHHHHHHHHHHHH
Confidence 2333 34999997642211 1 22334566677778888888877799999999754 33456667889999999
Q ss_pred cCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCC
Q 002267 210 KRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAG 268 (945)
Q Consensus 210 ~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~ 268 (945)
.|+++..........+.++....++++.+. .+++|+.. +...+..+++++++.|...+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~p 203 (267)
T cd06284 144 AGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLRVP 203 (267)
T ss_pred cCCCCCcceEEeCCCChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCc
Confidence 885432111111112223333444454322 45666664 55557788899999997643
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=97.76 E-value=0.0037 Score=66.98 Aligned_cols=212 Identities=10% Similarity=0.028 Sum_probs=116.9
Q ss_pred EEEEEeccC--CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC--ChHHHHHHHHHHHhcCcEEEEccCChh-
Q 002267 52 RIGALFTYD--SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNC--SGFVGTMEALQLMENEVVAAIGPQSSG- 126 (945)
Q Consensus 52 ~IG~l~~l~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~--~~~~a~~~a~~li~~~v~aiiGp~~s~- 126 (945)
+||+++|-. ..+-.....+++.++++. |+.+.+...++.. ++..-......+++++|.+||=...+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~ 72 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEEL--------NIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLR 72 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHHc--------CCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchh
Confidence 489999863 222223334444443332 5677776544432 555555556677777887776432222
Q ss_pred HHHHHHHhhcccCccEEeccc-CCCCCCCCCCCceEEecCChhHHHHHHHHHHHH--cCCeEEEEEEEeC-CcccchHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGA-TDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEY--YGWREVIAIFVDD-DYGRNGISV 202 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a-~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~--~~w~~v~ii~~d~-~~g~~~~~~ 202 (945)
....+.. +...++|.|.... ..+.-.....+......+++..-+..+++.+.. .|.++++++.... ..+..-.+.
T Consensus 73 ~~~~~~~-l~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~g 151 (280)
T cd06303 73 HRKLIER-VLASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDT 151 (280)
T ss_pred hHHHHHH-HHhCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHH
Confidence 2233333 3345667665422 222100000122344566677777778887766 7899999996532 223345678
Q ss_pred HHHHHhhc-CcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 203 LGDALSKK-RAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 203 l~~~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
+++++++. |+++... +....+..+....+.++.+. ++++|+ +.+...+..+++++++.|+. ++...++.+
T Consensus 152 f~~al~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~l~al~~~G~~-~dv~vvg~d 224 (280)
T cd06303 152 FIDCVHARNNWTLTSE--FYTDATRQKAYQATSDILSNNPDVDFIY-ACSTDIALGASDALKELGRE-DDILINGWG 224 (280)
T ss_pred HHHHHHhCCCceEEEe--ecCCCCHHHHHHHHHHHHHhCCCCcEEE-ECCcHHHHHHHHHHHHcCCC-CCcEEEecC
Confidence 88999888 7664332 12122333334445554333 355544 56667777899999999985 444444433
No 140
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.75 E-value=0.0056 Score=65.34 Aligned_cols=202 Identities=12% Similarity=0.057 Sum_probs=117.6
Q ss_pred EEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHHH
Q 002267 53 IGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAHV 130 (945)
Q Consensus 53 IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~~ 130 (945)
||++.|- +..+-.....+++-+.++....+ ..+.+.+.+...++..-.+....++.+++.+|| .|........
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~-----~g~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~ 76 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAY-----PDVEFILVTASNDTEQQNAQQDLLINRKIDALVILPFESAPLTQ 76 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhC-----CCeEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHH
Confidence 7788764 23343456677777777664332 234555567766766555555567777777655 3433333223
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeCC-cccchHHHHHHHH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDDD-YGRNGISVLGDAL 207 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~~-~g~~~~~~l~~~l 207 (945)
....+...+||+|.+....+ +.. .......+++...+..+++++... |.++|+++..... ....-.+.+.+.+
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 33455678999998754221 110 112235666666677778877554 7889999874332 2234467889999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMT 266 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~ 266 (945)
++.++++... .....+.......+.++... ++++|+. .+...+..++.++++.|..
T Consensus 153 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~ 210 (274)
T cd06311 153 AKYPIKILDR--QYANWNRDDAFSVMQDLLTKFPKIDAVWA-HDDDMAVGVLAAIKQAGRT 210 (274)
T ss_pred hhCCcEEEec--cCCCCcHHHHHHHHHHHHHhCCCcCEEEE-CCCcHHHHHHHHHHHcCCC
Confidence 9999776542 21112223333444443322 3566544 3444577888888888875
No 141
>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=97.73 E-value=0.0044 Score=67.30 Aligned_cols=216 Identities=10% Similarity=0.053 Sum_probs=120.6
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
+||++.|.. ..+-.....+++-++++.+ .| +.+.+.+...++..-.+....++.+++.+|| .|..+....
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~------~g--~~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~ 72 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENG------GK--VEFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQ 72 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhC------CC--eeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHH
Confidence 589998853 3333355667776666651 13 4455567777777766677778888887654 454444334
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCe---------E--EEEEEEeCC--
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWR---------E--VIAIFVDDD-- 194 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~---------~--v~ii~~d~~-- 194 (945)
.+...+...++|+|.+....+...-...+-+..+.+++...+...++++... +-+ + ++++..+..
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 4555667789999987543221111112223445667666677777776443 221 2 344543322
Q ss_pred cccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC---CceEEEEEcChhhHHHHHHHHHhCCCCCC---
Q 002267 195 YGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLM---ESRVFVVHVNPDTGLTIFSVAKSLGMTAG--- 268 (945)
Q Consensus 195 ~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vivl~~~~~~~~~~~~~a~~~g~~~~--- 268 (945)
....-...+.+++++.|..+..........+.+.....++++... ++++|+. .+...+..+++++++.|...+
T Consensus 153 ~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~~~ 231 (303)
T cd01539 153 DAIARTKYSIETLNDAGIKTEELASDTANWDRAQAKDKMDALLLKYGDKIEAVIA-NNDAMALGAIEALQKYGYNKGDKS 231 (303)
T ss_pred hhhhhhhhHHHHHHhcCCCeEEEEeecCCCCHHHHHHHHHHHHHhcCCCccEEEE-CCchHHHHHHHHHHHcCCCcCCCC
Confidence 223346778899998887653221212112223333344444322 2555444 455566678888888887654
Q ss_pred -CeEEEEeC
Q 002267 269 -SYVWIATD 276 (945)
Q Consensus 269 -~~~wi~~~ 276 (945)
+...++.+
T Consensus 232 ~di~iig~d 240 (303)
T cd01539 232 KNIPVVGVD 240 (303)
T ss_pred CceEEEccC
Confidence 44445443
No 142
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.73 E-value=0.0083 Score=65.94 Aligned_cols=208 Identities=12% Similarity=0.046 Sum_probs=111.9
Q ss_pred CceEEEEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCCh
Q 002267 48 PSSVRIGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSS 125 (945)
Q Consensus 48 ~~~i~IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s 125 (945)
.++.+||++.|- +..+-.....+++-+.++. + ++ .+.+.++..++....+....++.++|.+||= |..+
T Consensus 22 ~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~---g----~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~ 92 (330)
T PRK15395 22 AADTRIGVTIYKYDDNFMSVVRKAIEKDAKAA---P----DV--QLLMNDSQNDQSKQNDQIDVLLAKGVKALAINLVDP 92 (330)
T ss_pred cCCceEEEEEecCcchHHHHHHHHHHHHHHhc---C----Ce--EEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeccCH
Confidence 456889999874 3333334555555555543 2 23 3344566666665555666677778876653 3333
Q ss_pred hHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH-HHc-----------CCeEEEEEEEe-
Q 002267 126 GIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV-EYY-----------GWREVIAIFVD- 192 (945)
Q Consensus 126 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l-~~~-----------~w~~v~ii~~d- 192 (945)
.........+...++|+|.+....+.-.-...+....+..++..-+..+++++ ++. |-.++++|...
T Consensus 93 ~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~~ 172 (330)
T PRK15395 93 AAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGEP 172 (330)
T ss_pred HHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecCC
Confidence 32333345566789999998653211000111222334556665566555544 332 33344545432
Q ss_pred -CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC----CceEEEEEcChhhHHHHHHHHHhCCC
Q 002267 193 -DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLM----ESRVFVVHVNPDTGLTIFSVAKSLGM 265 (945)
Q Consensus 193 -~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~----~~~vivl~~~~~~~~~~~~~a~~~g~ 265 (945)
......-.+.+++++++.|+.+..........+..+-...++++.+. ++++|+ +++...+..+++++++.|+
T Consensus 173 ~~~~~~~R~~G~~~al~~~g~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~A~gvl~al~~~Gl 249 (330)
T PRK15395 173 GHPDAEARTTYVIKELNDKGIKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAMAMGAVEALKAHNK 249 (330)
T ss_pred CCchHHHHHHHHHHHHHhcCCCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchHHHHHHHHHHhcCC
Confidence 22233456788999999987654321111111223333444554332 355555 4566677889999999987
No 143
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.73 E-value=0.013 Score=63.83 Aligned_cols=213 Identities=12% Similarity=0.020 Sum_probs=124.1
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 129 (945)
+||++.|.. ..+-.....+++-++++. |+++.+...+...+...-.+....++.+++.+||- |..+....
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKTL--------GVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLV 97 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHHc--------CCeEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 899999853 333345556666555542 56777654455556666666667777777776653 33332222
Q ss_pred HHHHhhcccCccEEecccCCCC--CCCCCCCceEEecCChhHHHHHHHHHH-HHcCC--eEEEEEEEeC--CcccchHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPT--LTSLQYPYFLRTTQSDYYQMHAVADLV-EYYGW--REVIAIFVDD--DYGRNGISV 202 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~--ls~~~~p~~~r~~p~d~~~~~ai~~~l-~~~~w--~~v~ii~~d~--~~g~~~~~~ 202 (945)
.....+...++|+|.+....+. +....-....-+..++...+...++++ +..|- ++++++..+. .....-.+.
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 2233345689999988643321 111111123346677777788888876 44454 7898886432 233455678
Q ss_pred HHHHHhhcC-cEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 203 LGDALSKKR-AKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 203 l~~~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
+.+++++.| +++....... .+..+-...++++.+. ++++ |++.+...+..++.++++.|.. .+...++.|
T Consensus 178 f~~al~~~~~~~~~~~~~~~--~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~-~dv~vvg~d 250 (311)
T PRK09701 178 ATEAFKKASQIKLVASQPAD--WDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT-GKVLVVGTD 250 (311)
T ss_pred HHHHHHhCCCcEEEEecCCC--CCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC-CCEEEEEeC
Confidence 899998887 7664322111 2222333444554333 3565 4466667788899999999975 334444433
No 144
>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=97.72 E-value=0.0047 Score=66.48 Aligned_cols=214 Identities=12% Similarity=0.026 Sum_probs=121.9
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 129 (945)
+||++.|.. ..+-.....+++.+.++. |+++. +.++. ++..-......++.+++.+||= |..+....
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 488888753 333345667777777762 56654 44555 5655556666777777776653 33333344
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHH----HcCC--eEEEEEEE-e--CCcccchH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVE----YYGW--REVIAIFV-D--DDYGRNGI 200 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~----~~~w--~~v~ii~~-d--~~~g~~~~ 200 (945)
.....+...++|+|.+....+....+..+.+-....++...+...++++. ..|+ +++++|.. . ......-.
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 55566778999999874432211100112233355566656666666443 3576 78888752 2 23445667
Q ss_pred HHHHHHHhhcCcEEEEeecCCCC-CChHHHHHHHHhhccC--CceE-EEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 201 SVLGDALSKKRAKISYKAPFSPG-ASRSAINSLLVGANLM--ESRV-FVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 201 ~~l~~~l~~~g~~v~~~~~~~~~-~~~~d~~~~l~~l~~~--~~~v-ivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
+.+.+++++.|+........... .+.+.....++++... +++. +|++.+...+..+++++++.|...++...++.+
T Consensus 150 ~G~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig~d 229 (289)
T cd01540 150 DGALEALKAPGFPEANIFQAPQKTTDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVGIN 229 (289)
T ss_pred HHHHHHHhcCCCCcceEecccccCcchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEecC
Confidence 88999999888753211111110 1122222344444333 3453 566677777888999999999874344455444
No 145
>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=97.65 E-value=0.0034 Score=66.30 Aligned_cols=200 Identities=17% Similarity=0.092 Sum_probs=124.3
Q ss_pred EEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHH
Q 002267 53 IGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVI 131 (945)
Q Consensus 53 IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 131 (945)
||++.|- +..+-.....+++.++++. |+++.+ .++..++..-.....++..+++.++|....... ..+
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 7888874 3344346677777777652 566654 455567766666777788888888876333222 234
Q ss_pred HHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe-C--CcccchHHHHHHHHh
Q 002267 132 SHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD-D--DYGRNGISVLGDALS 208 (945)
Q Consensus 132 a~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~l~~~l~ 208 (945)
...+...++|+|.+....+ .+..+..++...+..+++++...|-++++++... + ..+....+.+++.++
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 4556667999998754221 1223556677778888888877888999998632 2 233455688999999
Q ss_pred hcCc-EEEEeecCCCCCChHHHHHHHHhhccCC-ceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEe
Q 002267 209 KKRA-KISYKAPFSPGASRSAINSLLVGANLME-SRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIAT 275 (945)
Q Consensus 209 ~~g~-~v~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 275 (945)
+.|. .+... ... .+.......+.++.+.. +++|+... ...+..+++.+++.|+..++.+.+.+
T Consensus 143 ~~~~~~~~~~-~~~--~~~~~~~~~~~~~l~~~~~~~i~~~~-d~~a~g~~~~l~~~g~~vp~di~v~g 207 (259)
T cd01542 143 EHGICPPNIV-ETD--FSYESAYEAAQELLEPQPPDAIVCAT-DTIALGAMKYLQELGRRIPEDISVAG 207 (259)
T ss_pred HcCCChHHee-ecc--CchhhHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 8887 21111 111 12223334444544333 67666544 55677889999999987655555553
No 146
>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=97.65 E-value=0.0028 Score=67.34 Aligned_cols=201 Identities=12% Similarity=0.085 Sum_probs=117.0
Q ss_pred EEEEeccC-----CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002267 53 IGALFTYD-----SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQSSG 126 (945)
Q Consensus 53 IG~l~~l~-----~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 126 (945)
||+++|-. ..+-.....+++.++++ .|+.+.+...++. ....+.+.+++.+ ++.+||...+..
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 78888852 33334455566555544 1567766654433 2233455666654 688777533322
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLG 204 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~ 204 (945)
... ....+...++|+|.+....+ +..+++ ..+++...+..+++++...|-++++++.... ..+....+.+.
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 122344 3456666677788877777999999997442 23445578899
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEE
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVW 272 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~w 272 (945)
+++++.|..+.....+....+.......++++... .+++|+.. +...+..+++++++.|+..++.+-
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i~ 212 (268)
T cd06271 144 RALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDVS 212 (268)
T ss_pred HHHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCccee
Confidence 99999887542111111112223333445554322 36666664 456677889999999987654343
No 147
>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=97.63 E-value=0.0036 Score=68.85 Aligned_cols=208 Identities=11% Similarity=0.074 Sum_probs=122.8
Q ss_pred ceEEEEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--ccCCh
Q 002267 49 SSVRIGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI--GPQSS 125 (945)
Q Consensus 49 ~~i~IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s 125 (945)
..-.||+++|- +..+-.....+++-++++. |+.+.+. ++..++..-.+....+.++++.+|| ++..+
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~--------g~~~~i~--~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~~~ 127 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATMY--------KYNIILS--NSDEDPEKEVQVLNTLLSKQVDGIIFMGGTIT 127 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHHc--------CCEEEEE--eCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 45689999984 2333334555555554442 5666554 4444554444455566677777665 43222
Q ss_pred hHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--C-cccchHHH
Q 002267 126 GIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--D-YGRNGISV 202 (945)
Q Consensus 126 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~-~g~~~~~~ 202 (945)
..+...+...++|+|......+ ...++ ....++..-+..+++.+...|.++++++..+. . .+..-.+.
T Consensus 128 ---~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~G 198 (329)
T TIGR01481 128 ---EKLREEFSRSPVPVVLAGTVDK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEG 198 (329)
T ss_pred ---hHHHHHHHhcCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHH
Confidence 2334556677999997654321 11223 24455666667777877778999999996432 2 23566788
Q ss_pred HHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCC-eEEEEeC
Q 002267 203 LGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGS-YVWIATD 276 (945)
Q Consensus 203 l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~-~~wi~~~ 276 (945)
+.+++++.|+.+..........+..+-...++++.+..+++|+. .+...+..+++++++.|+..++ ...++.|
T Consensus 199 f~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP~dvsvvgfd 272 (329)
T TIGR01481 199 YKEALNKAGIQFGEDLVCEGKYSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVPEDLEVITSN 272 (329)
T ss_pred HHHHHHHcCCCCCcceEEecCCChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEEeeC
Confidence 99999999876432211111122233344555655556787665 4556788999999999986544 3344433
No 148
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.63 E-value=0.012 Score=64.49 Aligned_cols=199 Identities=9% Similarity=-0.040 Sum_probs=111.0
Q ss_pred EEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhHH
Q 002267 51 VRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSGIA 128 (945)
Q Consensus 51 i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~ 128 (945)
.+||++.... .++-.....|++-+.++. |+++.+. ..+..++..-.+...+++.++|.+|+= |..+...
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~--------G~~v~~~-~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al 94 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKEL--------GVDVTYD-GPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGL 94 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHh--------CCEEEEE-CCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHH
Confidence 3799887654 344445666777666653 5666542 334456665566777888888877654 5554544
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEec-CChhHHHHHHHHHHHH-c--CCeEEEEEEEeCC--cccchHHH
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTT-QSDYYQMHAVADLVEY-Y--GWREVIAIFVDDD--YGRNGISV 202 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~-p~d~~~~~ai~~~l~~-~--~w~~v~ii~~d~~--~g~~~~~~ 202 (945)
......+...+||+|++.+..+. +. .. +-.. .++...+..+++++.+ . +-.+|+++..... ......+.
T Consensus 95 ~~~l~~a~~~gIpVV~~d~~~~~--~~--~~-~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 95 CPALKRAMQRGVKVLTWDSDTKP--EC--RS-YYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCC--cc--ce-EEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 56666778889999997654221 11 11 2222 2334566666676644 3 4568888864321 12233466
Q ss_pred HHHHHhh--cCcEEEEeecCCCCCChHHHHHHHHhhccCCc--eEEEEEcChhhHHHHHHHHHhCCCC
Q 002267 203 LGDALSK--KRAKISYKAPFSPGASRSAINSLLVGANLMES--RVFVVHVNPDTGLTIFSVAKSLGMT 266 (945)
Q Consensus 203 l~~~l~~--~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~--~vivl~~~~~~~~~~~~~a~~~g~~ 266 (945)
+.+.+++ .+++++.... . ..+...-....+++....| ++|+.. ....+....+++++.|..
T Consensus 170 ~~~~l~~~~p~~~vv~~~~-~-~~d~~~a~~~~~~lL~~~pdi~aI~~~-~~~~~~Ga~~Al~~~g~~ 234 (336)
T PRK15408 170 AKAKIAKEHPGWEIVTTQF-G-YNDATKSLQTAEGILKAYPDLDAIIAP-DANALPAAAQAAENLKRD 234 (336)
T ss_pred HHHHHHhhCCCCEEEeecC-C-CCcHHHHHHHHHHHHHHCCCCcEEEEC-CCccHHHHHHHHHhCCCC
Confidence 6666644 3567664321 1 1223333334555444444 455543 333344577888888763
No 149
>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=97.62 E-value=0.0083 Score=63.82 Aligned_cols=208 Identities=14% Similarity=0.098 Sum_probs=121.4
Q ss_pred EEEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
+||++.|- +..+-.....+++-+.++. + |+++. +.++..++..-.+....++.+++.+|| .|.......
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~~---~----g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASNY---P----DVELI--IADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHhc---C----CcEEE--EEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 48888874 2333334455555444432 1 55564 446666776666666677777776554 333322222
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeCCc--ccchHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDDDY--GRNGISVLGD 205 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l~~ 205 (945)
.....+...++|+|.+....+ +. .+...+..++...+...++++... |-++++++..+... ...-.+.+.+
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 333445678999998754221 11 223345667777778888877664 88999999753322 2344678889
Q ss_pred HHhhc-CcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeCC
Q 002267 206 ALSKK-RAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATDW 277 (945)
Q Consensus 206 ~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~ 277 (945)
+++++ |+++....... ....+....+.++.+ .++++| ++.+...+..+++++++.|+. ++...++.|.
T Consensus 147 ~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d~ 217 (270)
T cd06308 147 ALSKYPKIKIVAQQDGD--WLKEKAEEKMEELLQANPDIDLV-YAHNDPMALGAYLAAKRAGRE-KEIKFIGIDG 217 (270)
T ss_pred HHHHCCCCEEEEecCCC--ccHHHHHHHHHHHHHhCCCCcEE-EeCCcHHHHHHHHHHHHcCCC-CCcEEEEecC
Confidence 99988 88765321111 222222233444322 346654 445666777899999999987 5555666554
No 150
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.61 E-value=0.0078 Score=64.05 Aligned_cols=206 Identities=11% Similarity=-0.001 Sum_probs=121.6
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAA-IGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~~~ 129 (945)
+||+++|-. ..+-.....+++-+.++. |..+.+.+.++..++..-.+....++++++.+| +.|.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKL--------NPGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHh--------CCCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH
Confidence 488998854 333345667777777765 223445556667777665566666777777655 3443333223
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeC-CcccchHHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDD-DYGRNGISVLGDA 206 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~~~ 206 (945)
.....+...++|+|......+ + ....+..++...+..+++++... |.++++++..+. .....-.+.+.++
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 333445667999999755332 1 11235667777778888877666 999999997542 2234446788888
Q ss_pred Hhhc-CcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 207 LSKK-RAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 207 l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
+++. +++..... .....+...-...+.++.+. ++++|+. .+...+..+++++++.|+ .+..+++.|
T Consensus 146 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~--~di~v~g~d 214 (271)
T cd06321 146 LAKYPGIKLLSDD-QNGKGSRDGGLRVMQGLLTRFPKLDGVFA-INDPTAIGADLAAKQAGR--NDIKITSVD 214 (271)
T ss_pred HHhCCCcEEEeee-cCCCCChhhHHHHHHHHHHhCCCCCEEEE-CCchhHHHHHHHHHHcCC--CCcEEEEec
Confidence 8887 66532211 11111222222344444322 4566544 455567788899999997 345555544
No 151
>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=97.61 E-value=0.0027 Score=67.45 Aligned_cols=202 Identities=11% Similarity=-0.007 Sum_probs=120.3
Q ss_pred EEEEEeccC--CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHH
Q 002267 52 RIGALFTYD--SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 129 (945)
.||+++|.. ..+-.....+++.++++. |+.+.+ .++..++..-.+....+...++.+||-.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~- 69 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH--------GYLLLV--VNTGGDDELEAEAVEALLDHRVDGIIYATMYHRE- 69 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC--------CCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-
Confidence 489999864 444445667777666652 555544 4444455444455566777778777653322111
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC--cccchHHHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD--YGRNGISVLGDAL 207 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l 207 (945)
+.......++|+|......+. ..+ ..+.+++...+..+++++...|-++++++..+.. ......+.+.+.+
T Consensus 70 -~~~~~~~~~ipvv~~~~~~~~---~~~---~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 70 -VTLPPELLSVPTVLLNCYDAD---GAL---PSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred -hHHHHHhcCCCEEEEecccCC---CCC---CeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 122334578999986543221 122 3355677777888888887779999999975432 3345578889999
Q ss_pred hhcCcEEEE--eecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 208 SKKRAKISY--KAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 208 ~~~g~~v~~--~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
++.|+++.. ..... .+..+....++++.+. ++++|+. .+...+..+++++++.|+..++-+.+.
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 988865321 11112 2223333445554333 4677744 556667788999999998655444444
No 152
>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=97.60 E-value=0.0045 Score=65.82 Aligned_cols=205 Identities=9% Similarity=-0.044 Sum_probs=118.8
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||++.|-. ..+-.....+++-+.++. |+++. +.++..++..-.+....+..+++.+||=.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYRQ--------GYNLI--LCNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYDQPL 70 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHHc--------CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 378888753 444455667777766652 55654 3455666666566666777777765542112212222
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe--CCcccchHHHHHHHHh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD--DDYGRNGISVLGDALS 208 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~ 208 (945)
+..+....++|+|......+ +..+++ ...++...+..+++.+...|-++++++... +.......+.+.+.++
T Consensus 71 ~~~l~~~~~ipvV~i~~~~~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (269)
T cd06275 71 LAMLERYRHIPMVVMDWGPE---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMA 144 (269)
T ss_pred HHHHHhcCCCCEEEEecccC---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHH
Confidence 23333456999998654322 122233 445556667777788877899999999743 2233445678899999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEE
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWI 273 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi 273 (945)
+.|+++..........+.......++++.+. .+++|+. .+...+..+++.+++.|...++-+-+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~di~v 210 (269)
T cd06275 145 EAGLPVNPGWIVEGDFECEGGYEAMQRLLAQPKRPTAVFC-GNDLMAMGALCAAQEAGLRVPQDLSI 210 (269)
T ss_pred HcCCCCCHHHhccCCCChHHHHHHHHHHHcCCCCCcEEEE-CChHHHHHHHHHHHHcCCCCCcceEE
Confidence 8887653211111112223334455554433 3555444 55666778889999998765444433
No 153
>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=97.59 E-value=0.014 Score=62.01 Aligned_cols=194 Identities=13% Similarity=0.072 Sum_probs=115.7
Q ss_pred EEEEeccCC-ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhHHHH
Q 002267 53 IGALFTYDS-VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSGIAHV 130 (945)
Q Consensus 53 IG~l~~l~~-~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~~ 130 (945)
||++.|... .+-.....+++.++++. |+.+ .+.++..++....+...+++++++.++|- |..+.....
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~--------g~~~--~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~ 71 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQ--------KVNL--IVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRA 71 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhc--------CCEE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHH
Confidence 788887642 22234455555555531 4555 44567677777777777888888887765 443332233
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeC-CcccchHHHHHHHH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDD-DYGRNGISVLGDAL 207 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~~~l 207 (945)
....+...++|+|.+....+ ..+.+....+++...+...++++... |-+++++++..+ .....-.+.+++++
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 34556678999998743211 11223345666666677777777554 778999997432 22334567888999
Q ss_pred hhc-CcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCC
Q 002267 208 SKK-RAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGM 265 (945)
Q Consensus 208 ~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~ 265 (945)
++. |+++.... .. ...+.....+.++... ++++|+ +.+...+..+++++++.|.
T Consensus 147 ~~~~~~~~~~~~-~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 147 ADYPNIKIVAVQ-PG--ITRAEALTAAQNILQANPDLDGIF-AFGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HhCCCcEEEEec-CC--CChHHHHHHHHHHHHhCCCCCEEE-EcCCcHHHHHHHHHHHCCC
Confidence 988 88764321 11 1223333344444322 356544 4555567788889999997
No 154
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=97.58 E-value=0.0047 Score=65.54 Aligned_cols=206 Identities=12% Similarity=0.040 Sum_probs=120.0
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||++.|-. ..+-.....+++.++++. |+.+.+ .++..++..-.+...+++.+++.+||--..... ..
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 378888853 333334556666565552 555544 444455555556666777777877764222211 22
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHHHHHh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLGDALS 208 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 208 (945)
....+...++|+|......+ . +.......++...+..+++++...|-+++++|..+. .......+.+++.++
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 34455667999998643211 1 122234556677778888888888999999998653 334455678899999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeE-EEEe
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYV-WIAT 275 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~-wi~~ 275 (945)
+.|.............+.......+.++.+. ++++|+. .+...+..+++.+++.|...++.+ .++.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~di~vig~ 212 (268)
T cd01575 144 AAGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVFC-SNDDLALGALFECQRRGISVPEDIAIAGF 212 (268)
T ss_pred HcCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCCcceEEEec
Confidence 8886322211111112223334455554333 4676654 455567788999999997654433 4443
No 155
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=97.58 E-value=0.0041 Score=66.37 Aligned_cols=203 Identities=10% Similarity=0.050 Sum_probs=113.9
Q ss_pred EEEEEEeccC--------CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH-hcCcEEEE-
Q 002267 51 VRIGALFTYD--------SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLM-ENEVVAAI- 120 (945)
Q Consensus 51 i~IG~l~~l~--------~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li-~~~v~aii- 120 (945)
=.||++.|.. ..+-.....+++.++++. |+++.+...+.. . ...+.+.+ .+++.+||
T Consensus 4 ~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~v~~~~~~--~---~~~~~~~l~~~~~dgiii 70 (275)
T cd06295 4 DTIALVVPEPHERDQSFSDPFFLSLLGGIADALAER--------GYDLLLSFVSSP--D---RDWLARYLASGRADGVIL 70 (275)
T ss_pred eEEEEEecCccccccccCCchHHHHHHHHHHHHHHc--------CCEEEEEeCCch--h---HHHHHHHHHhCCCCEEEE
Confidence 4689999852 222233444454443332 567766554432 1 12334444 45777665
Q ss_pred -ccCChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--Cccc
Q 002267 121 -GPQSSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGR 197 (945)
Q Consensus 121 -Gp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~ 197 (945)
++.... .....+...++|+|.+....+. . .+..+.+++...+..+++++...|.++|+++..+. ..+.
T Consensus 71 ~~~~~~~---~~~~~~~~~~ipvV~~~~~~~~---~---~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~ 141 (275)
T cd06295 71 IGQHDQD---PLPERLAETGLPFVVWGRPLPG---Q---PYCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGE 141 (275)
T ss_pred eCCCCCh---HHHHHHHhCCCCEEEECCccCC---C---CCCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhH
Confidence 332222 2244566789999987543321 2 22335566777788888888778999999997543 2334
Q ss_pred chHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCC-eEEEE
Q 002267 198 NGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGS-YVWIA 274 (945)
Q Consensus 198 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~-~~wi~ 274 (945)
...+.+.+.+++.|+.+..........+.......+.++... ++++|+.. ....+..+++.+++.|...++ ...+.
T Consensus 142 ~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~~ip~~i~ii~ 220 (275)
T cd06295 142 ERLEGYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGRRVPEDVAVVG 220 (275)
T ss_pred HHHHHHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCCCCccceEEEe
Confidence 556889999998885432211111112223333444444333 45666655 445667788889999986443 33444
Q ss_pred eC
Q 002267 275 TD 276 (945)
Q Consensus 275 ~~ 276 (945)
.|
T Consensus 221 ~d 222 (275)
T cd06295 221 FD 222 (275)
T ss_pred eC
Confidence 33
No 156
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.57 E-value=0.0035 Score=66.71 Aligned_cols=205 Identities=8% Similarity=-0.009 Sum_probs=120.8
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||+++|-. ..+-.....+++.++++. |+.+. +.++..++....+....+.+++|.+||--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA--------GYSLL--IANSLNDPERELEILRSFEQRRMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHH
Confidence 389999853 444345667777666663 55544 4566667776666666777778877764222222234
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC--cccchHHHHHHHHh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD--YGRNGISVLGDALS 208 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 208 (945)
....+...++|+|......+ . ..++ ...++..-+..+++.+...|-++++++..... .+....+.+.++++
T Consensus 71 ~~~~~~~~~ipvV~i~~~~~--~--~~~~---V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 71 LVDALASLDLPIVLLDRDMG--G--GADA---VLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHHHhCCCCEEEEecccC--C--CCCE---EEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 45566678999998754332 1 2232 34444444566677776679999999865322 23344678889999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeE-EEEe
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYV-WIAT 275 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~-wi~~ 275 (945)
++|+.+.....+.... .......+.++.. ..+++|+ +.+...+..+++++++.|+..++-+ .++.
T Consensus 144 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~dv~iig~ 211 (269)
T cd06281 144 AAGLPPDPALVRLSTP-AASGFDATRALLALPDRPTAII-AGGTQVLVGVLRALREAGLRIPRDLSVISI 211 (269)
T ss_pred HcCCCCCHHHeecCcH-HHHHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCcceeEEEe
Confidence 9887542111111111 2222334444432 3478776 4456667788999999998655433 4443
No 157
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=97.55 E-value=0.007 Score=64.18 Aligned_cols=204 Identities=12% Similarity=0.064 Sum_probs=119.6
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||++.|.. ..+-.....+++-|+++. |+.+. +.++..++..-.....+++..++.+||=.........
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 378888764 333345666777666653 45554 4455556666566666777777776653222212222
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC-c-c-cchHHHHHHHH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD-Y-G-RNGISVLGDAL 207 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~-~-g-~~~~~~l~~~l 207 (945)
...+...++|+|.+....+ ....+ ....++...+..+++.+...|-++++++..... . . ......+.+.+
T Consensus 71 -l~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 71 -YQRLAKNGKPVVLVDRKIP---ELGVD---TVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred -HHHHhcCCCCEEEEcCCCC---CCCCC---EEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3445678999998754322 11223 344566667788888887789999999975432 1 1 24567888899
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEE
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWI 273 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi 273 (945)
++.|+............+..+....++++.+. .+++|+.. +...+..+++.+++.|+..++-+-+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di~v 210 (267)
T cd06283 144 AEHGIGVNEELIEIDDEDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDVGL 210 (267)
T ss_pred HHcCCCCCcceeEecccchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEE
Confidence 88875322111111112234445566665444 35666554 4556677889999999865543433
No 158
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.52 E-value=0.028 Score=61.72 Aligned_cols=202 Identities=8% Similarity=-0.025 Sum_probs=119.9
Q ss_pred CceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCCh
Q 002267 48 PSSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSS 125 (945)
Q Consensus 48 ~~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s 125 (945)
++..+||++.|-. ..+......|++-++++. |+.+.+ .++..++..-.+....++++++.+||= |...
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 3579999999853 555556667777666653 555554 466667766666667777778776643 3322
Q ss_pred hHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC---CcccchHHH
Q 002267 126 GIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD---DYGRNGISV 202 (945)
Q Consensus 126 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~ 202 (945)
.........+...++|+|.+....+ +. +......+++...+..+++++...|-++++++.... ..+....+.
T Consensus 93 ~~~~~~l~~~~~~~iPvV~id~~~~---~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~~R~~g 167 (330)
T PRK10355 93 QVLSNVIKEAKQEGIKVLAYDRMIN---NA--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNAKLFRAG 167 (330)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCC---CC--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccHHHHHHH
Confidence 2223344566778999998744221 11 122356778888888888888777778876654322 223344667
Q ss_pred HHHHHhhc---C-cEEEEeecCCCCCChHHHHHHHHhhc-c--CCceEEEEEcChhhHHHHHHHHHhCCCC
Q 002267 203 LGDALSKK---R-AKISYKAPFSPGASRSAINSLLVGAN-L--MESRVFVVHVNPDTGLTIFSVAKSLGMT 266 (945)
Q Consensus 203 l~~~l~~~---g-~~v~~~~~~~~~~~~~d~~~~l~~l~-~--~~~~vivl~~~~~~~~~~~~~a~~~g~~ 266 (945)
+++.++++ | +.+....... ..+..+....++++. + ..+++|+ +.+...+..+++.++++|+.
T Consensus 168 f~~~l~~~~~~~~i~~~~~~~~~-~~~~~~~~~~~~~lL~~~~~~~~aI~-~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 168 QMKVLKPYIDSGKIKVVGDQWVD-GWLPENALKIMENALTANNNKIDAVV-ASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHhhhccCCCeEEecccCCC-CCCHHHHHHHHHHHHHhCCCCccEEE-ECCCchHHHHHHHHHHCCCC
Confidence 77777763 4 5442221111 122223333444432 2 2466544 45666677889999999975
No 159
>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=97.52 E-value=0.012 Score=62.52 Aligned_cols=204 Identities=9% Similarity=-0.019 Sum_probs=119.0
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 129 (945)
+||+++|.. ..+-.....+++.++++. |+.+.+...+...+...-.+....++++++.+||= |.......
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 589998853 333345666777777654 45555542222234444455666777778876653 33322222
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCC-----eEEEEEEEeC--CcccchHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGW-----REVIAIFVDD--DYGRNGISV 202 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w-----~~v~ii~~d~--~~g~~~~~~ 202 (945)
....+...++|+|.+....+ +. ........++...+..+++++-..+- ++|+++.... .....-.+.
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 11224566666677888887766555 8999997532 234455788
Q ss_pred HHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 203 LGDALSKKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 203 l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+++++++.++++.... .. ..+...-...++++.+ .++++|+. . ...+..+++.+++.|+ .++...++
T Consensus 147 ~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~-~-d~~a~~~~~~l~~~g~-p~di~vig 215 (268)
T cd06306 147 FRDALAGSAIEISAIK-YG-DTGKEVQRKLVEEALEAHPDIDYIVG-S-AVAAEAAVGILRQRGL-TDQIKIVS 215 (268)
T ss_pred HHHHHhhcCcEEeeec-cC-CccHHHHHHHHHHHHHhCCCcCEEee-c-chhhhHHHHHHHhcCC-CCCeEEEe
Confidence 8999999998875421 11 1233333344444432 34677764 3 6677888999999997 33434443
No 160
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.49 E-value=0.014 Score=62.72 Aligned_cols=199 Identities=10% Similarity=0.043 Sum_probs=116.5
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
+||+++|.. ..+-.....+++-++++. |+.+. +.++..++..-.+...+++.+++.+|| .|..+....
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 488999843 333345566666666552 45544 456666777766777778888877665 343333333
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc------CCeEEEEEEEeCC--cccchHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY------GWREVIAIFVDDD--YGRNGIS 201 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~------~w~~v~ii~~d~~--~g~~~~~ 201 (945)
.....+...++|+|......+. ...++ .+..++...+..+++.+... |-++++++..+.. ......+
T Consensus 71 ~~l~~l~~~~ipvV~~~~~~~~---~~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 71 SAVEKAADAGIPVIAYDRLILN---SNVDY--YVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHHHCCCCEEEECCCCCC---CCcce--EEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 4445566789999987554321 11222 23455555666677765444 8899999875432 2334467
Q ss_pred HHHHHHhhcC----cEEEEeecCCCCCChHHHHHHHHhhccC---CceEEEEEcChhhHHHHHHHHHhCCCCC
Q 002267 202 VLGDALSKKR----AKISYKAPFSPGASRSAINSLLVGANLM---ESRVFVVHVNPDTGLTIFSVAKSLGMTA 267 (945)
Q Consensus 202 ~l~~~l~~~g----~~v~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vivl~~~~~~~~~~~~~a~~~g~~~ 267 (945)
.+.+++++.+ +++.... .....+..+-...+.++.+. ++++|+. .+...+..++.++++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~I~~-~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGEV-ATPDWDPETAQKRMENALTANYNKVDGVLA-ANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEecc-ccCCCCHHHHHHHHHHHHHhCCCCccEEEe-CCcHHHHHHHHHHHHcCCCC
Confidence 7889999887 5543321 11112222233344444332 3555554 45666778889999988765
No 161
>cd06316 PBP1_ABC_sugar_binding_like_7 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.49 E-value=0.015 Score=62.80 Aligned_cols=211 Identities=13% Similarity=0.050 Sum_probs=115.7
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
|||++.|-- ..+-.....+++-++++ . |+++.++ .++..++..-.+....++.+++.+|| .|.......
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~----~----g~~~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~ 71 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAK----L----GIEVVAT-TDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTA 71 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHH----c----CCEEEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhh
Confidence 588888742 22222333444333332 1 5666533 35666777666677777777777554 443322223
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeCCc--ccchHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDDDY--GRNGISVLGD 205 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l~~ 205 (945)
.....+...++|+|.+....+..... -+++.-+..++..-+..+++++... |-++++++..+.+. ...-.+.+.+
T Consensus 72 ~~i~~~~~~~iPvV~~~~~~~~~~~~-~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~ 150 (294)
T cd06316 72 AAYKKVAEAGIKLVFMDNVPSGLEHG-KDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKE 150 (294)
T ss_pred HHHHHHHHcCCcEEEecCCCcccccC-cceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHH
Confidence 44455667899999876543322111 1233335556666677788877655 78999999754332 3344677888
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
.+++++..+........ .+.......++++.. ..+++|+. .+...+..+++.+++.|+ .+...++.+
T Consensus 151 ~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~--~di~vvg~d 219 (294)
T cd06316 151 TIKKNYPDITIVAEKGI-DGPSKAEDIANAMLTQNPDLKGIYA-VWDVPAEGVIAALRAAGR--DDIKVTTVD 219 (294)
T ss_pred HHHHhCCCcEEEeecCC-cchhHHHHHHHHHHHhCCCeeEEEe-CCCchhHHHHHHHHHcCC--CCceEEEeC
Confidence 88766532211111110 112222233444332 24565554 455678889999999987 344455544
No 162
>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=97.48 E-value=0.02 Score=60.93 Aligned_cols=193 Identities=11% Similarity=0.038 Sum_probs=116.8
Q ss_pred chHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhHHHHHHHhhcccCccEEe
Q 002267 66 AAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSGIAHVISHVVNELNVPLLS 144 (945)
Q Consensus 66 ~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~~va~~~~~~~iP~Is 144 (945)
....+++-+.++. |+.+.+ .++..++..-.+....++.+++.+||= |..+.........+...++|+|.
T Consensus 16 ~~~~gi~~~~~~~--------G~~~~~--~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~ 85 (272)
T cd06313 16 QGKQAADEAGKLL--------GVDVTW--YGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVID 85 (272)
T ss_pred HHHHHHHHHHHHc--------CCEEEE--ecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEE
Confidence 4455555555542 555554 466668877777788888888776543 44444334444555667999998
Q ss_pred cccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeCC--cccchHHHHHHHHhhcC-cEEEEeec
Q 002267 145 FGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDDD--YGRNGISVLGDALSKKR-AKISYKAP 219 (945)
Q Consensus 145 ~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~l~~~l~~~g-~~v~~~~~ 219 (945)
+....+ ....+.+....+++...+..+++++... |.++++++..+.. ....-.+.+.+.+++.+ .++...
T Consensus 86 ~~~~~~---~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~-- 160 (272)
T cd06313 86 MGTLIA---PLQINVHSFLAPDNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE-- 160 (272)
T ss_pred eCCCCC---CCCCceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--
Confidence 754332 1111223446677777788888877655 8899999975432 23345788999998875 665432
Q ss_pred CCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 220 FSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 220 ~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
.....+.......++++.+. ++++| ++.+...+..+++.+++.|+ .+...++.|
T Consensus 161 ~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~nd~~a~g~~~al~~~g~--~di~vvgfd 216 (272)
T cd06313 161 QPANWDVSKAARIWETWLTKYPQLDGA-FCHNDSMALAAYQIMKAAGR--TKIVIGGVD 216 (272)
T ss_pred cCCCCCHHHHHHHHHHHHHhCCCCCEE-EECCCcHHHHHHHHHHHcCC--CceEEEeec
Confidence 11112333334455554433 34554 44566677788999999997 444444433
No 163
>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=97.48 E-value=0.012 Score=63.91 Aligned_cols=210 Identities=15% Similarity=0.105 Sum_probs=123.5
Q ss_pred EEEEeccC--CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CcEEEE-ccCChhH
Q 002267 53 IGALFTYD--SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN--EVVAAI-GPQSSGI 127 (945)
Q Consensus 53 IG~l~~l~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~--~v~aii-Gp~~s~~ 127 (945)
||+++|-. ..+-.....+++.++++. |+.+.+. ++..+...-......++.+ +|.+|| .|... .
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~--------g~~v~~~--~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~-~ 70 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL--------GIELEVL--YAERDRFLMLQQARTILQRPDKPDALIFTNEKS-V 70 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc--------CCeEEEE--eCCCCHHHHHHHHHHHHHhccCCCEEEEcCCcc-c
Confidence 78888763 223334556666665542 5666554 5556776666777788888 888765 33322 2
Q ss_pred HHHHHHhhcccCccEEecccCCCCCC-----C--CCC-CceEEecCChhHHHHHHHHHHHHcCCeE--------EEEEEE
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLT-----S--LQY-PYFLRTTQSDYYQMHAVADLVEYYGWRE--------VIAIFV 191 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls-----~--~~~-p~~~r~~p~d~~~~~ai~~~l~~~~w~~--------v~ii~~ 191 (945)
.......+...++|+|.+....+... . ..+ .++-...+++...+..+++.+...|-++ ++++..
T Consensus 71 ~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~ 150 (305)
T cd06324 71 APELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISG 150 (305)
T ss_pred hHHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeC
Confidence 33344566778999998765432211 0 111 2344566777777888888776666553 766653
Q ss_pred e--CCcccchHHHHHHHHhhcC-cEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCC
Q 002267 192 D--DDYGRNGISVLGDALSKKR-AKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMT 266 (945)
Q Consensus 192 d--~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~ 266 (945)
+ ......-.+.++++++++| ..+... .....+.......+.++.+. ++++|+ +.+...+..+++++++.|+.
T Consensus 151 ~~~~~~~~~R~~Gf~~~~~~~g~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~ 227 (305)
T cd06324 151 DPTTPAAILREAGLRRALAEHPDVRLRQV--VYAGWSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAGRK 227 (305)
T ss_pred CCCChHHHHHHHHHHHHHHHCCCceEeee--ecCCCCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcCCC
Confidence 3 2233445678899999887 444221 11112333334455554332 456654 45666778899999999987
Q ss_pred CC-CeEEEEeC
Q 002267 267 AG-SYVWIATD 276 (945)
Q Consensus 267 ~~-~~~wi~~~ 276 (945)
.+ +...++.|
T Consensus 228 vp~di~vig~D 238 (305)
T cd06324 228 PGRDVLFGGVN 238 (305)
T ss_pred cCCCEEEEecC
Confidence 54 34455444
No 164
>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=97.46 E-value=0.0092 Score=63.24 Aligned_cols=205 Identities=12% Similarity=0.057 Sum_probs=117.4
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||+++|.. ..+-.....+++-++++. |+.+.+. ++..++..-......++..++.+||=-........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~ 70 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA--------GYSTIIG--NSDENPETENRYLDNLLSQRVDGIIVVPHEQSAEQ 70 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc--------CCEEEEE--eCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCChHH
Confidence 489998853 334345667777776653 4555543 44456655555566677778877664222222222
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHHHHHh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLGDALS 208 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 208 (945)
...+...++|+|......+ ....+++ ..++..-+..+++.+...|-++|+++.... .....-.+.+.++++
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 4555667999998754322 2223443 234444445566667667899999996432 233444678899999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+.|+++.............+....+.++.+.++++|+. .+...+..+++.+++.|+..++-+.+.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~av~~-~~d~~a~gv~~al~~~g~~vp~dv~v~ 208 (265)
T cd06299 144 SLGLEVNEDLVVLGGYSQESGYAGATKLLDQGATAIIA-GDSMMTIGAIRAIHDAGLVIGEDISLI 208 (265)
T ss_pred HCCCCCChHhEEecCcchHHHHHHHHHHHcCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 88854321111111112233334455554444776554 556668888999999998654434333
No 165
>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=97.46 E-value=0.011 Score=62.76 Aligned_cols=205 Identities=11% Similarity=0.016 Sum_probs=118.2
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
+||++.|-. ..+-.....+++-++++. |+++.+. ++..++..-.+....+...++.+||--.+......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------gy~v~~~--~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADAR--------GLSLVLC--ATRNRPERELTYLRWLDTNHVDGLIFVTNRPDDGA 70 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHHC--------CCEEEEE--eCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHH
Confidence 478888753 333334555655555532 5667544 33345555455555666667877774222211222
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC--cccchHHHHHHHHh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD--YGRNGISVLGDALS 208 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 208 (945)
+..+. ..++|+|......+. ...+ ...+++...+..+++.+...|-++++++..+.. ....-.+.+.++++
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~~---~~~~---~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVPG---AKVP---KVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHH-hcCCCEEEECCCCCC---CCCC---EEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 33333 347999987543321 1122 355677778888888887789999999975433 22345688999999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+.|..+..........+..+....+.++.+ ..+++|+. .+...+..+++++++.|...++-+-|.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~vp~di~i~ 210 (269)
T cd06293 144 EAHIPEVPEYVCFGDYTREFGRAAAAQLLARGDPPTAIFA-ASDEIAIGLLEVLRERGLSIPGDMSLV 210 (269)
T ss_pred HcCCCCChheEEecCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEE
Confidence 888643211111111222333344555432 34676555 456667788899999998655544443
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=97.46 E-value=0.008 Score=63.67 Aligned_cols=190 Identities=13% Similarity=0.049 Sum_probs=111.7
Q ss_pred EEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHH
Q 002267 53 IGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVI 131 (945)
Q Consensus 53 IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 131 (945)
||++.|.. ..+-.....++.-++++. |+++.+...++. . ...+...+++.+++.+||--.+.... ..
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~~~~~~~~--~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~ 69 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQAR--------GYQPLLINTDDD--E-DLDAALRQLLQYRVDGVIVTSGTLSS-EL 69 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHC--------CCeEEEEcCCCC--H-HHHHHHHHHHHcCCCEEEEecCCCCH-HH
Confidence 78888753 333334455554444432 677776655542 2 22344556677788777642222222 23
Q ss_pred HHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHHHHHhh
Q 002267 132 SHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLGDALSK 209 (945)
Q Consensus 132 a~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~~ 209 (945)
.+.+...++|+|.+....+ + +.+..+.+++...+..+++++...|-++|+++..+. .......+.+.+.+++
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 5556678999998754322 1 223446677777888888888777999999997543 3344556788999998
Q ss_pred cCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhC
Q 002267 210 KRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 210 ~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
.|..+.... .. ..+..+....+.++.+. ++++|+.. +...+..+++.+++.
T Consensus 144 ~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~ 196 (266)
T cd06278 144 AGVPVVVEE-AG-DYSYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQE 196 (266)
T ss_pred cCCChhhhc-cC-CCCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHh
Confidence 887643211 11 12233333444444333 45665554 444566777777765
No 167
>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=97.45 E-value=0.013 Score=62.10 Aligned_cols=205 Identities=12% Similarity=0.023 Sum_probs=116.2
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||+++|-. ..+-.....+++-+.+ .. |+.+.+ .++..++..-.+....++.+++.+||=.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~~~~~~~----~~----g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (264)
T cd06274 1 TIGLIIPDLENRSFARIAKRLEALAR----ER----GYQLLI--ACSDDDPETERETVETLIARQVDALIVAGSLPPDDP 70 (264)
T ss_pred CEEEEeccccCchHHHHHHHHHHHHH----HC----CCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHH
Confidence 378998853 2222233344433333 21 555544 455556666566666777888877663222222222
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHHHHHh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLGDALS 208 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 208 (945)
+. .+...++|+|.+....+ +...++ +..++..-+..+++.+...|-++++++..+. .......+.+.+.++
T Consensus 71 ~~-~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (264)
T cd06274 71 YY-LCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALA 143 (264)
T ss_pred HH-HHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHH
Confidence 33 45668899998744322 122333 3445555567778877778889999997543 234455788999999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccC---CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLM---ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+.|+.+..........+.......+.++... .+++|+. .+...+..+++++++.|+..++-+-|.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~A~g~~~al~~~g~~ip~dv~v~ 211 (264)
T cd06274 144 DAGLPVQPDWIYAEGYSPESGYQLMAELLARLGRLPRALFT-TSYTLLEGVLRFLRERPGLAPSDLRIA 211 (264)
T ss_pred HcCCCCCcceeecCCCChHHHHHHHHHHHccCCCCCcEEEE-cChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 9886432111111112223333444554322 3676664 456667789999999998755544443
No 168
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.44 E-value=0.008 Score=66.51 Aligned_cols=209 Identities=10% Similarity=0.008 Sum_probs=119.6
Q ss_pred ceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhH
Q 002267 49 SSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGI 127 (945)
Q Consensus 49 ~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 127 (945)
..-+||+++|-. ..+-.....|++-++++. |+.+. +.++..++..-.+....+..+++.+||--.....
T Consensus 58 ~~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~ 127 (341)
T PRK10703 58 HTKSIGLLATSSEAPYFAEIIEAVEKNCYQK--------GYTLI--LCNAWNNLEKQRAYLSMLAQKRVDGLLVMCSEYP 127 (341)
T ss_pred CCCeEEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCC
Confidence 345899999864 333334556666555542 45544 4455566666556666677777777653111111
Q ss_pred HHHHHHhhcc-cCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe--CCcccchHHHHH
Q 002267 128 AHVISHVVNE-LNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD--DDYGRNGISVLG 204 (945)
Q Consensus 128 ~~~va~~~~~-~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~ 204 (945)
. .....+.. .++|+|.+....+ +..++.+ ..+++...+..+++.+-..|-+++++|..+ +..+..-.+.+.
T Consensus 128 ~-~~~~~l~~~~~iPvV~~d~~~~---~~~~~~~--v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~ 201 (341)
T PRK10703 128 E-PLLAMLEEYRHIPMVVMDWGEA---KADFTDA--IIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFM 201 (341)
T ss_pred H-HHHHHHHhcCCCCEEEEecccC---CcCCCCe--EEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHH
Confidence 1 22344444 6999998754321 1111222 344445556777777766789999999643 334445578899
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+++++.|+++.............+....+.++... .+++|+. .+...+..+++++++.|...++-+.+.
T Consensus 202 ~~l~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~g~~ip~dv~vv 272 (341)
T PRK10703 202 KAMEEANIKVPEEWIVQGDFEPESGYEAMQQILSQKHRPTAVFC-GGDIMAMGAICAADEMGLRVPQDISVI 272 (341)
T ss_pred HHHHHcCCCCChHHeEeCCCCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 99999997654321111112223334455554333 4676664 556667789999999998655444433
No 169
>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=97.44 E-value=0.0085 Score=63.96 Aligned_cols=205 Identities=12% Similarity=0.040 Sum_probs=128.6
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
+||+++|-- .++-.....|++-++++- |+.+-+ .++..++..- +....|.+++|.++|=.........
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~~--------Gy~l~l--~~t~~~~~~e-~~i~~l~~~~vDGiI~~s~~~~~~~ 71 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEAREH--------GYQLLL--CNTGDDEEKE-EYIELLLQRRVDGIILASSENDDEE 71 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHHT--------TCEEEE--EEETTTHHHH-HHHHHHHHTTSSEEEEESSSCTCHH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHHc--------CCEEEE--ecCCCchHHH-HHHHHHHhcCCCEEEEecccCChHH
Confidence 699999985 333335556666655552 676655 4555566555 5566666777776653322222345
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeE-EEEEEEeCCc--ccchHHHHHHHH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWRE-VIAIFVDDDY--GRNGISVLGDAL 207 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~-v~ii~~d~~~--g~~~~~~l~~~l 207 (945)
+..+.+. ++|+|......... ...|++. .++..-+..+++.+...|-++ |+++..+... ...-.+.+.+++
T Consensus 72 l~~~~~~-~iPvV~~~~~~~~~--~~~~~V~---~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al 145 (279)
T PF00532_consen 72 LRRLIKS-GIPVVLIDRYIDNP--EGVPSVY---IDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDAL 145 (279)
T ss_dssp HHHHHHT-TSEEEEESS-SCTT--CTSCEEE---EEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHc-CCCEEEEEeccCCc--ccCCEEE---EcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHH
Confidence 5666666 99999764432111 1334442 345555667777888889999 9999876443 344567799999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceE-EEEEcChhhHHHHHHHHHhCC-CCCCCeEEE
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLMESRV-FVVHVNPDTGLTIFSVAKSLG-MTAGSYVWI 273 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~v-ivl~~~~~~~~~~~~~a~~~g-~~~~~~~wi 273 (945)
++.|+.+..........+..+-...++++.+.+|++ .|++++...+..+++++++.| ...++-+-+
T Consensus 146 ~~~Gl~~~~~~i~~~~~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~gr~~ip~di~~ 213 (279)
T PF00532_consen 146 KEAGLPIDEEWIFEGDFDYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERGRLKIPEDIVS 213 (279)
T ss_dssp HHTTSCEEEEEEEESSSSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT-TCTTTEEEE
T ss_pred HHcCCCCCcccccccCCCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcCCcccChhhee
Confidence 999996554443332234445455666666666651 344567788889999999999 776655533
No 170
>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=97.43 E-value=0.015 Score=61.49 Aligned_cols=197 Identities=11% Similarity=0.037 Sum_probs=115.6
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 129 (945)
.||+++|-. ..+-.....+++-++++. |+.+.+...+. .++..-.+....++++++.++|- +......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~-~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~- 70 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA--------GYAVTLSMLAE-ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD- 70 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC--------CCeEEEEeCCC-CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-
Confidence 378998853 333334556666666552 56666654332 23444445555666777877763 3222222
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCc--ccchHHHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDY--GRNGISVLGDAL 207 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l~~~l 207 (945)
.+.. ....++|+|.+....+ . .+.....++..-+..+++.+...|-++|+++..+... .....+.+.+++
T Consensus 71 ~~~~-~~~~~ipvv~~~~~~~----~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l 142 (264)
T cd01574 71 AALA-AAPADVPVVFVDGSPS----P---RVSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAAL 142 (264)
T ss_pred HHHH-HHhcCCCEEEEeccCC----C---CCCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHH
Confidence 3333 3467899998754321 1 2233556667778888888877899999999754332 234457788888
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccC-CceEEEEEcChhhHHHHHHHHHhCCCCCCC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLM-ESRVFVVHVNPDTGLTIFSVAKSLGMTAGS 269 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~-~~~vivl~~~~~~~~~~~~~a~~~g~~~~~ 269 (945)
++.|+.+....... .+..+....+.++... ++++|+. .+...+..+++++++.|...++
T Consensus 143 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~g~~~~~~~~g~~ip~ 202 (264)
T cd01574 143 EAAGIAPPPVLEGD--WSAESGYRAGRELLREGDPTAVFA-ANDQMALGVLRALHELGLRVPD 202 (264)
T ss_pred HHCCCCcceeeecC--CCHHHHHHHHHHHHhCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCcc
Confidence 88887654322111 2233333444454433 3666544 4566677889999998875443
No 171
>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=97.42 E-value=0.011 Score=62.69 Aligned_cols=200 Identities=12% Similarity=-0.012 Sum_probs=118.0
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||+++|-. ..+-.....|++-++++. |+++.+.. +..++..-.+....++.+++.+||--.+.... .
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~~--~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~ 69 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA--------GKHLIITA--GHHSAEKEREAIEFLLERRCDALILHSKALSD-D 69 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC--------CCEEEEEe--CCCchHHHHHHHHHHHHcCCCEEEEecCCCCH-H
Confidence 378888863 333345666666666653 56666543 44455555555666777777766642222111 2
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC--cccchHHHHHHHHh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD--YGRNGISVLGDALS 208 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 208 (945)
....+...++|+|.+....+ +..+++ ...++...+..+++++...|-+++++|..+.. ....-.+.+.+.++
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 13445667999998754322 112232 45667777888888887779999999975432 22344677889999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCC
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGS 269 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~ 269 (945)
+.|+++.....+....+..+....++++.+. .+++|+. .+...+..+++.+++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~ 205 (268)
T cd06270 144 EAGIALDESLIIEGDFTEEGGYAAMQELLARGAPFTAVFC-ANDEMAAGAISALREHGISVPQ 205 (268)
T ss_pred HcCCCCCcceEEECCCCHHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCC
Confidence 8886542111111112333444555555433 3565554 4455677889999999986543
No 172
>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=97.41 E-value=0.0093 Score=63.22 Aligned_cols=204 Identities=14% Similarity=0.111 Sum_probs=120.3
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
.||+++|-. ..+-.....++.-++++. |+++. +.++..++..-.+....+..+++.+|| .|... ...
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~--------~~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~-~~~ 69 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER--------GYSTF--VANTGDNPDAQRRAIEMLLDRRVDGLILGDARS-DDH 69 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCC-ChH
Confidence 379999853 333334556666555553 56654 345555666555556666777777665 44332 222
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLGDAL 207 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l 207 (945)
. ...+...++|+|.+....+ ..++ +..++..-+..+++++...|-++++++..+. ..+....+.+.+.+
T Consensus 70 ~-~~~~~~~~iPvv~~~~~~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 140 (265)
T cd06285 70 F-LDELTRRGVPFVLVLRHAG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAAL 140 (265)
T ss_pred H-HHHHHHcCCCEEEEccCCC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHH
Confidence 3 3445668999998754321 2233 3456666677788888778999999997543 23445578889999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCC-CeEEEEeC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAG-SYVWIATD 276 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~-~~~wi~~~ 276 (945)
++.|+.+.....+....+.......++++... .+++|+ +.+...+..+++.+++.|+..+ +...++.|
T Consensus 141 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~~p~di~iig~d 211 (265)
T cd06285 141 AEAGIEVPPERIVYSGFDIEGGEAAAEKLLRSDSPPTAIF-AVNDFAAIGVMGAARDRGLRVPDDVALVGYN 211 (265)
T ss_pred HHcCCCCChhhEEeCCCCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 99887643211111112233333445554333 356544 4566677789999999998643 34444433
No 173
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.39 E-value=0.028 Score=60.12 Aligned_cols=205 Identities=16% Similarity=0.056 Sum_probs=118.4
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
+||++.|-. ..+-.....+++.+.++. |+.+. +.++..++..-.+....++.+++.+|| .+..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~--------g~~v~--~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL--------GYELI--STDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH
Confidence 588888853 333334556666666642 45553 456666776666666777777876655 343333223
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHH-cCCe--EEEEEEEe--CCcccchHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEY-YGWR--EVIAIFVD--DDYGRNGISVLG 204 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~-~~w~--~v~ii~~d--~~~g~~~~~~l~ 204 (945)
.....+...++|+|.+....+ +. .+.+..+..++...+..+++.+-. .|-+ +++++..+ ...+..-.+.++
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~---~~-~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 146 (282)
T cd06318 71 PAVAAAKAAGVPVVVVDSSIN---LE-AGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFL 146 (282)
T ss_pred HHHHHHHHCCCCEEEecCCCC---CC-cCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHH
Confidence 334555678999998754321 10 123345666777778888887744 6754 88888643 334556678889
Q ss_pred HHHhhcCcE--------EEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 205 DALSKKRAK--------ISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 205 ~~l~~~g~~--------v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+++++.|+. +... ... ..+..+....+.++.. .++++|+. .+...+..+++++++.|+. .+...++
T Consensus 147 ~~l~~~~~~~~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~-~dv~vvg 222 (282)
T cd06318 147 LGVSEAQLRKYGKTNFTIVAQ-GYG-DWTREGGLKAMEDLLVAHPDINVVYS-ENDDMALGAMRVLAEAGKT-DDVKVAA 222 (282)
T ss_pred HHHhhCcccccccCCeEEEec-CCC-CCCHHHHHHHHHHHHHhCCCcCEEEE-CCcchHHHHHHHHHHcCCC-CCeEEEe
Confidence 999888642 2210 111 1222233334444332 23555554 4555677888999999974 3333333
No 174
>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=97.36 E-value=0.041 Score=58.50 Aligned_cols=206 Identities=14% Similarity=0.124 Sum_probs=113.8
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~~ 130 (945)
+||++...+..+-.....++..++++. |+.+.+.. ++..++..-.+....+++++|.++| .|........
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 71 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKEL--------GVDVEFVV-PQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIP 71 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHHc--------CCeEEEeC-CCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHH
Confidence 478887655444344556666555552 55655542 3344665555666677777887665 4443332223
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeC--CcccchHHHHHHH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDD--DYGRNGISVLGDA 206 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~~ 206 (945)
....+.. ++|+|......+. . +.+.-+..++..-+..+++++... +-.+++++.... .....-.+.++++
T Consensus 72 ~l~~~~~-~ipvV~~~~~~~~---~--~~~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~~ 145 (271)
T cd06314 72 ALNKAAA-GIKLITTDSDAPD---S--GRYVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKDA 145 (271)
T ss_pred HHHHHhc-CCCEEEecCCCCc---c--ceeEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHHH
Confidence 3333345 9999987542211 1 112224455666667777776553 334566665432 2344557889999
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
+++.|+++.... .. ..+..+....+.++.+. .+++|+. .+...+..+++.+++.|.. ++...++.|
T Consensus 146 ~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~-~~d~~a~~~~~al~~~g~~-~di~vig~d 213 (271)
T cd06314 146 IKDSKIEIVDTR-GD-EEDFAKAKSNAEDALNAHPDLKCMFG-LYAYNGPAIAEAVKAAGKL-GKVKIVGFD 213 (271)
T ss_pred HhcCCcEEEEEe-cC-ccCHHHHHHHHHHHHHhCCCccEEEe-cCCccHHHHHHHHHHcCCC-CceEEEEeC
Confidence 999998765422 11 12333344455555433 3566654 3445555678888888876 444444443
No 175
>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=97.34 E-value=0.018 Score=61.28 Aligned_cols=206 Identities=17% Similarity=0.099 Sum_probs=120.5
Q ss_pred EEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--ccCChh--H
Q 002267 53 IGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI--GPQSSG--I 127 (945)
Q Consensus 53 IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s~--~ 127 (945)
||++.|-. ..+-.....+++-++++. |+.+.+ .++..++..-.+....+..+++.++| ++.... .
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~ 71 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQY--------GYTVLL--CNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTHA 71 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHC--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccc
Confidence 78998853 333345556666666552 566643 45555666666667778888777665 322121 1
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLGD 205 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~ 205 (945)
.......+...++|+|.+....+. ....+ ....++...+..+++.+...|-++++++.... .....-.+.+.+
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 122234456789999987553321 01223 24556777778888888778999999986432 223455788899
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+++++|+.......+....+.......+.++....+++|+. .+...+..+++.+++.|+..++-+-+.
T Consensus 147 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~di~ii 214 (273)
T cd06292 147 ALEEAGLEPPEALVARGMFSVEGGQAAAVELLGSGPTAIVA-ASDLMALGAIRAARRRGLRVPEDVSVV 214 (273)
T ss_pred HHHHcCCCCChhheEeCCCCHHHHHHHHHHHhcCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 99998864211101111112222333444444334776654 456667788899999998655444443
No 176
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.33 E-value=0.018 Score=63.68 Aligned_cols=203 Identities=9% Similarity=0.028 Sum_probs=118.7
Q ss_pred ceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhH
Q 002267 49 SSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGI 127 (945)
Q Consensus 49 ~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 127 (945)
..-.||+++|-. ..+-.....+++-++++ . |+.+-+ .++..++..-......+.++++.+||=-.....
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~---~-----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 132 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEA---Q-----GRMVFL--LQGGKDGEQLAQRFSTLLNQGVDGVVIAGAAGS 132 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHH---c-----CCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 456899999853 33334455666655543 2 455543 344456555555566677777776663211222
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC--cccchHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD--YGRNGISVLGD 205 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~ 205 (945)
.......+...++|+|...... .....++ +..++...+..+++++...|.++|++|..+.. ....-.+.+.+
T Consensus 133 ~~~~~~~l~~~~iPvV~~~~~~---~~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~ 206 (342)
T PRK10014 133 SDDLREMAEEKGIPVVFASRAS---YLDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCA 206 (342)
T ss_pred cHHHHHHHhhcCCCEEEEecCC---CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHHH
Confidence 2344566677899999864321 1122232 45566667777888887789999999964332 22345678899
Q ss_pred HHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCC
Q 002267 206 ALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAG 268 (945)
Q Consensus 206 ~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~ 268 (945)
++++.|+.+.....+............+.++.+. .+++|+ +.+...+..+++.+.+.|+..+
T Consensus 207 al~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 207 TLLKFGLPFHSEWVLECTSSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHcCCCCCcceEecCCCChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 9999987543211111111222333344444333 456655 4566777888899999998654
No 177
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.32 E-value=0.012 Score=62.47 Aligned_cols=207 Identities=13% Similarity=0.076 Sum_probs=114.9
Q ss_pred EEEEEecc------CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCC
Q 002267 52 RIGALFTY------DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMEN-EVVAAIGPQS 124 (945)
Q Consensus 52 ~IG~l~~l------~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 124 (945)
.||+++|. +..+-.....+++-++++. |+++.+. ++.. +..-.+...+++.+ ++.+||-...
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 37888884 2233334556666666552 5666553 3332 33334555566544 5666554221
Q ss_pred hhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCc--ccchHHH
Q 002267 125 SGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDY--GRNGISV 202 (945)
Q Consensus 125 s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~ 202 (945)
... ......+...++|+|.+....+ . .+.+..+..++...+..+++.+...|-++++++..+..+ .....+.
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 2334455678999998754321 1 011222445666667777887766799999999754332 2345678
Q ss_pred HHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCC-eEEEEeC
Q 002267 203 LGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGS-YVWIATD 276 (945)
Q Consensus 203 l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~-~~wi~~~ 276 (945)
+.+.+++.|+.+..........+..+....+.++.+. ++++|+. .+...+..+++++++.|+..++ ..+++.+
T Consensus 144 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv~vig~d 219 (270)
T cd06294 144 YKQALEDHGIPDRNEVIISLDFSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDLSIIGFN 219 (270)
T ss_pred HHHHHHHcCCCCCcceEEecCCchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcceEEEeeC
Confidence 8999999885321111111112223334455554333 3666555 4566788899999999986544 3444433
No 178
>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=97.31 E-value=0.015 Score=61.85 Aligned_cols=207 Identities=11% Similarity=0.037 Sum_probs=120.3
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
.||++.|.. ..+-.....+++-++++. |+++.+ .++..++..-.+....++++++.+|| .|.....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-- 68 (270)
T cd06296 1 LIGLVFPDLDSPWASEVLRGVEEAAAAA--------GYDVVL--SESGRRTSPERQWVERLSARRTDGVILVTPELTS-- 68 (270)
T ss_pred CeEEEECCCCCccHHHHHHHHHHHHHHc--------CCeEEE--ecCCCchHHHHHHHHHHHHcCCCEEEEecCCCCh--
Confidence 378888753 444455666666666552 556644 44444554444455667777787765 3333222
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLGDAL 207 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l 207 (945)
.....+...++|+|.+...... ...+++ ..+++...+..+++.+...|.++++++..+. .......+.+.+++
T Consensus 69 ~~~~~~~~~~ipvV~i~~~~~~--~~~~~~---v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 143 (270)
T cd06296 69 AQRAALRRTGIPFVVVDPAGDP--DADVPS---VGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAAL 143 (270)
T ss_pred HHHHHHhcCCCCEEEEecccCC--CCCCCE---EEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHH
Confidence 2345567789999987543211 112232 5566666777788877777999999996432 23345578889999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCC-eEEEEeC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGS-YVWIATD 276 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~-~~wi~~~ 276 (945)
++.|+.+..........+.+.....+.++.. ..+++|+. .+...+..+++.+++.|...++ ...++.|
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 144 AEAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIFA-GNDLMALGVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HHcCCCCChHHheeCCCCHHHHHHHHHHHHhCCCCCcEEEE-cCcHHHHHHHHHHHHhCCCCCCceEEEEEC
Confidence 8888654321111111222333334444432 23555554 4566677889999999986443 4445443
No 179
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.31 E-value=0.028 Score=61.80 Aligned_cols=203 Identities=10% Similarity=-0.008 Sum_probs=117.6
Q ss_pred ceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChh
Q 002267 49 SSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSG 126 (945)
Q Consensus 49 ~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 126 (945)
..-.||+++|-. ..+-.....+++.++++. |+.+.+. ++..++..-.+....+...++.+||= +....
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~--------g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 129 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQR--------GYQLLIA--CSDDQPDNEMRCAEHLLQRQVDALIVSTSLPP 129 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHHc--------CCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCC
Confidence 356899999853 333234455666555441 5666554 34445554445555666777877653 22211
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLG 204 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~ 204 (945)
.... ...+...++|+|......+ ...+++ ...++...+..+++.+-..|-++|+++.... ..+..-.+.+.
T Consensus 130 ~~~~-~~~l~~~~iPvV~v~~~~~---~~~~~~---V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~ 202 (328)
T PRK11303 130 EHPF-YQRLQNDGLPIIALDRALD---REHFTS---VVSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGFR 202 (328)
T ss_pred ChHH-HHHHHhcCCCEEEECCCCC---CCCCCE---EEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHHH
Confidence 1222 3344567999998644221 122333 3456666677777877777999999997543 23445578899
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeE
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYV 271 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~ 271 (945)
+++++.|+.+..... . ..+..+-...++++.+. .+++|+.. +...+..+++++++.|+..++-+
T Consensus 203 ~al~~~g~~~~~~~~-~-~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~vP~di 268 (328)
T PRK11303 203 QALKDDPREVHYLYA-N-SFEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGELPSDL 268 (328)
T ss_pred HHHHHcCCCceEEEe-C-CCChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCce
Confidence 999999875432211 1 12222333344554333 46766654 45567788999999998655444
No 180
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=97.25 E-value=0.016 Score=62.49 Aligned_cols=185 Identities=10% Similarity=0.096 Sum_probs=111.7
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVI 131 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 131 (945)
+||++-..+...-.....|++-++++. |+.. ..+++.+.+.++|+....+.+.++.+.++..|+-- ++..+..+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~----g~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~-gt~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKEL----GYDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAI-GTPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHT----T--C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEE-SHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHc----CCcc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEe-CcHHHHHH
Confidence 588888877544446677777777664 2222 46788999999999998888888877776666542 34445555
Q ss_pred HHhhcccCccEEecccCCCCCCC----CCC--CceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeCCc-ccchHHH
Q 002267 132 SHVVNELNVPLLSFGATDPTLTS----LQY--PYFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDDDY-GRNGISV 202 (945)
Q Consensus 132 a~~~~~~~iP~Is~~a~~~~ls~----~~~--p~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~~~-g~~~~~~ 202 (945)
....... +|+|-.+.++|...+ ... +++.-+. +......-.++++++ +-++++++|+++.- +....+.
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 5555443 999876666665432 223 3555444 444455666666654 56999999976543 4566788
Q ss_pred HHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh
Q 002267 203 LGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP 250 (945)
Q Consensus 203 l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~ 250 (945)
+++.+++.|+++... .++ +..++...++.+. .+.|++++..+.
T Consensus 152 ~~~~a~~~g~~l~~~-~v~---~~~~~~~~~~~l~-~~~da~~~~~~~ 194 (294)
T PF04392_consen 152 LRKAAKKLGIELVEI-PVP---SSEDLEQALEALA-EKVDALYLLPDN 194 (294)
T ss_dssp HHHHHHHTT-EEEEE-EES---SGGGHHHHHHHHC-TT-SEEEE-S-H
T ss_pred HHHHHHHcCCEEEEE-ecC---cHhHHHHHHHHhh-ccCCEEEEECCc
Confidence 889999999988654 233 5678888888885 467888876543
No 181
>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=97.24 E-value=0.056 Score=58.44 Aligned_cols=207 Identities=8% Similarity=-0.047 Sum_probs=116.7
Q ss_pred EEEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhHHH
Q 002267 52 RIGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 129 (945)
+||++.+. +..+-.....+++-+.++. |+++.+. .++..++....+....++.+++.+||= +..+....
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~--------g~~v~~~-~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~ 71 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKEL--------GVDAIYV-GPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALE 71 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHh--------CCeEEEE-CCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHH
Confidence 48888874 3333345566666666652 5555543 234456666666666777777776653 33333223
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc-CC-eEEEEEEEeCC--cccchHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY-GW-REVIAIFVDDD--YGRNGISVLGD 205 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~-~w-~~v~ii~~d~~--~g~~~~~~l~~ 205 (945)
.....+...++|+|.+....+. .. ..+.....++...+..+++++... +- ++++++..+.. ....-.+.+++
T Consensus 72 ~~~~~~~~~~iPvV~v~~~~~~-~~---~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 72 PVLKKAREAGIKVVTHDSDVQP-DN---RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHHHCCCeEEEEcCCCCC-Cc---ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 4444566789999987543211 00 122334566677777788877554 43 69999875432 22344678899
Q ss_pred HHhhcC---cEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEe
Q 002267 206 ALSKKR---AKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIAT 275 (945)
Q Consensus 206 ~l~~~g---~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 275 (945)
+++++| +++.. .+....+...-...++++.+. ++++|+. .+...+..++++++++|+. .....++.
T Consensus 148 ~l~~~g~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~~~g~~-~dv~vvG~ 218 (298)
T cd06302 148 YQKEKYYPMLELVD--RQYGDDDADKSYQTAQELLKAYPDLKGIIG-PTSVGIPGAARAVEEAGLK-GKVAVTGL 218 (298)
T ss_pred HHhhcCCCCeEEeC--cccCCCCHHHHHHHHHHHHHhCCCceEEEE-CCCcchhHHHHHHHhcCCC-CCEEEEEe
Confidence 999887 33321 111112222323344444322 3555444 4556788899999999986 33334443
No 182
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.23 E-value=0.029 Score=61.59 Aligned_cols=206 Identities=9% Similarity=0.027 Sum_probs=116.7
Q ss_pred ceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCC-h
Q 002267 49 SSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQS-S 125 (945)
Q Consensus 49 ~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~-s 125 (945)
..-.||+++|.. ..+-.....+++-+.++. |+++.+ .++..++..-.+....+.+++|.+||= |.. +
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdGiI~~~~~~~ 124 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFER--------GYSLVL--CNTEGDEQRMNRNLETLMQKRVDGLLLLCTETH 124 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHHc--------CCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEeCCCcc
Confidence 456899999853 233334556666555541 566654 445556655555556677777776652 222 2
Q ss_pred hHHHHHHHhhcc-cCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe--CCcccchHHH
Q 002267 126 GIAHVISHVVNE-LNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD--DDYGRNGISV 202 (945)
Q Consensus 126 ~~~~~va~~~~~-~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~ 202 (945)
... ...... .++|+|....... ...++ ....++..-+..+++.+...|-++|++|..+ ......-.+.
T Consensus 125 ~~~---~~~l~~~~~iPvV~i~~~~~---~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~G 195 (327)
T PRK10423 125 QPS---REIMQRYPSVPTVMMDWAPF---DGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEG 195 (327)
T ss_pred hhh---HHHHHhcCCCCEEEECCccC---CCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHH
Confidence 222 122233 4899998753211 11111 2334444556777788878899999999643 2334456788
Q ss_pred HHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 203 LGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 203 l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+.+++++.|+.+.....+............+.++.+. .+++|+. ++...+..+++.+++.|+..++-+-+.
T Consensus 196 f~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~~l~~~g~~vP~dvsvi 268 (327)
T PRK10423 196 YRAAMKRAGLNIPDGYEVTGDFEFNGGFDAMQQLLALPLRPQAVFT-GNDAMAVGVYQALYQAGLSVPQDIAVI 268 (327)
T ss_pred HHHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHhcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 9999999997643211111111222223344454332 3566554 556667789999999998765544433
No 183
>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=97.21 E-value=0.049 Score=58.01 Aligned_cols=210 Identities=10% Similarity=0.010 Sum_probs=113.7
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
+||++.|-. ..+-.....+++-++++.+-. ...+..... +..++..-.+....+.. ++.+|| .+.......
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 588888753 333345566666666664211 123333322 23455544445555556 777664 344333223
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc-C--CeEEEEEEEeCC--cccchHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY-G--WREVIAIFVDDD--YGRNGISVLG 204 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~-~--w~~v~ii~~d~~--~g~~~~~~l~ 204 (945)
.....+.+.++|+|.+....+. .. .+..+..++...+..+++++... | -++++++..+.. ....-.+.+.
T Consensus 74 ~~i~~~~~~~ipvV~~~~~~~~--~~---~~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 74 AAVARLAAAGVPVVTLVSDLPG--SP---RAGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHHHCCCcEEEEeCCCCC--Cc---eeeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 3445566689999987543211 11 12234555556666666766443 5 469998875432 2334467889
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
+++++.+..+..........+..+....++++.+ .++++|+..... +..+++.+++.|+. .+...++.|
T Consensus 149 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~-~di~Ivg~d 219 (275)
T cd06307 149 SVLREEFPGLRVLETLEGLDDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA-GKVVFVGHE 219 (275)
T ss_pred HHHHhhCCCcEEEeeccCCCChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC-CCcEEEEec
Confidence 9998877544322222211233333345555432 356777776543 36889999999975 344455444
No 184
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=97.17 E-value=0.025 Score=59.90 Aligned_cols=194 Identities=13% Similarity=0.106 Sum_probs=111.4
Q ss_pred EEEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
.||++.|- +..+-.....+++-+.++. |+++.+ .++..++..-.+....+..+++.+|| .|....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~--- 67 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYKK--------GYKLIL--CNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG--- 67 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHHC--------CCeEEE--ecCCccHHHHHHHHHHHHHcCCCEEEEecCCcC---
Confidence 37888874 3433344555555555442 556543 45555665555555566666776665 333222
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC---CcccchHHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD---DYGRNGISVLGDA 206 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~l~~~ 206 (945)
. ..+...++|+|......+ ...++ ...++...+..+++++...|.++++++.... .....-.+.+.+.
T Consensus 68 -~-~~~~~~gipvv~~~~~~~----~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~ 138 (265)
T cd06291 68 -I-EEYENIDLPIVSFDRYLS----ENIPI---VSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDV 138 (265)
T ss_pred -H-HHHhcCCCCEEEEeCCCC----CCCCe---EeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHH
Confidence 1 244567999998765432 12232 4455566677788888777999999996432 3344556889999
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCC
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGS 269 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~ 269 (945)
+++.|+.+.... .....+..+....+.++... .+++|+. .+...+..+++.+++.|...++
T Consensus 139 l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~al~~~g~~vp~ 201 (265)
T cd06291 139 LKENGLEVRIIE-IQENFDDAEKKEEIKELLEEYPDIDGIFA-SNDLTAILVLKEAQQRGIRVPE 201 (265)
T ss_pred HHHcCCCCChhe-eeccccchHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCc
Confidence 999887542211 11111222223344444323 3455554 3455677889999999976443
No 185
>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=97.16 E-value=0.031 Score=59.00 Aligned_cols=197 Identities=13% Similarity=0.045 Sum_probs=117.4
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
.||++.|.. ..+-.....+++.+.++. |+.+.+. ++..++..-.+....+..+++.+|| -|.... ..
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~--------g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~-~~ 69 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH--------GYKVVLL--QTNYDKEKELEYLELLKTKQVDGLILCSREND-WE 69 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc--------CCEEEEE--eCCCChHHHHHHHHHHHHcCCCEEEEeCCCCC-HH
Confidence 378888863 444456667777776653 5666543 5555666655666667777777665 332222 23
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe--CCcccchHHHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD--DDYGRNGISVLGDAL 207 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l 207 (945)
.+..+.+ .+ |+|......+ ...+ ...+++...+..+++.+...|-++++++..+ +.......+.+.+.+
T Consensus 70 ~~~~~~~-~~-pvv~~~~~~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l 140 (260)
T cd06286 70 VIEPYTK-YG-PIVLCEEYDS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDAL 140 (260)
T ss_pred HHHHHhc-CC-CEEEEecccC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHH
Confidence 3334433 34 8886543211 1223 3456666777788888887899999999754 234445578899999
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCC
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGS 269 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~ 269 (945)
++.|+++.....+....+..+-...+.++.+ ..+++|+ +++...+..+++.++++|+..++
T Consensus 141 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~ip~ 203 (260)
T cd06286 141 EEYGLTPDEEWIFEGCFTIEDGERIGHQLLKMKDRPDAIF-TGSDEVAAGIITEAKKQGIRVPE 203 (260)
T ss_pred HHcCCCCChHheEeCCCCHHHHHHHHHHHHcCCCCCCEEE-EcchHHHHHHHHHHHHcCCCCCc
Confidence 9998654321111111222333344555443 3467654 56667788899999999986443
No 186
>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=97.16 E-value=0.036 Score=60.88 Aligned_cols=207 Identities=9% Similarity=0.006 Sum_probs=117.7
Q ss_pred ceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChh
Q 002267 49 SSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSG 126 (945)
Q Consensus 49 ~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~ 126 (945)
..-.||+++|-. ..+-.....+++-++++ .|+.+.+. ++..++..-.+....+..+++.+|| -|....
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 128 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE--------AGYQLLIA--CSDDNPDQEKVVIENLLARQVDALIVASCMPP 128 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEeCCCCC
Confidence 356899999842 33333445555544443 26676554 3444555544555566677787765 333221
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC--cccchHHHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD--YGRNGISVLG 204 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 204 (945)
.. .....+...++|+|......+ +..+++ +..++..-+..+++.+...|.++|+++..... ....-.+.++
T Consensus 129 ~~-~~~~~l~~~~iPvV~~~~~~~---~~~~~~---V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 129 ED-AYYQKLQNEGLPVVALDRSLD---DEHFCS---VISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred Ch-HHHHHHHhcCCCEEEEccccC---CCCCCE---EEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 22 223444567999998654322 112232 34455555666777777788999999974432 3345578889
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC---CceEEEEEcChhhHHHHHHHHHhCCCCCCC-eEEEEeC
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLM---ESRVFVVHVNPDTGLTIFSVAKSLGMTAGS-YVWIATD 276 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vivl~~~~~~~~~~~~~a~~~g~~~~~-~~wi~~~ 276 (945)
+++++.|+.+.... ....+.++-...+.++... .+++|+. .+...+..+++++++.| ..++ ...++.|
T Consensus 202 ~al~~~~~~~~~~~--~~~~~~~~~~~~~~~ll~~~~~~~~Ai~~-~~D~~A~g~~~al~~~g-~vP~dvsvigfd 273 (327)
T TIGR02417 202 QALKQATLEVEWVY--GGNYSRESGYQMFAKLCARLGRLPQALFT-TSYTLLEGVLDYMLERP-LLDSQLHLATFG 273 (327)
T ss_pred HHHHHcCCChHhEE--eCCCChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcC-CCCCcceEEEEC
Confidence 99999987532111 1112222333445554332 3676655 45566788999999999 6554 3444433
No 187
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=97.15 E-value=0.0031 Score=68.80 Aligned_cols=111 Identities=16% Similarity=0.181 Sum_probs=63.8
Q ss_pred CCCChHHhhcCCCCeEEeeCchHHHHHHH---hhccccccc-eecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhcc
Q 002267 701 QIEGIDSLISSTEPIGVQDGSFAWNYLVD---ELKIAESRL-VKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSK 776 (945)
Q Consensus 701 ~i~~~~dL~~~~~~v~~~~~s~~~~~l~~---~~~~~~~~~-~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~ 776 (945)
+|.+++||. |++|++..|+..+.++.. ..+++...+ ..+.+..+...+|.. |++|+++...++......+
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 678999997 888999888766655443 223332222 234466788899998 9999998888877665554
Q ss_pred CCccEEEeCccccccceEEEecCCC--cchHHHHHHHHhcccc
Q 002267 777 TNCEFRTVGQEFTKSGWGFAFQRDS--PLAIDLSTAILQLSEN 817 (945)
Q Consensus 777 ~~~~~~~~~~~~~~~~~~~~~~k~s--pl~~~i~~~i~~l~e~ 817 (945)
..-++....+.+...+..+++.+.. ...+.+++.+..+.+.
T Consensus 194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~v~~~l~a~~~A 236 (314)
T PRK11553 194 GGVRVLKDGTDLNQTGSFYLAARPYAEKNGAFIQQVLATLTEA 236 (314)
T ss_pred CCcEEeecCcccCcCceEEEEcHHHHHHCHHHHHHHHHHHHHH
Confidence 2223333333333223233332211 1344455555444444
No 188
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=97.13 E-value=0.0029 Score=66.20 Aligned_cols=122 Identities=20% Similarity=0.228 Sum_probs=75.3
Q ss_pred CCCCChHHhhcCCCCeEEeeCc-----hHHHHHH-Hhhccccc---cceecCCHHHHHHHHhcCCCCCceeEEecchhhH
Q 002267 700 SQIEGIDSLISSTEPIGVQDGS-----FAWNYLV-DELKIAES---RLVKLKNMEEYSIALARGPKGGGVAAIVDELPYI 770 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~~s-----~~~~~l~-~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~ 770 (945)
.+|++++||. |++|++...+ ......- ++.++... +.+...+.+..+.+|.+ |++|+.+......
T Consensus 95 s~i~~l~dL~--Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~----G~~Da~~~~~~~~ 168 (243)
T PF12974_consen 95 SPITSLADLK--GKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLN----GKADAAAIPSDAF 168 (243)
T ss_dssp SS--SHHHHG--GSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHT----TSSSEEEEEHHHH
T ss_pred CCCCChhhcC--CCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHc----CCccEEEEechhH
Confidence 4699999997 8999986533 2222222 23344421 23355688899999999 8999999888777
Q ss_pred HHHhccC---CccEEEeCccccccceEEEecCCCc--chHHHHHHHHhccccccHHHHHHHh
Q 002267 771 ELFMSKT---NCEFRTVGQEFTKSGWGFAFQRDSP--LAIDLSTAILQLSENGDLQKIHNKW 827 (945)
Q Consensus 771 ~~~~~~~---~~~~~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~i~~l~e~G~~~~i~~~w 827 (945)
+.+...+ ..+++++...-......++..++-| .++.+-.+++.+..+..-.++.+.+
T Consensus 169 ~~~~~~~~~~~~~~rvl~~s~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 169 ERLEAEGPDIPSQLRVLWTSPPYPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp HHHHHH-HHHHTTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred HHHHHccCcccccEEEEEEeCCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 7665541 1257777543333445677777766 8999999999999864444444443
No 189
>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=97.12 E-value=0.066 Score=57.76 Aligned_cols=195 Identities=11% Similarity=-0.005 Sum_probs=109.1
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhH-H
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGI-A 128 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~-~ 128 (945)
+||+++|-. ..+-.....+++-+.++. |+.+.+...+...+...-.+....+++++|.+|| .|..... .
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~~--------g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 72 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKHL--------GVELKVLEAGGYPNLDKQLAQIEQCKSWGADAILLGTVSPEALN 72 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHHh--------CCEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhh
Confidence 588888753 222223444555554432 5667665444334555555666677778887775 3332222 2
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHH-cC----CeEEEEEEEeC--CcccchHH
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEY-YG----WREVIAIFVDD--DYGRNGIS 201 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~-~~----w~~v~ii~~d~--~~g~~~~~ 201 (945)
..+.. +. .++|+|.+..... .. ..+..+..++..-+..+++++.. +. -++|+++.... .....-.+
T Consensus 73 ~~l~~-~~-~~iPvV~~~~~~~--~~---~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~ 145 (295)
T TIGR02955 73 HDLAQ-LT-KSIPVFALVNQID--SN---QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQ 145 (295)
T ss_pred HHHHH-Hh-cCCCEEEEecCCC--cc---ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHH
Confidence 23333 33 4899987532211 11 12334555666666777776644 21 34699997543 33455678
Q ss_pred HHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCC
Q 002267 202 VLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGM 265 (945)
Q Consensus 202 ~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~ 265 (945)
.+++++++.|+++... .....+..+-...++++.+ .++++| ++....+..+++++++.|.
T Consensus 146 Gf~~al~~~g~~~~~~--~~~~~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~ 207 (295)
T TIGR02955 146 GFRAALEGSDVEISAI--LWADNDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM 207 (295)
T ss_pred HHHHHHhcCCcEEEEE--ecCCCcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc
Confidence 8999999999877542 1111233333344555433 235754 4566668888889888876
No 190
>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=97.12 E-value=0.032 Score=59.15 Aligned_cols=195 Identities=13% Similarity=0.047 Sum_probs=106.4
Q ss_pred EEEEEecc----CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhH
Q 002267 52 RIGALFTY----DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l----~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 127 (945)
+||++.|. +..+-.....|++.+.++- |+.+.+. ++. ++..-.+....+.+++|.+||--.. ..
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~~--------gy~~~i~--~~~-~~~~~~~~i~~l~~~~vdgiI~~~~-~~ 68 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKEL--------GIEYKYV--ESK-SDADYEPNLEQLADAGYDLIVGVGF-LL 68 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHHc--------CCeEEEE--ecC-CHHHHHHHHHHHHhCCCCEEEEcCc-ch
Confidence 58999985 2233334556666555552 5666654 332 3333344555677778888875221 12
Q ss_pred HHHHHHhhccc-CccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHH-cCCeEEEEEEEeCCccc-chHHHHH
Q 002267 128 AHVISHVVNEL-NVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEY-YGWREVIAIFVDDDYGR-NGISVLG 204 (945)
Q Consensus 128 ~~~va~~~~~~-~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~-~~w~~v~ii~~d~~~g~-~~~~~l~ 204 (945)
..........+ ++|++......+.. +.+-....++..-+..++.++.. .|-++++++..+..... ...+.++
T Consensus 69 ~~~~~~~~~~~~~~PiV~i~~~~~~~-----~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf~ 143 (265)
T cd06354 69 ADALKEVAKQYPDQKFAIIDAVVDDP-----PNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGFE 143 (265)
T ss_pred HHHHHHHHHHCCCCEEEEEecccCCC-----CcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHHH
Confidence 23345555555 89999865422110 11223333444344444455554 38999999975422122 2236788
Q ss_pred HHHhhcC---cEEEEeecCCCCCC-hHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCC
Q 002267 205 DALSKKR---AKISYKAPFSPGAS-RSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLG 264 (945)
Q Consensus 205 ~~l~~~g---~~v~~~~~~~~~~~-~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g 264 (945)
+.+++.| ..+..........+ ..+-...+.++.+.++++|+. .+...+..+++++++.|
T Consensus 144 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~-~nd~~A~gv~~al~~~g 206 (265)
T cd06354 144 AGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFA-AAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEE-CCCCCchHHHHHHHhcC
Confidence 8888888 64322111111112 233344556655445887544 46667778899999988
No 191
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.11 E-value=0.047 Score=59.86 Aligned_cols=201 Identities=12% Similarity=0.037 Sum_probs=129.4
Q ss_pred ceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhH
Q 002267 49 SSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGI 127 (945)
Q Consensus 49 ~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 127 (945)
..-.||+++|-- ..+-.....|++.+.++- |+.+-+...+ .++..-......+.+++|.+||=-. ...
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~--------gy~~~l~~~~--~~~~~e~~~~~~l~~~~vdGiIi~~-~~~ 125 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAAREA--------GYSLLLANTD--DDPEKEREYLETLLQKRVDGLILLG-ERP 125 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHHc--------CCEEEEECCC--CCHHHHHHHHHHHHHcCCCEEEEec-CCC
Confidence 567899999942 222224455555544442 5555554444 4666666666677777888776432 233
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe--CCcccchHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD--DDYGRNGISVLGD 205 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~ 205 (945)
.......+...++|+|......+ + +.+-....++..-+..+++.+-..|-+++++|... ...+..-.+.+.+
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 33445667777999998765444 2 22234456777778888899999999999999875 4455677899999
Q ss_pred HHhhcCcEE--EEeecCCCCCChHHHHHHHHhhccCC---ceEEEEEcChhhHHHHHHHHHhCCCCCCC
Q 002267 206 ALSKKRAKI--SYKAPFSPGASRSAINSLLVGANLME---SRVFVVHVNPDTGLTIFSVAKSLGMTAGS 269 (945)
Q Consensus 206 ~l~~~g~~v--~~~~~~~~~~~~~d~~~~l~~l~~~~---~~vivl~~~~~~~~~~~~~a~~~g~~~~~ 269 (945)
++++.|+.. .....-. .+..+-...+.++.... +++|+ |++...+..++++++++|...++
T Consensus 200 al~~~~~~~~~~~i~~~~--~~~~~g~~~~~~ll~~~~~~ptAif-~~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 200 ALREAGLPINPEWIVEGD--FSEESGYEAAERLLARGEPRPTAIF-CANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHHCCCCCCcceEEecC--CChHHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCC
Confidence 999999875 2221111 23344444444544322 66655 56777899999999999987665
No 192
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=97.10 E-value=0.031 Score=59.02 Aligned_cols=198 Identities=9% Similarity=0.026 Sum_probs=104.8
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVI 131 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 131 (945)
+||+++|-.. ........+..++++.-+.. |+.+.+ .++. ++....+....+..+++.+||=...+ ....+
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~~----gy~~~~--~~~~-~~~~~~~~~~~l~~~~vdgiii~~~~-~~~~~ 71 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKEL----GVEVKY--VESV-EDADYEPNLRQLAAQGYDLIFGVGFG-FMDAV 71 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHhc----CceEEE--EecC-CHHHHHHHHHHHHHcCCCEEEECCcc-hhHHH
Confidence 5899998410 11223333333443432221 555554 4444 55544455556666778766542222 22334
Q ss_pred HHhhccc-CccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHc-CCeEEEEEEEeC-CcccchHHHHHHHHh
Q 002267 132 SHVVNEL-NVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYY-GWREVIAIFVDD-DYGRNGISVLGDALS 208 (945)
Q Consensus 132 a~~~~~~-~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~-~w~~v~ii~~d~-~~g~~~~~~l~~~l~ 208 (945)
....+.. ++|++......+. +...+ ....++..-+..++.++... |-+++++|..+. .....-.+.+.++++
T Consensus 72 ~~~~~~~~~ipvv~~~~~~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~ 146 (260)
T cd06304 72 EKVAKEYPDVKFAIIDGVVDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAK 146 (260)
T ss_pred HHHHHHCCCCEEEEecCccCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHH
Confidence 4555443 7898876443211 01112 22333433344445555555 889999997532 223334678899999
Q ss_pred hcCcEEEEeecCCCCC-ChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCC
Q 002267 209 KKRAKISYKAPFSPGA-SRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLG 264 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~-~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g 264 (945)
+.|..+.......... +.++-...++++.+..+++| ++.+...+..++.+++++|
T Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 147 SVNPDITVLVIYTGSFFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HhCCCcEEEEEEecCccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 9886432211111111 12233345566554567875 6667777878999999988
No 193
>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=97.09 E-value=0.037 Score=58.88 Aligned_cols=205 Identities=16% Similarity=0.162 Sum_probs=120.0
Q ss_pred EEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChh---H
Q 002267 53 IGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSG---I 127 (945)
Q Consensus 53 IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~---~ 127 (945)
||+++|-. ..+-.....+++-+.++. |+.+. +.++..++..-.+....++.++|.+|| -|..+. .
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~ 71 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEK--------GYSLL--LASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPNP 71 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHc--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEeccccccccc
Confidence 78888753 333234455555444432 55554 456667777777777888888887775 333221 1
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC-CcccchHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD-DYGRNGISVLGDA 206 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~ 206 (945)
.......+...++|+|......+. .. +..+..++..-+..+++++...|.++++++...+ ..+....+.+.+.
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~~~~---~~---~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~ 145 (273)
T cd01541 72 NIDLYLKLEKLGIPYVFINASYEE---LN---FPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKA 145 (273)
T ss_pred cHHHHHHHHHCCCCEEEEecCCCC---CC---CCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHH
Confidence 112334456779999987543221 11 2335666777778888888778999999886432 2234446778889
Q ss_pred HhhcCcEEEEee--cCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 207 LSKKRAKISYKA--PFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 207 l~~~g~~v~~~~--~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+++.|..+.... ..............++++.+ ..+++| ++.+...+..+++++++.|+..++-+-|.
T Consensus 146 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~av-~~~~d~~a~g~~~al~~~g~~~p~dv~vv 216 (273)
T cd01541 146 YREHGIPFNPSNVITYTTEEKEEKLFEKIKEILKRPERPTAI-VCYNDEIALRVIDLLKELGLKIPEDISVV 216 (273)
T ss_pred HHHcCCCCChHHEEeccccchhhHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 988886432110 11111111233344555433 346665 44566677789999999998655444433
No 194
>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=97.08 E-value=0.035 Score=58.76 Aligned_cols=204 Identities=12% Similarity=-0.009 Sum_probs=113.3
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
.||+++|-. ..+-.....+++-++++- |+++.+ .++..++..-.+....+.++++.++| -|.. ....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------gy~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~-~~~~ 69 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLNGS--------GYSPII--ATGHWNQSRELEALELLKSRRVDALILLGGD-LPEE 69 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHHHC--------CCEEEE--EeCCCCHHHHHHHHHHHHHCCCCEEEEeCCC-CChH
Confidence 378888753 222233444444433321 566654 34455665544555567777777775 3322 1112
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe--CCcccchHHHHHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD--DDYGRNGISVLGDAL 207 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l 207 (945)
.+..+ . .++|+|......+ +...++ ...++..-+..+++.+...|-++++++..+ ........+.+.+.+
T Consensus 70 ~~~~~-~-~~iPvV~i~~~~~---~~~~~~---V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 141 (265)
T cd06290 70 EILAL-A-EEIPVLAVGRRVP---GPGAAS---IAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKAL 141 (265)
T ss_pred HHHHH-h-cCCCEEEECCCcC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHH
Confidence 22222 3 4899998765322 112233 445666677778887766799999999754 233345567888888
Q ss_pred hhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCC-eEEEEe
Q 002267 208 SKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGS-YVWIAT 275 (945)
Q Consensus 208 ~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~-~~wi~~ 275 (945)
++.|+.+.....+....+.......+.++.+. .+++|+ +++...+..+++.+++.|+..++ ...++.
T Consensus 142 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~ip~di~vi~~ 211 (265)
T cd06290 142 EEAGLEVQPDLIVQGDFEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRVPEDVSLIGF 211 (265)
T ss_pred HHcCCCCCHHHEEecCCCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEeee
Confidence 88886543211111111222223345554432 356655 45666788889999999986543 334443
No 195
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.07 E-value=0.041 Score=60.91 Aligned_cols=206 Identities=11% Similarity=0.054 Sum_probs=113.7
Q ss_pred ceEEEEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhH
Q 002267 49 SSVRIGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGI 127 (945)
Q Consensus 49 ~~i~IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 127 (945)
..-.||+++|- +..+-.....+++.+.++. |+.+ .+.++..++..-.+....++.+++.+||=-.....
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~~--------g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~ 127 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYHT--------GNFL--LIGNGYHNEQKERQAIEQLIRHRCAALVVHAKMIP 127 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHHc--------CCEE--EEEeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 45689999874 2333234445555544442 4554 34455556655555566677777776653111111
Q ss_pred HHHHHHhhcccCcc-EEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC--cccchHHHHH
Q 002267 128 AHVISHVVNELNVP-LLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD--YGRNGISVLG 204 (945)
Q Consensus 128 ~~~va~~~~~~~iP-~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 204 (945)
...+..+.+ ++| +|......+ +...++ ...++..-+..+++.+...|.+++++|..+.. ....-.+.+.
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (343)
T PRK10727 128 DAELASLMK--QIPGMVLINRILP---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYY 199 (343)
T ss_pred hHHHHHHHh--cCCCEEEEecCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHH
Confidence 122333333 577 676543221 111222 34555556666777777779999999975432 3345578899
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEE
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWI 273 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi 273 (945)
+++++.|+.+..........+...-...++++.+. .+++|+ +.+...+..++++++++|+..++-+-|
T Consensus 200 ~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~G~~vP~disV 269 (343)
T PRK10727 200 DALAESGIPANDRLVTFGEPDESGGEQAMTELLGRGRNFTAVA-CYNDSMAAGAMGVLNDNGIDVPGEISL 269 (343)
T ss_pred HHHHHCCCCCChhhEEeCCCChhHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceeE
Confidence 99999997542211111111222222344444333 356654 456677889999999999876544433
No 196
>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=97.07 E-value=0.046 Score=57.79 Aligned_cols=199 Identities=13% Similarity=0.123 Sum_probs=116.4
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 129 (945)
.||+++|-. ..+-.....+++.++++. |+++.+. ++..++..-......+..+++.+|| .|......
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~~--------g~~~~~~--~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~- 69 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYRA--------GLRVILC--NTDEDPEKEAMYLELMEEERVTGVIFAPTRATLR- 69 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHHC--------CCEEEEE--eCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCch-
Confidence 388998864 223335566776666652 6677544 4445555544445556666666554 33322222
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe-CCcccchHHHHHHHHh
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD-DDYGRNGISVLGDALS 208 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d-~~~g~~~~~~l~~~l~ 208 (945)
.. .....++|+|.+....+ ...++++ ..++..-+..+++.+...|-++++++..+ ..........++++++
T Consensus 70 -~~-~~~~~~iPvV~~~~~~~---~~~~~~v---~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~ 141 (263)
T cd06280 70 -RL-AELRLSFPVVLIDRAGP---AGRVDAV---VLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMR 141 (263)
T ss_pred -HH-HHHhcCCCEEEECCCCC---CCCCCEE---EECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 22 23466899998754432 2233443 34566667777788877899999998653 2223345678899999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEE
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWI 273 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi 273 (945)
+.|+..... ... .+..+....+.++... .+++| ++.+...+..+++.+++.|+..++-+.+
T Consensus 142 ~~~~~~~~~-~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~di~i 204 (263)
T cd06280 142 RHGLAPDAR-FVA--PTAEAAEAALAAWLAAPERPEAL-VASNGLLLLGALRAVRAAGLRIPQDLAL 204 (263)
T ss_pred HcCCCCChh-hcc--cCHHHHHHHHHHHhcCCCCCcEE-EECCcHHHHHHHHHHHHcCCCCCCcEEE
Confidence 888764321 112 2233333344444322 46665 4466667888999999999865544433
No 197
>PRK09492 treR trehalose repressor; Provisional
Probab=97.05 E-value=0.057 Score=58.91 Aligned_cols=192 Identities=14% Similarity=0.061 Sum_probs=112.7
Q ss_pred ceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhH
Q 002267 49 SSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGI 127 (945)
Q Consensus 49 ~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 127 (945)
..-.||+++|.. ..+-.....+++ +.+++. |+.+ .+.++..++....+....+.+++|.++|--..+..
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i~---~~~~~~-----gy~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 130 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTML---PAFYEQ-----GYDP--IIMESQFSPEKVNEHLGVLKRRNVDGVILFGFTGI 130 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHHH---HHHHHc-----CCeE--EEEecCCChHHHHHHHHHHHhcCCCEEEEeCCCcc
Confidence 346799999852 332223444444 344433 5555 44566666666555566666778887775222211
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe-C--CcccchHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD-D--DYGRNGISVLG 204 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~l~ 204 (945)
. .+.....++|++...... +.+-.+..++..-+..+++.+...|-++|+++... . ..+..-.+.+.
T Consensus 131 ~---~~~l~~~~~pvv~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf~ 199 (315)
T PRK09492 131 T---EEMLAPWQDKLVLLARDA--------KGFSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAYL 199 (315)
T ss_pred c---HHHHHhcCCCEEEEeccC--------CCCcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHHH
Confidence 1 123344567877654311 11223445666666777787777899999999632 2 23456678999
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCC
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGM 265 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~ 265 (945)
+++++.|+.+... .. ..+...-...++++...++++|+. .+...+..+++++++.|+
T Consensus 200 ~al~~~g~~~~~~--~~-~~~~~~~~~~~~~~l~~~~~ai~~-~~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 200 AFCKQHKLTPVAA--LG-GLSMQSGYELVAKVLTPETTALVC-ATDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHcCCCceee--cC-CCCchHHHHHHHHHhhcCCCEEEE-cCcHHHHHHHHHHHHcCC
Confidence 9999999875422 11 112222233444544456887764 456778889999999997
No 198
>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=97.05 E-value=0.029 Score=59.22 Aligned_cols=197 Identities=16% Similarity=0.088 Sum_probs=111.2
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHV 130 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 130 (945)
.||++.|-. ..+-.....|++.+.++. |+.+.+...+ +... ....+..+++.+||=.........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~~~---~~~~---~~~~l~~~~vdgii~~~~~~~~~~ 66 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISKN--------GYNMNVSITP---SLAE---AEDLFKENRFDGVIIFGESASDVE 66 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHHc--------CCEEEEEecc---cHHH---HHHHHHHcCcCEEEEeCCCCChHH
Confidence 378888853 333334555555555432 5666665543 2222 233455567776652222222222
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC--cccchHHHHHHHHh
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD--YGRNGISVLGDALS 208 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 208 (945)
...+...++|+|.+....+ ..+++ +..++...+..+++.+...|-++++++..... ....-...++++++
T Consensus 67 -~~~~~~~~ipvV~~~~~~~----~~~~~---V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 67 -YLYKIKLAIPVVSYGVDYD----LKYPI---VNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred -HHHHHHcCCCEEEEcccCC----CCCCE---EEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 2445578899998644322 12232 45667777788888887779999999975432 23344678899999
Q ss_pred hcCcEEEEeecCCCCCChHHHHHHHHhhccCC--ceEEEEEcChhhHHHHHHHHHhCCCCCCCeE
Q 002267 209 KKRAKISYKAPFSPGASRSAINSLLVGANLME--SRVFVVHVNPDTGLTIFSVAKSLGMTAGSYV 271 (945)
Q Consensus 209 ~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~ 271 (945)
+.|+.+..........+.......+.++.... +++| ++++...+..+++.+++.|+..++-+
T Consensus 139 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~vp~dv 202 (261)
T cd06272 139 ENGISISDSHIDVDGLSAEGGDNAAKKLLKESDLPTAI-ICGSYDIALGVLSALNKQGISIPEDI 202 (261)
T ss_pred HcCCCCCHHHeeeCCCCHHHHHHHHHHHHcCCCCCCEE-EECCcHHHHHHHHHHHHhCCCCCCce
Confidence 98864322111111122233334455544333 5654 44556667788999999998655433
No 199
>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=97.04 E-value=0.046 Score=57.97 Aligned_cols=203 Identities=13% Similarity=0.055 Sum_probs=113.1
Q ss_pred EEEEecc----CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHH
Q 002267 53 IGALFTY----DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIA 128 (945)
Q Consensus 53 IG~l~~l----~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 128 (945)
||+++|. +..+-.....+++-+.++. |+++.+...|.. ...-......+.+.++.+||-......
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~- 70 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKY--------GYNLILKFVSDE--DEEEFELPSFLEDGKVDGIILLGGIST- 70 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHc--------CCEEEEEeCCCC--hHHHHHHHHHHHHCCCCEEEEeCCCCh-
Confidence 7888886 2223334455555554442 677777665543 222222333455668877774222222
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCc--ccchHHHHHHH
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDY--GRNGISVLGDA 206 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l~~~ 206 (945)
.....+...++|+|......+ +...++ +..++...+..+++++...|.++++++..+... ...-.+.+.++
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 224556677999998654322 112233 344555556667777777799999999755432 23456788999
Q ss_pred HhhcCcEEEEeecCCC-CCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCCCC-eEEEEe
Q 002267 207 LSKKRAKISYKAPFSP-GASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTAGS-YVWIAT 275 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~-~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~-~~wi~~ 275 (945)
+++.|+++........ ......+...++++. ..+++|+. .+...+..+++++++.|+..++ ...++.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~ai~~-~~d~~a~g~~~a~~~~g~~~p~di~vig~ 212 (268)
T cd06277 144 LLDHGIPFNEDYDITEKEEDEEDIGKFIDELK-PLPTAFFC-SNDGVAFLLIKVLKEMGIRVPEDVSVIGF 212 (268)
T ss_pred HHHcCCCCCcceEEEcchhHHHHHHHHHhcCC-CCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCcceEEee
Confidence 9998876432111110 112233444444432 23666544 4555667888888988986443 334443
No 200
>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=97.00 E-value=0.038 Score=59.27 Aligned_cols=201 Identities=14% Similarity=0.117 Sum_probs=115.1
Q ss_pred EEEEeccC------CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChh
Q 002267 53 IGALFTYD------SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSG 126 (945)
Q Consensus 53 IG~l~~l~------~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~ 126 (945)
||+++|.. .++-.....+++-++++. |+.+.+...+. . .+....+...++.+||--....
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~~--------g~~~~~~~~~~---~---~~~~~~~~~~~~dgiii~~~~~ 67 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDAA--------GVNLLLLPASS---E---DSDSALVVSALVDGFIVYGVPR 67 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHHC--------CCEEEEecCcc---H---HHHHHHHHhcCCCEEEEeCCCC
Confidence 88999862 222234555555555442 56776654432 1 1233445566887777532222
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC-------------
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD------------- 193 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~------------- 193 (945)
.. .....+...++|+|.+....+ +.+-....++...+..+++++...|-++++++..+.
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 334556778999998754321 112235566777788888888888999999997532
Q ss_pred ------CcccchHHHHHHHHhhcCcEEEEeecCC-CCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCC
Q 002267 194 ------DYGRNGISVLGDALSKKRAKISYKAPFS-PGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLG 264 (945)
Q Consensus 194 ------~~g~~~~~~l~~~l~~~g~~v~~~~~~~-~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g 264 (945)
.......+.+.+++++.|++......+. ...+..+....++++... ++++|+ +++...+..+++++++.|
T Consensus 140 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~gv~~al~~~g 218 (283)
T cd06279 140 LASATFSVARERLEGYLEALEEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTAIL-CMSDVLALGALQVARELG 218 (283)
T ss_pred ccccccccHHHHHHHHHHHHHHcCCCCChheEEecCCCchHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcC
Confidence 1123446788889988885432111111 112223444555555433 356554 456667778999999999
Q ss_pred CCCCC-eEEEEeC
Q 002267 265 MTAGS-YVWIATD 276 (945)
Q Consensus 265 ~~~~~-~~wi~~~ 276 (945)
+..++ ...++.|
T Consensus 219 ~~ip~di~vig~d 231 (283)
T cd06279 219 LRVPEDLSVVGFD 231 (283)
T ss_pred CCCCCceEEeeeC
Confidence 86543 3444433
No 201
>PRK09526 lacI lac repressor; Reviewed
Probab=96.96 E-value=0.086 Score=58.25 Aligned_cols=202 Identities=12% Similarity=0.051 Sum_probs=115.3
Q ss_pred ceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--ccCCh
Q 002267 49 SSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI--GPQSS 125 (945)
Q Consensus 49 ~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s 125 (945)
..-.||+++|-. ..+-.....+++-++++. |+.+.+...++ .++..-......+.++++.+|| +|..+
T Consensus 62 ~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~~--------g~~~~i~~~~~-~~~~~~~~~l~~l~~~~vdGiii~~~~~~ 132 (342)
T PRK09526 62 QSLTIGLATTSLALHAPSQIAAAIKSRADQL--------GYSVVISMVER-SGVEACQAAVNELLAQRVSGVIINVPLED 132 (342)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHHC--------CCEEEEEeCCC-ChHHHHHHHHHHHHhcCCCEEEEecCCCc
Confidence 345799998853 222224455555555431 67776654332 2233333455567777887765 34433
Q ss_pred hHHHHHHHhh-cccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHH
Q 002267 126 GIAHVISHVV-NELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISV 202 (945)
Q Consensus 126 ~~~~~va~~~-~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~ 202 (945)
... ..+. ...++|+|.+... + +...+ .+..++..-+..+++++...|.++++++..+. .....-.+.
T Consensus 133 ~~~---~~~~~~~~~iPvV~~d~~-~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~G 202 (342)
T PRK09526 133 ADA---EKIVADCADVPCLFLDVS-P---QSPVN---SVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAG 202 (342)
T ss_pred chH---HHHHhhcCCCCEEEEecc-C---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHH
Confidence 222 2222 2358999976432 1 11122 34556666667788888778999999997532 223345678
Q ss_pred HHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEE
Q 002267 203 LGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVW 272 (945)
Q Consensus 203 l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~w 272 (945)
+++++++.|+.+.....-. .+..+-...+.++... .+++|+ +.+...+..+++++++.|+..++-+-
T Consensus 203 f~~al~~~gi~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vP~dis 271 (342)
T PRK09526 203 WLEYLTDYQLQPIAVREGD--WSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLRVPGQIS 271 (342)
T ss_pred HHHHHHHcCCCcceEEeCC--CchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceE
Confidence 9999999998643221111 2222222344444322 466655 45666788899999999987654443
No 202
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.95 E-value=0.059 Score=59.26 Aligned_cols=207 Identities=11% Similarity=0.022 Sum_probs=117.3
Q ss_pred ceEEEEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhH
Q 002267 49 SSVRIGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGI 127 (945)
Q Consensus 49 ~~i~IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 127 (945)
..-.||++.|- +..+-.....+++-+.++. |+++.+ .++..++..-.+....++++++.+||=......
T Consensus 62 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~ 131 (331)
T PRK14987 62 TSRAIGVLLPSLTNQVFAEVLRGIESVTDAH--------GYQTML--AHYGYKPEMEQERLESMLSWNIDGLILTERTHT 131 (331)
T ss_pred CCCEEEEEeCCCcchhHHHHHHHHHHHHHHC--------CCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCC
Confidence 34589999884 3333334556666555542 566654 344445554444555566677777663211111
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC-CcccchHHHHHHH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD-DYGRNGISVLGDA 206 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~ 206 (945)
......+...++|+|....... + .... .+..++..-+..+++.+...|.++++++.... .....-.+.+.++
T Consensus 132 -~~~~~~l~~~~iPvV~~~~~~~---~-~~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~a 204 (331)
T PRK14987 132 -PRTLKMIEVAGIPVVELMDSQS---P-CLDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERTIIKQKGYEQA 204 (331)
T ss_pred -HHHHHHHHhCCCCEEEEecCCC---C-CCCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccHHHHHHHHHHH
Confidence 2233445678999997532111 1 1111 25566666677778888778999999996432 2223346788999
Q ss_pred HhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 207 LSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 207 l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+++.|+.... ..+....+...-...++++... ++++|+ +.+...+..+++++++.|+..++-+-|.
T Consensus 205 l~~~g~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~g~~vP~disvi 272 (331)
T PRK14987 205 MLDAGLVPYS-VMVEQSSSYSSGIELIRQARREYPQLDGVF-CTNDDLAVGAAFECQRLGLKVPDDMAIA 272 (331)
T ss_pred HHHcCCCccc-eeecCCCChhhHHHHHHHHHhcCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCccEEE
Confidence 9999863111 1111111112222344454333 356655 4566778888999999998766544443
No 203
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.95 E-value=0.037 Score=58.63 Aligned_cols=201 Identities=11% Similarity=0.078 Sum_probs=116.0
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVI 131 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 131 (945)
+||++.|.+..+-.....+++-+.++. + |+.+.+...| + .+....|..++|.+||=...+. ..
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~----g~~~~~~~~~---~----~~~~~~l~~~~vdGiI~~~~~~---~~ 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---G----PWSIYLEPRG---L----QEPLRWLKDWQGDGIIARIDDP---EM 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---C----CeEEEEeccc---c----hhhhhhccccccceEEEECCCH---HH
Confidence 489999965544445666666666553 2 5566543221 1 2333445555888777432222 22
Q ss_pred HHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC-cccchHHHHHHHHhhc
Q 002267 132 SHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD-YGRNGISVLGDALSKK 210 (945)
Q Consensus 132 a~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~l~~~ 210 (945)
...+...++|+|.+....+. +.+-.+..++..-+..+++.+...|-++++++..... ....-.+.+++++++.
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 34456679999987543221 2233466777777888888888889999999864432 1223357889999999
Q ss_pred CcEEEEeec--CCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCC-CeEEEEeC
Q 002267 211 RAKISYKAP--FSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAG-SYVWIATD 276 (945)
Q Consensus 211 g~~v~~~~~--~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~-~~~wi~~~ 276 (945)
|+.+..... .....+..+-...+.++-+. ++++| ++.+...+..+++.+++.|+..+ +...++.|
T Consensus 138 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 138 GYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGI-FACTDARARQLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred CCccccccCccccccccHHHHHHHHHHHHhcCCCCcEE-EecChHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 976521111 11001112223344444322 35654 44566777888899999998543 45555544
No 204
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=96.93 E-value=0.05 Score=57.77 Aligned_cols=201 Identities=12% Similarity=-0.008 Sum_probs=114.2
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHH-HHhcCcEEEEccCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQ-LMENEVVAAIGPQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~-li~~~v~aiiGp~~s~~~~ 129 (945)
.||++.|-. ..+-.....+++.+.++. |+.+.+...+. + ..-.+...+ +..++|.+||=-..... .
T Consensus 1 ~Igvi~p~~~~~~~~~~~~~i~~~~~~~--------gy~~~~~~~~~--~-~~~~~~~~~~l~~~~vdgvi~~~~~~~-~ 68 (269)
T cd06297 1 TISVLLPVVATEFYRRLLEGIEGALLEQ--------RYDLALFPLLS--L-ARLKRYLESTTLAYLTDGLLLASYDLT-E 68 (269)
T ss_pred CEEEEeCCCcChhHHHHHHHHHHHHHHC--------CCEEEEEeCCC--c-HHHHHHHHHHHHhcCCCEEEEecCccC-h
Confidence 378888853 333345556666666552 66777654442 2 222233333 44556765543212112 2
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--C------cccchHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--D------YGRNGIS 201 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~------~g~~~~~ 201 (945)
.....+...++|+|......+ ..++ ..+++..-+..+++.+... .++++++..+. . .+..-.+
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 344556678999998754221 1233 3456666777777776555 78999886432 2 3445578
Q ss_pred HHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 202 VLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 202 ~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
.+++++++.|+++.....+....+..+....+.++.+. ++++|+. .+...+..+++.+++.|...++-+.+.
T Consensus 140 gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vP~di~vv 213 (269)
T cd06297 140 GFQQALKDAGRPFSPDLLAITDHSEEGGRLAMRHLLEKASPPLAVFA-SADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHcCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 89999999987643211111112233334455555433 3565555 455677789999999998655544443
No 205
>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=96.72 E-value=0.0097 Score=64.47 Aligned_cols=70 Identities=20% Similarity=0.172 Sum_probs=48.4
Q ss_pred CCCCChHHhhcCCCCeEEeeCchHHHHHHH---hhccccc--cceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHh
Q 002267 700 SQIEGIDSLISSTEPIGVQDGSFAWNYLVD---ELKIAES--RLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFM 774 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~~s~~~~~l~~---~~~~~~~--~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~ 774 (945)
..|++++||. |++||+..++..+.++.. ..++... +++.+ +..+...++.+ |++|+++...++.....
T Consensus 90 s~I~s~~DLk--GK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~al~~----G~vDa~~~~~p~~~~~~ 162 (300)
T TIGR01729 90 SGIEKPEDLK--GKNVAVPFVSTTHYSLLAALKHWKTDPREVNILNL-KPPQIVAAWQR----GDIDAAYVWPPALSELL 162 (300)
T ss_pred CCCCChhHcC--CCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEec-CcHHHHHHHHc----CCcCEEEEecHHHHHHH
Confidence 3689999997 999999877654443322 2343322 23333 56788999999 99999999888776655
Q ss_pred cc
Q 002267 775 SK 776 (945)
Q Consensus 775 ~~ 776 (945)
.+
T Consensus 163 ~~ 164 (300)
T TIGR01729 163 KS 164 (300)
T ss_pred hc
Confidence 44
No 206
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.61 E-value=0.19 Score=55.56 Aligned_cols=206 Identities=9% Similarity=-0.009 Sum_probs=113.3
Q ss_pred ceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhH
Q 002267 49 SSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGI 127 (945)
Q Consensus 49 ~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 127 (945)
..-.||+++|-. ..+-.....|++-++++. |+.+. +.++..++..-.+....+..+++.+||=-.....
T Consensus 58 ~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~--------gy~~~--~~~~~~~~~~~~~~i~~l~~~~vdGiIi~~~~~~ 127 (346)
T PRK10401 58 VSDTIGVVVMDVSDAFFGALVKAVDLVAQQH--------QKYVL--IGNSYHEAEKERHAIEVLIRQRCNALIVHSKALS 127 (346)
T ss_pred CCCEEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEcCCCChHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 456799999853 333334555555555442 45543 4455555555444555566667776553111111
Q ss_pred HHHHHHhhcccCcc-EEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHH
Q 002267 128 AHVISHVVNELNVP-LLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLG 204 (945)
Q Consensus 128 ~~~va~~~~~~~iP-~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~ 204 (945)
...+..+.. ++| +|......+ +..+++ ...++..-+..+++++...|-+++++|.... ..+..-.+.++
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (346)
T PRK10401 128 DDELAQFMD--QIPGMVLINRVVP---GYAHRC---VCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWM 199 (346)
T ss_pred hHHHHHHHh--cCCCEEEEecccC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHH
Confidence 122333433 355 666543222 112232 3445555566677777778999999996433 23455678899
Q ss_pred HHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEE
Q 002267 205 DALSKKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWI 273 (945)
Q Consensus 205 ~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi 273 (945)
+++++.|+.+..........+...-...+.++.+ ..+++|+ +.+...+..+++++++.|+..++-+-+
T Consensus 200 ~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~al~~~G~~vP~disv 269 (346)
T PRK10401 200 SALKEQGIIPPESWIGTGTPDMQGGEAAMVELLGRNLQLTAVF-AYNDNMAAGALTALKDNGIAIPLHLSI 269 (346)
T ss_pred HHHHHcCCCCChhheecCCCChHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 9999999754321111111122222234444432 2467665 456777888999999999876544433
No 207
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.61 E-value=0.17 Score=54.99 Aligned_cols=206 Identities=11% Similarity=0.006 Sum_probs=117.6
Q ss_pred ceEEEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCC-h
Q 002267 49 SSVRIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQS-S 125 (945)
Q Consensus 49 ~~i~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~-s 125 (945)
..-+||++.|-. ..+-.....+++-+.++. |+.+.+ .++..+...-......+..+++.+||= |.. .
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 456899999853 444455667777666653 455544 345455555555556666777776653 221 1
Q ss_pred hHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC--cccchHHHH
Q 002267 126 GIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD--YGRNGISVL 203 (945)
Q Consensus 126 ~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l 203 (945)
... .. .......|++......+. ..+++ ...++...+..+++.+...|-++++++..... ....-.+.|
T Consensus 104 ~~~--~~-~~~~~~~pvv~~~~~~~~---~~~~~---V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf 174 (309)
T PRK11041 104 FDA--SK-EEQRNLPPMVMANEFAPE---LELPT---VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGY 174 (309)
T ss_pred hHH--HH-HHHhcCCCEEEEccccCC---CCCCE---EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHH
Confidence 111 11 122223467664433221 12233 44566666777778777779999999974432 233457889
Q ss_pred HHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 204 GDALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 204 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
++.+++.|+++.....+....+.......+.++.+. .+++|+. +....+..+++++++.|+..++-+.|+
T Consensus 175 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vv 246 (309)
T PRK11041 175 VQALRRCGITVDPQYIARGDFTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSII 246 (309)
T ss_pred HHHHHHcCCCCCHHHeEeCCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 999999887643211111112233334455565433 3677665 566667688899999998654444443
No 208
>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=96.59 E-value=0.27 Score=53.21 Aligned_cols=197 Identities=11% Similarity=0.012 Sum_probs=111.2
Q ss_pred EEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHHH
Q 002267 53 IGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAHV 130 (945)
Q Consensus 53 IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~~ 130 (945)
||++.|- ++.+-.....+++.+.++. |+.+. +.++..++..-.+....++.++|.+|| .|..+.....
T Consensus 1 ig~~~~~~~~~~~~~~~~~i~~~a~~~--------g~~v~--~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~ 70 (302)
T TIGR02634 1 IGVSIDDLRLERWQKDRDIFVAAAESL--------GAKVF--VQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSN 70 (302)
T ss_pred CeeecCccchhhHHHHHHHHHHHHHhc--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHH
Confidence 4666653 2333334555555555543 55554 456777777666677777777776554 3333333344
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCe-EEEEEEEe--CCcccchHHHHHHHH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWR-EVIAIFVD--DDYGRNGISVLGDAL 207 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~-~v~ii~~d--~~~g~~~~~~l~~~l 207 (945)
....+...++|+|.+....+ . .+....+..++..-+..+++++...+-+ +++++..+ ........+.+++.+
T Consensus 71 ~l~~~~~~~iPvV~~d~~~~---~--~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~ 145 (302)
T TIGR02634 71 AVQEAKDEGIKVVAYDRLIN---D--ADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVL 145 (302)
T ss_pred HHHHHHHCCCeEEEecCcCC---C--CCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHH
Confidence 45556778999998754321 1 1222345566677777888877666555 78777643 222233356777777
Q ss_pred hhc----CcEEEEeecCCCCCChHHHHHHHHhhcc---CCceEEEEEcChhhHHHHHHHHHhCCCC
Q 002267 208 SKK----RAKISYKAPFSPGASRSAINSLLVGANL---MESRVFVVHVNPDTGLTIFSVAKSLGMT 266 (945)
Q Consensus 208 ~~~----g~~v~~~~~~~~~~~~~d~~~~l~~l~~---~~~~vivl~~~~~~~~~~~~~a~~~g~~ 266 (945)
++. ++.+.... +.......+....++++.. ..+++|+. .+...+..+++++++.|+.
T Consensus 146 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ll~~~~~~~~aI~~-~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 146 QPAIDSGDIKIVGDQ-WVDGWLPENALRIMENALTANDNKVDAVVA-SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred hhhccCCCeEEecCc-CCCCCCHHHHHHHHHHHHHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 763 35543221 1111233344455555432 24666554 4555566888999998874
No 209
>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=96.55 E-value=0.57 Score=50.62 Aligned_cols=198 Identities=10% Similarity=-0.015 Sum_probs=103.5
Q ss_pred EEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhHHHH
Q 002267 53 IGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI-GPQSSGIAHV 130 (945)
Q Consensus 53 IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~~ 130 (945)
||++.|-. ..+-.....+++-+.++. |+...+...++..++..-.+....++++++.+|| -|..+.....
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~i~~~~~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~ 72 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKEL--------GSVYIIYTGPTGTTAEGQIEVVNSLIAQKVDAIAISANDPDALVP 72 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHh--------CCeeEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHH
Confidence 56676642 333334556666666654 3222222234556777666777778787776554 3444443344
Q ss_pred HHHhhcccCccEEecccCCCCCCCCCCCceEEecCChh-HHHHHHHHHH-HHc-CCeEEEEEEEeCCc--ccchHHHHHH
Q 002267 131 ISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDY-YQMHAVADLV-EYY-GWREVIAIFVDDDY--GRNGISVLGD 205 (945)
Q Consensus 131 va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~-~~~~ai~~~l-~~~-~w~~v~ii~~d~~~--g~~~~~~l~~ 205 (945)
....+...+||+|.+....+. + +........|. ..+...++.+ +++ +-++|+++..+... .....+.+++
T Consensus 73 ~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~~ 147 (302)
T TIGR02637 73 ALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMKK 147 (302)
T ss_pred HHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHHH
Confidence 455567789999987543221 1 12233333333 3344445544 443 23789888754321 1233567777
Q ss_pred HHhhcC---cEEEEeecCCCCCChHHHHHHHHhhccCC--ceEEEEEcChhhHHHHHHHHHhCCCC
Q 002267 206 ALSKKR---AKISYKAPFSPGASRSAINSLLVGANLME--SRVFVVHVNPDTGLTIFSVAKSLGMT 266 (945)
Q Consensus 206 ~l~~~g---~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vivl~~~~~~~~~~~~~a~~~g~~ 266 (945)
.++++| .++.....-. .+.++-...++++.... +++|+. .....+...++++++.|..
T Consensus 148 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~L~~~~~~~ai~~-~~d~~a~ga~~al~~~g~~ 210 (302)
T TIGR02637 148 ELKDPKYPKVKLVATVYGD--DDAQKSYQEAQGLLKSYPNLKGIIA-PTTVGIKAAAQAVSDAKLI 210 (302)
T ss_pred HHhhccCCCCEEEeeecCC--chHHHHHHHHHHHHHhCCCccEEEe-CCCchHHHHHHHHHhcCCC
Confidence 776653 3443221111 22333334454544333 455554 3456667788888888864
No 210
>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=96.28 E-value=0.31 Score=51.73 Aligned_cols=198 Identities=12% Similarity=0.059 Sum_probs=107.9
Q ss_pred EEEEEeccCC--ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--ccCChhH
Q 002267 52 RIGALFTYDS--VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI--GPQSSGI 127 (945)
Q Consensus 52 ~IG~l~~l~~--~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s~~ 127 (945)
+||++.+.+. ..+......+..++++..++. |+.+.+...+ .+. .+..+++.++| ++. +.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~----g~~~~~~~~~--~~~--------~~~~~~vdgii~~~~~-~~- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQEL----GIELTKFFRD--DDL--------LEILEDVDGIIAIGKF-SQ- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHc----CCEEEEEecc--chh--------HHhccCcCEEEEecCC-CH-
Confidence 5899988552 222333333333444433332 5666655432 211 12345566554 332 22
Q ss_pred HHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCC-------cccchH
Q 002267 128 AHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDD-------YGRNGI 200 (945)
Q Consensus 128 ~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~-------~g~~~~ 200 (945)
.....+...++|+|...... .+...++ +..++...+..+++.+...|-++++++..... ....-.
T Consensus 65 --~~~~~~~~~~~pvV~~~~~~---~~~~~~~---v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~R~ 136 (270)
T cd01544 65 --EQLAKLAKLNPNLVFVDSNP---APDGFDS---VVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIEDPRE 136 (270)
T ss_pred --HHHHHHHhhCCCEEEECCCC---CCCCCCE---EEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhhHHH
Confidence 33444566789999864322 2222333 45567777777888887789999999975432 234457
Q ss_pred HHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhc-cC---CceEEEEEcChhhHHHHHHHHHhCCCCCCC-eEEEEe
Q 002267 201 SVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGAN-LM---ESRVFVVHVNPDTGLTIFSVAKSLGMTAGS-YVWIAT 275 (945)
Q Consensus 201 ~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~-~~---~~~vivl~~~~~~~~~~~~~a~~~g~~~~~-~~wi~~ 275 (945)
+.+.+++.+.|.. .....+....+..+....++++. .. .+++|+ +++...+..+++.+++.|+..++ ...++.
T Consensus 137 ~gf~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vp~di~v~g~ 214 (270)
T cd01544 137 TAFREYMKEKGLY-DPELIYIGDFTVESGYQLMKEALKSLGDNLPTAFF-IASDPMAIGALRALQEAGIKVPEDVSVISF 214 (270)
T ss_pred HHHHHHHHHcCCC-ChheEeeCCCCHHHHHHHHHHHHhccCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEEE
Confidence 7888999988841 10001111112222233344432 22 356544 45677788899999999987554 334443
No 211
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=96.21 E-value=0.46 Score=51.62 Aligned_cols=191 Identities=13% Similarity=0.023 Sum_probs=108.6
Q ss_pred ceEEEEEEecc-CCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChh
Q 002267 49 SSVRIGALFTY-DSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSG 126 (945)
Q Consensus 49 ~~i~IG~l~~l-~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 126 (945)
..-.||+++|- +..+-.....++.-++++ . |+.+-+ .++..++..-.+....+...++.++|= |....
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~---~-----gy~~~i--~~~~~~~~~~~~~~~~l~~~~vdGvIi~~~~~~ 127 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGMLPVFYT---A-----GYDPII--MESQFSPQLTNEHLSVLQKRNVDGVILFGFTGC 127 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHHHHHHHH---C-----CCeEEE--ecCCCChHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 34579999974 222222233444433332 2 566544 345555555444444555667776663 22111
Q ss_pred HHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe---CCcccchHHHH
Q 002267 127 IAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD---DDYGRNGISVL 203 (945)
Q Consensus 127 ~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d---~~~g~~~~~~l 203 (945)
... .....++|+|...... ...+ ...+++..-+..+++.+...|-+++++|..+ ...+..-.+.+
T Consensus 128 ~~~----~l~~~~~p~V~i~~~~-----~~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf 195 (311)
T TIGR02405 128 DEE----ILESWNHKAVVIARDT-----GGFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAY 195 (311)
T ss_pred CHH----HHHhcCCCEEEEecCC-----CCcc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHH
Confidence 111 2344678888764321 1122 2445666666777778877899999999632 22345567889
Q ss_pred HHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCC
Q 002267 204 GDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGM 265 (945)
Q Consensus 204 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~ 265 (945)
.+++++.|+..... ... .+..+....++++...++++|| +.+...+..+++.+++.|.
T Consensus 196 ~~a~~~~gi~~~~~-~~~--~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 196 LAYCESANLEPIYQ-TGQ--LSHESGYVLTDKVLKPETTALV-CATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHcCCCceee-eCC--CCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHHHHHHHHHcCC
Confidence 99999999863211 111 2223333344444334577665 6677778889999999886
No 212
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=95.98 E-value=0.12 Score=54.89 Aligned_cols=111 Identities=21% Similarity=0.191 Sum_probs=74.0
Q ss_pred CCCCChHHhhcCCCCeEEeeCc-----hHH-HHHHHhhcccc---ccceecCC-HHHHHHHHhcCCCCCceeEEecchhh
Q 002267 700 SQIEGIDSLISSTEPIGVQDGS-----FAW-NYLVDELKIAE---SRLVKLKN-MEEYSIALARGPKGGGVAAIVDELPY 769 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~~s-----~~~-~~l~~~~~~~~---~~~~~~~~-~~~~~~~l~~~~~~g~~~a~~~~~~~ 769 (945)
++|++++||. |+++++..-+ .+. .+|..+.+.+. ..-+.+.. .+.++.+|.+ |++|+.......
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 6899999997 9999987433 222 22322222221 12223444 7889999999 899988777665
Q ss_pred HHHHhccC-C---ccEEEeCccccccceEEEecCCCc--chHHHHHHHHhccc
Q 002267 770 IELFMSKT-N---CEFRTVGQEFTKSGWGFAFQRDSP--LAIDLSTAILQLSE 816 (945)
Q Consensus 770 ~~~~~~~~-~---~~~~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~i~~l~e 816 (945)
...+.... . -+++++...-......++++++-| +++.+..+++.+.+
T Consensus 208 ~~~~~~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~~~~k~kl~~af~~l~~ 260 (299)
T COG3221 208 RGLLKKAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLPADLKEKLRDAFLDLAK 260 (299)
T ss_pred HhhhhhcccccchhhceEEEecCCCCCCCEEEeCCCCHHHHHHHHHHHHhcCc
Confidence 55544331 2 257777654444556788888777 99999999999987
No 213
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=95.98 E-value=0.022 Score=59.83 Aligned_cols=72 Identities=26% Similarity=0.244 Sum_probs=48.9
Q ss_pred CCCCChHHhhc-----CCCCeEE-eeCchHHHHHH---Hhhcccc---ccceecCCHHHHHHHHhcCCCCCceeEEecch
Q 002267 700 SQIEGIDSLIS-----STEPIGV-QDGSFAWNYLV---DELKIAE---SRLVKLKNMEEYSIALARGPKGGGVAAIVDEL 767 (945)
Q Consensus 700 ~~i~~~~dL~~-----~~~~v~~-~~~s~~~~~l~---~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~ 767 (945)
+.+++++||.+ .|++|++ ..|+...-.+. ++.++.. -+++.++. .+..+++.. |++|+++...
T Consensus 104 ~~~~~~~dl~~~~~~~kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~----g~iDa~~~~e 178 (252)
T PF13379_consen 104 SDIKSLADLIKKRKAQKGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRA----GEIDAAVLWE 178 (252)
T ss_dssp STTCCGHHHHHTCCSCSTEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHT----TS-SEEEEET
T ss_pred CCccCHHHHHhhhcccCCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhC----CCcCEEEecC
Confidence 47899999933 3888999 45664433332 2344443 45666655 999999999 9999999999
Q ss_pred hhHHHHhcc
Q 002267 768 PYIELFMSK 776 (945)
Q Consensus 768 ~~~~~~~~~ 776 (945)
|+......+
T Consensus 179 P~~~~~~~~ 187 (252)
T PF13379_consen 179 PFASQAEAK 187 (252)
T ss_dssp THHHHHHHT
T ss_pred CHHHHHHhc
Confidence 998887766
No 214
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=95.74 E-value=0.42 Score=50.22 Aligned_cols=193 Identities=13% Similarity=0.038 Sum_probs=100.2
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVI 131 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 131 (945)
+||+++|-. ............+++++.++. |.++.+ .+...++....+...+++++++.+||+. ......++
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~~----gv~~~~--~e~~~~~~~~~~~i~~~~~~g~dlIi~~-g~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKAL----GVEVTY--VENVPEGADAERVLRELAAQGYDLIFGT-SFGFMDAA 72 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHhc----CCeEEE--EecCCchHhHHHHHHHHHHcCCCEEEEC-chhhhHHH
Confidence 478888732 111233344444555554432 444444 4554467777788888999999999983 44445556
Q ss_pred HHhhccc-CccEEecccCCCCCCCCCCCceEEecCChh---HHHHHHHHHHHHcCCeEEEEEEEeC-CcccchHHHHHHH
Q 002267 132 SHVVNEL-NVPLLSFGATDPTLTSLQYPYFLRTTQSDY---YQMHAVADLVEYYGWREVIAIFVDD-DYGRNGISVLGDA 206 (945)
Q Consensus 132 a~~~~~~-~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~---~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~ 206 (945)
..++.++ ++.++...+ .... |++........ ..+-.+|..+. +-.+|++|...+ +........|.+-
T Consensus 73 ~~vA~~~p~~~F~~~d~---~~~~---~Nv~~~~~~~~e~~ylaG~~Aa~~t--~t~kVG~I~g~~~~~~~~~~~gF~~G 144 (258)
T cd06353 73 LKVAKEYPDVKFEHCSG---YKTA---PNVGSYFARIYEGRYLAGVVAGKMT--KTNKVGYVAAFPIPEVVRGINAFALG 144 (258)
T ss_pred HHHHHHCCCCEEEECCC---CCCC---CCeeeEechhhHHHHHHHHHHHHhh--cCCcEEEEcCcccHHHHHHHHHHHHH
Confidence 6666555 333333222 1111 33332222221 22333333333 336899997432 2223445566665
Q ss_pred Hhhc--CcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCC
Q 002267 207 LSKK--RAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLG 264 (945)
Q Consensus 207 l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g 264 (945)
++.. ++++.....=. ..+...-......+...++|+|+-.+ .....++++++.|
T Consensus 145 ~~~~~p~~~v~~~~~g~-~~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~~~aa~~~g 200 (258)
T cd06353 145 ARSVNPDATVKVIWTGS-WFDPAKEKEAALALIDQGADVIYQHT---DSPGVIQAAEEKG 200 (258)
T ss_pred HHHHCCCcEEEEEEecC-CCCcHHHHHHHHHHHHCCCcEEEecC---CChHHHHHHHHhC
Confidence 5533 34443322111 11222334455556678999888877 2346788888876
No 215
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=95.61 E-value=1.5 Score=46.77 Aligned_cols=204 Identities=11% Similarity=-0.008 Sum_probs=103.4
Q ss_pred EEEEEeccC-CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhHHH
Q 002267 52 RIGALFTYD-SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIG-PQSSGIAH 129 (945)
Q Consensus 52 ~IG~l~~l~-~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 129 (945)
+||++.|-. ..+-.....+++.+.++. |+++-+ .++..++..-.+....++.++|.+||= +.......
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~--------gy~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI--------GWNLRI--LDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc--------CcEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 488888753 222224455555555443 555444 455566666556666677777766553 22212112
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCC-ceEEecCChhHHHHHHHHHHHHc--CCeEEEEEEEeC-Cccc---chHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYP-YFLRTTQSDYYQMHAVADLVEYY--GWREVIAIFVDD-DYGR---NGISV 202 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p-~~~r~~p~d~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~---~~~~~ 202 (945)
.....+...++|+|.+....+. .....+ .+-....++...+..+++++-.. |-++++++.... .... ...+.
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 2234455689999987543211 100011 13345566666677788877555 889999886332 1111 23344
Q ss_pred HHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc---CCceEEEEEcChhhHHHHHHHHHhCCCCCCC
Q 002267 203 LGDALSKKRAKISYKAPFSPGASRSAINSLLVGANL---MESRVFVVHVNPDTGLTIFSVAKSLGMTAGS 269 (945)
Q Consensus 203 l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~---~~~~vivl~~~~~~~~~~~~~a~~~g~~~~~ 269 (945)
+.+++++.++ ...................+++.. ..+++| ++.+...+..+++.+++.|+..++
T Consensus 151 ~~~a~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai-~~~~D~~A~g~~~~l~~~g~~~p~ 217 (280)
T cd06315 151 IIEACKGCTV--LSIEDVPISRTATRMPALTARLLQRYGDKWTHS-LAINDLYFDYMAPPLASAGRKADE 217 (280)
T ss_pred HHHhCCCCEE--EEecccCcchhhhhhHHHHHHHHHhcCccccee-cccchhhhHHhHHHHHHhcccCCC
Confidence 4444443343 111111111111111123333322 235654 445666677888999999986543
No 216
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=95.50 E-value=0.13 Score=55.90 Aligned_cols=68 Identities=15% Similarity=0.190 Sum_probs=49.9
Q ss_pred CCChHHhhcCCCCeEEeeCchHHHHHHH---hhcccc--ccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhcc
Q 002267 702 IEGIDSLISSTEPIGVQDGSFAWNYLVD---ELKIAE--SRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSK 776 (945)
Q Consensus 702 i~~~~dL~~~~~~v~~~~~s~~~~~l~~---~~~~~~--~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~ 776 (945)
|++++||+ |++|++..|+..+-++.+ ..+++. -+++.. +..+...++.+ |.+||.+...|+......+
T Consensus 98 i~svaDLK--GKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~-~~~d~~aAl~~----G~VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 98 GKSLADLK--GQKVNLVELSVSHYLLARALESVGLSEKDVKVVNT-SDADIVAAFIT----KDVTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CCCHHHcC--CCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeC-ChHHHHHHHhc----CCCcEEEEcCchHHHHHhC
Confidence 89999998 999999999876654443 233432 344444 45778899999 9999999988887655443
No 217
>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=95.27 E-value=0.43 Score=47.79 Aligned_cols=183 Identities=14% Similarity=0.125 Sum_probs=113.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.+..+- +++++.. ++..++++.|.+|++|+++..... ....+. ..|+....+++++++
T Consensus 19 ~~l~~~l~~~~~~~P~-i~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 86 (209)
T PF03466_consen 19 SLLPPLLAEFRERHPN-IRIEIRE-------GDSDELIEALRSGELDLAITFGPP---PPPGLE-SEPLGEEPLVLVVSP 86 (209)
T ss_dssp HTHHHHHHHHHHHSTT-EEEEEEE-------ESHHHHHHHHHTTSSSEEEESSSS---SSTTEE-EEEEEEEEEEEEEET
T ss_pred HHHHHHHHHHHHHCCC-cEEEEEe-------ccchhhhHHHhcccccEEEEEeec---cccccc-cccccceeeeeeeec
Confidence 3556788888887763 6676665 667899999999999999875443 222232 567778889999987
Q ss_pred cCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccchhhHHHHHHHHhhccccCcccccchhhHH
Q 002267 592 QKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQLVTIFWFSFSTMFFSHRENTVSSLGRVVL 671 (945)
Q Consensus 592 ~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~~~R~~~ 671 (945)
..+...
T Consensus 87 ~~pl~~-------------------------------------------------------------------------- 92 (209)
T PF03466_consen 87 DHPLAQ-------------------------------------------------------------------------- 92 (209)
T ss_dssp TSGGGT--------------------------------------------------------------------------
T ss_pred cccccc--------------------------------------------------------------------------
Confidence 762211
Q ss_pred HHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEE-eeCchHHHHHHH---hhccccccceecCCHHHH
Q 002267 672 IVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGV-QDGSFAWNYLVD---ELKIAESRLVKLKNMEEY 747 (945)
Q Consensus 672 ~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~-~~~s~~~~~l~~---~~~~~~~~~~~~~~~~~~ 747 (945)
...+ +++||. +.++.. ..+......+.+ ..+........+++.+..
T Consensus 93 ---------------------------~~~i-~~~dL~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 142 (209)
T PF03466_consen 93 ---------------------------KKPI-TLEDLA--DYPLILLSPGSPYRDQLDRWLREHGFSPNIVIEVDSFESI 142 (209)
T ss_dssp ---------------------------TSSS-SGGGGT--TSEEEEESTTTSHHHHHHHHHHHTTEEEEEEEEESSHHHH
T ss_pred ---------------------------cccc-hhhhhh--hccccccccccccccccccccccccccccccccccchhhh
Confidence 0234 889997 555444 334444444432 234444455668899999
Q ss_pred HHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCccccccceEEEecCCCcchHHHHHHHHhcc
Q 002267 748 SIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQEFTKSGWGFAFQRDSPLAIDLSTAILQLS 815 (945)
Q Consensus 748 ~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~ 815 (945)
...+.. |...+++.+.....+. .........+.+.-....+.++.+++.+....+...+..+.
T Consensus 143 ~~~v~~----g~gi~~~p~~~~~~~~-~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~ 205 (209)
T PF03466_consen 143 LSLVAS----GDGIAILPDSLAQDEL-ESGELVFLPLPDPPLPRPIYLVWRKDRPLSPAIQWFIDLLR 205 (209)
T ss_dssp HHHHHT----TSEBEEEEHHHHHHHH-HCTTEEEEEESSSTEEEEEEEEEETTGTTHHHHHHHHHHHH
T ss_pred cccccc----ccceeecCcccccccc-cCCCEEEEECCCCCCceEEEEEEECCCCCCHHHHHHHHHHH
Confidence 999998 5555555544333333 33233333444422337788888888766666666554443
No 218
>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=95.13 E-value=0.077 Score=58.03 Aligned_cols=61 Identities=20% Similarity=0.143 Sum_probs=39.7
Q ss_pred CCCCChHHhhcCCCCeEEee-CchHHHH---HHHhhcccccc--ceecCCHHHHHHHHhcCCCCCceeEEecc
Q 002267 700 SQIEGIDSLISSTEPIGVQD-GSFAWNY---LVDELKIAESR--LVKLKNMEEYSIALARGPKGGGVAAIVDE 766 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~-~s~~~~~---l~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~~~~ 766 (945)
.++++++||. ++++++.. ++..... +.+..++.... .+.+.+..+...+|.+ |++|+++..
T Consensus 131 ~~i~sl~dL~--gk~v~~~~~~s~~~~~~~~~l~~~G~~~~~~~~v~~~~~~~~~~al~~----G~vDa~~~~ 197 (320)
T TIGR02122 131 SGIKTVADLK--GKRVAVGAPGSGTELNARAVLKAAGLTYDDVKKVEYLGYAEAADALKD----GKIDAAFYT 197 (320)
T ss_pred CCCCcHHHcC--CCEEecCCCCcchHHHHHHHHHHcCCCHHHccchhcCCHHHHHHHHHC----CCccEEEEe
Confidence 3678999997 67777653 3322221 22233443222 3567788899999998 899999877
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=95.01 E-value=0.39 Score=49.34 Aligned_cols=90 Identities=11% Similarity=0.031 Sum_probs=73.7
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCC-------CChHHHHHHHHhhccCCce
Q 002267 170 QMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPG-------ASRSAINSLLVGANLMESR 242 (945)
Q Consensus 170 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-------~~~~d~~~~l~~l~~~~~~ 242 (945)
-..|+.+.++++|.++|+++. +|-....+.+.+.+++.|++|.....+... .+...+...+.++...++|
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 357888889999999999996 588889999999999999999876544431 3456677777777778899
Q ss_pred EEEEEcChhhHHHHHHHHHh
Q 002267 243 VFVVHVNPDTGLTIFSVAKS 262 (945)
Q Consensus 243 vivl~~~~~~~~~~~~~a~~ 262 (945)
+|++.|..=....++.++.+
T Consensus 184 AifisCTnLrt~~vi~~lE~ 203 (239)
T TIGR02990 184 ALFLSCTALRAATCAQRIEQ 203 (239)
T ss_pred EEEEeCCCchhHHHHHHHHH
Confidence 99999998888888888864
No 220
>cd08440 PBP2_LTTR_like_4 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse funct
Probab=94.85 E-value=1.9 Score=42.17 Aligned_cols=70 Identities=14% Similarity=0.172 Sum_probs=48.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++++.. ++..++.+.+.+|++|+++..... ....+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd08440 13 TLLPPVLAAFRRRHP-GIRVRLRD-------VSAEQVIEAVRSGEVDFGIGSEPE---ADPDLE-FEPLLRDPFVLVCPK 80 (197)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEEe-------CChHHHHHHHHcCCccEEEEeCCC---CCCCee-EEEeecccEEEEecC
Confidence 466788888888765 35566654 567889999999999999863221 122232 357777888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (197)
T cd08440 81 DH 82 (197)
T ss_pred CC
Confidence 55
No 221
>cd05466 PBP2_LTTR_substrate The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily. This model and hierarchy represent the the substrate-binding domain of the LysR-type transcriptional regulators that form the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA bin
Probab=94.69 E-value=1.6 Score=42.45 Aligned_cols=70 Identities=16% Similarity=0.235 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..++++.+.++.+ .+++++.. ....+++..+.+|++|++++.... ....++ ..++....+++++++
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 355677788877765 35566664 456789999999999999875433 222233 456667788888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (197)
T cd05466 81 DH 82 (197)
T ss_pred CC
Confidence 65
No 222
>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=94.63 E-value=0.3 Score=52.32 Aligned_cols=71 Identities=18% Similarity=0.218 Sum_probs=48.7
Q ss_pred CCCCChHHhhcCCCCeEEeeCchHHHHHHH---hhccccccc-eecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhc
Q 002267 700 SQIEGIDSLISSTEPIGVQDGSFAWNYLVD---ELKIAESRL-VKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMS 775 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~~s~~~~~l~~---~~~~~~~~~-~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~ 775 (945)
.+|++++||. |++|++..++.....+.. ..+++...+ ..+.+..+...++.+ |++|+++...++......
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 4789999997 888998877644443332 224433222 223456788899998 899999998888776655
Q ss_pred c
Q 002267 776 K 776 (945)
Q Consensus 776 ~ 776 (945)
+
T Consensus 165 ~ 165 (288)
T TIGR01728 165 E 165 (288)
T ss_pred c
Confidence 5
No 223
>cd08442 PBP2_YofA_SoxR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold. YofA is a LysR-like transcriptional regulator of cell growth in Bacillus subtillis. YofA controls cell viability and the formation of constrictions during cell division. YofaA positively regulates expression of the cell division gene ftsW, and thus is essential for cell viability during stationary-phase growth of Bacillus substilis. YofA shows significant homology to SoxR from Arthrobacter sp. TE1826. SoxR is a negative regulator for the sarcosine oxidase gene soxA. Sarcosine oxidase catalyzes the oxidative demethylation of sarcosine, which is involved in the metabolism of creatine and choline. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides
Probab=94.52 E-value=2.3 Score=41.65 Aligned_cols=70 Identities=17% Similarity=0.165 Sum_probs=47.9
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++++.. ++..++++.+.+|++|+++... ......+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (193)
T cd08442 13 VRLPPLLAAYHARYP-KVDLSLST-------GTTGALIQAVLEGRLDGAFVAG---PVEHPRLE-QEPVFQEELVLVSPK 80 (193)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEEeC---CCCCCCcE-EEEeecCcEEEEecC
Confidence 456788899988775 24566664 5678899999999999998532 22222222 456677778888776
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (193)
T cd08442 81 GH 82 (193)
T ss_pred CC
Confidence 54
No 224
>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=94.42 E-value=0.21 Score=50.98 Aligned_cols=59 Identities=27% Similarity=0.259 Sum_probs=38.5
Q ss_pred CCCCChHHhhcCCCCeEEeeCchHHHHHH---Hhhccccccceec-CCHHHHHHHHhcCCCCCceeEEe
Q 002267 700 SQIEGIDSLISSTEPIGVQDGSFAWNYLV---DELKIAESRLVKL-KNMEEYSIALARGPKGGGVAAIV 764 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~~s~~~~~l~---~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~g~~~a~~ 764 (945)
..|++++||. |++|++..++....++. ...+++.+.+... .+..+...+|.+ |++|+.+
T Consensus 83 s~i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~----g~vDa~~ 145 (216)
T PF09084_consen 83 SGIKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLS----GQVDAAI 145 (216)
T ss_dssp TS-SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHT----TSSSEEE
T ss_pred CCCCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhc----CCCCEEE
Confidence 3699999997 99999998775444333 2345444433322 235667779998 8999888
No 225
>cd08421 PBP2_LTTR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=94.40 E-value=2.2 Score=41.98 Aligned_cols=70 Identities=23% Similarity=0.271 Sum_probs=48.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++++.. ++..++++++.+|++|+++.... .....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 80 (198)
T cd08421 13 EFLPEDLASFLAAHP-DVRIDLEE-------RLSADIVRAVAEGRADLGIVAGN---VDAAGLE-TRPYRTDRLVVVVPR 80 (198)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------cCcHHHHHHHhcCCceEEEEecC---CCCCCcE-EEEeecCcEEEEeCC
Confidence 355678888888764 35566654 56788999999999999986322 2223333 467778888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (198)
T cd08421 81 DH 82 (198)
T ss_pred CC
Confidence 65
No 226
>cd08420 PBP2_CysL_like C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold. CysL, also known as YwfK, is a regular of sulfur metabolism in Bacillus subtilis. Sulfur is required for the synthesis of proteins and essential cofactors in all living organism. Sulfur can be assimilated either from inorganic sources (sulfate and thiosulfate), or from organic sources (sulfate esters, sulfamates, and sulfonates). CysL activates the transcription of the cysJI operon encoding sulfite reductase, which reduces sulfite to sulfide. Both cysL mutant and cysJI mutant are unable to grow using sulfate or sulfite as the sulfur source. Like other LysR-type regulators, CysL also negatively regulates its own transcription. In Escherichia coli, three LysR-type activators are involved in the regulation of sulfur metabolism: CysB, Cbl and MetR. The topology
Probab=94.38 E-value=2.9 Score=41.03 Aligned_cols=70 Identities=16% Similarity=0.173 Sum_probs=48.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++.+.. ++..+++.+|.+|++|+++...... ...+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~~~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (201)
T cd08420 13 YLLPRLLARFRKRYP-EVRVSLTI-------GNTEEIAERVLDGEIDLGLVEGPVD---HPDLI-VEPFAEDELVLVVPP 80 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEecCCCC---CcceE-EEeecCccEEEEecC
Confidence 456678888888764 34566654 4567899999999999998643222 22232 467778888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (201)
T cd08420 81 DH 82 (201)
T ss_pred CC
Confidence 55
No 227
>cd08438 PBP2_CidR The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of CidR which positively up-regulates the expression of cidABC operon in the presence of acetic acid produced by the metabolism of excess glucose. The CidR affects the control of murein hydrolase activity by enhancing cidABC expression in the presence of acetic acid. Thus, up-regulation of cidABC expression results in increased murein hydrolase activity. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate
Probab=94.17 E-value=3.4 Score=40.45 Aligned_cols=70 Identities=17% Similarity=0.170 Sum_probs=49.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..++++.+.+..+ .+++++.. ++..+++..|.+|++|+++...... ...+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~L~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE-------YGGKKVEQAVLNGELDVGITVLPVD---EEEFD-SQPLCNEPLVAVLPR 80 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE-------cCcHHHHHHHHcCCCCEEEEecccc---cCCce-eEEeccccEEEEecC
Confidence 466788999988875 35566664 5678899999999999998643221 12222 456777888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (197)
T cd08438 81 GH 82 (197)
T ss_pred CC
Confidence 65
No 228
>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=94.11 E-value=3.1 Score=44.03 Aligned_cols=169 Identities=11% Similarity=0.068 Sum_probs=96.5
Q ss_pred CcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--ccCChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEec
Q 002267 87 GTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAI--GPQSSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTT 164 (945)
Q Consensus 87 g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~ 164 (945)
|+++.+...+. .. ..+...+|.++| ++... ... ...+...++|+|......+. ...+++ +.
T Consensus 37 gy~~~~~~~~~---~~------~~l~~~~vdgiIi~~~~~~--~~~-~~~l~~~~iPvV~i~~~~~~--~~~~~~---V~ 99 (269)
T cd06287 37 GLALCLVPPHE---AD------SPLDALDIDGAILVEPMAD--DPQ-VARLRQRGIPVVSIGRPPGD--RTDVPY---VD 99 (269)
T ss_pred CCEEEEEeCCC---ch------hhhhccCcCeEEEecCCCC--CHH-HHHHHHcCCCEEEeCCCCCC--CCCCCe---Ee
Confidence 66777655441 11 123345777655 32222 122 23345679999987543210 112333 34
Q ss_pred CChhHHHHHHHHHHHHcCCeEEEEEEEeC--CcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--C
Q 002267 165 QSDYYQMHAVADLVEYYGWREVIAIFVDD--DYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--E 240 (945)
Q Consensus 165 p~d~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~ 240 (945)
.++..-+..+++.+...|-+++++|.... .....-...+.+++++.|+...... .....+.++-...++++.+. +
T Consensus 100 ~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~ 178 (269)
T cd06287 100 LQSAATARMLLEHLRAQGARQIALIVGSARRNSYLEAEAAYRAFAAEHGMPPVVLR-VDEAGGEEAGYAACAQLLAQHPD 178 (269)
T ss_pred eCcHHHHHHHHHHHHHcCCCcEEEEeCCcccccHHHHHHHHHHHHHHcCCCcceeE-ecCCCChHHHHHHHHHHHhCCCC
Confidence 45666667777888778999999996432 2334456788999999887532111 11112223333455554332 4
Q ss_pred ceEEEEEcChhhHHHHHHHHHhCCCCCCCeEEEE
Q 002267 241 SRVFVVHVNPDTGLTIFSVAKSLGMTAGSYVWIA 274 (945)
Q Consensus 241 ~~vivl~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 274 (945)
+++|+ +.+...+..+++.+++.|+..++-+=|.
T Consensus 179 ~~ai~-~~~d~~A~gvl~al~~~gl~vP~dvsvi 211 (269)
T cd06287 179 LDALC-VPVDAFAVGAVRAATELGRAVPDQLRVV 211 (269)
T ss_pred CCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 66665 4567778899999999998766544333
No 229
>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=94.04 E-value=1.6 Score=43.31 Aligned_cols=70 Identities=11% Similarity=0.107 Sum_probs=48.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++++.. ++.+++.++|.+|++|+++...... ...+. +.|+....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~v~~~ 80 (201)
T cd08459 13 YFLPRLLAALREVAP-GVRIETVR-------LPVDELEEALESGEIDLAIGYLPDL---GAGFF-QQRLFRERYVCLVRK 80 (201)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------cCccCHHHHhhCCCceEEEEcCCCC---cccce-EEEeecCceEEEEcC
Confidence 455678888888775 35566654 5567889999999999998643211 22233 567888888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (201)
T cd08459 81 DH 82 (201)
T ss_pred CC
Confidence 65
No 230
>cd08412 PBP2_PAO1_like The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily. This family includes the C-terminal substrate domain of a putative LysR-type transcriptional regulator from the plant pathogen Pseudomonas aeruginosa PAO1and its closely related homologs. The LysR-type transcriptional regulators (LTTRs) are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controll
Probab=93.99 E-value=3.2 Score=40.80 Aligned_cols=71 Identities=11% Similarity=0.061 Sum_probs=49.6
Q ss_pred eeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEE
Q 002267 511 KGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAP 590 (945)
Q Consensus 511 ~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~ 590 (945)
..+-.+++..+.++.+ .+++++.. ++..+++++|.+|++|+++.... .....+ .+.|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~~~~ 79 (198)
T cd08412 12 PYYLPGLLRRFREAYP-GVEVRVVE-------GNQEELEEGLRSGELDLALTYDL---DLPEDI-AFEPLARLPPYVWLP 79 (198)
T ss_pred hhhhHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEcCC---CCCccc-ceeeeeccceEEEec
Confidence 3566788999988875 35566664 56788999999999999986321 112223 247777888888887
Q ss_pred ccC
Q 002267 591 VQK 593 (945)
Q Consensus 591 ~~~ 593 (945)
...
T Consensus 80 ~~~ 82 (198)
T cd08412 80 ADH 82 (198)
T ss_pred CCC
Confidence 655
No 231
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=93.85 E-value=2.7 Score=45.39 Aligned_cols=83 Identities=12% Similarity=0.139 Sum_probs=56.2
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.++|+++... ..++-..++..+.+..+- +++.+.. ++-++++++|.+|++|+++...
T Consensus 91 g~l~i~~~~~~--------------~~~~~~~~l~~~~~~~P~-v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (305)
T PRK11151 91 GPLHIGLIPTV--------------GPYLLPHIIPMLHQTFPK-LEMYLHE-------AQTHQLLAQLDSGKLDCAILAL 148 (305)
T ss_pred ceEEEEecchh--------------HHHHHHHHHHHHHHHCCC-cEEEEEe-------CCHHHHHHHHHcCCccEEEEec
Confidence 56888883221 123555677777776653 5566664 5578999999999999998643
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
.... ..+ .+.|+....+++++++..
T Consensus 149 ~~~~---~~l-~~~~l~~~~~~~~~~~~h 173 (305)
T PRK11151 149 VKES---EAF-IEVPLFDEPMLLAVYEDH 173 (305)
T ss_pred CCCC---CCe-EEEEeccCcEEEEecCCC
Confidence 2221 122 458888999999987765
No 232
>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=93.78 E-value=2.7 Score=41.75 Aligned_cols=73 Identities=16% Similarity=0.185 Sum_probs=50.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++.+.. ++..++++.|.+|++|+++........-...+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~ 83 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVH-------AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIE-ERDWWEDTYVVIASR 83 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEE-------CChHhHHHHHHCCCccEEEecccccccCCCCEE-EEEEecCcEEEEEeC
Confidence 456788999988875 35566664 668899999999999999864322100012233 357777788888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 84 ~h 85 (202)
T cd08468 84 DH 85 (202)
T ss_pred CC
Confidence 65
No 233
>cd08415 PBP2_LysR_opines_like The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulators, OccR and NocR, involved in the catabolism of opines and that of LysR for lysine biosynthesis which clustered together in phylogenetic trees. Opines, such as octopine and nopaline, are low molecular weight compounds found in plant crown gall tumors that are produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. NocR and OccR belong to the family of LysR-type transcriptional regulators that positively regulates the catabolism of nopaline and octopine, respectively. Both nopaline and octopalin are arginine derivatives. In Agrobacterium tumefa
Probab=93.52 E-value=3.8 Score=40.13 Aligned_cols=71 Identities=13% Similarity=0.098 Sum_probs=49.7
Q ss_pred eeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEE
Q 002267 511 KGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAP 590 (945)
Q Consensus 511 ~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~ 590 (945)
..+..+++..+.+..+ .+++.+.. +...++.+++.+|++|+++..... . ...+ .+.|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~-~~~~-~~~~l~~~~~~~v~~ 79 (196)
T cd08415 12 LSLLPRAIARFRARHP-DVRISLHT-------LSSSTVVEAVLSGQADLGLASLPL--D-HPGL-ESEPLASGRAVCVLP 79 (196)
T ss_pred ccccHHHHHHHHHHCC-CcEEEEEe-------cchHHHHHHHHcCCccEEEEeCCC--C-CCcc-eeeeecccceEEEEc
Confidence 3566788999988765 35566664 567889999999999999863221 1 1222 367778888888887
Q ss_pred ccC
Q 002267 591 VQK 593 (945)
Q Consensus 591 ~~~ 593 (945)
+..
T Consensus 80 ~~~ 82 (196)
T cd08415 80 PGH 82 (196)
T ss_pred CCC
Confidence 654
No 234
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=93.35 E-value=4.5 Score=43.70 Aligned_cols=86 Identities=17% Similarity=0.157 Sum_probs=55.8
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.||||+.... ...+..+++..+.+..+- +++.+.. +....+++.|.+|++|+++..-
T Consensus 95 g~l~ig~~~~~--------------~~~~~~~~l~~~~~~~P~-v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 152 (305)
T CHL00180 95 GTLIIGASQTT--------------GTYLMPRLIGLFRQRYPQ-INVQLQV-------HSTRRIAWNVANGQIDIAIVGG 152 (305)
T ss_pred ceEEEEEcCcc--------------hHhHHHHHHHHHHHHCCC-ceEEEEe-------CCHHHHHHHHHcCCccEEEEcC
Confidence 57999984221 123556788888877552 4566653 5678999999999999998632
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
.........+ ...++....++++++...
T Consensus 153 ~~~~~~~~~~-~~~~l~~~~~~~v~~~~~ 180 (305)
T CHL00180 153 EVPTELKKIL-EITPYVEDELALIIPKSH 180 (305)
T ss_pred ccCcccccce-eEEEeccCcEEEEECCCC
Confidence 2111111122 357788888899988765
No 235
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=93.23 E-value=3.3 Score=45.01 Aligned_cols=85 Identities=18% Similarity=0.120 Sum_probs=55.2
Q ss_pred CCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002267 484 GMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGD 563 (945)
Q Consensus 484 g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 563 (945)
.+.|+||+... ....+-.+++..+.++.+ .+.+.+.. ++...+++.|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~~--------------~~~~~l~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~L~~g~~D~~i~~ 149 (313)
T PRK12684 92 QGNLTIATTHT--------------QARYALPAAIKEFKKRYP-KVRLSILQ-------GSPTQIAEMVLHGQADLAIAT 149 (313)
T ss_pred CCeEEEEechH--------------HHHHHhHHHHHHHHHHCC-CceEEEEe-------CChHHHHHHHHCCCcCEEEee
Confidence 35799998322 112355678888887664 34566654 567899999999999999853
Q ss_pred EEEecCcceeEEecccccccceEEEEEccC
Q 002267 564 ITIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 564 ~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
-.... . ..+. +.|+....++++++...
T Consensus 150 ~~~~~-~-~~l~-~~~l~~~~~~~v~~~~~ 176 (313)
T PRK12684 150 EAIAD-Y-KELV-SLPCYQWNHCVVVPPDH 176 (313)
T ss_pred cCCCC-C-CCce-EEEeccceEEEEeCCCC
Confidence 21111 1 1222 47777788888887665
No 236
>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=93.12 E-value=4 Score=40.24 Aligned_cols=70 Identities=10% Similarity=0.180 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++.+.. ++..++++.+.+|++|+++..... ....+. ..++.+..++++++.
T Consensus 14 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 81 (200)
T cd08411 14 YLLPRLLPALRQAYP-KLRLYLRE-------DQTERLLEKLRSGELDAALLALPV---DEPGLE-EEPLFDEPFLLAVPK 81 (200)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEe-------CcHHHHHHHHHcCCccEEEEeccC---CCCCce-EEEeeccceEEEecC
Confidence 366788888888765 34566654 567899999999999999853221 112222 356677788888776
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 82 ~~ 83 (200)
T cd08411 82 DH 83 (200)
T ss_pred CC
Confidence 55
No 237
>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=93.10 E-value=3.3 Score=40.84 Aligned_cols=70 Identities=17% Similarity=0.177 Sum_probs=48.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++.+.. ++...+.+.|.+|++|+++.... .....+ -..|+....++++++.
T Consensus 13 ~~~~~~i~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08417 13 LLLPPLLARLRQEAP-GVRLRFVP-------LDRDDLEEALESGEIDLAIGVFP---ELPPGL-RSQPLFEDRFVCVARK 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CeEEEecc-------CCHHHHHHHHHcCCCCEEEeecc---cCCCcc-chhhhhcCceEEEecC
Confidence 455678888887764 24455553 56789999999999999986322 122223 2467888888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (200)
T cd08417 81 DH 82 (200)
T ss_pred CC
Confidence 65
No 238
>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=92.96 E-value=5.9 Score=39.49 Aligned_cols=72 Identities=10% Similarity=0.081 Sum_probs=49.7
Q ss_pred eeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEE
Q 002267 511 KGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAP 590 (945)
Q Consensus 511 ~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~ 590 (945)
..+-.+++..+.++.+ .+++++... ++.++++++|.+|++|+++...... ...++ ..|+.+..++++++
T Consensus 12 ~~~~~~~l~~~~~~~P-~~~v~~~~~------~~~~~l~~~L~~g~lDl~i~~~~~~---~~~l~-~~~l~~~~~~lv~~ 80 (203)
T cd08463 12 ALFLPELVARFRREAP-GARLEIHPL------GPDFDYERALASGELDLVIGNWPEP---PEHLH-LSPLFSDEIVCLMR 80 (203)
T ss_pred HHHhHHHHHHHHHHCC-CCEEEEEeC------CcchhHHHHHhcCCeeEEEeccccC---CCCcE-EeEeecCceEEEEe
Confidence 3567789999988775 245666531 3467899999999999998632211 12233 36777888888888
Q ss_pred ccC
Q 002267 591 VQK 593 (945)
Q Consensus 591 ~~~ 593 (945)
+..
T Consensus 81 ~~h 83 (203)
T cd08463 81 ADH 83 (203)
T ss_pred CCC
Confidence 766
No 239
>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=92.88 E-value=5.1 Score=39.40 Aligned_cols=70 Identities=14% Similarity=0.192 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.+..+ .+++.+.. .+..++...|.+|++|+++... ......+ -+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 80 (198)
T cd08433 13 VLAVPLLRAVRRRYP-GIRLRIVE-------GLSGHLLEWLLNGRLDLALLYG---PPPIPGL-STEPLLEEDLFLVGPA 80 (198)
T ss_pred hcchHHHHHHHHHCC-CcEEEEEe-------cCcHHHHHHHhCCCCcEEEEeC---CCCCCCe-eEEEeccccEEEEecC
Confidence 456678888888775 35566664 4467899999999999998522 2222222 3467778888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (198)
T cd08433 81 DA 82 (198)
T ss_pred CC
Confidence 55
No 240
>cd08426 PBP2_LTTR_like_5 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=92.78 E-value=5.5 Score=39.14 Aligned_cols=70 Identities=10% Similarity=0.014 Sum_probs=48.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++.+.. ++..++++++.+|++|+++..... ....+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (199)
T cd08426 13 ELLPSLIARFRQRYP-GVFFTVDV-------ASTADVLEAVLSGEADIGLAFSPP---PEPGIR-VHSRQPAPIGAVVPP 80 (199)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEe-------CCcHHHHHHHHCCCccEEEecCCC---CCCCeE-EEeeccCcEEEEecC
Confidence 455678888887764 34566653 556889999999999999853221 112233 467788888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~h 82 (199)
T cd08426 81 GH 82 (199)
T ss_pred CC
Confidence 65
No 241
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=92.78 E-value=7.6 Score=42.20 Aligned_cols=207 Identities=12% Similarity=0.089 Sum_probs=125.2
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.||||++.. ....+-.++++.+.+..+ .+.+.+.. ++..+++++|.+|++|+++...
T Consensus 93 g~lrIg~~~~--------------~~~~~l~~~l~~f~~~~P-~i~l~l~~-------~~~~~~~~~L~~g~~Dl~i~~~ 150 (316)
T PRK12679 93 GVLTIATTHT--------------QARYSLPEVIKAFRELFP-EVRLELIQ-------GTPQEIATLLQNGEADIGIASE 150 (316)
T ss_pred ceEEEEechH--------------hhhcchHHHHHHHHHHCC-CeEEEEec-------CCHHHHHHHHHcCCCCEEEecc
Confidence 5799999322 113466778888887765 24565553 5678899999999999998532
Q ss_pred EEecCcceeEEecccccccceEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccchh
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQLV 644 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 644 (945)
... . ...+. +.++....+++++++..+...
T Consensus 151 ~~~-~-~~~l~-~~~l~~~~~~~v~~~~hpl~~----------------------------------------------- 180 (316)
T PRK12679 151 RLS-N-DPQLV-AFPWFRWHHSLLVPHDHPLTQ----------------------------------------------- 180 (316)
T ss_pred cCC-C-CCCce-EEEccCCcEEEEecCCCcccc-----------------------------------------------
Confidence 211 1 12233 357788888888877653211
Q ss_pred hHHHHHHHHhhccccCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCC-eEEeeCchH
Q 002267 645 TIFWFSFSTMFFSHRENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEP-IGVQDGSFA 723 (945)
Q Consensus 645 ~~~~~~~~~l~~~~~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~-v~~~~~s~~ 723 (945)
...-+++||. +.+ +....+...
T Consensus 181 -------------------------------------------------------~~~i~~~~L~--~~~~i~~~~~~~~ 203 (316)
T PRK12679 181 -------------------------------------------------------ITPLTLESIA--KWPLITYRQGITG 203 (316)
T ss_pred -------------------------------------------------------CCCCCHHHHh--CCCeEEecCCCcH
Confidence 1234778887 333 434444332
Q ss_pred ----HHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeC--ccccccceEEEe
Q 002267 724 ----WNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVG--QEFTKSGWGFAF 797 (945)
Q Consensus 724 ----~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~ 797 (945)
..++. ..+.........++.+...+.+.. |...+++-.. +... + + ...+..+. .......+.++.
T Consensus 204 ~~~~~~~~~-~~~~~~~~~~~~~s~~~~~~~v~~----g~Gi~~lp~~-~~~~-~-~-~~~L~~~~~~~~~~~~~~~l~~ 274 (316)
T PRK12679 204 RSRIDDAFA-RKGLLADIVLSAQDSDVIKTYVAL----GLGIGLVAEQ-SSGE-Q-E-ESNLIRLDTRHLFDANTVWLGL 274 (316)
T ss_pred HHHHHHHHH-HcCCCceEEEEeccHHHHHHHHHc----CCcEEEeccc-cccc-c-c-CCcEEEEECcccCCCceEEEEE
Confidence 23332 234443445566788888899988 5444444433 2332 2 2 23444432 233345678889
Q ss_pred cCCCcchHHHHHHHHhccccccHHHHHHHhcC
Q 002267 798 QRDSPLAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 798 ~k~spl~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
+++.+....+...+.-+.+.--.+.|++.-+.
T Consensus 275 ~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 306 (316)
T PRK12679 275 KRGQLQRNYVWRFLELCNAGLSVEDIKRQVME 306 (316)
T ss_pred eCCchhhHHHHHHHHHHhcccCHHHHHHHHhh
Confidence 99888888888877777666667777776654
No 242
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=92.63 E-value=6.8 Score=42.93 Aligned_cols=202 Identities=14% Similarity=0.055 Sum_probs=99.9
Q ss_pred CceEEEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCC-ChHHHHHHHHHHHhcCcEEEEcc
Q 002267 48 PSSVRIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRD-TNC-SGFVGTMEALQLMENEVVAAIGP 122 (945)
Q Consensus 48 ~~~i~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D-~~~-~~~~a~~~a~~li~~~v~aiiGp 122 (945)
....+++++.+=. ..+.+....|.+.+-++. |.+++....+ ... +.....+...++.+++...|+|.
T Consensus 33 ~~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~a~~g~~lI~~~ 104 (345)
T COG1744 33 GKKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKEL--------GLKVETYYWEYVQSDSEADYERALRALAEDGYDLIFGT 104 (345)
T ss_pred ccceEEEEEecCCCCccchhHHHHHHHHHHHHHh--------CCceEeeeeeecCCcchhHHHHHHHHHHhcCCCEEEEe
Confidence 3455555554432 333445555665444444 3445543322 222 34455556667777777777774
Q ss_pred CChhHHHHHHHhhcccCccEEecccCCCCCCCC--CCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEE-eCCcccch
Q 002267 123 QSSGIAHVISHVVNELNVPLLSFGATDPTLTSL--QYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFV-DDDYGRNG 199 (945)
Q Consensus 123 ~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~--~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~-d~~~g~~~ 199 (945)
. .....++..++.++ |-+.|.-.+...... -..+.||..-... ++-.+|..+.+ -++++.|.. +-+--...
T Consensus 105 g-f~~~d~~~~va~~~--Pd~~F~iid~~~~~~~Nv~s~~f~~~egay-L~G~~AA~~sk--~~~vG~vgg~~~p~v~~f 178 (345)
T COG1744 105 G-FAFSDALEKVAAEY--PDVKFVIIDGVVKKEDNVASYVFREYEGAY-LAGVAAAKMSK--SGKVGFVGGMDIPEVNRF 178 (345)
T ss_pred c-cchhhHHHHHHHHC--CCCEEEEecCccCCCCceEEEEeccccHHH-HHHHHHHHhhc--CCceeEEecccchhhHHH
Confidence 3 34445556666655 333332222222221 1245566543222 22233333322 345555542 33333445
Q ss_pred HHHHHHHHhhcC----cEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCCCC
Q 002267 200 ISVLGDALSKKR----AKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGMTA 267 (945)
Q Consensus 200 ~~~l~~~l~~~g----~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~~~ 267 (945)
...|..-.+..+ +.+.+...+. +...=..+...+.+.++|||+-+..+.....+ .+|++.|...
T Consensus 179 ~~gF~~Gak~~np~i~v~v~~~gsf~---D~~k~k~~a~~li~~GaDVI~~~ag~~~~gv~-~~A~~~~~~~ 246 (345)
T COG1744 179 INGFLAGAKSVNPDIKVKVVYVGSFS---DPAKGKEAANALIDQGADVIYPAAGGTGVGVF-QAAKELGAYA 246 (345)
T ss_pred HHHHHHHHHhhCCCccEEEEEecCcc---ChHHHHHHHHHHHhcCCCEEEecCCCCcchHH-HHHHHhCCCe
Confidence 556666555443 3334333333 22333446777778999999988766544332 3677777433
No 243
>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []. ; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....
Probab=92.56 E-value=0.29 Score=40.64 Aligned_cols=56 Identities=20% Similarity=0.399 Sum_probs=47.8
Q ss_pred CccchhhHHHHHHHHhhccc--cCcccccchhhHHHHHHHHHHhhhhhhhhhhheeee
Q 002267 639 PSQQLVTIFWFSFSTMFFSH--RENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILT 694 (945)
Q Consensus 639 ~~~~~~~~~~~~~~~l~~~~--~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt 694 (945)
...++.+++|+++.++...+ .-.|.+..+|++.+.+.++++.+.....+.+++.++
T Consensus 21 ~~~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l~ 78 (79)
T PF07885_consen 21 EKWSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVLT 78 (79)
T ss_dssp STTSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35679999999999998765 458999999999999999999999999999988764
No 244
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=92.55 E-value=4.7 Score=43.28 Aligned_cols=83 Identities=14% Similarity=0.076 Sum_probs=56.7
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.++||++.. ....+..+++..+.++.+ .+.+++.. +....++..|.+|++|+++...
T Consensus 91 ~~i~I~~~~~--------------~~~~~l~~~l~~~~~~~p-~~~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (296)
T PRK11242 91 GSLRLAMTPT--------------FTAYLIGPLIDAFHARYP-GITLTIRE-------MSQERIEALLADDELDVGIAFA 148 (296)
T ss_pred eEEEEEeccc--------------hhhhhhHHHHHHHHHHCC-CCEEEEEe-------CCHHHHHHHHHCCCCcEEEEec
Confidence 4699988322 113456678888888765 45566654 5678899999999999998532
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
......+ .+.++....+++++++..
T Consensus 149 ---~~~~~~l-~~~~l~~~~~~~~~~~~~ 173 (296)
T PRK11242 149 ---PVHSPEI-EAQPLFTETLALVVGRHH 173 (296)
T ss_pred ---CCCCcce-eEEEeeeccEEEEEcCCC
Confidence 2222233 357778888888888765
No 245
>cd08419 PBP2_CbbR_RubisCO_like The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold. CbbR, a LysR-type transcriptional regulator, is required to activate expression of RubisCO, one of two unique enzymes in the Calvin-Benson-Bassham (CBB) cycle pathway. All plants, cyanobacteria, and many autotrophic bacteria use the CBB cycle to fix carbon dioxide. Thus, this cycle plays an essential role in assimilating CO2 into organic carbon on earth. The key CBB cycle enzyme is ribulose 1,5-bisphosphate carboxylase/oxygenase (RubisCO), which catalyzes the actual CO2 fixation reaction. The CO2 concentration affects the expression of RubisCO genes. It has also shown that NADPH enhances the DNA-binding ability of the CbbR. RubisCO is composed of eight large (CbbL) and eight small subunits (CbbS). The topology of this substrate-binding domain is most similar to t
Probab=92.46 E-value=9.2 Score=37.31 Aligned_cols=70 Identities=19% Similarity=0.227 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++++.. +....++.++.+|++|+++....... ..+ ...++....++++++.
T Consensus 12 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~---~~~-~~~~l~~~~~~~~~~~ 79 (197)
T cd08419 12 YFAPRLLGAFCRRHP-GVEVSLRV-------GNREQVLERLADNEDDLAIMGRPPED---LDL-VAEPFLDNPLVVIAPP 79 (197)
T ss_pred hHhhHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHhcCCccEEEecCCCCC---CCe-EEEEeccCCEEEEecC
Confidence 356678888888764 24566654 56788999999999999985322111 112 2567778888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 80 ~~ 81 (197)
T cd08419 80 DH 81 (197)
T ss_pred CC
Confidence 55
No 246
>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=92.35 E-value=6.9 Score=38.44 Aligned_cols=72 Identities=19% Similarity=0.212 Sum_probs=48.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++.+.. .+..++.++|.+|++|++++..... .....+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~ 82 (201)
T cd08418 13 TLMPAVINRFKEQFP-DVQISIYE-------GQLSSLLPELRDGRLDFAIGTLPDE-MYLKELI-SEPLFESDFVVVARK 82 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CcHHHHHHHHHcCCCcEEEEecCCC-CCCccee-EEeecCCceEEEeCC
Confidence 456678888888775 45666664 5678999999999999998632111 1112233 466677788888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 83 ~~ 84 (201)
T cd08418 83 DH 84 (201)
T ss_pred CC
Confidence 54
No 247
>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=92.33 E-value=4.6 Score=39.94 Aligned_cols=69 Identities=14% Similarity=0.123 Sum_probs=45.8
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-..++..+.++.+ .+++.+.. ++. ++++.|.+|++|++++.-... ...+. ..|+....++++++.
T Consensus 13 ~~l~~~i~~~~~~~P-~i~l~i~~-------~~~-~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 79 (200)
T cd08462 13 VLLPPVIERVAREAP-GVRFELLP-------PDD-QPHELLERGEVDLLIAPERFM---SDGHP-SEPLFEEEFVCVVWA 79 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CCh-hHHHHHhcCCeeEEEecCCCC---CCCce-eeeeeccceEEEEcC
Confidence 345677888887765 24566653 445 899999999999998632111 12233 447777888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 80 ~h 81 (200)
T cd08462 80 DN 81 (200)
T ss_pred CC
Confidence 65
No 248
>cd08460 PBP2_DntR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=92.22 E-value=2.2 Score=42.34 Aligned_cols=70 Identities=13% Similarity=0.143 Sum_probs=48.4
Q ss_pred eeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEE
Q 002267 511 KGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAP 590 (945)
Q Consensus 511 ~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~ 590 (945)
..+-.+++..+.++.+ .+++++.. ++. .++++|.+|++|++++.... ....+. ..|+.+..++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~v~l~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~ 78 (200)
T cd08460 12 AAFGPALLAAVAAEAP-GVRLRFVP-------ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVR 78 (200)
T ss_pred HHHHHHHHHHHHHHCC-CCEEEEec-------Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEe
Confidence 3567788888888875 45566653 445 78899999999999863221 112233 47777888888887
Q ss_pred ccC
Q 002267 591 VQK 593 (945)
Q Consensus 591 ~~~ 593 (945)
...
T Consensus 79 ~~h 81 (200)
T cd08460 79 AGH 81 (200)
T ss_pred CCC
Confidence 665
No 249
>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=92.07 E-value=5.1 Score=39.44 Aligned_cols=70 Identities=16% Similarity=0.171 Sum_probs=49.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++++.. ++...+..+|.+|++|+++.... .....+. +.|+....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~lv~~~ 80 (200)
T cd08466 13 LLLPRLLARLKQLAP-NISLRESP-------SSEEDLFEDLRLQEVDLVIDYVP---FRDPSFK-SELLFEDELVCVARK 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CchHhHHHHHHcCCccEEEeccc---CCCCCce-eeeecccceEEEEeC
Confidence 456678888888775 35566664 66788999999999999986321 1122232 467788889988887
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (200)
T cd08466 81 DH 82 (200)
T ss_pred CC
Confidence 65
No 250
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=92.02 E-value=6.9 Score=42.72 Aligned_cols=152 Identities=10% Similarity=0.035 Sum_probs=84.5
Q ss_pred cCcEEEEc-cCChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEe
Q 002267 114 NEVVAAIG-PQSSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVD 192 (945)
Q Consensus 114 ~~v~aiiG-p~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d 192 (945)
++|.++|- |..+. .....+...++|+|......+ +..+++ ...++..-+..+++.+...|.++++++..+
T Consensus 113 ~~vDgiI~~~~~~~---~~~~~l~~~~~pvV~~~~~~~---~~~~~~---V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~ 183 (327)
T PRK10339 113 KNVTGILIVGKPTP---ALRAAASALTDNICFIDFHEP---GSGYDA---VDIDLARISKEIIDFYINQGVNRIGFIGGE 183 (327)
T ss_pred ccCCEEEEeCCCCH---HHHHHHHhcCCCEEEEeCCCC---CCCCCE---EEECHHHHHHHHHHHHHHCCCCeEEEeCCc
Confidence 46665553 22222 233455667899997643221 122332 455666666777888877899999999643
Q ss_pred CC--cccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc--CCceEEEEEcChhhHHHHHHHHHhCCCCCC
Q 002267 193 DD--YGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANL--MESRVFVVHVNPDTGLTIFSVAKSLGMTAG 268 (945)
Q Consensus 193 ~~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vivl~~~~~~~~~~~~~a~~~g~~~~ 268 (945)
.. ....-...+.+++++.|+. .....+....+..+....++++.. ..+++|+ +.+...+..++++++++|...+
T Consensus 184 ~~~~~~~~R~~gf~~~~~~~g~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~D~~A~g~~~al~~~g~~vP 261 (327)
T PRK10339 184 DEPGKADIREVAFAEYGRLKQVV-REEDIWRGGFSSSSGYELAKQMLAREDYPKALF-VASDSIAIGVLRAIHERGLNIP 261 (327)
T ss_pred cccchhhHHHHHHHHHHHHcCCC-ChhheeecCcChhHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 22 3334466788888888761 110111111122222334444432 2356544 4566778889999999998655
Q ss_pred C-eEEEEeC
Q 002267 269 S-YVWIATD 276 (945)
Q Consensus 269 ~-~~wi~~~ 276 (945)
+ ...++.|
T Consensus 262 ~di~vigfD 270 (327)
T PRK10339 262 QDISLISVN 270 (327)
T ss_pred CceEEEeeC
Confidence 4 3344433
No 251
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=91.91 E-value=7 Score=42.32 Aligned_cols=84 Identities=17% Similarity=0.112 Sum_probs=54.5
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
++|+||++.. . ...+-..++..+.++.+ .+++.+.. ++++++++.|.+|++|+++...
T Consensus 93 g~l~Ig~~~~--~------------~~~~l~~~i~~f~~~~P-~i~l~~~~-------~~~~~~~~~L~~~~~D~~i~~~ 150 (309)
T PRK12683 93 GHLTVATTHT--Q------------ARYALPKVVRQFKEVFP-KVHLALRQ-------GSPQEIAEMLLNGEADIGIATE 150 (309)
T ss_pred ceEEEEeccc--h------------HHHHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEecC
Confidence 5799998321 1 12345567888877764 24566654 6789999999999999998522
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
... ....+.+ .|+....+++++++..
T Consensus 151 ~~~--~~~~l~~-~~l~~~~~~~v~~~~h 176 (309)
T PRK12683 151 ALD--REPDLVS-FPYYSWHHVVVVPKGH 176 (309)
T ss_pred CCC--CCCCceE-EEcccCeEEEEecCCC
Confidence 111 1222433 4677788888887665
No 252
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=91.73 E-value=10 Score=40.38 Aligned_cols=83 Identities=17% Similarity=0.152 Sum_probs=53.6
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.++||++.. ....+..+++..+.+..+ .+++.... +...+++..+.+|++|+++...
T Consensus 89 g~l~i~~~~~--------------~~~~~~~~~l~~~~~~~P-~i~i~v~~-------~~~~~~~~~l~~g~~Di~i~~~ 146 (290)
T PRK10837 89 GALRIYASST--------------IGNYILPAMIARYRRDYP-QLPLELSV-------GNSQDVINAVLDFRVDIGLIEG 146 (290)
T ss_pred CeEEEEecch--------------hHhhhhHHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHHhCCceEEEecC
Confidence 5799998422 112355678888888764 24566553 5578899999999999998532
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
... ...+ ...|+....+++++++..
T Consensus 147 ~~~---~~~~-~~~~l~~~~~~lv~~~~h 171 (290)
T PRK10837 147 PCH---SPEL-ISEPWLEDELVVFAAPDS 171 (290)
T ss_pred CCC---CCce-eEEEeecceEEEEEcCCC
Confidence 211 1122 235666778888887655
No 253
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=91.65 E-value=5.2 Score=43.72 Aligned_cols=85 Identities=16% Similarity=0.086 Sum_probs=55.5
Q ss_pred CCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002267 484 GMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGD 563 (945)
Q Consensus 484 g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 563 (945)
.+.|+||++.. + ...+-.+++..+.++.+ .+++.+.. ++..+++++|.+|++|+++..
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 36799999322 1 12356678888887765 35666664 678999999999999999863
Q ss_pred EEEecCcceeEEecccccccceEEEEEccC
Q 002267 564 ITIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 564 ~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
... .....+. ..|+....++++++...
T Consensus 150 ~~~--~~~~~l~-~~~l~~~~~~~v~~~~h 176 (324)
T PRK12681 150 EAL--HLYDDLI-MLPCYHWNRSVVVPPDH 176 (324)
T ss_pred Ccc--cCCCCeE-EEEeccceeEEEeCCCC
Confidence 211 1122233 35677777788877654
No 254
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=91.45 E-value=9.4 Score=41.29 Aligned_cols=84 Identities=17% Similarity=0.131 Sum_probs=55.8
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
..|+||++.. + ...+-.+++..+.+..+ .+++.+.. ++.+.+++.|.+|++|++++.-
T Consensus 93 g~l~Ig~~~~--~------------~~~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (309)
T PRK12682 93 GTLTIATTHT--Q------------ARYVLPRVVAAFRKRYP-KVNLSLHQ-------GSPDEIARMVISGEADIGIATE 150 (309)
T ss_pred CeEEEeeCch--H------------HHHHHHHHHHHHHHhCC-CeEEEEec-------CCHHHHHHHHHcCCccEEEecC
Confidence 4699998321 1 12456678888888765 24566653 5678999999999999998632
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
... ....++ +.|+....++++++...
T Consensus 151 ~~~--~~~~l~-~~~l~~~~~~~~~~~~~ 176 (309)
T PRK12682 151 SLA--DDPDLA-TLPCYDWQHAVIVPPDH 176 (309)
T ss_pred ccc--CCCcce-EEEeeeeeEEEEecCCC
Confidence 211 112233 45788888888887765
No 255
>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=91.24 E-value=9.5 Score=37.44 Aligned_cols=69 Identities=12% Similarity=0.146 Sum_probs=46.2
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
+-..++..+.++.+- +++.+.. ++...+.++|.+|++|+++..-... ...+. ..++....++++++..
T Consensus 14 ~~~~~l~~~~~~~P~-i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~~ 81 (198)
T cd08441 14 WLMPVLDQFRERWPD-VELDLSS-------GFHFDPLPALLRGELDLVITSDPLP---LPGIA-YEPLFDYEVVLVVAPD 81 (198)
T ss_pred hhHHHHHHHHHhCCC-eEEEEEe-------CCchhHHHHHHcCCceEEEecCCcC---CCCcE-EEEccCCcEEEEEcCC
Confidence 456788888887753 4566654 5577899999999999998532211 12222 4567777888887765
Q ss_pred C
Q 002267 593 K 593 (945)
Q Consensus 593 ~ 593 (945)
.
T Consensus 82 ~ 82 (198)
T cd08441 82 H 82 (198)
T ss_pred C
Confidence 4
No 256
>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=91.22 E-value=12 Score=36.90 Aligned_cols=72 Identities=15% Similarity=0.133 Sum_probs=49.6
Q ss_pred eeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEE
Q 002267 511 KGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAP 590 (945)
Q Consensus 511 ~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~ 590 (945)
.++..+++..+.++.+ .+++.... ++...+++.+.+|++|+++..-.. .....+ .+.++....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~~~~ 80 (198)
T cd08444 12 RYALPWVVQAFKEQFP-NVHLVLHQ-------GSPEEIASMLANGQADIGIATEAL--ENHPEL-VSFPYYDWHHHIIVP 80 (198)
T ss_pred hhhhhHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEecccc--CCCcCc-EEeeccccceeEEec
Confidence 3567788999988865 35566654 567889999999999999853211 111223 256777888888887
Q ss_pred ccC
Q 002267 591 VQK 593 (945)
Q Consensus 591 ~~~ 593 (945)
+..
T Consensus 81 ~~h 83 (198)
T cd08444 81 VGH 83 (198)
T ss_pred CCC
Confidence 665
No 257
>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=91.18 E-value=11 Score=36.62 Aligned_cols=70 Identities=16% Similarity=0.213 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-..++..+.++.+ .+++++.. +....+++++.+|++|+++.... .....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~ 80 (195)
T cd08434 13 SLVPDLIRAFRKEYP-NVTFELHQ-------GSTDELLDDLKNGELDLALCSPV---PDEPDIE-WIPLFTEELVLVVPK 80 (195)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEec-------CcHHHHHHHHHcCCccEEEEccC---CCCCCee-EEEeecceEEEEecC
Confidence 455678888888764 24566653 55778999999999999985322 2223333 467777888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (195)
T cd08434 81 DH 82 (195)
T ss_pred CC
Confidence 65
No 258
>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=91.06 E-value=7.1 Score=38.62 Aligned_cols=70 Identities=9% Similarity=0.021 Sum_probs=48.5
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++++.. +...++++.|.+|++|+++..... . ...+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~-~~~~~-~~~l~~~~~~~v~~~ 80 (200)
T cd08467 13 ALLPRLAPRLRERAP-GLDLRLCP-------IGDDLAERGLEQGTIDLAVGRFAV--P-PDGLV-VRRLYDDGFACLVRH 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CCEEEEec-------CCcccHHHHhhCCCcCEEEecCCC--C-Cccce-eEEeeeccEEEEEcC
Confidence 466778888888765 35677664 556789999999999999853211 1 12233 367778888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~h 82 (200)
T cd08467 81 GH 82 (200)
T ss_pred CC
Confidence 54
No 259
>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=90.96 E-value=6.8 Score=38.65 Aligned_cols=71 Identities=17% Similarity=0.069 Sum_probs=49.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++++.. +....+.+.|.+|++|+++...... ....+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~~--~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08413 13 YVLPPVIAAFRKRYP-KVKLSLHQ-------GTPSQIAEMVLKGEADIAIATEALD--DHPDLV-TLPCYRWNHCVIVPP 81 (198)
T ss_pred hhccHHHHHHHHhCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEEccCCC--CCCCcE-EEEeeeeeEEEEecC
Confidence 456778888988876 35566664 5678899999999999998532111 112233 477778888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 82 ~h 83 (198)
T cd08413 82 GH 83 (198)
T ss_pred CC
Confidence 65
No 260
>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=90.96 E-value=16 Score=35.67 Aligned_cols=72 Identities=13% Similarity=0.174 Sum_probs=48.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.+..+ .+++++.. ++..++++++.+|++|+++.... ...+...+. ..|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~~-~~~l~~~~~~~~~~~ 82 (201)
T cd08435 13 VLLPPAIARLLARHP-RLTVRVVE-------GTSDELLEGLRAGELDLAIGRLA-DDEQPPDLA-SEELADEPLVVVARP 82 (201)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCccEEEEecC-cccCCCCcE-EEEcccCcEEEEEeC
Confidence 355678888888765 45566654 56788999999999999985321 111122233 467778888888877
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 83 ~~ 84 (201)
T cd08435 83 GH 84 (201)
T ss_pred CC
Confidence 65
No 261
>cd08465 PBP2_ToxR The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold. In soil bacterium Burkholderia glumae, ToxR regulates the toxABCDE and toxFGHI operons in the presence of toxoflavin as a coinducer. Additionally, the expression of both operons requires a transcriptional activator, ToxJ, whose expression is regulated by the TofI or TofR quorum-sensing system. The biosynthesis of toxoflavin is suggested to be synthesized in a pathway common to the synthesis of riboflavin. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After
Probab=90.94 E-value=5 Score=39.76 Aligned_cols=70 Identities=14% Similarity=0.097 Sum_probs=48.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
++-.+++..+.++.+ .++++... ++..+++++|.+|++|++++..... ...+.. .++....+++++++
T Consensus 13 ~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~~-~~l~~~~~~lv~~~ 80 (200)
T cd08465 13 LVLPALMRQLRAEAP-GIDLAVSQ-------ASREAMLAQVADGEIDLALGVFPEL---PEELHA-ETLFEERFVCLADR 80 (200)
T ss_pred HhhhHHHHHHHHHCC-CcEEEEec-------CChHhHHHHHHCCCccEEEeccccC---CcCeeE-EEeeeccEEEEEeC
Confidence 566778888877655 35566654 5689999999999999998633221 122332 46677788888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~h 82 (200)
T cd08465 81 AT 82 (200)
T ss_pred CC
Confidence 54
No 262
>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=90.77 E-value=16 Score=35.92 Aligned_cols=72 Identities=15% Similarity=0.078 Sum_probs=49.0
Q ss_pred eeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEE
Q 002267 511 KGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAP 590 (945)
Q Consensus 511 ~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~ 590 (945)
..+-.+++..+.++.+ .+++.+.. ++...+.+.+.+|++|+++..... .....+. +.++....++++++
T Consensus 12 ~~~l~~~l~~f~~~~P-~~~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~ 80 (198)
T cd08443 12 RYVLPPVIKGFIERYP-RVSLQMHQ-------GSPTQIAEMVSKGLVDFAIATEAL--HDYDDLI-TLPCYHWNRCVVVK 80 (198)
T ss_pred eeECcHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEEeccc--cccCCce-EeeeeeceEEEEEc
Confidence 4567788899888765 34566654 567889999999999999853211 1112233 46777888888887
Q ss_pred ccC
Q 002267 591 VQK 593 (945)
Q Consensus 591 ~~~ 593 (945)
...
T Consensus 81 ~~h 83 (198)
T cd08443 81 RDH 83 (198)
T ss_pred CCC
Confidence 665
No 263
>TIGR00787 dctP tripartite ATP-independent periplasmic transporter solute receptor, DctP family. TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family.
Probab=90.70 E-value=0.84 Score=48.00 Aligned_cols=103 Identities=14% Similarity=0.075 Sum_probs=63.1
Q ss_pred CCCCChHHhhcCCCCeEEeeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCc
Q 002267 700 SQIEGIDSLISSTEPIGVQDGSFAWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNC 779 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~ 779 (945)
.+|++++||. |+++.+..++.....++. ++ ...+ ..+..|...+|++ |.+|+.+.....+..+--.+..
T Consensus 126 ~~i~s~~Dl~--G~kir~~~~~~~~~~~~~-~G---a~~v-~~~~~e~~~aL~~----G~vDg~~~~~~~~~~~~~~ev~ 194 (257)
T TIGR00787 126 KPITKPEDLK--GLKIRIPNSPMNEAQFKA-LG---ANPE-PMAFSEVYTALQT----GVVDGQENPLSNVYSSKFYEVQ 194 (257)
T ss_pred CccCChHHhC--CCEEecCCCHHHHHHHHH-cC---Cccc-ccCHHHHHHHHHc----CCcccccCCHHHHhhcchhhhc
Confidence 5799999997 999998877766777753 43 2333 5678899999999 8999988765443221111122
Q ss_pred cEEEeCccccccceEEEecCCC--cchHHHHHHHHhc
Q 002267 780 EFRTVGQEFTKSGWGFAFQRDS--PLAIDLSTAILQL 814 (945)
Q Consensus 780 ~~~~~~~~~~~~~~~~~~~k~s--pl~~~i~~~i~~l 814 (945)
++..... .......+.+.++. .|-+....+|...
T Consensus 195 ~y~~~~~-~~~~~~~~~~n~~~~~~L~~e~q~~i~~a 230 (257)
T TIGR00787 195 KYLSMTN-HGYLGYLVVVNKAFWKSLPPDLQAVVKEA 230 (257)
T ss_pred chheecC-CcccceEEEEeHHHHhcCCHHHHHHHHHH
Confidence 3222221 22344556666642 2556655555554
No 264
>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=90.53 E-value=11 Score=36.82 Aligned_cols=70 Identities=11% Similarity=0.065 Sum_probs=48.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++++.. +....+++++.+|++|+++..... ....+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~~~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08456 13 SFLPRAIKAFLQRHP-DVTISIHT-------RDSPTVEQWLSAQQCDLGLVSTLH---EPPGIE-RERLLRIDGVCVLPP 80 (196)
T ss_pred hhHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEecCC---CCCCee-EEEeeccCeEEEecC
Confidence 466788899988875 35677764 567789999999999999853211 112222 456677788887776
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (196)
T cd08456 81 GH 82 (196)
T ss_pred CC
Confidence 54
No 265
>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=90.22 E-value=9.9 Score=37.27 Aligned_cols=70 Identities=14% Similarity=0.080 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++++.. ++...+..++.+|++|+++..... ....+. +.++....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~~~---~~~~~~-~~~l~~~~~~lv~~~ 80 (198)
T cd08461 13 AILPPLLAALRQEAP-GVRVAIRD-------LESDNLEAQLERGEVDLALTTPEY---APDGLR-SRPLFEERYVCVTRR 80 (198)
T ss_pred HHhHHHHHHHHHHCC-CcEEEEee-------CCcccHHHHHhcCCCcEEEecCcc---CCccce-eeeeecCcEEEEEcC
Confidence 456778888888775 34566653 445678999999999999853211 122232 567778888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (198)
T cd08461 81 GH 82 (198)
T ss_pred CC
Confidence 54
No 266
>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=90.04 E-value=19 Score=34.83 Aligned_cols=71 Identities=14% Similarity=0.084 Sum_probs=48.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+.+++.. ++..++.+++.+|++|+++..... .....+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~~ 81 (194)
T cd08436 13 VDLPELLARFHRRHP-GVDIRLRQ-------AGSDDLLAAVREGRLDLAFVGLPE--RRPPGLA-SRELAREPLVAVVAP 81 (194)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCHHHHHHHHHcCCccEEEEecCC--CCCCCcE-EEEeecceEEEEecC
Confidence 456778888888775 35566654 557889999999999999864322 1222232 466677788888776
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 82 ~~ 83 (194)
T cd08436 82 DH 83 (194)
T ss_pred CC
Confidence 65
No 267
>cd08414 PBP2_LTTR_aromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold. This CD includes the C-terminal substrate binding domain of LTTRs involved in degradation of aromatic compounds, such as CbnR, BenM, CatM, ClcR and TfdR, as well as that of other transcriptional regulators clustered together in phylogenetic trees, including XapR, HcaR, MprR, IlvR, BudR, AlsR, LysR, and OccR. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they ca
Probab=89.62 E-value=21 Score=34.67 Aligned_cols=70 Identities=13% Similarity=0.141 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.+..+ .+++.+.. ++..++..++.+|++|+++...... ...+. ..|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08414 13 GLLPRLLRRFRARYP-DVELELRE-------MTTAEQLEALRAGRLDVGFVRPPPD---PPGLA-SRPLLREPLVVALPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHcCCccEEEEcCCCC---CCCee-EEEEeeccEEEEecC
Confidence 355678888887764 34566653 5678899999999999998632221 22232 467778888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (197)
T cd08414 81 DH 82 (197)
T ss_pred CC
Confidence 55
No 268
>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=89.57 E-value=15 Score=35.83 Aligned_cols=73 Identities=14% Similarity=0.044 Sum_probs=49.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEe--cCcceeEEecccccccceEEEE
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIV--TNRTKLVDFTQPYMESGLVVVA 589 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t--~~r~~~~dfs~p~~~~~~~~vv 589 (945)
.+-.+++..+.+..+ .+++.+.. ++...+++++.+|++|+++...... ......+ .+.++....+++++
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 356678888888875 35566664 5567899999999999998532110 0122223 35677788888888
Q ss_pred EccC
Q 002267 590 PVQK 593 (945)
Q Consensus 590 ~~~~ 593 (945)
+...
T Consensus 84 ~~~~ 87 (200)
T cd08423 84 PADH 87 (200)
T ss_pred cCCC
Confidence 7665
No 269
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=89.30 E-value=11 Score=36.91 Aligned_cols=88 Identities=10% Similarity=0.000 Sum_probs=64.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCC-------CChHHHHHHHHhhccCCceEE
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPG-------ASRSAINSLLVGANLMESRVF 244 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-------~~~~d~~~~l~~l~~~~~~vi 244 (945)
.|.++-++.++.+++.++. +|-...-+...+.++++|++|+....+... ......-..-+++..-++|.|
T Consensus 107 ~Avv~aL~al~a~ri~vlT---PY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Dai 183 (238)
T COG3473 107 TAVVEALNALGAQRISVLT---PYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAI 183 (238)
T ss_pred HHHHHHHHhhCcceEEEec---cchhhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeE
Confidence 5677789999999999996 566778888889999999999876654321 122333455566677789999
Q ss_pred EEEcChhhHHHHHHHHHh
Q 002267 245 VVHVNPDTGLTIFSVAKS 262 (945)
Q Consensus 245 vl~~~~~~~~~~~~~a~~ 262 (945)
++.|..-....++....+
T Consensus 184 FiSCTnlRt~eii~~lE~ 201 (238)
T COG3473 184 FISCTNLRTFEIIEKLER 201 (238)
T ss_pred EEEeeccccHHHHHHHHH
Confidence 998877666666666553
No 270
>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=89.25 E-value=19 Score=36.98 Aligned_cols=205 Identities=10% Similarity=0.063 Sum_probs=114.6
Q ss_pred eEEEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEe-cC-CCChHHHHHHHHHHHhc-CcEEEEc-cCCh
Q 002267 50 SVRIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIR-DT-NCSGFVGTMEALQLMEN-EVVAAIG-PQSS 125 (945)
Q Consensus 50 ~i~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~-D~-~~~~~~a~~~a~~li~~-~v~aiiG-p~~s 125 (945)
.++||++.+.-+ .+....+|++..+++.-+. .|.-.++ |. ...-.+.......|.++ .+-|||= -.-.
T Consensus 2 ~~kIGivTgtvS-q~ed~~r~Ae~l~~~Yg~~-------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vp 73 (275)
T PF12683_consen 2 DYKIGIVTGTVS-QSEDEYRGAEELIKKYGDV-------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVP 73 (275)
T ss_dssp -EEEEEEE--TT-T-HHHHHHHHHHHHHHHHH-------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS-
T ss_pred ceEEEEEeCCcc-cChHHHHHHHHHHHHhCcc-------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCc
Confidence 579999977643 3456678888777766332 4555554 33 23566777777777766 6666653 2344
Q ss_pred hHHHHHHHhhc-ccCccEEecccC-CCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccch----
Q 002267 126 GIAHVISHVVN-ELNVPLLSFGAT-DPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNG---- 199 (945)
Q Consensus 126 ~~~~~va~~~~-~~~iP~Is~~a~-~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~---- 199 (945)
+++.++..+=+ +-.|-.|+-.+. +|..-..... +-..+.....+..++...+.+|.+.++-+.....-+...
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 55555555543 345666642211 1111111112 334577778899999999999999998887665555444
Q ss_pred HHHHHHHHhhcCcEEEEeecCCCCCChHHH--------HHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCC
Q 002267 200 ISVLGDALSKKRAKISYKAPFSPGASRSAI--------NSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGM 265 (945)
Q Consensus 200 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~--------~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~ 265 (945)
.+.+++++++.|++.+....-.+. ++.+. ..+-+.+++-+.++-+.+++......+++++.+.|.
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 RDIMEEACKDLGIKFVEVTAPDPT-SDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHCT--EEEEEE---S-STCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcCCeEEEEeCCCCC-CCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcCC
Confidence 456778888999998876543322 22221 233345566789999999999999999999988763
No 271
>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=88.99 E-value=22 Score=34.55 Aligned_cols=70 Identities=7% Similarity=-0.007 Sum_probs=48.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++++.. ++..++.+.+.+|++|+++... ......+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHE-------MSSAEQIEALLRGELDLGFVHS---RRLPAGLS-ARLLHREPFVCCLPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCcceEEEeC---CCCCcCce-EEEEecCcEEEEeeC
Confidence 466788889888775 35566664 5688999999999999988522 12222232 467778888888776
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~h 82 (197)
T cd08448 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 272
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=88.98 E-value=21 Score=38.98 Aligned_cols=84 Identities=11% Similarity=0.011 Sum_probs=57.1
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.||||+... ....+-.++++.+.++.+ .+.+.+.. +...+++++|.+|++|+++...
T Consensus 93 g~lrIg~~~~--------------~~~~~l~~~l~~f~~~~P-~v~i~l~~-------~~~~~~~~~l~~g~~Dl~i~~~ 150 (327)
T PRK12680 93 GQLTLTTTHT--------------QARFVLPPAVAQIKQAYP-QVSVHLQQ-------AAESAALDLLGQGDADIAIVST 150 (327)
T ss_pred eEEEEEecch--------------hHHHhhHHHHHHHHHHCC-CcEEEEEe-------CChHHHHHHHHCCCCcEEEEec
Confidence 5799999422 112356788899988877 35566664 6678999999999999998532
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
... ...... ..|+....++++++...
T Consensus 151 ~~~--~~~~~~-~~~l~~~~~~l~~~~~h 176 (327)
T PRK12680 151 AGG--EPSAGI-AVPLYRWRRLVVVPRGH 176 (327)
T ss_pred CCC--CCCcce-EEEeeccceEEEEeCCC
Confidence 111 111122 46788888888888665
No 273
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=88.94 E-value=1.3 Score=42.32 Aligned_cols=96 Identities=14% Similarity=0.140 Sum_probs=62.8
Q ss_pred HHHHHHcCCeEEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHH-HhhccCCceEEEEEcChh
Q 002267 175 ADLVEYYGWREVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLL-VGANLMESRVFVVHVNPD 251 (945)
Q Consensus 175 ~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l-~~l~~~~~~vivl~~~~~ 251 (945)
++.+...|.+++++|..+ ..+.....+.+.+++++.|+.......... ....+..... ..+++..+++||. .+..
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~pdaii~-~~~~ 78 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSD-DDSEDAREAQLLWLRRLRPDAIIC-SNDR 78 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEES-SSHHHHHHHHHHHHHTCSSSEEEE-SSHH
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecC-CcchhHHHHHHHHHhcCCCcEEEE-cCHH
Confidence 456777899999999933 344456678899999999998655443332 2233332222 2233336776655 7888
Q ss_pred hHHHHHHHHHhCCCCCCCeEE
Q 002267 252 TGLTIFSVAKSLGMTAGSYVW 272 (945)
Q Consensus 252 ~~~~~~~~a~~~g~~~~~~~w 272 (945)
.+..+++.+++.|+..++-+-
T Consensus 79 ~a~~~~~~l~~~g~~vP~di~ 99 (160)
T PF13377_consen 79 LALGVLRALRELGIRVPQDIS 99 (160)
T ss_dssp HHHHHHHHHHHTTSCTTTTSE
T ss_pred HHHHHHHHHHHcCCccccccc
Confidence 899999999999986554333
No 274
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=88.57 E-value=2.8 Score=45.75 Aligned_cols=66 Identities=21% Similarity=0.192 Sum_probs=45.0
Q ss_pred CCCChHHhhcCCCCeEEeeCchHHHHHH---Hhhcccccc--ceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHH
Q 002267 701 QIEGIDSLISSTEPIGVQDGSFAWNYLV---DELKIAESR--LVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELF 773 (945)
Q Consensus 701 ~i~~~~dL~~~~~~v~~~~~s~~~~~l~---~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~ 773 (945)
.|++++||. |++|++..++.....+. +..+++.+. ++.. ...+...++.+ |.+|+++...++....
T Consensus 113 ~I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~Al~~----G~VDAa~~~~p~~~~~ 183 (320)
T PRK11480 113 TISKPEDLI--GKRIAVPFISTTHYSLLAALKHWGIKPGQVEIVNL-QPPAIIAAWQR----GDIDGAYVWAPAVNAL 183 (320)
T ss_pred CCCChHHcC--CCEEecCCCCchHHHHHHHHHHcCCCHhheEEEEC-CcHHHHHHHHc----CCcCEEEEcchHHHHH
Confidence 599999997 99999977664433222 234444333 3333 46788899998 8999988777776544
No 275
>TIGR00035 asp_race aspartate racemase.
Probab=88.56 E-value=3.4 Score=42.52 Aligned_cols=87 Identities=13% Similarity=0.115 Sum_probs=46.7
Q ss_pred ChHHHHHHHHHHH-hcCcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH
Q 002267 100 SGFVGTMEALQLM-ENEVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV 178 (945)
Q Consensus 100 ~~~~a~~~a~~li-~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l 178 (945)
++...+..+.+.+ +.++.+|+=|-.+.... +..+-+..++|+|+. .++.++.+
T Consensus 59 ~~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------~~~~~~~~ 112 (229)
T TIGR00035 59 RPRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISM-------------------------IEETAEAV 112 (229)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEech-------------------------HHHHHHHH
Confidence 3444444444443 44888777654444333 455656678998862 22333334
Q ss_pred HHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEE
Q 002267 179 EYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKIS 215 (945)
Q Consensus 179 ~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 215 (945)
+..+.++|+++.+.... ....+++.+++.|+++.
T Consensus 113 ~~~~~~~VgvLaT~~T~---~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 113 KEDGVKKAGLLGTKGTM---KDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHcCCCEEEEEecHHHH---HhHHHHHHHHHCCCEEE
Confidence 44566777777544221 11335566666666554
No 276
>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=88.50 E-value=15 Score=36.83 Aligned_cols=70 Identities=11% Similarity=0.071 Sum_probs=48.5
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++++.. .+..++.+.+.+|++|++++... .....+. ..|+....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~ 80 (221)
T cd08469 13 VLLPALVRRLETEAP-GIDLRIRP-------VTRLDLAEQLDLGRIDLVIGIFE---QIPPRFR-RRTLFDEDEVWVMRK 80 (221)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEee-------CChhhHHHHHHCCCccEEEecCC---CCCccce-eeeeeccceEEEEeC
Confidence 455678888887765 35566654 55778999999999999986332 1122333 467778888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (221)
T cd08469 81 DH 82 (221)
T ss_pred CC
Confidence 65
No 277
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=88.40 E-value=2 Score=47.97 Aligned_cols=88 Identities=8% Similarity=0.026 Sum_probs=66.9
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc--C
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV--N 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~--~ 249 (945)
..+.+.++.+|.+++.+++.......+..+.+.+.|++.|+.+.....+.+.++.+++...++.+++.++|+||-.+ +
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGGS 99 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGGS 99 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCch
Confidence 44677788899999998875544445678899999999999875555565567888899999999999999999764 4
Q ss_pred hhhHHHHHHH
Q 002267 250 PDTGLTIFSV 259 (945)
Q Consensus 250 ~~~~~~~~~~ 259 (945)
.-++.+.+..
T Consensus 100 ~iD~AK~ia~ 109 (383)
T PRK09860 100 PHDCAKGIAL 109 (383)
T ss_pred HHHHHHHHHH
Confidence 4466666554
No 278
>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=88.37 E-value=13 Score=36.38 Aligned_cols=70 Identities=11% Similarity=0.012 Sum_probs=46.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
++-..++..+.++.+ .+++++.. ++...+++.+.+|++|+++..... . ...+ -..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~-~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08464 13 WLAPPLLAALRAEAP-GVRLVFRQ-------VDPFNVGDMLDRGEIDLAIGVFGE--L-PAWL-KREVLYTEGYACLFDP 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCcccHHHHHhcCcccEEEecCCC--C-cccc-eeeeecccceEEEEeC
Confidence 456678888888764 35566653 456788999999999999853221 1 1222 2467777788877766
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (200)
T cd08464 81 QQ 82 (200)
T ss_pred CC
Confidence 54
No 279
>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=88.24 E-value=18 Score=35.56 Aligned_cols=70 Identities=7% Similarity=0.033 Sum_probs=48.5
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++.+.. ++...++++|.+|++|+++.... . ....++ +.++....++++++.
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~l~~~l~~g~~D~~~~~~~--~-~~~~~~-~~~l~~~~~~lv~~~ 81 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTH-------MTKDEQVEGLLAGTIHVGFSRFF--P-RHPGIE-IVNIAQEDLYLAVHR 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEE-------CCHHHHHHHHHcCCceEEEecCC--C-CCCceE-EEEEeeccEEEEecC
Confidence 456778888888775 35566664 67899999999999999985321 1 112232 456677788888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 82 ~h 83 (198)
T cd08486 82 SQ 83 (198)
T ss_pred CC
Confidence 54
No 280
>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=88.24 E-value=11 Score=39.54 Aligned_cols=121 Identities=12% Similarity=0.062 Sum_probs=68.8
Q ss_pred CCCCChHHhhcCCCCeEEeeCchHHHH----HHHhhccc--------------------cccceecCCHHHHHHHHhcCC
Q 002267 700 SQIEGIDSLISSTEPIGVQDGSFAWNY----LVDELKIA--------------------ESRLVKLKNMEEYSIALARGP 755 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~~s~~~~~----l~~~~~~~--------------------~~~~~~~~~~~~~~~~l~~~~ 755 (945)
..+++++||. .|.+|++.++...... |. ..++. .-++++. ...+...++..
T Consensus 106 ~~~~sl~dlk-~G~~IAip~d~~n~~raL~~L~-~aGLi~l~~~~~~~~t~~DI~~n~~~v~~vel-~~~~~~~al~~-- 180 (258)
T TIGR00363 106 KKIKNVNELQ-DGAKVAVPNDPTNLGRALLLLQ-KQGLIKLKDGNGLLPTVLDIVENPKKLNITEL-ETSQLPRALDD-- 180 (258)
T ss_pred cCCCCHHHcC-CCCEEEEeCCcchHHHHHHHHH-HcCCceecCCCCCcCChhhhhcCCCCCEEEEc-CHHHHHHHhhc--
Confidence 5899999996 3889999876543332 32 22321 1233444 44567788888
Q ss_pred CCCceeEEecchhhHHHHhccCCccEEEeCccccccceEEEecCCCcchHHHHHHHHhccccccHHHHHHHh
Q 002267 756 KGGGVAAIVDELPYIELFMSKTNCEFRTVGQEFTKSGWGFAFQRDSPLAIDLSTAILQLSENGDLQKIHNKW 827 (945)
Q Consensus 756 ~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~i~~~w 827 (945)
|.+|+.+...++..-...+...+-......-.++--.++++.+.-=.+.+.+.+..+++...-+.|.++|
T Consensus 181 --g~vDaa~v~~~~~~~agl~~~~~~i~~e~~~~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 250 (258)
T TIGR00363 181 --PKVDLAVINTTYAGQVGLNPQDDGVFVEDKDSPYVNIIVSREDNKDAENVKDFIQSYQSEEVYQAAQKHF 250 (258)
T ss_pred --ccccEEEEChHHHHHcCCCcCcCceeecCCCCCeeEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 8999999988877654222111111111111122234556655334566666676777666666666654
No 281
>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=88.14 E-value=18 Score=35.22 Aligned_cols=70 Identities=14% Similarity=0.131 Sum_probs=48.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+...++..+.++.+ .+.+.+.. ....++.+.|.+|++|+++.... .....+. ..++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 81 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLRE-------MPQERIEAALADDRLDLGIAFAP---VRSPDID-AQPLFDERLALVVGA 81 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE-------CcHHHHHHHHHcCCccEEEEecC---CCCCCcE-EEEeccccEEEEecC
Confidence 345678888888765 45677764 45678999999999999985322 1222232 467777888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 82 ~~ 83 (197)
T cd08425 82 TH 83 (197)
T ss_pred CC
Confidence 65
No 282
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=88.12 E-value=15 Score=39.77 Aligned_cols=71 Identities=15% Similarity=0.303 Sum_probs=49.3
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
+-.+++..+.+..+ .+++.+.. +...+++.+|.+|++|+++....... ....+ -..|+....+++++++.
T Consensus 111 ~l~~~l~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~-~~~~l-~~~~l~~~~~~lv~~~~ 180 (312)
T PRK10341 111 FMSDMINKFKEVFP-KAQVSMYE-------AQLSSFLPAIRDGRLDFAIGTLSNEM-KLQDL-HVEPLFESEFVLVASKS 180 (312)
T ss_pred hHHHHHHHHHHhCC-CCEEEEEe-------CCHHHHHHHHHcCCCcEEEecCCccc-ccCCe-eEEEEecccEEEEEcCC
Confidence 45578888887765 35677765 56789999999999999985322111 11222 35778888888888766
Q ss_pred C
Q 002267 593 K 593 (945)
Q Consensus 593 ~ 593 (945)
.
T Consensus 181 ~ 181 (312)
T PRK10341 181 R 181 (312)
T ss_pred C
Confidence 5
No 283
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=88.12 E-value=4.2 Score=44.65 Aligned_cols=93 Identities=6% Similarity=-0.005 Sum_probs=74.6
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc--
Q 002267 171 MHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV-- 248 (945)
Q Consensus 171 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~-- 248 (945)
...+.+.++.+|++++.+|.+..-...+..+.+.+.|++.|+++.-...+.++++.+.+...+..+++.++|.||-.+
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~P~~~~v~~~~~~~~~~~~D~iIalGGG 96 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPEPTIETVEAGAEVAREFGPDTIIALGGG 96 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 355667788899999999987776777889999999999998877666777778888999999999999999999875
Q ss_pred ChhhHHHHHHHHHhC
Q 002267 249 NPDTGLTIFSVAKSL 263 (945)
Q Consensus 249 ~~~~~~~~~~~a~~~ 263 (945)
+.-++.+.+......
T Consensus 97 S~~D~AK~i~~~~~~ 111 (377)
T COG1454 97 SVIDAAKAIALLAEN 111 (377)
T ss_pred cHHHHHHHHHHHhhC
Confidence 445666666555543
No 284
>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=88.05 E-value=22 Score=36.84 Aligned_cols=143 Identities=8% Similarity=0.018 Sum_probs=85.1
Q ss_pred HHHHHhcCcEEEE--ccCChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHH--cCC
Q 002267 108 ALQLMENEVVAAI--GPQSSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEY--YGW 183 (945)
Q Consensus 108 a~~li~~~v~aii--Gp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~--~~w 183 (945)
..+.++.+|.++| ++..+.. ......+..++|+|...-..+. ...+++ ...++..-+..+++.+-. .|-
T Consensus 45 ~~~~~~~~vdGvIi~~~~~~~~--~~~~~~~~~~~PvV~i~~~~~~--~~~~~~---V~~D~~~~~~~a~~~L~~~~~G~ 117 (247)
T cd06276 45 IISNTKGKYSGYVVMPHFKNEI--QYFLLKKIPKEKLLILDHSIPE--GGEYSS---VAQDFEKAIYNALQEGLEKLKKY 117 (247)
T ss_pred HHHHHhcCCCEEEEecCCCCcH--HHHHHhccCCCCEEEEcCcCCC--CCCCCe---EEEccHHHHHHHHHHHHHHhcCC
Confidence 3344455665554 4322221 1344555578999986543221 112232 445666667777787777 899
Q ss_pred eEEEEEEEeC-CcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHh
Q 002267 184 REVIAIFVDD-DYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKS 262 (945)
Q Consensus 184 ~~v~ii~~d~-~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~ 262 (945)
+++++|.... ..++...+.+++++++.|+.... .. .... .. + .++++ |++.+...+..+++.+++
T Consensus 118 ~~Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~---~~-~~~~----~~---~--~~~~a-i~~~~d~~A~g~~~~l~~ 183 (247)
T cd06276 118 KKLILVFPNKTAIPKEIKRGFERFCKDYNIETEI---IN-DYEN----RE---I--EKGDL-YIILSDTDLVFLIKKARE 183 (247)
T ss_pred CEEEEEecCccHhHHHHHHHHHHHHHHcCCCccc---cc-ccch----hh---c--cCCcE-EEEeCHHHHHHHHHHHHH
Confidence 9999997543 34456678899999999976431 11 0010 00 1 12354 556678888899999999
Q ss_pred CCCCCCCeE
Q 002267 263 LGMTAGSYV 271 (945)
Q Consensus 263 ~g~~~~~~~ 271 (945)
.|+..++-+
T Consensus 184 ~g~~iP~di 192 (247)
T cd06276 184 SGLLLGKDI 192 (247)
T ss_pred cCCcCCcee
Confidence 998765433
No 285
>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=88.01 E-value=7.3 Score=37.94 Aligned_cols=98 Identities=8% Similarity=-0.004 Sum_probs=66.2
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhc--CcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEE
Q 002267 170 QMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKK--RAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVH 247 (945)
Q Consensus 170 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~ 247 (945)
....+.+.+...++ ++.++..+.. .++.+.+.+++. |+.|+....-+ .+..+...+++.|.+++||+|++.
T Consensus 36 l~~~l~~~~~~~~~-~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~~g~--f~~~~~~~i~~~I~~~~pdiv~vg 108 (172)
T PF03808_consen 36 LFPDLLRRAEQRGK-RIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYHHGY--FDEEEEEAIINRINASGPDIVFVG 108 (172)
T ss_pred HHHHHHHHHHHcCC-eEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEecCCC--CChhhHHHHHHHHHHcCCCEEEEE
Confidence 45566666666665 7778876544 455556666655 67777654333 466788899999999999999999
Q ss_pred cChhhHHHHHHHHHhCCCCCCCeEEEEeCC
Q 002267 248 VNPDTGLTIFSVAKSLGMTAGSYVWIATDW 277 (945)
Q Consensus 248 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~ 277 (945)
+..+.-..++.+.++.. . .. +|+...+
T Consensus 109 lG~PkQE~~~~~~~~~l-~-~~-v~i~vG~ 135 (172)
T PF03808_consen 109 LGAPKQERWIARHRQRL-P-AG-VIIGVGG 135 (172)
T ss_pred CCCCHHHHHHHHHHHHC-C-CC-EEEEECc
Confidence 87777767776665533 1 22 7777654
No 286
>cd08429 PBP2_NhaR The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold. NhaR is a positive regulator of the LysR family and is known to be an activator of the nhaA gene encoding a Na(+)/H(+) antiporter. In Escherichia coli, NhaA is the vital antiporter that protects against high sodium stress, and it is essential for growth in high sodium levels, while NhaB becomes essential only if NhaA is not available. The nhaA gene of nhaAR operon is induced by monovalent cations. The nhaR of the operon activates nhaAR, as well as the osmC transcription which is induced at elevated osmolarity. OsmC is transcribed from the two overlapping promoters (osmCp1 and osmP2) and that NhaR is shown to activate only the expression of osmCp1. NhaR also activates the transcription of the pgaABCD operon which is required for production of the biofilm adhesion, poly-beta-1,6-N-acetyl-d-glucosamine
Probab=88.01 E-value=29 Score=34.42 Aligned_cols=71 Identities=15% Similarity=0.242 Sum_probs=46.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.+..+ .++++... ++..++++.|.+|++|+++........-...+ ...|+....++++++.
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 456778888888764 35566664 67899999999999999885332111100111 2457777777777654
No 287
>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=87.89 E-value=32 Score=37.13 Aligned_cols=198 Identities=12% Similarity=0.016 Sum_probs=98.9
Q ss_pred EEEEEEeccC---CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEccCChh
Q 002267 51 VRIGALFTYD---SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNC-SGFVGTMEALQLMENEVVAAIGPQSSG 126 (945)
Q Consensus 51 i~IG~l~~l~---~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~-~~~~a~~~a~~li~~~v~aiiGp~~s~ 126 (945)
.+++++.|-. ..+.+....|++-+.++. +| +++...+... ++........++.+++...||++. ..
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~-------~~--i~~~~~e~~~~~~~~~~~~~~~~~~~g~dlIi~~g-~~ 71 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKEL-------DG--IEIIYVENVPETDADYEEAIRQLADQGYDLIIGHG-FE 71 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHC-------TT--EEEEEEES-S-TCHHHHHHHHHHHHTT-SEEEEES-GG
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHc-------CC--ceEEEEecCCccHHHHHHHHHHHHHcCCCEEEEcc-HH
Confidence 4667776654 223334445555444443 23 4444444433 456666677788888887777743 34
Q ss_pred HHHHHHHhhccc-CccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHH--cCCeEEEEEE----EeCCcccch
Q 002267 127 IAHVISHVVNEL-NVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEY--YGWREVIAIF----VDDDYGRNG 199 (945)
Q Consensus 127 ~~~~va~~~~~~-~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~--~~w~~v~ii~----~d~~~g~~~ 199 (945)
...++..++.++ ++-++...+..... .|++........ ++..++-++.. -.-.++++|. .+.+--...
T Consensus 72 ~~~~~~~vA~~yPd~~F~~~d~~~~~~----~~Nv~~~~f~~~-e~~fLaG~~Aa~~tkt~~vg~ig~i~G~~~p~~~~~ 146 (306)
T PF02608_consen 72 YSDALQEVAKEYPDTKFIIIDGYIDAP----EPNVISITFREE-EASFLAGYLAALMTKTGKVGFIGDIGGMDIPPVNRF 146 (306)
T ss_dssp GHHHHHHHHTC-TTSEEEEESS---ST-----TTEEEEEE-HH-HHHHHHHHHHHHHHSSTEEEEEEEEES--SCTTHHH
T ss_pred HHHHHHHHHHHCCCCEEEEEecCcCCC----CCcEEEEEcccc-chhHHHHHHHHHHhccCcccccccccCCCcHhHHHH
Confidence 445666777766 44444433222111 135444443332 34444443311 1235788887 334444455
Q ss_pred HHHHHHHHhhcC--cEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCCC
Q 002267 200 ISVLGDALSKKR--AKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLGM 265 (945)
Q Consensus 200 ~~~l~~~l~~~g--~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g~ 265 (945)
...|..-++..+ +++.....-. -.+...-...-+.+...++|||+-.+. .....++++|++.|.
T Consensus 147 ~~gF~~Ga~~~np~i~v~~~~~gs-~~D~~~~~~~a~~li~~GaDvI~~~ag-~~~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 147 INGFIAGAKYVNPDIKVNVSYTGS-FNDPAKAKEAAEALIDQGADVIFPVAG-GSGQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHHHHHHTTTT-EEEEEE-SS-SS-HHHHHHHHHHHHHTT-SEEEEE-C-CCHHHHHHHHHHHTH
T ss_pred HHHHHHHHHHhCcCceEEEEEcCC-cCchHHHHHHHHHHhhcCCeEEEECCC-CCchHHHHHHHHcCC
Confidence 666776666544 4444332211 123333445555666789999998655 345567888888774
No 288
>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=87.66 E-value=2 Score=45.17 Aligned_cols=86 Identities=14% Similarity=0.116 Sum_probs=68.6
Q ss_pred EEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHHHH
Q 002267 52 RIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAHVI 131 (945)
Q Consensus 52 ~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 131 (945)
+||.+.+...+.-.....|+...++..| |+.++...+..+-.|+.++.+.+..|+++++.+|.+.. +. ..+
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-DS--PGV 192 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHC------CCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecC-CC--hHH
Confidence 6999988875555567789999999888 45677777777888999999999999999999888765 22 356
Q ss_pred HHhhcccCccEEecc
Q 002267 132 SHVVNELNVPLLSFG 146 (945)
Q Consensus 132 a~~~~~~~iP~Is~~ 146 (945)
...+++.++..|.+.
T Consensus 193 ~~aa~~~g~~~IG~d 207 (258)
T cd06353 193 IQAAEEKGVYAIGYV 207 (258)
T ss_pred HHHHHHhCCEEEeec
Confidence 677778899999764
No 289
>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=87.65 E-value=25 Score=34.04 Aligned_cols=72 Identities=17% Similarity=0.202 Sum_probs=48.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.+..+ .+++++.. ++.+.+++.+.+|++|+++..-... .....+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~-~~~~l~~~~~~~v~~~ 82 (195)
T cd08427 13 GLLPRALARLRRRHP-DLEVHIVP-------GLSAELLARVDAGELDAAIVVEPPF-PLPKDL-VWTPLVREPLVLIAPA 82 (195)
T ss_pred HHhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCCCEEEEcCCCC-ccccCc-eEEEcccCcEEEEECC
Confidence 456778888888775 34566654 5678999999999999998632111 101222 2466777888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 83 ~~ 84 (195)
T cd08427 83 EL 84 (195)
T ss_pred CC
Confidence 54
No 290
>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=87.46 E-value=5.3 Score=41.05 Aligned_cols=189 Identities=16% Similarity=0.088 Sum_probs=112.9
Q ss_pred eeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcC-cccEEEecEEEecCcc---eeEE--ecccccccc
Q 002267 511 KGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALN-KFDAAVGDITIVTNRT---KLVD--FTQPYMESG 584 (945)
Q Consensus 511 ~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g-~~D~~~~~~~~t~~r~---~~~d--fs~p~~~~~ 584 (945)
.+..-++++.+.++.|+++++.+. .-..++.+|..| ++|+.+.+-....++. ..++ -..|+..+.
T Consensus 10 ~~~~~~l~~~f~~~~g~~v~v~~~---------~s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~ 80 (230)
T PF13531_consen 10 APALEELAEAFEKQPGIKVEVSFG---------GSGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARSP 80 (230)
T ss_dssp HHHHHHHHHHHHHHHCEEEEEEEE---------CHHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEEE
T ss_pred HHHHHHHHHHHHhccCCeEEEEEC---------ChHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccCc
Confidence 455667888888888877555553 457788888877 6888876432211111 2333 568888889
Q ss_pred eEEEEEccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccchhhHHHHHHHHhhccccCcccc
Q 002267 585 LVVVAPVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQLVTIFWFSFSTMFFSHRENTVS 664 (945)
Q Consensus 585 ~~~vv~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~s 664 (945)
+++++++..+
T Consensus 81 ~vl~~~~~~~---------------------------------------------------------------------- 90 (230)
T PF13531_consen 81 LVLAVPKGNP---------------------------------------------------------------------- 90 (230)
T ss_dssp EEEEEETTST----------------------------------------------------------------------
T ss_pred eEEEeccCcc----------------------------------------------------------------------
Confidence 9999988771
Q ss_pred cchhhHHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcCCCCeEEeeCc------hHHHHHHHhhc---c--
Q 002267 665 SLGRVVLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISSTEPIGVQDGS------FAWNYLVDELK---I-- 733 (945)
Q Consensus 665 ~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~~~~v~~~~~s------~~~~~l~~~~~---~-- 733 (945)
..+.+++||.+.+.+|++.... .....+.+ .+ .
T Consensus 91 -----------------------------------~~~~~~~dL~~~~~~i~~~dP~~s~~g~~~~~~l~~-~g~~~~~~ 134 (230)
T PF13531_consen 91 -----------------------------------KGIRSWADLAQPGLRIAIPDPSTSPSGLAALQVLAA-AGGQELLD 134 (230)
T ss_dssp -----------------------------------TSTTCHHHHCSTT--EEEE-TTTTHHHHHHHHHHHH-HTHCHHHH
T ss_pred -----------------------------------cccCCHHHHhhccCEEEecCcccChhhHHHHHHHHH-cccHHHHH
Confidence 3678888888777778877521 12222221 11 0
Q ss_pred -ccccce-ecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCcccc--ccceEEEecCCCcchHHHHH
Q 002267 734 -AESRLV-KLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQEFT--KSGWGFAFQRDSPLAIDLST 809 (945)
Q Consensus 734 -~~~~~~-~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~k~spl~~~i~~ 809 (945)
-..++. ..++..+....+.+ |+.++.+.......+.-....-.+....+... ...+.+++.++++-.+.-..
T Consensus 135 ~l~~~~~~~~~~~~~~~~~v~~----g~~d~~~~~~s~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a~~ 210 (230)
T PF13531_consen 135 ALQKNIVQYVPSTSQVLSAVAS----GEADAGIVYESQAIFARQGDPLSYVYPPDGVNSPPIDYPIAILKNAPHPEAARA 210 (230)
T ss_dssp HHHHTEEEEESSHHHHHHHHHT----TSSSEEEEEHHHHHHCTSHTTEEEEE-STTTSSSEEEEEEEEBTTCTTHHHHHH
T ss_pred HHHHhCcccccchHHHHHHHHc----CCCcceeeHHHHHHHhhcCCCeEEEECCchhcCCCEEEEEEEecCCCCHHHHHH
Confidence 012333 45677888999988 88998887766653321111113444444444 24577888888876666666
Q ss_pred HHHhccccc
Q 002267 810 AILQLSENG 818 (945)
Q Consensus 810 ~i~~l~e~G 818 (945)
.+.-|.+..
T Consensus 211 f~~~L~s~~ 219 (230)
T PF13531_consen 211 FIDFLLSPE 219 (230)
T ss_dssp HHHHHTSHH
T ss_pred HHHHHCCHH
Confidence 565555543
No 291
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=87.30 E-value=2.5 Score=47.39 Aligned_cols=88 Identities=5% Similarity=-0.067 Sum_probs=65.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChh
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPD 251 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~ 251 (945)
..+.+.++.+|.+++.++....-...+..+.+.+.|++.|+++.....+.++++.+++...++..++.++|+||-.+.+.
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGGGS 117 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGGGS 117 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCChH
Confidence 45667788899888877765444445668889999999999876554555566778899999999999999999876443
Q ss_pred --hHHHHHHH
Q 002267 252 --TGLTIFSV 259 (945)
Q Consensus 252 --~~~~~~~~ 259 (945)
++.+.+..
T Consensus 118 ~iD~AKaia~ 127 (395)
T PRK15454 118 VLDAAKAVAL 127 (395)
T ss_pred HHHHHHHHHH
Confidence 55555443
No 292
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=87.29 E-value=14 Score=39.85 Aligned_cols=68 Identities=13% Similarity=0.102 Sum_probs=44.9
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
+..+++..+.++.+ .+++.+.. +...++...|.+|++|+++..-... ...+ ...|+.+..++++++..
T Consensus 106 ~~~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~l~~g~~Di~i~~~~~~---~~~~-~~~~l~~~~~~lv~~~~ 173 (305)
T PRK11233 106 LTMPLLQAVRAEFP-GIVLYLHE-------NSGATLNEKLMNGQLDMAVIYEHSP---VAGL-SSQPLLKEDLFLVGTQD 173 (305)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEE-------CCcHHHHHHHHCCCCCEEEEcCCcC---CCCc-EEEEEeeeeEEEEEcCc
Confidence 44567888887764 34566554 4567899999999999998532111 1122 24577778888887655
No 293
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=87.22 E-value=21 Score=38.33 Aligned_cols=85 Identities=8% Similarity=0.074 Sum_probs=57.1
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.|+||++... ...+-.+++..+.+..+ .+++.+.. ++..++..+|.+|++|+++...
T Consensus 95 g~l~I~~~~~~--------------~~~~l~~~l~~~~~~~p-~i~~~~~~-------~~~~~~~~~l~~g~~Di~i~~~ 152 (302)
T PRK09791 95 GQINIGMGASI--------------ARSLMPAVISRFHQQHP-QVKVRIME-------GQLVSMINELRQGELDFTINTY 152 (302)
T ss_pred eEEEEEechHH--------------HHhhhHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHCCCccEEEEec
Confidence 67999994221 12456678888887776 45566553 5678999999999999988622
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
... .....+. ..|+....+++++++..
T Consensus 153 ~~~-~~~~~~~-~~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 153 YQG-PYDHEFT-FEKLLEKQFAVFCRPGH 179 (302)
T ss_pred CCc-cccccee-EEEeccceEEEEEcCCC
Confidence 111 1112244 37888899999988766
No 294
>cd08458 PBP2_NocR The C-terminal substrate-domain of LysR-type transcriptional regulator, NocR, involved in the catabolism of nopaline, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulator NocR, which is involved in the catabolism of nopaline. Opines are low molecular weight compounds found in plant crown gall tumors produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. In Agrobacterium tumefaciens, NocR regulates expression of the divergently transcribed nocB and nocR genes of the nopaline catabolism (noc) region. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, an
Probab=87.04 E-value=32 Score=33.63 Aligned_cols=70 Identities=14% Similarity=0.128 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++++.. ++..++.+.+.+|++|+++...... ...+ -+.++.+..++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08458 13 SFMSGVIQTFIADRP-DVSVYLDT-------VPSQTVLELVSLQHYDLGISILAGD---YPGL-TTEPVPSFRAVCLLPP 80 (196)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEec-------cChHHHHHHHHcCCCCEEEEeccCC---CCCc-eEEEeccCceEEEecC
Confidence 355678888888876 35566654 5567899999999999998633221 1122 2357777788888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~h 82 (196)
T cd08458 81 GH 82 (196)
T ss_pred CC
Confidence 54
No 295
>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=86.93 E-value=24 Score=37.79 Aligned_cols=86 Identities=13% Similarity=0.139 Sum_probs=56.5
Q ss_pred CCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002267 484 GMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGD 563 (945)
Q Consensus 484 g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 563 (945)
.+.|+||++.. -...+-.+++..+.++.+ .+++.+.. ++..+++.++.+|++|++++.
T Consensus 92 ~~~l~I~~~~~--------------~~~~~~~~~l~~~~~~~P-~~~i~~~~-------~~~~~~~~~l~~g~~D~~i~~ 149 (300)
T TIGR02424 92 GPTVRIGALPT--------------VAARLMPEVVKRFLARAP-RLRVRIMT-------GPNAYLLDQLRVGALDLVVGR 149 (300)
T ss_pred CceEEEecccH--------------HHHhhhHHHHHHHHHhCC-CcEEEEEe-------CchHHHHHHHHCCCCCEEEEe
Confidence 35799998422 112355677888887776 45666664 567889999999999999863
Q ss_pred EEEecCcceeEEecccccccceEEEEEccC
Q 002267 564 ITIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 564 ~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
.... .....+. ..|+....+++++++..
T Consensus 150 ~~~~-~~~~~~~-~~~l~~~~~~~~~~~~h 177 (300)
T TIGR02424 150 LGAP-ETMQGLS-FEHLYNEPVVFVVRAGH 177 (300)
T ss_pred cCCc-cccccee-eeeecCCceEEEEcCCC
Confidence 3221 1112232 45778888888887655
No 296
>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=86.89 E-value=31 Score=33.43 Aligned_cols=72 Identities=10% Similarity=0.028 Sum_probs=48.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+...++..+.++.+ .+++.+.. +...++++.+.+|++|++++...... +...+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~~~-~~~l~~~~~~~v~~~ 82 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHE-------LSPEAQKAALLSKRIDLGFVRFADTL-NDPPLA-SELLWREPMVVALPE 82 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHhCCCccEEEecccccC-CCCCce-EEEEEEeeEEEEecC
Confidence 456778888888765 35566654 56788999999999999986332210 112222 366777788888776
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 83 ~~ 84 (197)
T cd08449 83 EH 84 (197)
T ss_pred CC
Confidence 54
No 297
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=86.32 E-value=48 Score=34.96 Aligned_cols=203 Identities=11% Similarity=0.094 Sum_probs=113.4
Q ss_pred CCceEEEEEEeccC--CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCc-EEEEccC
Q 002267 47 RPSSVRIGALFTYD--SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEV-VAAIGPQ 123 (945)
Q Consensus 47 ~~~~i~IG~l~~l~--~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v-~aiiGp~ 123 (945)
..++..||+..|-- ..+ ..-..++.-+.+.+ |.+..+. +-+++...-......++.+++ +.||+|.
T Consensus 22 ~~~d~~IGis~~d~~~eRW-~~D~~~~~~~~e~~--------g~k~~~q--~A~~~~~~Q~~qien~i~qg~~vlvi~a~ 90 (341)
T COG4213 22 AAKDGVIGISMPDLRSERW-IKDRDAFVKKAEAL--------GAKVDVQ--SADGDEEKQLAQIENMINQGVKVLVIGAI 90 (341)
T ss_pred hccCCeEEEEcCChhHhhh-hhhhHHHHHHHHhc--------cchhhhh--hhccChhHHHHHHHHHHhcCCCEEEEEec
Confidence 45678899988763 222 12334444444443 4454444 444566666778889999976 4568999
Q ss_pred ChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHH-HHHHcC------CeEEEEEE-E-eCC
Q 002267 124 SSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVAD-LVEYYG------WREVIAIF-V-DDD 194 (945)
Q Consensus 124 ~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~-~l~~~~------w~~v~ii~-~-d~~ 194 (945)
.+.....+...+...+||+|+|. ..+.+..+. |.++......+.--+. ++++++ -..+.++. + +|.
T Consensus 91 d~~~l~~~i~~A~~~gikViaYD---RlI~n~dvd--~YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~Dn 165 (341)
T COG4213 91 DGGVLSNAVEKAKSEGIKVIAYD---RLINNADVD--FYVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDN 165 (341)
T ss_pred cchhHHHHHHHHHHcCCeEEEee---cccccCCcc--EEEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCc
Confidence 99999999999999999999873 222222222 4455555544444444 223332 22344444 2 222
Q ss_pred ----cccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhc---cCCceEEEEEcChhhHHHHHHHHHhCCCCC
Q 002267 195 ----YGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGAN---LMESRVFVVHVNPDTGLTIFSVAKSLGMTA 267 (945)
Q Consensus 195 ----~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~---~~~~~vivl~~~~~~~~~~~~~a~~~g~~~ 267 (945)
+-.+.++.|+.....-.+.++.+...+ .-....-...+..+- ..+.|.|+-.-+ ..+...+.+++..|+-+
T Consensus 166 NA~lf~~G~m~VLkp~idsGkik~~Ge~~~d-~W~ps~Aq~~men~lta~~~~vdaVvA~nD-gtagGaI~aL~a~Gl~g 243 (341)
T COG4213 166 NAKLFFAGAMKVLKPLIDSGKIKVVGEQWTD-GWLPSNAQQIMENLLTANYNDIDAVVAPND-GTAGGAIAALKAQGLAG 243 (341)
T ss_pred chHHHHhcHHHHHHHHhhCCceEEeeecccc-ccCHHHHHHHHHHHHhcccCceeEEEcCCC-chhHHHHHHHHhcccCC
Confidence 112334455555544456665554443 222222222232222 234555554433 56677788888889864
No 298
>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=85.95 E-value=32 Score=33.44 Aligned_cols=72 Identities=10% Similarity=0.125 Sum_probs=47.9
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++.+.. +...++...+.+|++|+++..... ......+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l~-~~~l~~~~~~~v~~~ 82 (199)
T cd08416 13 NTVPRIIMGLKLRRP-ELDIELTL-------GSNKDLLKKLKDGELDAILVATPE-GLNDPDFE-VVPLFEDDIFLAVPA 82 (199)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEEE-------cCcHHHHHHHhCCCCCEEEEecCC-cCCCCCeE-EEEeecceEEEEECC
Confidence 466788888888875 24566654 456788999999999999863221 00112222 566777888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 83 ~h 84 (199)
T cd08416 83 TS 84 (199)
T ss_pred CC
Confidence 54
No 299
>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=85.80 E-value=40 Score=35.53 Aligned_cols=69 Identities=17% Similarity=0.192 Sum_probs=46.9
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
+-.+++..+.+..+ .+++++.. ++..+++..|.+|++|+++..-... ...+. ..|+....++++++++
T Consensus 98 ~~~~~l~~~~~~~p-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~lv~s~~ 165 (279)
T TIGR03339 98 YVLDLVARFRQRYP-GIEVSVRI-------GNSQEVLQALQSYRVDVAVSSEVVD---DPRLD-RVVLGNDPLVAVVHRQ 165 (279)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEecccC---CCceE-EEEcCCceEEEEECCC
Confidence 45577788887665 24466654 5678899999999999998532222 12222 4677788888888766
Q ss_pred C
Q 002267 593 K 593 (945)
Q Consensus 593 ~ 593 (945)
.
T Consensus 166 ~ 166 (279)
T TIGR03339 166 H 166 (279)
T ss_pred C
Confidence 5
No 300
>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=85.79 E-value=5.7 Score=44.30 Aligned_cols=91 Identities=7% Similarity=-0.015 Sum_probs=67.4
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc--
Q 002267 171 MHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV-- 248 (945)
Q Consensus 171 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~-- 248 (945)
.+.+.+.++.+|-+++.+|+....+..+..+.+.+.|++.|+++.....+.+.++.+.+...++.+++.++|+||-.+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 93 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGGG 93 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 345667788888899988886554444567889999999998776555565567788899999999999999999764
Q ss_pred ChhhHHHHHHHHH
Q 002267 249 NPDTGLTIFSVAK 261 (945)
Q Consensus 249 ~~~~~~~~~~~a~ 261 (945)
+.-++.+++....
T Consensus 94 S~~D~aK~ia~~~ 106 (374)
T cd08189 94 SVIDCAKAIAARA 106 (374)
T ss_pred cHHHHHHHHHHHH
Confidence 4446666655443
No 301
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=85.65 E-value=24 Score=38.25 Aligned_cols=69 Identities=10% Similarity=0.088 Sum_probs=47.2
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
+-.+++..+.++.+ .+.+++.. +...++...|.+|++|+++..-. .....+. ..++....++++++..
T Consensus 103 ~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~L~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~lv~~~~ 170 (317)
T PRK15421 103 WLTPALENFHKNWP-QVEMDFKS-------GVTFDPQPALQQGELDLVMTSDI---LPRSGLH-YSPMFDYEVRLVLAPD 170 (317)
T ss_pred HHHHHHHHHHHHCC-CceEEEEe-------CccHHHHHHHHCCCcCEEEecCc---ccCCCce-EEEeccceEEEEEcCC
Confidence 44667888877765 35566654 44678899999999999986322 1122333 3777888888888766
Q ss_pred C
Q 002267 593 K 593 (945)
Q Consensus 593 ~ 593 (945)
.
T Consensus 171 h 171 (317)
T PRK15421 171 H 171 (317)
T ss_pred C
Confidence 5
No 302
>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=85.59 E-value=8.8 Score=38.92 Aligned_cols=73 Identities=11% Similarity=0.013 Sum_probs=42.0
Q ss_pred eecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCcc-ccccceEEEecCCCcchHHHHHHHHhcccc
Q 002267 739 VKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQE-FTKSGWGFAFQRDSPLAIDLSTAILQLSEN 817 (945)
Q Consensus 739 ~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~k~spl~~~i~~~i~~l~e~ 817 (945)
....+..+..+.+.+ |++++.+......... .. .......+.. .....+++++.|+++-.+.-.+.|.-|.+.
T Consensus 133 ~~~~~~~~~~~~~~~----Ge~~~~~~~~~~~~~~-~~-~~~~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~s~ 206 (216)
T TIGR01256 133 VYGEDVRQALQFVET----GNAPAGIVALSDVIPS-KK-VGSVATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLKSP 206 (216)
T ss_pred eecCcHHHHHHHHHc----CCCCEEeeehhhhccc-CC-ccEEEEeCccccCCccccEEEEECCCChHHHHHHHHHHcCH
Confidence 334466788888888 8999887654332211 12 2333344433 223457889999887655555555444443
No 303
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=85.58 E-value=3.6 Score=46.51 Aligned_cols=87 Identities=11% Similarity=-0.018 Sum_probs=65.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP- 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~- 250 (945)
+.+.++++.+|.+++.+|++...+..+..+.+.+.|++.|+++.....+.+.++.+.+...++.+++.++|+||-.+.+
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 91 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVGGGS 91 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCcc
Confidence 4566778889999999888666555556789999999999887654445555677888888999999999999987543
Q ss_pred -hhHHHHHH
Q 002267 251 -DTGLTIFS 258 (945)
Q Consensus 251 -~~~~~~~~ 258 (945)
-++.+.+.
T Consensus 92 viD~AKaia 100 (414)
T cd08190 92 VIDTAKAAN 100 (414)
T ss_pred HHHHHHHHH
Confidence 45555554
No 304
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=85.28 E-value=3.9 Score=45.76 Aligned_cols=89 Identities=9% Similarity=0.095 Sum_probs=65.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC-
Q 002267 171 MHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN- 249 (945)
Q Consensus 171 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~- 249 (945)
...+.+.++.+|.+++.+|++...+-.+..+.+.+.+++.|+++.....+.+.++.+++...++.+++.++|+||-.+.
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 97 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGG 97 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCh
Confidence 3456778888999999888765544445788899999999987754444555567788888889999999999986643
Q ss_pred -hhhHHHHHHH
Q 002267 250 -PDTGLTIFSV 259 (945)
Q Consensus 250 -~~~~~~~~~~ 259 (945)
.-++.+.+..
T Consensus 98 S~iD~aK~ia~ 108 (382)
T PRK10624 98 SPQDTCKAIGI 108 (382)
T ss_pred HHHHHHHHHHH
Confidence 3455555443
No 305
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=85.25 E-value=6.2 Score=38.98 Aligned_cols=108 Identities=17% Similarity=0.163 Sum_probs=67.2
Q ss_pred CCCCChHHhhcCCCCeE-EeeCchHHHHHHHh---hccccccceec----CCHHHHHHHHhcCCCCCceeEEecchhhHH
Q 002267 700 SQIEGIDSLISSTEPIG-VQDGSFAWNYLVDE---LKIAESRLVKL----KNMEEYSIALARGPKGGGVAAIVDELPYIE 771 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~-~~~~s~~~~~l~~~---~~~~~~~~~~~----~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~ 771 (945)
..|++++||.+.+.++- -.+||-....+.+. .+.....+.-| .+......+|.. |+.|+-+..+.+.+
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 45999999997655432 24677666555443 33333444444 344566777777 99999999666655
Q ss_pred HHhccCCccEEEeCccccccceEEEecCCCcchHHHHHHHHhcccccc
Q 002267 772 LFMSKTNCEFRTVGQEFTKSGWGFAFQRDSPLAIDLSTAILQLSENGD 819 (945)
Q Consensus 772 ~~~~~~~~~~~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~ 819 (945)
.+ .-+|..+ ....|-|+.+|+.-=++.+...+..|.+.+.
T Consensus 163 ~~----gL~Fipl----~~E~YD~virke~~~~~~vr~fi~~L~s~~~ 202 (223)
T COG1910 163 KY----GLDFIPL----GDEEYDFVIRKERLDKPVVRAFIKALKSEGF 202 (223)
T ss_pred Hc----CCceEEc----ccceEEEEEehhHccCHHHHHHHHHhccccc
Confidence 42 2244433 4557788998876555566666666665444
No 306
>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=85.15 E-value=39 Score=32.91 Aligned_cols=72 Identities=6% Similarity=0.021 Sum_probs=49.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++++.. ++...+++.|.+|++|+++.... .......++ ..++.+..++++++.
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 355678888888876 35677664 56789999999999999985321 111222333 467778888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 83 ~h 84 (198)
T cd08437 83 DH 84 (198)
T ss_pred CC
Confidence 65
No 307
>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=85.02 E-value=39 Score=32.85 Aligned_cols=70 Identities=16% Similarity=0.162 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++++.. +...++.+.+.+|++|+++..... ....+. ..++.+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08457 13 GFLPRFLAAFLRLRP-NLHLSLMG-------LSSSQVLEAVASGRADLGIADGPL---EERQGF-LIETRSLPAVVAVPM 80 (196)
T ss_pred cccHHHHHHHHHHCC-CeEEEEEe-------cCcHHHHHHHHcCCccEEEeccCC---CCCCcE-EEEeccCCeEEEeeC
Confidence 466788999988876 35566654 445788899999999999863321 122222 356667777777766
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (196)
T cd08457 81 GH 82 (196)
T ss_pred CC
Confidence 54
No 308
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=84.92 E-value=14 Score=38.99 Aligned_cols=122 Identities=11% Similarity=0.095 Sum_probs=64.7
Q ss_pred CCCCChHHhhcCCCCeEEeeCch-HHHHHH--Hhhcc--------------------ccccceecCCHHHHHHHHhcCCC
Q 002267 700 SQIEGIDSLISSTEPIGVQDGSF-AWNYLV--DELKI--------------------AESRLVKLKNMEEYSIALARGPK 756 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~~s~-~~~~l~--~~~~~--------------------~~~~~~~~~~~~~~~~~l~~~~~ 756 (945)
..|++++||. .|.+|++..+.. ....+. +..++ ..-++++. ...+...++..
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 KKIKSLDELQ-DGSQVAVPNDPTNLGRSLLLLQKVGLIKLKDGVGLLPTVLDIVENPKNLKIVEL-EAPQLPRSLDD--- 193 (271)
T ss_pred cCCCCHHHhc-CCCEEEecCCCccHHHHHHHHHHCCCEEecCCCCCCCCHHHHhcCCCCCEEEEC-cHHHHHHhccc---
Confidence 4799999996 488999986331 121111 12111 11234444 55677788887
Q ss_pred CCceeEEecchhhHHHHhccCCccEEEeCccccccceEEEecCCCcchHHHHHHHHhccccccHHHHHHHh
Q 002267 757 GGGVAAIVDELPYIELFMSKTNCEFRTVGQEFTKSGWGFAFQRDSPLAIDLSTAILQLSENGDLQKIHNKW 827 (945)
Q Consensus 757 ~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~i~~~w 827 (945)
|.+|+++...++....-.+..-+-......-..+--.+++++..--.+.+.+.+.-+++...-+.|+++|
T Consensus 194 -g~vDaa~i~~~~a~~a~~~~~~~~l~~e~~~~~~~~~~~v~~~~~~~~~~~~l~~a~~s~~v~~~i~~~~ 263 (271)
T PRK11063 194 -AQIALAVINTTYASQIGLTPAKDGIFVEDKDSPYVNLIVAREDNKDAENVKKFVQAYQSDEVYEAANKVF 263 (271)
T ss_pred -ccccEEEEChHHHHHcCCCCCCCeeEECCCCCCeEEEEEECCcccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 8999999998887754322111111222111112234556655333445555555555555555565554
No 309
>cd08192 Fe-ADH7 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. NAD-dependent iron-containing alcohol dehydrogenase-like. Proteins in this family are NAD-dependent alcohol dehydrogenases which are involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. They catalyze the oxidation of beta-hydroxy CoA ester to beta-oxo CoA ester, which then be subject to CoA-dependent thiolysis to yield acetyl-CoA and 6-C8-SPC-CoA. The major laundry surfactant in worldwide use is commercial linear alkylbenzenesulfonate (LAS) which contains 20 congeners of linear alkanes (C10 to C13). LAS is fully biodegradable in oxic environments. Degradation involves microbial communities. Parvibaculum lavamentivorans DS-1T is a representative member of many heterotrophic, LAS-degrading communities, in which it catalyzes the first steps of LAS degradation. Strain DS-1T is a small heterotrophic bacterium able to omega-oxygenate the comm
Probab=84.73 E-value=4.3 Score=45.26 Aligned_cols=89 Identities=6% Similarity=-0.042 Sum_probs=66.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc--C
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV--N 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~--~ 249 (945)
..+.++++.+|.+++.+|+....+.....+.+.+.|++.|+++.....+.+.++.+++...+...+..++|+||-.+ +
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGS 92 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFGGGS 92 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 44667788889999988876554444567889999999998876444455557778899999999999999999664 4
Q ss_pred hhhHHHHHHHH
Q 002267 250 PDTGLTIFSVA 260 (945)
Q Consensus 250 ~~~~~~~~~~a 260 (945)
.-++.+++...
T Consensus 93 viD~aK~ia~~ 103 (370)
T cd08192 93 ALDLAKAVALM 103 (370)
T ss_pred HHHHHHHHHHH
Confidence 45666666544
No 310
>cd08430 PBP2_IlvY The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic binding fold. In Escherichia coli, IlvY is required for the regulation of ilvC gene expression that encodes acetohydroxy acid isomeroreductase (AHIR), a key enzyme in the biosynthesis of branched-chain amino acids (isoleucine, valine, and leucine). The ilvGMEDA operon genes encode remaining enzyme activities required for the biosynthesis of these amino acids. Activation of ilvC transcription by IlvY requires the additional binding of a co-inducer molecule (either alpha-acetolactate or alpha-acetohydoxybutyrate, the substrates for AHIR) to a preformed complex of IlvY protein-DNA. Like many other LysR-family members, IlvY negatively auto-regulates the transcription of its own divergently transcribed ilvY gene in an inducer-i
Probab=84.67 E-value=40 Score=32.69 Aligned_cols=71 Identities=18% Similarity=0.116 Sum_probs=48.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++++.. ++...+++++.+|++|+++...... ....+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~-~~~l~~~~~~~~~~~ 81 (199)
T cd08430 13 SFLPPILERFRAQHP-QVEIKLHT-------GDPADAIDKVLNGEADIAIAARPDK--LPARLA-FLPLATSPLVFIAPN 81 (199)
T ss_pred eeccHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHCCCCCEEEEecCCC--CCcccE-EEeeccceEEEEEeC
Confidence 566788999998885 35566664 6678899999999999998532111 112232 456677777877776
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 82 ~~ 83 (199)
T cd08430 82 IA 83 (199)
T ss_pred Cc
Confidence 54
No 311
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=84.60 E-value=35 Score=36.83 Aligned_cols=70 Identities=10% Similarity=0.077 Sum_probs=45.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.+..+ .++++... .+-.+++..|.+|++|+++...... ...+. ..++.....+++++.
T Consensus 107 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~ 174 (309)
T PRK11013 107 SLLPGLCQPFLARYP-DVSLNIVP-------QESPLLEEWLSAQRHDLGLTETLHT---PAGTE-RTELLTLDEVCVLPA 174 (309)
T ss_pred hhHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCCCEEEEcCCCC---CCCce-eeeecceeEEEEEcC
Confidence 356778888888774 35566664 4467788999999999998632211 11122 345556666777766
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 175 ~~ 176 (309)
T PRK11013 175 GH 176 (309)
T ss_pred CC
Confidence 55
No 312
>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein DctP [, ] and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins []. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component [].; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2HZK_C 2HZL_B 2HPG_C 2XWI_A 2XWK_A 2WX9_A 2CEY_A 2WYP_A 3B50_A 2CEX_B ....
Probab=84.42 E-value=0.89 Score=48.70 Aligned_cols=102 Identities=17% Similarity=0.084 Sum_probs=60.7
Q ss_pred CCCCChHHhhcCCCCeEEeeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCc
Q 002267 700 SQIEGIDSLISSTEPIGVQDGSFAWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNC 779 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~ 779 (945)
.+|++++||. |+++.+..+.....+++ .++.. -+.. ...|...+|++ |.+|+.......+...--.+.+
T Consensus 126 ~pi~s~~Dlk--G~kiR~~~~~~~~~~~~-~lGa~---pv~i-p~~evy~aLq~----G~vDg~~~~~~~~~~~~~~ev~ 194 (286)
T PF03480_consen 126 KPIRSPEDLK--GLKIRVPGSPVMSDFFE-ALGAS---PVPI-PWSEVYQALQQ----GVVDGAENSASSIYSLGLYEVA 194 (286)
T ss_dssp S--SSGGGGT--TEEEEETSSHHHHHHHH-HCTSE---EEE--TGGGHHHHHHT----TSSSEEEEEHHHHHHTTGGGTS
T ss_pred cCCccHhhHh--hCeEEecCCHHHHHHHH-HcCCe---eecC-cHHHHHHHHhc----CCcCeEecCHHHHHhcChhhhC
Confidence 6899999997 88888876666666664 45532 3333 56789999999 8999999887666432222245
Q ss_pred cEEEeCccccccceEEEecCCCc--chHHHHHHHHh
Q 002267 780 EFRTVGQEFTKSGWGFAFQRDSP--LAIDLSTAILQ 813 (945)
Q Consensus 780 ~~~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~i~~ 813 (945)
++..... ....++.+++.+..- |-+....+|.+
T Consensus 195 ~y~~~~~-~~~~~~~~~~n~~~w~~L~~e~q~~l~~ 229 (286)
T PF03480_consen 195 KYFTDTN-HGWSPYAVIMNKDWWDSLPDEDQEALDD 229 (286)
T ss_dssp SEEEEEE-EEEEEEEEEEEHHHHHHS-HHHHHHHHH
T ss_pred CeeEeec-ccCcceEEEEcHHHHhcCCHHHHHHHHH
Confidence 5444333 344556666665432 44444444433
No 313
>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=84.19 E-value=16 Score=36.41 Aligned_cols=102 Identities=15% Similarity=0.119 Sum_probs=64.9
Q ss_pred CCCCChHHhhcCCCCeE-EeeCchHHHHHHHhh---ccccccce----ecCCHHHHHHHHhcCCCCCceeEEecchhhHH
Q 002267 700 SQIEGIDSLISSTEPIG-VQDGSFAWNYLVDEL---KIAESRLV----KLKNMEEYSIALARGPKGGGVAAIVDELPYIE 771 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~-~~~~s~~~~~l~~~~---~~~~~~~~----~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~ 771 (945)
..|.+++||.+.+.++. -+.||-...+|...+ ++....+. +..+..+...+|.. |..|+-+......+
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 36999999987676643 356887776665433 33333333 34577788888988 89999998766654
Q ss_pred HHhccCCccEEEeCccccccceEEEecCCCcchHHHHHHHH
Q 002267 772 LFMSKTNCEFRTVGQEFTKSGWGFAFQRDSPLAIDLSTAIL 812 (945)
Q Consensus 772 ~~~~~~~~~~~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~ 812 (945)
.+ . .-+|..+. ...|-+++++..-..+.+.+.|.
T Consensus 157 ~~--~-gL~Fvpl~----~E~~dlv~~~~~~~~~~vq~ll~ 190 (193)
T PF12727_consen 157 EF--Y-GLDFVPLA----EERYDLVIRREDLEDPAVQALLD 190 (193)
T ss_pred hh--c-CCCcEEcc----ccceEEEEEhhHcCCHHHHHHHH
Confidence 22 1 22343333 35677888887655566555543
No 314
>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 Score=44.84 Aligned_cols=89 Identities=9% Similarity=0.045 Sum_probs=66.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP- 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~- 250 (945)
..+.++++.++.+++.+|+.......+..+.+.+.+++.|+++.....+...++.+++...++.+++.++|+||-.+.+
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGs 94 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEADPPEAVVEAAVEAARAAGADGVIGFGGGS 94 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 4466778888999998887655444456788999999999877644455555678889999999999999999987543
Q ss_pred -hhHHHHHHHH
Q 002267 251 -DTGLTIFSVA 260 (945)
Q Consensus 251 -~~~~~~~~~a 260 (945)
-++.+++...
T Consensus 95 ~iD~aK~ia~~ 105 (376)
T cd08193 95 SMDVAKLVAVL 105 (376)
T ss_pred HHHHHHHHHHH
Confidence 4566655443
No 315
>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=83.40 E-value=5 Score=44.86 Aligned_cols=88 Identities=8% Similarity=0.072 Sum_probs=64.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP- 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~- 250 (945)
..+.+.++.+|.+++.+|+.....-.+..+.+.+.|++.|+++.....+.+.++.+.+....+.+++.++|+||-.+.+
T Consensus 18 ~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGGGS 97 (379)
T TIGR02638 18 EDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGGGS 97 (379)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChH
Confidence 4566778888999998888655444457888999999999877654445555677888889999999999999976543
Q ss_pred -hhHHHHHHH
Q 002267 251 -DTGLTIFSV 259 (945)
Q Consensus 251 -~~~~~~~~~ 259 (945)
-++.+.+..
T Consensus 98 viD~aKaia~ 107 (379)
T TIGR02638 98 PIDTAKAIGI 107 (379)
T ss_pred HHHHHHHHHH
Confidence 455555443
No 316
>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=83.31 E-value=5.5 Score=44.44 Aligned_cols=87 Identities=9% Similarity=0.014 Sum_probs=65.4
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC--
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-- 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-- 249 (945)
..+.++++.++.+++.+|+....+..+..+.+.+.|++.|+++.....+.+.++.+++...+..++..++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 91 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGGGS 91 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 445667777788999999865555445778899999999998765555665677888999999999999999997654
Q ss_pred hhhHHHHHH
Q 002267 250 PDTGLTIFS 258 (945)
Q Consensus 250 ~~~~~~~~~ 258 (945)
.-++.+++.
T Consensus 92 ~~D~AKaia 100 (375)
T cd08194 92 PIDTAKAIA 100 (375)
T ss_pred HHHHHHHHH
Confidence 345555554
No 317
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=83.31 E-value=40 Score=36.15 Aligned_cols=85 Identities=14% Similarity=0.051 Sum_probs=54.2
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.++||+... + ...+..+++..+.++.+ .+++.+.. ++..++++.|.+|++|++++..
T Consensus 92 g~l~Ig~~~~--~------------~~~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~ 149 (300)
T PRK11074 92 GQLSIAVDNI--V------------RPDRTRQLIVDFYRHFD-DVELIIRQ-------EVFNGVWDALADGRVDIAIGAT 149 (300)
T ss_pred ceEEEEEcCc--c------------chhHHHHHHHHHHHhCC-CceEEEEe-------hhhhHHHHHHHCCCCCEEEecC
Confidence 5799998322 1 12345678888887776 24565554 5567899999999999999632
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
... .....+ -..++....+++++++..
T Consensus 150 ~~~-~~~~~l-~~~~l~~~~~~~v~~~~h 176 (300)
T PRK11074 150 RAI-PVGGRF-AFRDMGMLSWACVVSSDH 176 (300)
T ss_pred ccC-Cccccc-ceeecccceEEEEEcCCC
Confidence 211 111112 245677778888887665
No 318
>cd08551 Fe-ADH iron-containing alcohol dehydrogenases (Fe-ADH)-like. Large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. They contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alcohol dehydrogenases which contains different protein domains. There are several distinct families of alcohol dehydrogenases: Zinc-containing long-chain alcohol dehydrogenases; insect-type, or short-chain alcohol dehydrogenases; iron-containing alcohol dehydrogenases, and others. The iron-containing family has a Rossmann fold-like topology that resembles the fold of the zinc-dependent alcohol dehydrogenases, but lacks sequence homology, and differs in strand arrangement. ADH catalyzes the reversible oxidation of alcohol to acetaldehyde with the simultaneous reduction of NAD(P)+ to NAD(P)H.
Probab=83.25 E-value=5.7 Score=44.28 Aligned_cols=89 Identities=7% Similarity=0.031 Sum_probs=66.2
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC--
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-- 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-- 249 (945)
+.+.++++.++.+++.+|+....+.....+.+.+.|++.|+++.....+...++.+++...+..++..++|+||-.+.
T Consensus 12 ~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs 91 (370)
T cd08551 12 EKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGGGS 91 (370)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 456677888898999988865544446778899999999987764444555567888999999999899999987644
Q ss_pred hhhHHHHHHHH
Q 002267 250 PDTGLTIFSVA 260 (945)
Q Consensus 250 ~~~~~~~~~~a 260 (945)
.-++.+++...
T Consensus 92 ~~D~AK~va~~ 102 (370)
T cd08551 92 VLDTAKAIALL 102 (370)
T ss_pred HHHHHHHHHHH
Confidence 44666666443
No 319
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=82.92 E-value=11 Score=38.10 Aligned_cols=106 Identities=13% Similarity=0.144 Sum_probs=52.1
Q ss_pred CCCeEEeeCchHHHHHHHhhccccc--cceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCc--c
Q 002267 712 TEPIGVQDGSFAWNYLVDELKIAES--RLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQ--E 787 (945)
Q Consensus 712 ~~~v~~~~~s~~~~~l~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~--~ 787 (945)
|.+||+-..|.-+..+.+.. +... .+++. +..++++.+.+ |.+||.++... +....+..-+...... .
T Consensus 114 GmRVGiD~~S~Dq~~LT~~~-~~gk~Ve~Vei-~Y~q~~~~l~~----g~IDA~IWN~d--~i~~~~~~l~~~~l~~~~~ 185 (232)
T PF14503_consen 114 GMRVGIDPSSIDQKILTEAE-FEGKNVEFVEI-PYNQLLELLRS----GEIDAAIWNYD--EIEDKNFGLKYVPLKDDPM 185 (232)
T ss_dssp --EEEE-TT-HHHHHHHHHH-HTTS--EEEE---HHHHHHHHHH----TS--EEEEE----HHCCHHCTEEEEE--SSCH
T ss_pred eeEeecCCCCccHHHHHHHH-hCCCceEEEEe-cHHHHHHHHHC----CCccEEEECCc--ccccccCCeeEEeCCchHH
Confidence 88899999998888876543 2222 34444 67899999999 99999999877 2221221122222222 1
Q ss_pred c-cccceEEEecCCCc-chHHHHHHHHhccccccHHHHHHHhcC
Q 002267 788 F-TKSGWGFAFQRDSP-LAIDLSTAILQLSENGDLQKIHNKWLT 829 (945)
Q Consensus 788 ~-~~~~~~~~~~k~sp-l~~~i~~~i~~l~e~G~~~~i~~~w~~ 829 (945)
. ....-.++.+++.+ +...+++. .....+-+++++-..
T Consensus 186 ~~~~seAVivi~~~~~~i~~ll~~~----id~~~vl~iQ~~V~~ 225 (232)
T PF14503_consen 186 SKDASEAVIVIRKDNEPIKALLRKL----IDVEKVLEIQKKVLE 225 (232)
T ss_dssp HHHTT-EEEEEETT-HHHHHHHHHH------HHHHHHHHHHHHT
T ss_pred HHhcCeeEEEEeCCCHHHHHHHHHh----cCHHHHHHHHHHHHc
Confidence 1 12335677788875 44444433 344555566555444
No 320
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=82.73 E-value=38 Score=36.78 Aligned_cols=81 Identities=11% Similarity=0.082 Sum_probs=53.8
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
++|+||+... . ...+-..++..+.+..+ .++++. ...++++..|.+|++|+++...
T Consensus 117 ~~l~Ig~~~~--~------------~~~~l~~~l~~f~~~~P-~i~i~~---------~~~~~~~~~l~~g~~Dl~i~~~ 172 (317)
T PRK11482 117 RTITIATTPS--V------------GALVMPVIYQAIKTHYP-QLLLRN---------IPISDAENQLSQFQTDLIIDTH 172 (317)
T ss_pred ceEEEEecHH--H------------HHHHHHHHHHHHHHHCC-CCEEEE---------ecchhHHHHHHCCCcCEEEecc
Confidence 5799998322 1 12356678888887776 344443 2356889999999999998643
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
.. ....+. +.|+....++++++...
T Consensus 173 ~~---~~~~~~-~~~l~~~~~~lv~~~~h 197 (317)
T PRK11482 173 SC---SNRTIQ-HHVLFTDNVVLVCRQGH 197 (317)
T ss_pred CC---CCCceE-EEEEecCcEEEEEeCCC
Confidence 22 223344 36788888898888766
No 321
>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=82.58 E-value=49 Score=32.07 Aligned_cols=70 Identities=13% Similarity=0.169 Sum_probs=48.4
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
+..++++.+.++.+ .+++++.. ++..+++..+.+|++|+++...... ....+ .+.++....++++++..
T Consensus 15 ~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~ 83 (199)
T cd08451 15 LVPGLIRRFREAYP-DVELTLEE-------ANTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVALPAG 83 (199)
T ss_pred ccHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEecCC
Confidence 56678899988875 34566654 5678899999999999998532211 11222 34677788888888765
Q ss_pred C
Q 002267 593 K 593 (945)
Q Consensus 593 ~ 593 (945)
.
T Consensus 84 ~ 84 (199)
T cd08451 84 H 84 (199)
T ss_pred C
Confidence 4
No 322
>PRK10200 putative racemase; Provisional
Probab=82.51 E-value=12 Score=38.31 Aligned_cols=86 Identities=9% Similarity=-0.018 Sum_probs=50.8
Q ss_pred ChHHHHHHHHHHHhc-CcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH
Q 002267 100 SGFVGTMEALQLMEN-EVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV 178 (945)
Q Consensus 100 ~~~~a~~~a~~li~~-~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l 178 (945)
+|...+....+.+++ ++.+|+=|-.+..+. .-.+-+..++|+|+- .++.+..+
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 566666655555544 888887765555544 455666778998862 23333445
Q ss_pred HHcCCeEEEEEEEeCCcccchHHHHHHHHhhc-CcEE
Q 002267 179 EYYGWREVIAIFVDDDYGRNGISVLGDALSKK-RAKI 214 (945)
Q Consensus 179 ~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v 214 (945)
+..+-++|+++.+.... ....+++.++++ |+++
T Consensus 113 ~~~~~~~VglLaT~~Ti---~s~~Y~~~l~~~~g~~~ 146 (230)
T PRK10200 113 TGAGMTRVALLGTRYTM---EQDFYRGRLTEQFSINC 146 (230)
T ss_pred HHcCCCeEEEeccHHHH---HHhHHHHHHHHhcCCeE
Confidence 45577788888765322 223445555544 7665
No 323
>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=82.24 E-value=51 Score=32.01 Aligned_cols=67 Identities=4% Similarity=0.007 Sum_probs=42.5
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
+...++..+.++ + .+++.+.. ++...+.+++.+|++|+++..- ......+ .+.++.....+++++..
T Consensus 14 ~l~~~l~~f~~~-~-~v~l~l~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~~ 80 (195)
T cd08428 14 WFLPALAPVLKR-E-RILLDLIV-------DDEDRTHDLLRDGEVVGCISTQ---AQPMQGC-RSDYLGSMDYLLVASPD 80 (195)
T ss_pred HhHHHHHHHHhC-c-CeEEEEEe-------CCchhHHHHHHcCcceEEEEec---CCCCCCc-eeEEeeeeeEEEEECCc
Confidence 344567777777 3 56677664 5677899999999999876421 1111222 24566667777776544
No 324
>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=81.95 E-value=5.3 Score=44.44 Aligned_cols=89 Identities=8% Similarity=0.073 Sum_probs=67.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChh
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPD 251 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~ 251 (945)
+.+.+.++.+| ++.+|+..........+.+.+.|++.|+++.....+...++..++...+..+++.++|+||-.+.+.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 89 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAIGGGS 89 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEEESHH
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEcCCCC
Confidence 44566777777 8888887643344478999999999999987666566667889999999999999999999876554
Q ss_pred --hHHHHHHHHHh
Q 002267 252 --TGLTIFSVAKS 262 (945)
Q Consensus 252 --~~~~~~~~a~~ 262 (945)
++.+++..+..
T Consensus 90 ~~D~aK~va~~~~ 102 (366)
T PF00465_consen 90 VMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHT
T ss_pred cCcHHHHHHhhcc
Confidence 66666666554
No 325
>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=81.80 E-value=20 Score=34.91 Aligned_cols=99 Identities=13% Similarity=0.001 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhc--CcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEE
Q 002267 169 YQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKK--RAKISYKAPFSPGASRSAINSLLVGANLMESRVFVV 246 (945)
Q Consensus 169 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl 246 (945)
.....+.+.....+ .+|.++....+ .++.+.+.+++. |++|+....-+ .+..+-..++++|.+++||+|++
T Consensus 33 dl~~~ll~~~~~~~-~~v~llG~~~~----~~~~~~~~l~~~yp~l~i~g~~~g~--~~~~~~~~i~~~I~~~~pdiv~v 105 (171)
T cd06533 33 DLMPALLELAAQKG-LRVFLLGAKPE----VLEKAAERLRARYPGLKIVGYHHGY--FGPEEEEEIIERINASGADILFV 105 (171)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCcEEEEecCCC--CChhhHHHHHHHHHHcCCCEEEE
Confidence 34556666665555 57778875544 444444445544 77777643333 34455555899999999999999
Q ss_pred EcChhhHHHHHHHHHhCCCCCCCeEEEEeCC
Q 002267 247 HVNPDTGLTIFSVAKSLGMTAGSYVWIATDW 277 (945)
Q Consensus 247 ~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~ 277 (945)
.+..+.-..++.+.++.. +.-+++...+
T Consensus 106 glG~PkQE~~~~~~~~~l---~~~v~~~vG~ 133 (171)
T cd06533 106 GLGAPKQELWIARHKDRL---PVPVAIGVGG 133 (171)
T ss_pred ECCCCHHHHHHHHHHHHC---CCCEEEEece
Confidence 988777777777666544 2335666543
No 326
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=81.67 E-value=19 Score=38.99 Aligned_cols=70 Identities=11% Similarity=0.212 Sum_probs=49.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
++-.+++..+.++.+ .+.+.+.. ++...++++|.+|++|+++..... ....+. ..++....++++++.
T Consensus 125 ~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Di~i~~~~~---~~~~l~-~~~l~~~~~~lv~~~ 192 (314)
T PRK09508 125 RLTSQIYNRIEQIAP-NIHVVFKS-------SLNQNIEHQLRYQETEFVISYEEF---DRPEFT-SVPLFKDELVLVASK 192 (314)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEe-------CcchhHHHHHhcCCccEEEecCCC---Cccccc-eeeeecCceEEEEcC
Confidence 466788899988875 25566664 567889999999999999864321 112233 346777888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 193 ~h 194 (314)
T PRK09508 193 NH 194 (314)
T ss_pred CC
Confidence 65
No 327
>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=81.31 E-value=56 Score=31.84 Aligned_cols=73 Identities=11% Similarity=0.074 Sum_probs=48.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++++.. +....+..+|.+|++|+++............+ -+.|+....+++++++
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 356778888887764 25566664 55778999999999999986322111011222 2567778888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 84 ~h 85 (200)
T cd08453 84 AW 85 (200)
T ss_pred CC
Confidence 65
No 328
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=81.00 E-value=67 Score=34.63 Aligned_cols=71 Identities=11% Similarity=0.143 Sum_probs=47.8
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
+-.+++..+.++.+. +++.+.. ++..++.+.|.+|++|++++... .......+. ..++....++++++..
T Consensus 107 ~l~~~l~~~~~~~P~-i~l~l~~-------~~~~~~~~~l~~g~~D~~i~~~~-~~~~~~~l~-~~~l~~~~~~~v~~~~ 176 (308)
T PRK10094 107 AVAQLLAWLNERYPF-TQFHISR-------QIYMGVWDSLLYEGFSLAIGVTG-TEALANTFS-LDPLGSVQWRFVMAAD 176 (308)
T ss_pred HHHHHHHHHHHhCCC-cEEEEEe-------ehhhhHHHHHhCCCccEEEeccc-CccccCCee-EEEecceeEEEEECCC
Confidence 345788888887764 5666664 55688999999999999886211 111122233 4577788888888765
Q ss_pred C
Q 002267 593 K 593 (945)
Q Consensus 593 ~ 593 (945)
.
T Consensus 177 h 177 (308)
T PRK10094 177 H 177 (308)
T ss_pred C
Confidence 5
No 329
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=80.57 E-value=52 Score=35.22 Aligned_cols=85 Identities=14% Similarity=0.178 Sum_probs=51.6
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.||||++.. ...++-.+++..+.++.+ .+++.... ++...+..+|.+|++|+++...
T Consensus 93 g~l~i~~~~~--------------~~~~~l~~~l~~f~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (296)
T PRK11062 93 LLFDVGVADA--------------LSKRLVSRVLLTAVPEDE-SIHLRCFE-------STHEMLLEQLSQHKLDMILSDC 150 (296)
T ss_pred eEEEEEecch--------------hhHhhHHHHHHHHHhcCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 4699998322 113566778888876654 34555543 5678999999999999988532
Q ss_pred EEecCcceeEEecccccccceEEEEEcc
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
.........+ ...|+....++++++.+
T Consensus 151 ~~~~~~~~~l-~~~~l~~~~~~~~~~~~ 177 (296)
T PRK11062 151 PVDSTQQEGL-FSKKLGECGVSFFCTNP 177 (296)
T ss_pred CCccccccch-hhhhhhccCcceEecCC
Confidence 1111111122 23566666666666544
No 330
>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=80.21 E-value=8.3 Score=43.07 Aligned_cols=88 Identities=8% Similarity=-0.028 Sum_probs=63.7
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC--
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-- 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-- 249 (945)
..+.++++.+|.+++.+|+..........+.+.+.+++.|+.+.....+.+.++..++...+..++..++|+||-.+.
T Consensus 17 ~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 96 (377)
T cd08188 17 KLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVGGGS 96 (377)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 456667888898999888765444344678899999999987765444554567778888898998899999997654
Q ss_pred hhhHHHHHHH
Q 002267 250 PDTGLTIFSV 259 (945)
Q Consensus 250 ~~~~~~~~~~ 259 (945)
.-++.+.+..
T Consensus 97 viD~AK~ia~ 106 (377)
T cd08188 97 PIDCAKGIGI 106 (377)
T ss_pred HHHHHHHHHH
Confidence 3455555433
No 331
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=80.03 E-value=30 Score=36.53 Aligned_cols=123 Identities=7% Similarity=0.064 Sum_probs=65.6
Q ss_pred cCCCCChHHhhcCCCCeEEee--CchHHHHH-HHhh---------cc-----------ccccceecCCHHHHHHHHhcCC
Q 002267 699 TSQIEGIDSLISSTEPIGVQD--GSFAWNYL-VDEL---------KI-----------AESRLVKLKNMEEYSIALARGP 755 (945)
Q Consensus 699 ~~~i~~~~dL~~~~~~v~~~~--~s~~~~~l-~~~~---------~~-----------~~~~~~~~~~~~~~~~~l~~~~ 755 (945)
...+++++||. .|.+|++.+ +...+.++ .+.. +. ..-++++. ...+...++..
T Consensus 119 s~~iksl~DL~-~Ga~IAipnd~~n~~ral~lL~~agli~l~~~~g~~~t~~di~~np~~l~~ve~-~~~q~~~al~d-- 194 (272)
T PRK09861 119 SKKIKTVAQIK-EGATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDITDNPRHLQIMEL-EGAQLPRVLDD-- 194 (272)
T ss_pred ccCCCCHHHcC-CCCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHhcCCCCCEEEEc-CHHHhHhhccC--
Confidence 36799999996 588999987 33222222 1111 11 11233333 55667778877
Q ss_pred CCCceeEEecchhhHHHHhccCCccEEEeCccccccceEEEecCCCcchHHHHHHHHhccccccHHHHHHHh
Q 002267 756 KGGGVAAIVDELPYIELFMSKTNCEFRTVGQEFTKSGWGFAFQRDSPLAIDLSTAILQLSENGDLQKIHNKW 827 (945)
Q Consensus 756 ~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~i~~~w 827 (945)
|.+|+++...++..-.--+..-+-........++.-.++++.+..=.+.+.+.+..+++...-+.|.++|
T Consensus 195 --g~vD~a~i~~~~~~~ag~~~~~~~l~~e~~~~~~~n~~~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 264 (272)
T PRK09861 195 --PKVDVAIISTTYIQQTGLSPVHDSVFIEDKNSPYVNILVAREDNKNAENVKEFLQSYQSPEVAKAAETIF 264 (272)
T ss_pred --cccCEEEEchhHHHHcCCCcccceeEEcCCCCCeEEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 8899888888776531111001111111111112223555554334566666666677666666666654
No 332
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=79.98 E-value=12 Score=39.56 Aligned_cols=96 Identities=13% Similarity=0.043 Sum_probs=75.4
Q ss_pred CCCCceEEecCChhHHHHHH----HHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHH
Q 002267 155 LQYPYFLRTTQSDYYQMHAV----ADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAIN 230 (945)
Q Consensus 155 ~~~p~~~r~~p~d~~~~~ai----~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~ 230 (945)
+.-+|-|-+.|+....++.. +.-++..|.|++.+|.+.+.--.......++.|+++|+++..-....+.++...+.
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~ePtv~s~~ 117 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPEPTVGSVT 117 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCCCchhhHH
Confidence 34567777888877776654 34578899999999987777666778889999999999987666665667888899
Q ss_pred HHHHhhccCCceEEEEEcCh
Q 002267 231 SLLVGANLMESRVFVVHVNP 250 (945)
Q Consensus 231 ~~l~~l~~~~~~vivl~~~~ 250 (945)
..++-.|..+.|.+|-.+.+
T Consensus 118 ~alefak~~~fDs~vaiGGG 137 (465)
T KOG3857|consen 118 AALEFAKKKNFDSFVAIGGG 137 (465)
T ss_pred HHHHHHHhcccceEEEEcCc
Confidence 99999998999988876544
No 333
>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=79.82 E-value=63 Score=31.57 Aligned_cols=70 Identities=10% Similarity=0.052 Sum_probs=45.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++++.. ++-++++.+|.+|++|+++...... ...+. +.++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~~~~~ 81 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ-------MSKNRQIEALDAGTIDIGFGRFYPY---QEGVV-VRNVTNERLFLGAQK 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE-------CCHHHHHHHHHcCCccEEEecCCCC---CCCeE-EEEeeccceEEEeCC
Confidence 455678888877654 35566654 5678899999999999998632211 12232 456667777777655
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 82 ~~ 83 (198)
T cd08485 82 SR 83 (198)
T ss_pred CC
Confidence 44
No 334
>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=79.35 E-value=8.8 Score=42.94 Aligned_cols=88 Identities=6% Similarity=-0.013 Sum_probs=64.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCC-cccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc--
Q 002267 172 HAVADLVEYYGWREVIAIFVDDD-YGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV-- 248 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~-- 248 (945)
..+.++++.+| +++.+|+.... ...+..+.+.+.|++.|+++.....+.+.++.+++...+..+++.++|+||-.+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavGGG 93 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLGGG 93 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 44566777777 89988886544 245677889999999998876544555567788888888999999999999764
Q ss_pred ChhhHHHHHHHH
Q 002267 249 NPDTGLTIFSVA 260 (945)
Q Consensus 249 ~~~~~~~~~~~a 260 (945)
+.-++.+.+...
T Consensus 94 S~iD~aK~ia~~ 105 (380)
T cd08185 94 SSMDTAKAIAFM 105 (380)
T ss_pred cHHHHHHHHHHH
Confidence 444666665443
No 335
>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=78.95 E-value=8.1 Score=43.15 Aligned_cols=88 Identities=7% Similarity=0.064 Sum_probs=64.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP- 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~- 250 (945)
..+.+.++.+|-+++.+|+....+-....+.+.+.|++.|+++.....+.+.++.+.+...++.+++.++|+||-.+.+
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS 96 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGGS 96 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcH
Confidence 4566778888888888887544433367888999999999877554445555677888999999998999999976543
Q ss_pred -hhHHHHHHH
Q 002267 251 -DTGLTIFSV 259 (945)
Q Consensus 251 -~~~~~~~~~ 259 (945)
-++.+.+..
T Consensus 97 ~iD~aK~ia~ 106 (377)
T cd08176 97 PHDCAKAIGI 106 (377)
T ss_pred HHHHHHHHHH
Confidence 355555543
No 336
>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=78.71 E-value=69 Score=31.34 Aligned_cols=70 Identities=17% Similarity=0.204 Sum_probs=48.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++++.. ++..+++.++.+|++|++++..... ...+. +.|+....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 81 (203)
T cd08445 14 GLLPELIRRFRQAAP-DVEIELIE-------MTTVQQIEALKEGRIDVGFGRLRIE---DPAIR-RIVLREEPLVVALPA 81 (203)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHcCCCcEEEecCCCC---CCCce-eEEEEeccEEEEeeC
Confidence 466788888888765 35566654 5578999999999999998532211 12232 456777888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 82 ~h 83 (203)
T cd08445 82 GH 83 (203)
T ss_pred CC
Confidence 55
No 337
>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=78.64 E-value=66 Score=31.08 Aligned_cols=70 Identities=17% Similarity=0.192 Sum_probs=48.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .+++++.. ++..++++.+.+|++|+++...... ...+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08450 13 QWLPEVLPILREEHP-DLDVELSS-------LFSPQLAEALMRGKLDVAFMRPEIQ---SDGID-YQLLLKEPLIVVLPA 80 (196)
T ss_pred hhHHHHHHHHHhhCC-CcEEEEEe-------cChHHHHHHHhcCCccEEEEeCCCC---CCCcE-EEEEEccceEEEecC
Confidence 456788888888776 35566664 5678899999999999998532111 12222 466777888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (196)
T cd08450 81 DH 82 (196)
T ss_pred CC
Confidence 65
No 338
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=78.63 E-value=3.4 Score=46.19 Aligned_cols=89 Identities=15% Similarity=0.227 Sum_probs=74.0
Q ss_pred hhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccchhhHHHHHHHHhhcc--ccCcccccchhhHHHHHHHHHHhhhhh
Q 002267 607 IPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQLVTIFWFSFSTMFFS--HRENTVSSLGRVVLIVWLFVVLIINSS 684 (945)
Q Consensus 607 ~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~p~s~~~R~~~~~w~~~~lil~~~ 684 (945)
...|+.-++.+++.++++++.|.-...+-.+....++..++||..-++..- +...|..+.+|++..++-++++-+-+.
T Consensus 234 iTt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fsligiSFFAL 313 (654)
T KOG1419|consen 234 ITTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIGISFFAL 313 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHHHHHHhc
Confidence 467999999999999999999998655555555667899999999999755 567999999999999999988888877
Q ss_pred hhhhhheeeee
Q 002267 685 YTASLTSILTV 695 (945)
Q Consensus 685 Yta~L~s~Lt~ 695 (945)
=.+.|-|=++.
T Consensus 314 PAGILGSGfAL 324 (654)
T KOG1419|consen 314 PAGILGSGFAL 324 (654)
T ss_pred ccccccchhhh
Confidence 77777776654
No 339
>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=78.27 E-value=10 Score=41.95 Aligned_cols=86 Identities=7% Similarity=0.003 Sum_probs=62.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcc-cchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYG-RNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~ 250 (945)
..+.++++.+| +++.+|+....+- .+..+.+.+.|++.|+++.....+.+.++.+++...++.+++.++|+||-.+.+
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 93 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLETIMEAVEIAKKFNADFVIGIGGG 93 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34556777888 8888887555433 345688999999999887654455556778889999999999999999987544
Q ss_pred --hhHHHHHH
Q 002267 251 --DTGLTIFS 258 (945)
Q Consensus 251 --~~~~~~~~ 258 (945)
-++.+.+.
T Consensus 94 SviD~aK~ia 103 (357)
T cd08181 94 SPLDAAKAIA 103 (357)
T ss_pred hHHHHHHHHH
Confidence 35555443
No 340
>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=78.14 E-value=48 Score=32.34 Aligned_cols=128 Identities=20% Similarity=0.231 Sum_probs=76.1
Q ss_pred CChHHHHHHHHHH-HhcCcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHH
Q 002267 99 CSGFVGTMEALQL-MENEVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADL 177 (945)
Q Consensus 99 ~~~~~a~~~a~~l-i~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~ 177 (945)
++-..++..+.++ .++++.+||.-. +++. -+-+..++|+|.. + ++......++...
T Consensus 17 ~~~e~~v~~a~~~~~~~g~dViIsRG--~ta~---~lr~~~~iPVV~I----------------~--~s~~Dil~al~~a 73 (176)
T PF06506_consen 17 ASLEEAVEEARQLLESEGADVIISRG--GTAE---LLRKHVSIPVVEI----------------P--ISGFDILRALAKA 73 (176)
T ss_dssp --HHHHHHHHHHHHTTTT-SEEEEEH--HHHH---HHHCC-SS-EEEE---------------------HHHHHHHHHHC
T ss_pred ecHHHHHHHHHHhhHhcCCeEEEECC--HHHH---HHHHhCCCCEEEE----------------C--CCHhHHHHHHHHH
Confidence 4667888899999 677999999732 2222 2334558999863 1 2233334444442
Q ss_pred HHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHH
Q 002267 178 VEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIF 257 (945)
Q Consensus 178 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~ 257 (945)
- .++ ++++++...+.. .....+.+.+ |+++.... + .+..++...+++++..+.++||-... ..
T Consensus 74 ~-~~~-~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~-~---~~~~e~~~~i~~~~~~G~~viVGg~~------~~ 136 (176)
T PF06506_consen 74 K-KYG-PKIAVVGYPNII--PGLESIEELL---GVDIKIYP-Y---DSEEEIEAAIKQAKAEGVDVIVGGGV------VC 136 (176)
T ss_dssp C-CCT-SEEEEEEESS-S--CCHHHHHHHH---T-EEEEEE-E---SSHHHHHHHHHHHHHTT--EEEESHH------HH
T ss_pred H-hcC-CcEEEEeccccc--HHHHHHHHHh---CCceEEEE-E---CCHHHHHHHHHHHHHcCCcEEECCHH------HH
Confidence 2 333 899999765543 2356666665 55665432 2 36789999999999999999987542 35
Q ss_pred HHHHhCCCC
Q 002267 258 SVAKSLGMT 266 (945)
Q Consensus 258 ~~a~~~g~~ 266 (945)
+.|++.|+.
T Consensus 137 ~~A~~~gl~ 145 (176)
T PF06506_consen 137 RLARKLGLP 145 (176)
T ss_dssp HHHHHTTSE
T ss_pred HHHHHcCCc
Confidence 667888874
No 341
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=78.03 E-value=8.1 Score=42.36 Aligned_cols=70 Identities=26% Similarity=0.209 Sum_probs=49.4
Q ss_pred CCCCChHHhhcCCCCeEEeeCch-HHHHHHH---hhcccccc--ceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHH
Q 002267 700 SQIEGIDSLISSTEPIGVQDGSF-AWNYLVD---ELKIAESR--LVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELF 773 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~~s~-~~~~l~~---~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~ 773 (945)
.+|++++||. |++||+..++. ....+.. ..++..+. ++.. .+.+...++.. |.+|+++...++....
T Consensus 126 ~~i~~~adlk--Gk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~al~~----g~vda~~~~ep~~~~~ 198 (335)
T COG0715 126 SGIKSVADLK--GKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNL-PPADAVAALAA----GQVDAFVVWEPWNAAA 198 (335)
T ss_pred CCcccccCCC--CceEEEeCCCchHHHHHHHHHHHcCCCcccceEEee-CcHHHHHHHhc----CCcceEEecCCchhhh
Confidence 5788999996 99999998774 3333332 33444333 3444 45588888988 9999998888887776
Q ss_pred hcc
Q 002267 774 MSK 776 (945)
Q Consensus 774 ~~~ 776 (945)
..+
T Consensus 199 ~~~ 201 (335)
T COG0715 199 EGE 201 (335)
T ss_pred hcc
Confidence 655
No 342
>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=76.76 E-value=8 Score=42.73 Aligned_cols=85 Identities=11% Similarity=0.044 Sum_probs=61.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP- 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~- 250 (945)
..+.++++.++ +++.+|+....+. ...+.+.+.|++.|+.+.+. .+...++.+++...++.+++.++|+||-.+.+
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS 88 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGECTRAEIERLAEIARDNGADVVIGIGGGK 88 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCcCCHHHHHHHHHHHhhcCCCEEEEecCch
Confidence 34566677776 8888888544443 67888999999999987643 35555677888999999999999999887544
Q ss_pred -hhHHHHHHH
Q 002267 251 -DTGLTIFSV 259 (945)
Q Consensus 251 -~~~~~~~~~ 259 (945)
-++.+++..
T Consensus 89 ~iD~aK~ia~ 98 (351)
T cd08170 89 TLDTAKAVAD 98 (351)
T ss_pred hhHHHHHHHH
Confidence 355555543
No 343
>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=76.73 E-value=5.5 Score=41.59 Aligned_cols=78 Identities=17% Similarity=0.144 Sum_probs=60.3
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEE-cChhhHHHHHHHHHh
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVH-VNPDTGLTIFSVAKS 262 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~-~~~~~~~~~~~~a~~ 262 (945)
|++|.. ++.|.......+++++++.|.++... .+...+.......++++...++|.||+. ..+.....+++++.+
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~~~ 78 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKAKA 78 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHHhh
Confidence 455653 46688888999999999999988765 2222455667788888888899999987 556677899999999
Q ss_pred CCC
Q 002267 263 LGM 265 (945)
Q Consensus 263 ~g~ 265 (945)
.|+
T Consensus 79 ~gI 81 (257)
T PF13407_consen 79 AGI 81 (257)
T ss_dssp TTS
T ss_pred cCc
Confidence 886
No 344
>cd08431 PBP2_HupR The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold. HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, p
Probab=76.22 E-value=77 Score=30.62 Aligned_cols=71 Identities=13% Similarity=0.039 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+- +++++.. ++.+.++.+|.+|++|+++...... ....+ .+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~-v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~ 81 (195)
T cd08431 13 QPLYPLIAEFYQLNKA-TRIRLSE-------EVLGGTWDALASGRADLVIGATGEL--PPGGV-KTRPLGEVEFVFAVAP 81 (195)
T ss_pred HHHHHHHHHHHHHCCC-CceEEEE-------eccchHHHHHhCCCCCEEEEecCCC--CCCce-EEEecccceEEEEEcC
Confidence 4667889999888752 5566654 4567889999999999998532111 11122 2566677778878776
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 82 ~h 83 (195)
T cd08431 82 NH 83 (195)
T ss_pred CC
Confidence 54
No 345
>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=76.00 E-value=79 Score=30.61 Aligned_cols=70 Identities=9% Similarity=0.091 Sum_probs=48.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++++.. +.+..+.+++.+|++|+++..... ....+ -+.++....++++++.
T Consensus 14 ~~l~~~i~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~ 81 (198)
T cd08446 14 DTVPRLLRAFLTARP-DVTVSLHN-------MTKDEQIEALRAGRIHIGFGRFYP---VEPDI-AVENVAQERLYLAVPK 81 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEee-------CCHHHHHHHHHCCCccEEEEecCC---CCCCc-eeEEeeeccEEEEEeC
Confidence 355678888888775 35566664 668889999999999999853221 11222 2456777888888876
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 82 ~~ 83 (198)
T cd08446 82 SH 83 (198)
T ss_pred CC
Confidence 55
No 346
>cd08191 HHD 6-hydroxyhexanoate dehydrogenase (HHD) catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. 6-hydroxyhexanoate dehydrogenase (HHD). The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. Some bacteria can grow on cyclic ketones, cyclohexylamine, and alcohols as sole carbon source. Cyclohexylamine is an insecticide and antiseptic in various industries and is considered a possible environmental pollutant. The degradation of these chemical compounds are through the cyclohexanol and cyclohexanone biological oxidation pathway. The intermediates of this pathway include cyclohexanol, cyclohexanone, e-caprolactone, 6-hydroxyhexanoate, 6-oxohexanoate and adipate. The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate.
Probab=75.46 E-value=14 Score=41.37 Aligned_cols=89 Identities=13% Similarity=0.051 Sum_probs=61.1
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC--
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-- 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-- 249 (945)
..+.++++.+| +++.+|+....+.....+.+.+.|++.|+++.....+.+..+..++...+...++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~~~~~~v~~~~~~~~~~~~D~IIaiGGGS 90 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPDLPRSELCDAASAAARAGPDVIIGLGGGS 90 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 44666788888 888888854444346788899999999987654434433345666777777788889999997654
Q ss_pred hhhHHHHHHHHH
Q 002267 250 PDTGLTIFSVAK 261 (945)
Q Consensus 250 ~~~~~~~~~~a~ 261 (945)
.-++.+++....
T Consensus 91 ~iD~aK~ia~~~ 102 (386)
T cd08191 91 CIDLAKIAGLLL 102 (386)
T ss_pred HHHHHHHHHHHH
Confidence 446666655433
No 347
>PRK07475 hypothetical protein; Provisional
Probab=75.41 E-value=13 Score=38.65 Aligned_cols=82 Identities=16% Similarity=0.041 Sum_probs=49.2
Q ss_pred ChHHHHHHH-HHHHhcCcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH
Q 002267 100 SGFVGTMEA-LQLMENEVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV 178 (945)
Q Consensus 100 ~~~~a~~~a-~~li~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l 178 (945)
++......+ .+|...++.+|+.+ |.........+.+..+||+++. ..+.+..+
T Consensus 62 ~~~~~l~~aa~~L~~~G~d~I~~~-Cgt~~~~~~~l~~~~~VPv~~s-------------------------s~~~v~~l 115 (245)
T PRK07475 62 SLLDAFVAAARELEAEGVRAITTS-CGFLALFQRELAAALGVPVATS-------------------------SLLQVPLI 115 (245)
T ss_pred cHHHHHHHHHHHHHHcCCCEEEec-hHHHHHHHHHHHHHcCCCEecc-------------------------HHHHHHHH
Confidence 455444444 44445599999985 4444445556667789999861 12222334
Q ss_pred HHc--CCeEEEEEEEeCCcccchHHHHHHHHhhcCcE
Q 002267 179 EYY--GWREVIAIFVDDDYGRNGISVLGDALSKKRAK 213 (945)
Q Consensus 179 ~~~--~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~ 213 (945)
++. +-++|+++..+.. .. ..+.+++.|++
T Consensus 116 ~~~~~~~~kIGILtt~~t---~l---~~~~l~~~Gi~ 146 (245)
T PRK07475 116 QALLPAGQKVGILTADAS---SL---TPAHLLAVGVP 146 (245)
T ss_pred HHhccCCCeEEEEeCCch---hh---hHHHHHhCCCC
Confidence 333 3689999986544 22 24667888875
No 348
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=75.35 E-value=50 Score=34.49 Aligned_cols=176 Identities=15% Similarity=0.133 Sum_probs=107.5
Q ss_pred HHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCc-ccEEEecEEEecCc---c--eeEEecccccccceEEEE
Q 002267 516 DVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNK-FDAAVGDITIVTNR---T--KLVDFTQPYMESGLVVVA 589 (945)
Q Consensus 516 dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~-~D~~~~~~~~t~~r---~--~~~dfs~p~~~~~~~~vv 589 (945)
+|...+.+..|.+++++| +.-..+.++|.+|. +|+.+..=..+... . -.-+...+|....+++++
T Consensus 46 ~i~~~F~~~~~~~V~~~f---------~gS~~l~~qIe~Ga~~D~fiSa~~~~~~~l~~~g~~~~~~~~~fa~n~lvl~~ 116 (258)
T COG0725 46 EIAKQFEKETGVKVEVEF---------GGSGALARQIEQGAPADLFISADDAYMDKLEDKGLIYADSRIVFAGNRLVLAV 116 (258)
T ss_pred HHHHHHHHHHCCeEEEEe---------cchHHHHHHHHcCCCcCEEEECCHHHHHHHHhcCCccCCceEEeeCCeEEEEE
Confidence 677888887787776766 44678888999886 78876533222111 1 123467788888999999
Q ss_pred EccCCCCCceeeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCCccchhhHHHHHHHHhhccccCcccccchhh
Q 002267 590 PVQKLKSSPWAFLKPFTIPMWLVTGGFFLFVGAVVWILEHRFNNEFRGPPSQQLVTIFWFSFSTMFFSHRENTVSSLGRV 669 (945)
Q Consensus 590 ~~~~~~~~~~~fl~PF~~~~W~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~~~R~ 669 (945)
|.....
T Consensus 117 ~~~~~~-------------------------------------------------------------------------- 122 (258)
T COG0725 117 PKGSKK-------------------------------------------------------------------------- 122 (258)
T ss_pred eCCCcc--------------------------------------------------------------------------
Confidence 887622
Q ss_pred HHHHHHHHHHhhhhhhhhhhheeeeeccccCCCCChHHhhcC-CCCeEEee------CchHHHHHHHhhccc---cccce
Q 002267 670 VLIVWLFVVLIINSSYTASLTSILTVQQLTSQIEGIDSLISS-TEPIGVQD------GSFAWNYLVDELKIA---ESRLV 739 (945)
Q Consensus 670 ~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~~~~dL~~~-~~~v~~~~------~s~~~~~l~~~~~~~---~~~~~ 739 (945)
.+..+++|.+. +.++++.+ |.+....|.+ .+.. ..+++
T Consensus 123 -------------------------------~~~~~~~l~~~~~~~lai~~p~~~P~G~ya~~~l~~-~g~~~~~~~k~v 170 (258)
T COG0725 123 -------------------------------KIESLEDLLERPDVRLAIGDPKTVPAGKYAKEALEL-LGLWYTLKDKLV 170 (258)
T ss_pred -------------------------------CcccHHHHhcCcCcEEEecCCCCCCchHHHHHHHHH-hchhhhccccEE
Confidence 23336666653 45666643 5566666642 3222 24667
Q ss_pred ecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCcccc-ccceEEEecCCCcc---hHHHHHHHH
Q 002267 740 KLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQEFT-KSGWGFAFQRDSPL---AIDLSTAIL 812 (945)
Q Consensus 740 ~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~k~spl---~~~i~~~i~ 812 (945)
.-.+.++.+..|.+ |+.|+.+.-.......- + -..+..++.... +..|.+++.+++.- ...|-+.+.
T Consensus 171 ~~~~v~~~l~~V~~----G~ad~g~vy~sd~~~~~-~-~~~~~~~~~~~~~Pi~y~iav~~~~~~~~~A~~f~~fl~ 241 (258)
T COG0725 171 LATNVRQALAYVET----GEADAGFVYVSDALLSK-K-VKIVGVFPEDLHSPIVYPIAVLKNAKNPELAKEFVDFLL 241 (258)
T ss_pred ecCcHHHHHHHHHc----CCCCeEEEEEEhhhccC-C-ceEEEEcccccCCCeEEEEEEEcCCCCHHHHHHHHHHHh
Confidence 77888899999999 89987766554332221 1 112444443333 35677888877664 555555553
No 349
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=75.21 E-value=1.1e+02 Score=32.43 Aligned_cols=70 Identities=16% Similarity=0.151 Sum_probs=50.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+.+.+.. .+..+++..+.+|++|+++..... ....++ +.|+....+++++++
T Consensus 103 ~~l~~~~~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~ 170 (296)
T PRK09906 103 NLLPKVLPMFRLRHP-DTLIELVS-------LITTQQEEKLRRGELDVGFMRHPV---YSDEID-YLELLDEPLVVVLPV 170 (296)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CCcHHHHHHHHcCCeeEEEecCCC---CCCCce-EEEEecccEEEEecC
Confidence 355678888888765 35566654 456889999999999999864332 223344 478888999999887
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 171 ~~ 172 (296)
T PRK09906 171 DH 172 (296)
T ss_pred CC
Confidence 65
No 350
>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=74.82 E-value=14 Score=41.08 Aligned_cols=86 Identities=9% Similarity=-0.013 Sum_probs=62.2
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC--
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-- 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-- 249 (945)
..+.+.++.+|.+++.+|++...+ ..+.+.+.+++.|+++.....+.+.++.+.+...+..+++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGs 88 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVGGGS 88 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCcH
Confidence 446677888888999988755444 456678888888877655445555567788888888888899999987654
Q ss_pred hhhHHHHHHHH
Q 002267 250 PDTGLTIFSVA 260 (945)
Q Consensus 250 ~~~~~~~~~~a 260 (945)
.-++.+++...
T Consensus 89 ~~D~aK~ia~~ 99 (367)
T cd08182 89 VLDTAKALAAL 99 (367)
T ss_pred HHHHHHHHHHH
Confidence 44666666544
No 351
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=74.07 E-value=23 Score=38.80 Aligned_cols=88 Identities=8% Similarity=0.049 Sum_probs=61.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC--
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-- 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-- 249 (945)
..+.++++.++.+++.+|++...+- ...+.+.+.+++. +++.......+.++.+++...+..+++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 89 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGS 89 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCch
Confidence 3456677788889998888544433 6778888888877 65544433443467788888899998889999987654
Q ss_pred hhhHHHHHHHHH
Q 002267 250 PDTGLTIFSVAK 261 (945)
Q Consensus 250 ~~~~~~~~~~a~ 261 (945)
.-+..+++....
T Consensus 90 ~~D~aK~ia~~~ 101 (332)
T cd07766 90 TLDTAKAVAALL 101 (332)
T ss_pred HHHHHHHHHHHh
Confidence 446666655544
No 352
>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=73.51 E-value=13 Score=41.52 Aligned_cols=87 Identities=6% Similarity=0.051 Sum_probs=61.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCc-ccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC-
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDY-GRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN- 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~- 249 (945)
+.+.+.++.++ +++.+|.....+ ..+..+.+.+.|++.|+++.....+.+.++.+++...+..++..++|+||-.+.
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 96 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPNPRLETVREGIELCKEEKVDFILAVGGG 96 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCh
Confidence 44566677775 888888754333 235578899999999988765545555567788888999999999999997654
Q ss_pred -hhhHHHHHHH
Q 002267 250 -PDTGLTIFSV 259 (945)
Q Consensus 250 -~~~~~~~~~~ 259 (945)
.-++.+++..
T Consensus 97 S~iD~aK~ia~ 107 (382)
T cd08187 97 SVIDSAKAIAA 107 (382)
T ss_pred HHHHHHHHHHh
Confidence 3355555433
No 353
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=73.43 E-value=24 Score=36.60 Aligned_cols=98 Identities=12% Similarity=0.268 Sum_probs=58.0
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhh
Q 002267 173 AVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDT 252 (945)
Q Consensus 173 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~ 252 (945)
.+.++++.++.+++.+|.+.+.| ....+.+.+.++..|+++..........+..++..+..+++..++|+||-.+.+..
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vGgG~i 87 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGDADEDEVEKLVEALRPKDADLIIGVGGGTI 87 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE---BHHHHHHHHTTS--TT--EEEEEESHHH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCCCCHHHHHHHHHHhcccCCCEEEEeCCcHH
Confidence 35667888888999888866553 34567888999999998874432222246667777888887788998888776653
Q ss_pred HHHHHH-HHHhCCCCCCCeEEEEe
Q 002267 253 GLTIFS-VAKSLGMTAGSYVWIAT 275 (945)
Q Consensus 253 ~~~~~~-~a~~~g~~~~~~~wi~~ 275 (945)
..+-| .|.++|+ .|+-+-|
T Consensus 88 -~D~~K~~A~~~~~---p~isVPT 107 (250)
T PF13685_consen 88 -IDIAKYAAFELGI---PFISVPT 107 (250)
T ss_dssp -HHHHHHHHHHHT-----EEEEES
T ss_pred -HHHHHHHHHhcCC---CEEEecc
Confidence 23333 3555553 4555554
No 354
>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=73.35 E-value=93 Score=30.22 Aligned_cols=70 Identities=13% Similarity=0.098 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+-.+++..+.++.+ .++++... ++..++..+|.+|++|+++.. .......+. +.++....++++++.
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 355678888888765 35566654 567889999999999999852 111222333 456777778888776
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~h 82 (197)
T cd08452 81 QH 82 (197)
T ss_pred CC
Confidence 54
No 355
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=73.05 E-value=14 Score=36.90 Aligned_cols=128 Identities=13% Similarity=0.153 Sum_probs=72.7
Q ss_pred ChHHHHHHHHHHHhc-CcEEEEccCChhHHHHHHHhh-cccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHH
Q 002267 100 SGFVGTMEALQLMEN-EVVAAIGPQSSGIAHVISHVV-NELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADL 177 (945)
Q Consensus 100 ~~~~a~~~a~~li~~-~v~aiiGp~~s~~~~~va~~~-~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~ 177 (945)
++...+..+.+-+++ |+..|+=| +.+++.+++-. +..+||+|+ ..++-++-
T Consensus 59 ~~~~~L~~~a~~Le~~GAd~i~l~--~NT~H~~~d~iq~~~~iPllh-------------------------IidaTa~~ 111 (230)
T COG1794 59 EAGEILIDAAKKLERAGADFIVLP--TNTMHKVADDIQKAVGIPLLH-------------------------IIDATAKA 111 (230)
T ss_pred cHHHHHHHHHHHHHhcCCCEEEEe--CCcHHHHHHHHHHhcCCCeeh-------------------------HHHHHHHH
Confidence 444444444443444 88888754 45556666655 478999996 34566667
Q ss_pred HHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHh-hccCCceEEEEEcChhhHHHH
Q 002267 178 VEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVG-ANLMESRVFVVHVNPDTGLTI 256 (945)
Q Consensus 178 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~-l~~~~~~vivl~~~~~~~~~~ 256 (945)
+++-|.++|+++.+...- .....++.+.++|++++ +|.+.....+...+.. ++ +-.+...+-+....+
T Consensus 112 ik~~g~kkvgLLgT~~Tm---~~~fY~~~l~~~gievv----vPdd~~q~~v~~iIy~El~----~G~~~~~sr~~~~~i 180 (230)
T COG1794 112 IKAAGAKKVGLLGTRFTM---EQGFYRKRLEEKGIEVV----VPDDDEQAEVNRIIYEELC----QGIVKDASRELYLAV 180 (230)
T ss_pred HHhcCCceeEEeeccchH---HhHHHHHHHHHCCceEe----cCCHHHHHHHHHHHHHHHh----cccchHHHHHHHHHH
Confidence 788899999999865331 22335678888998765 3322222233333322 33 122222334445556
Q ss_pred HHHHHhCCC
Q 002267 257 FSVAKSLGM 265 (945)
Q Consensus 257 ~~~a~~~g~ 265 (945)
.+.+.+.|-
T Consensus 181 i~~l~~~Ga 189 (230)
T COG1794 181 IERLAERGA 189 (230)
T ss_pred HHHHHHcCC
Confidence 666666553
No 356
>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=72.99 E-value=59 Score=32.80 Aligned_cols=123 Identities=7% Similarity=0.076 Sum_probs=72.8
Q ss_pred HHHhcCcEEEEccCChhHHHHHHHhh-cccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEE
Q 002267 110 QLMENEVVAAIGPQSSGIAHVISHVV-NELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIA 188 (945)
Q Consensus 110 ~li~~~v~aiiGp~~s~~~~~va~~~-~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~i 188 (945)
++.+.++.+|+=+ |++....+..+- +..++|+++. .++.+.-+.+ +-++|++
T Consensus 60 ~l~~~g~d~i~i~-C~s~~~~~~~~~~~~~~iPv~~~-------------------------~~a~~~~~~~-~~~ri~v 112 (216)
T PF01177_consen 60 KLEKAGVDAIVIA-CNSAHPFVDELRKERVGIPVVGI-------------------------VEAALEAAKA-GGKRIGV 112 (216)
T ss_dssp HHHHTTESEEEES-SHHHHHHHHHHHHHHHSSEEEES-------------------------HHHHHHHHHH-TSSEEEE
T ss_pred HHHhCCCCEEEEc-CCchhhhHHHHhhhcCceEEEec-------------------------cHHHHHHHHh-cCCEEEE
Confidence 3334488888764 444334444555 6679998862 1223444445 8899999
Q ss_pred EEEeCCcccchHHHHHHHHhhc-Cc--EEEEee------cC-CCCCChH---HHHHHHHhh-ccCCceEEEEEcChhhHH
Q 002267 189 IFVDDDYGRNGISVLGDALSKK-RA--KISYKA------PF-SPGASRS---AINSLLVGA-NLMESRVFVVHVNPDTGL 254 (945)
Q Consensus 189 i~~d~~~g~~~~~~l~~~l~~~-g~--~v~~~~------~~-~~~~~~~---d~~~~l~~l-~~~~~~vivl~~~~~~~~ 254 (945)
+.+ ++......+.+.+++. |+ ++.... .. ....+.. .+...++++ +..++|+|++.|..-...
T Consensus 113 l~t---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~~ 189 (216)
T PF01177_consen 113 LTT---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDGADAIILGCTHLPLL 189 (216)
T ss_dssp EES---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGGG
T ss_pred Eec---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCCCCEEEECCCchHHH
Confidence 985 4455666777788887 87 554421 11 1112222 344555555 378999999987665443
Q ss_pred -HHHHHHHh
Q 002267 255 -TIFSVAKS 262 (945)
Q Consensus 255 -~~~~~a~~ 262 (945)
...+.+.+
T Consensus 190 ~~~~~~l~~ 198 (216)
T PF01177_consen 190 LGAIEALEE 198 (216)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHhhcc
Confidence 56655554
No 357
>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=72.59 E-value=16 Score=40.85 Aligned_cols=89 Identities=8% Similarity=0.135 Sum_probs=63.2
Q ss_pred HHHHHHHHHc---CCeEEEEEEEeCCcc-cchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEE
Q 002267 172 HAVADLVEYY---GWREVIAIFVDDDYG-RNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVH 247 (945)
Q Consensus 172 ~ai~~~l~~~---~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~ 247 (945)
..+.++++.+ |.+++.+|++...+. .+..+.+.+.+++.|+++.....+.+.++.+++...++.++..++|+||-.
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 91 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAI 91 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEe
Confidence 3455667766 778998887544433 344688999999999876554455555677888999999999999999876
Q ss_pred c--ChhhHHHHHHHH
Q 002267 248 V--NPDTGLTIFSVA 260 (945)
Q Consensus 248 ~--~~~~~~~~~~~a 260 (945)
+ +.-+..+++...
T Consensus 92 GGGS~iD~aK~ia~~ 106 (383)
T cd08186 92 GGGSPIDSAKSAAIL 106 (383)
T ss_pred CCccHHHHHHHHHHH
Confidence 4 444666665443
No 358
>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=72.50 E-value=14 Score=40.59 Aligned_cols=87 Identities=11% Similarity=0.150 Sum_probs=60.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP- 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~- 250 (945)
..+.++++.++ +++.+|++...+ ....+.+.+.+++.|+++.....+...++.+++....+..++.++|+||-.+.+
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGGs 89 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGGK 89 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCcH
Confidence 44566677777 888888754444 345778888999999876544445545677788888888888899999976543
Q ss_pred -hhHHHHHHHH
Q 002267 251 -DTGLTIFSVA 260 (945)
Q Consensus 251 -~~~~~~~~~a 260 (945)
-++.+++...
T Consensus 90 ~~D~aK~ia~~ 100 (345)
T cd08171 90 AIDTVKVLADK 100 (345)
T ss_pred HHHHHHHHHHH
Confidence 4555555443
No 359
>PF03401 TctC: Tripartite tricarboxylate transporter family receptor; InterPro: IPR005064 Bordetella pertussis, the causative agent of human whooping cough (pertussis), is an obligate human pathogen with diverse high-affinity transport systems for the assimilation of iron, a biometal that is essential for growth []. Periplasmic binding proteins of a new family, particularly well represented in this organism (and more generally in beta-proteobacteria), have been called Bug receptors []. They adopt a characteristic Venus flytrap fold with two globular domains bisected by a ligand-binding cleft. The family is specific for carboxylated solutes, with a characteristic mode of binding involving two highly conserved beta strand-beta turn-alpha helix motifs originating from each domain. These two motifs form hydrogen bonds with a carboxylate group of the ligand, both directly and via conserved water molecules, and have thus been termed the carboxylate pincers. Domain 1 recognises the ligand and the carboxylate group serves as an initial anchoring point. Domain 2 discriminates between productively and non-productively bound ligands as proper interactions with this domain is needed for the of the closed conformation []. BugE has a glutamate bound ligand. No charged residues are involved in glutamate binding by BugE, unlike what has been described for all glutamate receptors reported so far. The Bug architecture is highly conserved despite limited sequence identity [].; GO: 0030288 outer membrane-bounded periplasmic space; PDB: 2QPQ_C 2DVZ_A 2F5X_A.
Probab=72.39 E-value=51 Score=34.86 Aligned_cols=122 Identities=20% Similarity=0.194 Sum_probs=73.2
Q ss_pred CCCCChHHhhc----CC--CCeEEe-eCch---HHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhh
Q 002267 700 SQIEGIDSLIS----ST--EPIGVQ-DGSF---AWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPY 769 (945)
Q Consensus 700 ~~i~~~~dL~~----~~--~~v~~~-~~s~---~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~ 769 (945)
.+++|++||++ +. .++|.. .|+. ....+.+..+.. .+.++|+...+.+.+|.. |.+|+.+.....
T Consensus 88 sp~~t~~eli~~ak~~p~~~~~g~~g~g~~~hl~~~~l~~~~G~~-~~~Vpy~G~~~~~~allg----G~vd~~~~~~~~ 162 (274)
T PF03401_consen 88 SPYKTLEELIEYAKANPGKLTFGSSGPGSSDHLAAALLAKAAGIK-FTHVPYDGGAEALTALLG----GHVDAAFGSPGE 162 (274)
T ss_dssp SS-SSHHHHHHHHHCSCCC-EEEESSTTSHHHHHHHHHHHHHT----EEEE-SSHHHHHHHHHT----TSSSEEEEEHHH
T ss_pred CccccHHHHHHHHHhCCCCeEEEecCCCchHHHHHHHHHHHhCCc-eEEEEeCCccHHHHHHhC----CeeeEEeecHHH
Confidence 57889999854 12 345554 2432 223444556654 567899999999999999 999998887554
Q ss_pred HHHHhccCCcc-EEE--------------eCcc----c-cccceEEEecCCCc--chHHHHHHHHhccccccHHHHHHH
Q 002267 770 IELFMSKTNCE-FRT--------------VGQE----F-TKSGWGFAFQRDSP--LAIDLSTAILQLSENGDLQKIHNK 826 (945)
Q Consensus 770 ~~~~~~~~~~~-~~~--------------~~~~----~-~~~~~~~~~~k~sp--l~~~i~~~i~~l~e~G~~~~i~~~ 826 (945)
..-+++...-+ +.+ +.+. + .....+++.|||-| .++.+..++.+..++..+++..++
T Consensus 163 ~~~~~~~G~~k~Lav~~~~r~~~~pdvPT~~E~G~~d~~~~~~~g~~~p~gtp~~~~~~l~~a~~~~~~~pe~~~~~~~ 241 (274)
T PF03401_consen 163 ALPYVEAGDLKPLAVFSDERSPALPDVPTFKEQGYPDIVFGSWRGLFAPKGTPDEIVDKLADAIKKALEDPEFQEFLEK 241 (274)
T ss_dssp HHHHHHTTSEEEEEECSSS-BTTCTTS-BTTTTT-TTG--EEEEEEEEETTS-HHHHHHHHHHHHHHHT-HHHHHHHHH
T ss_pred HHHHHhCCCceEEEEecCccccccCCCCCHHHhCccceeeeeeeeeecCCCCCHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 44433321111 111 1111 1 12235888999998 999999999999999877655444
No 360
>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=71.96 E-value=15 Score=39.67 Aligned_cols=89 Identities=13% Similarity=0.092 Sum_probs=63.8
Q ss_pred EEEEEe---ccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHH
Q 002267 52 RIGALF---TYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIA 128 (945)
Q Consensus 52 ~IG~l~---~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 128 (945)
++|.+. ....+.-.....|+...++.+| |+.++...+..+-.|+.++.+.+..|+++++.+|.+ ......
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 566666 6665444577899999999998 567888888888889999999999999999988887 333445
Q ss_pred HHHHHhhcccCcc--EEeccc
Q 002267 129 HVISHVVNELNVP--LLSFGA 147 (945)
Q Consensus 129 ~~va~~~~~~~iP--~Is~~a 147 (945)
..+.+.+.+.+.. .|....
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 5667788888887 776533
No 361
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=71.56 E-value=38 Score=34.37 Aligned_cols=92 Identities=15% Similarity=0.151 Sum_probs=55.2
Q ss_pred CCCChHHhhc--------CC--CCeEEeeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhH
Q 002267 701 QIEGIDSLIS--------ST--EPIGVQDGSFAWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYI 770 (945)
Q Consensus 701 ~i~~~~dL~~--------~~--~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~ 770 (945)
.+++++||.. .+ .+|+...-.....|+. +.+....+++.....-|..- .. |-.|++++-....
T Consensus 110 ~~~~~~dl~~~~~~~~~~~g~~~RIATkYp~it~~yf~-~~Gv~~~~Iv~l~GsvElaP--~~----GlAD~IvDivsTG 182 (228)
T PRK13583 110 DVDTMADLDDVAADFRARHGRRLRIATKYWRLTQQFLS-QKGVQDYRIVESLGATEGAP--AN----GSAEIIVDITSTG 182 (228)
T ss_pred ccCCHHHhhhhhhhhhhccCCceEEEeCCHHHHHHHHH-HcCCceeEEEECCCceeccc--cc----Ccchhhhhhhchh
Confidence 4566777641 12 4677777777788885 44554335666655555422 22 6778888877666
Q ss_pred HHHhccCCccEEEeC-ccccccceEEEecCCCc
Q 002267 771 ELFMSKTNCEFRTVG-QEFTKSGWGFAFQRDSP 802 (945)
Q Consensus 771 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~k~sp 802 (945)
...-++ +|.+++ +.+....-.+...+.|.
T Consensus 183 ~TLr~N---gL~~i~~~~Il~SsA~LI~n~~s~ 212 (228)
T PRK13583 183 ETLRAN---HLKILSDGVILRSQACLVRARKAD 212 (228)
T ss_pred HHHHHC---CCEEecCceEEEEEEEEEEecccc
Confidence 665444 677776 34445555566667653
No 362
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=71.31 E-value=59 Score=35.67 Aligned_cols=75 Identities=16% Similarity=0.042 Sum_probs=61.3
Q ss_pred eEEEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHH
Q 002267 50 SVRIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAH 129 (945)
Q Consensus 50 ~i~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 129 (945)
.-+||.+..+..+.-.....|+.+.++.+|.+ .++...+..+=.||..+.+.+..|++++|.+|.....+....
T Consensus 161 ~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~------i~v~v~~~gsf~D~~k~k~~a~~li~~GaDVI~~~ag~~~~g 234 (345)
T COG1744 161 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNPD------IKVKVVYVGSFSDPAKGKEAANALIDQGADVIYPAAGGTGVG 234 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCCC------ccEEEEEecCccChHHHHHHHHHHHhcCCCEEEecCCCCcch
Confidence 56688888877665567889999999999964 678888888888999999999999999999999766555544
Q ss_pred H
Q 002267 130 V 130 (945)
Q Consensus 130 ~ 130 (945)
.
T Consensus 235 v 235 (345)
T COG1744 235 V 235 (345)
T ss_pred H
Confidence 4
No 363
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=70.91 E-value=41 Score=34.78 Aligned_cols=86 Identities=8% Similarity=-0.021 Sum_probs=55.2
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhh-cCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc
Q 002267 170 QMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSK-KRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV 248 (945)
Q Consensus 170 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~ 248 (945)
....+.+.....+ .+|.++..+.. .++.+.+.+++ .|+.|+....=. .+.++-..++++|.+++||++++.+
T Consensus 93 l~~~ll~~~~~~~-~~v~llG~~~~----v~~~a~~~l~~~y~l~i~g~~~Gy--f~~~e~~~i~~~I~~s~~dil~Vgl 165 (243)
T PRK03692 93 LWEALMARAGKEG-TPVFLVGGKPE----VLAQTEAKLRTQWNVNIVGSQDGY--FTPEQRQALFERIHASGAKIVTVAM 165 (243)
T ss_pred HHHHHHHHHHhcC-CeEEEECCCHH----HHHHHHHHHHHHhCCEEEEEeCCC--CCHHHHHHHHHHHHhcCCCEEEEEC
Confidence 4555666666666 57778875544 34444444433 377776543211 3455667799999999999999998
Q ss_pred ChhhHHHHHHHHHh
Q 002267 249 NPDTGLTIFSVAKS 262 (945)
Q Consensus 249 ~~~~~~~~~~~a~~ 262 (945)
..+--..++...++
T Consensus 166 G~PkQE~~~~~~~~ 179 (243)
T PRK03692 166 GSPKQEIFMRDCRL 179 (243)
T ss_pred CCcHHHHHHHHHHH
Confidence 77666666655544
No 364
>PRK10537 voltage-gated potassium channel; Provisional
Probab=70.89 E-value=6 Score=44.11 Aligned_cols=56 Identities=23% Similarity=0.308 Sum_probs=43.6
Q ss_pred CCccchhhHHHHHHHHhhccc--cCcccccchhhHHHHHHHHHHhhhhhhhhhhheee
Q 002267 638 PPSQQLVTIFWFSFSTMFFSH--RENTVSSLGRVVLIVWLFVVLIINSSYTASLTSIL 693 (945)
Q Consensus 638 ~~~~~~~~~~~~~~~~l~~~~--~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~L 693 (945)
+...++.+++|+++.++...+ ...|.+..+|++.+++.++++.+..+..+.++..+
T Consensus 164 ~~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~ 221 (393)
T PRK10537 164 PPIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPV 221 (393)
T ss_pred cCCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445689999999999887655 44789999999999999998877666555555433
No 365
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=70.72 E-value=94 Score=33.13 Aligned_cols=67 Identities=9% Similarity=0.008 Sum_probs=45.4
Q ss_pred eHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEccC
Q 002267 514 CIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 514 ~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
...++..+.++- .+++++.. +.-+.++..+.+|++|+++..-. .....+ .+.|+....++++++...
T Consensus 105 l~~~l~~f~~~~--~i~i~l~~-------~~~~~~~~~l~~~~~d~~i~~~~---~~~~~l-~~~~l~~~~~~lv~~~~~ 171 (294)
T PRK03635 105 FLPALAPVLARS--GVLLDLVV-------EDQDHTAELLRRGEVVGAVTTEP---QPVQGC-RVDPLGAMRYLAVASPAF 171 (294)
T ss_pred HHHHHHHHHhCC--CcEEEEEe-------cCcHHHHHHHhCCCceEEEeccC---CCCCCc-eeeecccceEEEEEcchH
Confidence 345677777663 45576664 45678899999999999985321 112222 467888888888887653
No 366
>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=70.69 E-value=14 Score=38.90 Aligned_cols=78 Identities=8% Similarity=0.039 Sum_probs=56.5
Q ss_pred EEEEEEEe--CCcccchHHHHHHHHhh-cCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHH
Q 002267 185 EVIAIFVD--DDYGRNGISVLGDALSK-KRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVA 260 (945)
Q Consensus 185 ~v~ii~~d--~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a 260 (945)
+|++|.++ ++|.......+.+++++ .|+++...... .+.......++++.+.++|.+|+.... .....++.++
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l 77 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDAK---NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAA 77 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCCC---CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHH
Confidence 46777754 77888888999999999 89988764321 344556677888888899999886543 3345677777
Q ss_pred HhCCC
Q 002267 261 KSLGM 265 (945)
Q Consensus 261 ~~~g~ 265 (945)
.+.|+
T Consensus 78 ~~~~i 82 (272)
T cd06301 78 NAAGI 82 (272)
T ss_pred HHCCC
Confidence 77664
No 367
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=70.31 E-value=17 Score=38.15 Aligned_cols=79 Identities=6% Similarity=0.056 Sum_probs=55.7
Q ss_pred EEEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc-ChhhHHHHHHHHH
Q 002267 185 EVIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV-NPDTGLTIFSVAK 261 (945)
Q Consensus 185 ~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~-~~~~~~~~~~~a~ 261 (945)
+|+++.. ++.|.......+.+++++.|.++..... ..+.......++.+...++|.||+.. ........++.++
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~~ 77 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYDA---GGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRAL 77 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHHH
Confidence 3667765 4777788899999999999998876422 13444555677777777899999974 3344556778888
Q ss_pred hCCCC
Q 002267 262 SLGMT 266 (945)
Q Consensus 262 ~~g~~ 266 (945)
+.|+.
T Consensus 78 ~~~ip 82 (273)
T cd06305 78 DAGIP 82 (273)
T ss_pred HcCCC
Confidence 87753
No 368
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=70.22 E-value=1.5e+02 Score=31.36 Aligned_cols=162 Identities=15% Similarity=0.119 Sum_probs=94.8
Q ss_pred eEEEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHHH
Q 002267 50 SVRIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIAH 129 (945)
Q Consensus 50 ~i~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 129 (945)
.=.||.||.-++. ..+-+++.|+.+.- |..+-+--.|++-.-...+....+.+.+=+.+|.-=..+..
T Consensus 44 gk~laliFeK~ST---RTR~SFeva~~qlG-------g~~~~l~~~~~Qlgr~Esi~DTArVLsr~~D~I~~R~~~~~-- 111 (310)
T COG0078 44 GKNLALIFEKTST---RTRVSFEVAATQLG-------GHAIYLGPGDSQLGRGESIKDTARVLSRMVDAIMIRGFSHE-- 111 (310)
T ss_pred CceEEEEecCCCc---hhhhhHHHHHHHcC-------CCeEEeCCCccccCCCCcHHHHHHHHHhhhheEEEecccHH--
Confidence 3568999998764 56788999998873 44444444444432233334444555665555554333333
Q ss_pred HHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHH---HHcC---CeEEEEEEEeCCcccchHHHH
Q 002267 130 VISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLV---EYYG---WREVIAIFVDDDYGRNGISVL 203 (945)
Q Consensus 130 ~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l---~~~~---w~~v~ii~~d~~~g~~~~~~l 203 (945)
.+-.+++...||+|. .|+|...| .+++++++ +|+| -.+++.+.+. .+....+
T Consensus 112 ~ve~lA~~s~VPViN------gLtD~~HP------------~Q~LADl~Ti~E~~g~l~g~k~a~vGDg----NNv~nSl 169 (310)
T COG0078 112 TLEELAKYSGVPVIN------GLTDEFHP------------CQALADLMTIKEHFGSLKGLKLAYVGDG----NNVANSL 169 (310)
T ss_pred HHHHHHHhCCCceEc------ccccccCc------------HHHHHHHHHHHHhcCcccCcEEEEEcCc----chHHHHH
Confidence 568899999999996 25553223 35566654 6775 3556555432 6788888
Q ss_pred HHHHhhcCcEEEEeecCCCCCChHHHHHHHHhh-ccCCceEEEE
Q 002267 204 GDALSKKRAKISYKAPFSPGASRSAINSLLVGA-NLMESRVFVV 246 (945)
Q Consensus 204 ~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l-~~~~~~vivl 246 (945)
.......|..+.....-...+ ..++-...+++ +.++..+.+.
T Consensus 170 ~~~~a~~G~dv~ia~Pk~~~p-~~~~~~~a~~~a~~~g~~i~~t 212 (310)
T COG0078 170 LLAAAKLGMDVRIATPKGYEP-DPEVVEKAKENAKESGGKITLT 212 (310)
T ss_pred HHHHHHhCCeEEEECCCcCCc-CHHHHHHHHHHHHhcCCeEEEe
Confidence 888888898776433222112 34444444443 3444445444
No 369
>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=69.41 E-value=14 Score=38.25 Aligned_cols=78 Identities=12% Similarity=0.056 Sum_probs=54.4
Q ss_pred EEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHh
Q 002267 185 EVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKS 262 (945)
Q Consensus 185 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~ 262 (945)
+|+++.+. ..+.......+++++++.|+++.....- .+.+.....++++.+.++|++|+..........+..+.+
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~~~---~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~ 77 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLANSQ---NDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLARK 77 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhhh
Confidence 36777754 6788888999999999999987654322 234556677888777789998887544433335666666
Q ss_pred CCC
Q 002267 263 LGM 265 (945)
Q Consensus 263 ~g~ 265 (945)
.|+
T Consensus 78 ~~i 80 (264)
T cd01537 78 AGI 80 (264)
T ss_pred cCC
Confidence 664
No 370
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=69.27 E-value=17 Score=40.43 Aligned_cols=84 Identities=11% Similarity=0.053 Sum_probs=60.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP- 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~- 250 (945)
..+.+.++.+| +++.+|++...+ ....+.+.+.+++.|+++.+. .++..++.+.+...++.+++.++|+||-.+.+
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~-~~~~ep~~~~v~~~~~~~~~~~~d~IIavGGGs 95 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFE-VFNGECSDNEIDRLVAIAEENGCDVVIGIGGGK 95 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEE-EeCCCCCHHHHHHHHHHHHhcCCCEEEEecChH
Confidence 44566778888 898888854444 346788888999999877543 34545677788888888888899999977544
Q ss_pred -hhHHHHHH
Q 002267 251 -DTGLTIFS 258 (945)
Q Consensus 251 -~~~~~~~~ 258 (945)
-++.+++.
T Consensus 96 v~D~aK~iA 104 (366)
T PRK09423 96 TLDTAKAVA 104 (366)
T ss_pred HHHHHHHHH
Confidence 45555554
No 371
>cd08432 PBP2_GcdR_TrpI_HvrB_AmpR_like The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate domain of LysR-type transcriptional regulators involved in controlling the expression of glutaryl-CoA dehydrogenase (GcdH), S-adenosyl-L-homocysteine hydrolase, cell division protein FtsW, tryptophan synthase, and beta-lactamase. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex compris
Probab=69.25 E-value=48 Score=31.99 Aligned_cols=65 Identities=14% Similarity=0.027 Sum_probs=40.1
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
+...++..+.++.+ .+++++.. +. .+.++.+|++|+++.... .....+ .+.++....+++++++.
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~~~~-------~~---~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~~ 78 (194)
T cd08432 14 WLIPRLARFQARHP-DIDLRLST-------SD---RLVDFAREGIDLAIRYGD---GDWPGL-EAERLMDEELVPVCSPA 78 (194)
T ss_pred HHHHHhHHHHHHCC-CeEEEEEe-------cC---CccccccccccEEEEecC---CCCCCc-ceEEccCCcEEEecCHH
Confidence 45567777777765 35566653 11 456788999999985221 111222 25677777888777654
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=69.22 E-value=1.1e+02 Score=33.57 Aligned_cols=85 Identities=11% Similarity=-0.004 Sum_probs=58.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP- 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~- 250 (945)
..+.+.++.++.+++.+|+....+-. ..+.+.+.+++.+..+ + ..+.+.++.+.+...++.+++.++|.||-.+.+
T Consensus 12 ~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~-~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 88 (337)
T cd08177 12 AALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-F-DGAVMHTPVEVTEAAVAAAREAGADGIVAIGGGS 88 (337)
T ss_pred HHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-e-CCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcH
Confidence 45677888999999988875544443 6677888887775433 2 233334567788888888888899999976543
Q ss_pred -hhHHHHHHH
Q 002267 251 -DTGLTIFSV 259 (945)
Q Consensus 251 -~~~~~~~~~ 259 (945)
-+..+++..
T Consensus 89 ~iD~aK~ia~ 98 (337)
T cd08177 89 TIDLAKAIAL 98 (337)
T ss_pred HHHHHHHHHH
Confidence 455555543
No 373
>PLN02245 ATP phosphoribosyl transferase
Probab=68.74 E-value=36 Score=37.61 Aligned_cols=92 Identities=12% Similarity=0.049 Sum_probs=58.3
Q ss_pred CCCChHHhhc-------CCCCeEEeeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHH
Q 002267 701 QIEGIDSLIS-------STEPIGVQDGSFAWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELF 773 (945)
Q Consensus 701 ~i~~~~dL~~-------~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~ 773 (945)
.+++++||.. ..++|+...-.....||. +.++...+++.....-|. +-.. |-.|++++-.......
T Consensus 178 ~~~s~~dL~g~~~~~~~~~~RIATkYp~ltr~ff~-~~Gv~~v~Iv~l~GAvE~--AP~l----GlADaIvDIVsTGtTL 250 (403)
T PLN02245 178 NINSLKELAQMPQWTEERPLRVVTGFTYLGPKFMK-DNGFKHVTFSTADGALEA--APAM----GIADAILDLVSSGTTL 250 (403)
T ss_pred ccCCHHHhcccccccccCceEEEeCCHHHHHHHHH-HcCCCeEEEEECcCceec--cccc----CchhhhcchhccHHHH
Confidence 5788888863 115788777777888885 456644566666655554 2333 7778888876666665
Q ss_pred hccCCccEEEeC-ccccccceEEEecCCCc
Q 002267 774 MSKTNCEFRTVG-QEFTKSGWGFAFQRDSP 802 (945)
Q Consensus 774 ~~~~~~~~~~~~-~~~~~~~~~~~~~k~sp 802 (945)
.++ +|.+++ +.+....-.+...+++.
T Consensus 251 raN---gLk~i~~~~Il~S~A~LIan~~sl 277 (403)
T PLN02245 251 REN---NLKEIEGGVVLESQAVLVASRRAL 277 (403)
T ss_pred HHC---CCEEccCceEEEEEEEEEEecchh
Confidence 555 677885 44555555556666643
No 374
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=68.02 E-value=1.6e+02 Score=30.64 Aligned_cols=71 Identities=20% Similarity=0.123 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.+..+ .+++.+.. ++..+++.+|.+|++|+++..... .....+. ..++....++++++.
T Consensus 80 ~~~~~~l~~~~~~~p-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~ 148 (269)
T PRK11716 80 SHLPPILDRFRAEHP-LVEIKLTT-------GDAADAVEKVQSGEADLAIAAKPE--TLPASVA-FSPIDEIPLVLIAPA 148 (269)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHHCCCccEEEEecCC--CCCcceE-EEEcccceEEEEEcC
Confidence 356678888888775 25566664 567899999999999999853221 1111222 356677778887766
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 149 ~~ 150 (269)
T PRK11716 149 LP 150 (269)
T ss_pred Cc
Confidence 53
No 375
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=67.82 E-value=6.1 Score=49.29 Aligned_cols=69 Identities=13% Similarity=0.328 Sum_probs=53.6
Q ss_pred cchhhHHHHHHHHhhccc--cCcccccchhhHHHHHHHHHHhhhhhhhhhhheeeeec-----cccCCCCChHHhh
Q 002267 641 QQLVTIFWFSFSTMFFSH--RENTVSSLGRVVLIVWLFVVLIINSSYTASLTSILTVQ-----QLTSQIEGIDSLI 709 (945)
Q Consensus 641 ~~~~~~~~~~~~~l~~~~--~~~p~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~-----~~~~~i~~~~dL~ 709 (945)
.+...++||++.++...| .-.|.+...|++.++|.++++++.++..+++++++... .+...++.+.+..
T Consensus 249 ~~Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~~~~~~~~f~~~~~~~~~ym 324 (823)
T PLN03192 249 IRYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVEGTRRTMEFRNSIEAASNFV 324 (823)
T ss_pred HHHHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346678999999998665 44899999999999999999999999999999987542 2334444554544
No 376
>PRK13348 chromosome replication initiation inhibitor protein; Provisional
Probab=67.32 E-value=1.4e+02 Score=31.61 Aligned_cols=65 Identities=9% Similarity=-0.040 Sum_probs=41.9
Q ss_pred HHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEccC
Q 002267 516 DVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 516 dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
..+..+.+.- .+.++... +..++++.+|.+|++|+++..... ....+. +.|+....++++++...
T Consensus 107 ~~l~~~~~~~--~i~i~~~~-------~~~~~~~~~L~~~~~d~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~ 171 (294)
T PRK13348 107 PALAAVLAGE--RILLELIV-------DDQDHTFALLERGEVVGCVSTQPK---PMRGCL-AEPLGTMRYRCVASPAF 171 (294)
T ss_pred HHHHHHHhCC--CeEEEEEE-------cchHHHHHHHhcCCeEEEEecCCc---ccCCcc-cccccccceEEEEccch
Confidence 4455554443 34466554 557899999999999998753222 123343 57788888888886553
No 377
>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=66.71 E-value=19 Score=37.42 Aligned_cols=77 Identities=8% Similarity=-0.024 Sum_probs=55.7
Q ss_pred EEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|+++..+ ++|.....+.+++++++.|+.+..... ..+.+.....++++...++|+|++......... ++.+.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~ 77 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLCNS---DEDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELAAL 77 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEEcC---CCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHHHc
Confidence 5666654 788888899999999999988775422 234455567788888889999998766555555 7777777
Q ss_pred CCC
Q 002267 264 GMT 266 (945)
Q Consensus 264 g~~ 266 (945)
|+.
T Consensus 78 ~ip 80 (264)
T cd06267 78 GIP 80 (264)
T ss_pred CCC
Confidence 753
No 378
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=66.65 E-value=32 Score=37.49 Aligned_cols=63 Identities=17% Similarity=0.192 Sum_probs=43.8
Q ss_pred cCCCCceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCc-cEEEEEcCCCCCCCCHHHHHHHHHcCcccE
Q 002267 481 PNNGMPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPV-PHNYIMYGNGKRNPIYNDIVQQVALNKFDA 559 (945)
Q Consensus 481 ~~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~ 559 (945)
|.+|++++++.. +|.. .-+.-.|++.+.+.+|+++ +++.. +-.-+...|.+|.+|+
T Consensus 25 ~~~~~~V~~~~~---~W~~-----------~~~~t~v~~~iLe~~GY~V~e~~~~---------~~~~~~~ala~GdiDv 81 (331)
T PRK11119 25 PGKGITVQPAQS---TIAE-----------ETFQTLLVSRALEKLGYDVNKPKEV---------DYNVFYTSIANGDATF 81 (331)
T ss_pred CCCCeEEEEeec---CccH-----------HHHHHHHHHHHHHHcCCceeeeccc---------CcHHHHHHHHcCCCeE
Confidence 567899999983 3321 1244568888888899885 44432 2367788999999999
Q ss_pred EEecEEE
Q 002267 560 AVGDITI 566 (945)
Q Consensus 560 ~~~~~~~ 566 (945)
.+.....
T Consensus 82 ~~~~W~P 88 (331)
T PRK11119 82 TAVNWFP 88 (331)
T ss_pred ehhhccc
Confidence 8865554
No 379
>cd08183 Fe-ADH2 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria.
Probab=66.35 E-value=26 Score=39.05 Aligned_cols=83 Identities=12% Similarity=0.081 Sum_probs=59.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP- 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~- 250 (945)
..+.++++.++ +++.+|++.... ..+.+.+.|++.|+++.... +...++.+++...+..++..++|+||-.+.+
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 86 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGEPSVELVDAAVAEARNAGCDVVIAIGGGS 86 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCCcCHHHHHHHHHHHHhcCCCEEEEecCch
Confidence 34566677775 888888754443 67788899999998765433 3445667788889999998999999987544
Q ss_pred -hhHHHHHHH
Q 002267 251 -DTGLTIFSV 259 (945)
Q Consensus 251 -~~~~~~~~~ 259 (945)
-++.+++..
T Consensus 87 ~~D~aK~ia~ 96 (374)
T cd08183 87 VIDAGKAIAA 96 (374)
T ss_pred HHHHHHHHHH
Confidence 466665544
No 380
>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=66.23 E-value=61 Score=31.65 Aligned_cols=86 Identities=10% Similarity=-0.064 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhc--CcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEE
Q 002267 169 YQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKK--RAKISYKAPFSPGASRSAINSLLVGANLMESRVFVV 246 (945)
Q Consensus 169 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl 246 (945)
+.+..+.+.....+ .+|.++....+ .++.+.+.+++. |++|+....+ .+..+-..++++|.+++||++++
T Consensus 35 dl~~~l~~~~~~~~-~~vfllG~~~~----v~~~~~~~l~~~yP~l~i~g~~g~---f~~~~~~~i~~~I~~s~~dil~V 106 (177)
T TIGR00696 35 DLMEELCQRAGKEK-LPIFLYGGKPD----VLQQLKVKLIKEYPKLKIVGAFGP---LEPEERKAALAKIARSGAGIVFV 106 (177)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCCEEEEECCC---CChHHHHHHHHHHHHcCCCEEEE
Confidence 45566666665666 46777765443 455555555554 7777765222 34556677899999999999999
Q ss_pred EcChhhHHHHHHHHHh
Q 002267 247 HVNPDTGLTIFSVAKS 262 (945)
Q Consensus 247 ~~~~~~~~~~~~~a~~ 262 (945)
.+..+--..++.+.++
T Consensus 107 glG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 107 GLGCPKQEIWMRNHRH 122 (177)
T ss_pred EcCCcHhHHHHHHhHH
Confidence 9777666666655433
No 381
>TIGR03298 argP transcriptional regulator, ArgP family. ArgP used to be known as IciA. ArgP is a positive regulator of argK. It is a negative autoregulator in presence of arginine. It competes with DnaA for oriC iteron (13-mer) binding. It activates dnaA and nrd transcription. It has been demonstrated to be part of the pho regulon (PubMed:10589831). ArgP mutants convey canavanine (an L-arginine structural homolog) sensitivity (PubMed: 15150242).
Probab=65.95 E-value=1.6e+02 Score=31.25 Aligned_cols=64 Identities=9% Similarity=0.005 Sum_probs=41.8
Q ss_pred HHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 516 DVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 516 dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
.++..+.++. .+++.... ++-..+++.|.+|++|+++..... ....+. +.++.+..++++++++
T Consensus 107 ~~l~~~~~~~--~i~i~l~~-------~~~~~~~~~l~~g~~d~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~~ 170 (292)
T TIGR03298 107 PALAPVLAQE--GVLLDLVV-------EDQDHTAELLRSGEVLGAVTTQAK---PVQGCR-VVPLGAMRYLAVASPA 170 (292)
T ss_pred HHHHHHHhCC--CceEEEEe-------CcchhHHHHHhCCCceEEEecCCC---CCCCce-EEecCCceEEEEECch
Confidence 4566666653 45566654 455678999999999999854221 122233 4678888888887654
No 382
>PRK00865 glutamate racemase; Provisional
Probab=64.87 E-value=62 Score=33.94 Aligned_cols=38 Identities=13% Similarity=0.175 Sum_probs=25.5
Q ss_pred HHHHHHhcCcEEEEccCChhHHHHHHHhhcccCccEEe
Q 002267 107 EALQLMENEVVAAIGPQSSGIAHVISHVVNELNVPLLS 144 (945)
Q Consensus 107 ~a~~li~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is 144 (945)
.+..|.+.++.+|+=+-.+..+.++..+-+..++|+|+
T Consensus 59 ~~~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 59 IVEFLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 33344455888887666666555666666778999996
No 383
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=64.73 E-value=41 Score=36.69 Aligned_cols=103 Identities=16% Similarity=0.128 Sum_probs=62.0
Q ss_pred CCCCChHHhhcCCCCeEEeeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCc
Q 002267 700 SQIEGIDSLISSTEPIGVQDGSFAWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNC 779 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~ 779 (945)
.||.+.+||. |+++-+........+++ .++-.... . ...|...+|+. |-+|+.-.....+ .-++ ..
T Consensus 157 ~PI~~peDlk--GlkiRv~~s~~~~~~~~-a~GA~P~p---m-~f~Evy~aLqt----GvVDGqEnp~~~i--~~~k-~~ 222 (332)
T COG1638 157 RPIKTPEDLK--GLKIRVPQSPLLLAMFK-ALGANPTP---M-PFAEVYTALQT----GVVDGQENPLSNI--YSAK-LY 222 (332)
T ss_pred CCCCChHHhC--CCeeecCCCHHHHHHHH-HcCCCCCC---C-CHHHHHHHHHc----CCcccccCCHHHH--hhcc-HH
Confidence 4999999997 99999988887777775 44433222 2 57899999999 7777765543332 2122 10
Q ss_pred ---c-EEEeCccccccceEEEecCCCc--chHHHHHHHHhccccc
Q 002267 780 ---E-FRTVGQEFTKSGWGFAFQRDSP--LAIDLSTAILQLSENG 818 (945)
Q Consensus 780 ---~-~~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~i~~l~e~G 818 (945)
+ ++..+.. ..++.+.+.+..- |-+...++|++.....
T Consensus 223 EVqky~t~tnH~--~~~~~~~~s~~~w~~L~~e~q~il~~aa~e~ 265 (332)
T COG1638 223 EVQKYLTLTNHI--YLPLAVLVSKAFWDSLPEEDQTILLEAAKEA 265 (332)
T ss_pred HHhHHhhhcccc--ccceeeEEcHHHHhcCCHHHHHHHHHHHHHH
Confidence 1 2222211 2344455555422 6677777776665544
No 384
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=64.71 E-value=65 Score=38.88 Aligned_cols=66 Identities=15% Similarity=0.101 Sum_probs=46.1
Q ss_pred cCCeEEEEEEEeCC---------ccc---chHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc
Q 002267 181 YGWREVIAIFVDDD---------YGR---NGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV 248 (945)
Q Consensus 181 ~~w~~v~ii~~d~~---------~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~ 248 (945)
|..-+|++|...|+ -|+ .....+...+++.|.++.....++ .+...+...++++.+ ++|+||+.+
T Consensus 184 ~~~prv~vi~tG~El~~~~~~~~~g~i~dsn~~~l~~~l~~~g~~~~~~~~v~--Dd~~~i~~~l~~~~~-~~D~iIttG 260 (633)
T PRK14498 184 YKKPRVGIISTGDELVEPGEPLKPGKIYDVNSYTLAAAVEEAGGEPVRYGIVP--DDEEELEAALRKALK-ECDLVLLSG 260 (633)
T ss_pred ecCcEEEEEecCccccCCCCCCCCCEEEEChHHHHHHHHHHCCCEEEEEEEeC--CCHHHHHHHHHHHHh-cCCEEEECC
Confidence 34457788765443 122 345678888999999988776666 456778888877754 799999875
Q ss_pred C
Q 002267 249 N 249 (945)
Q Consensus 249 ~ 249 (945)
.
T Consensus 261 G 261 (633)
T PRK14498 261 G 261 (633)
T ss_pred C
Confidence 3
No 385
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=64.32 E-value=22 Score=37.31 Aligned_cols=80 Identities=6% Similarity=0.001 Sum_probs=54.4
Q ss_pred EEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHh
Q 002267 185 EVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKS 262 (945)
Q Consensus 185 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~ 262 (945)
+|++|+.+ +.|.......+.+++++.|..+.....-. ..+..+....++.+...++|.||+.....+....++++.+
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~~~ 79 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-YPNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQVA 79 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHHHH
Confidence 46777754 67788888999999999999887643211 1133445567888778899999987544333225677777
Q ss_pred CCC
Q 002267 263 LGM 265 (945)
Q Consensus 263 ~g~ 265 (945)
.|+
T Consensus 80 ~gi 82 (268)
T cd06306 80 ASI 82 (268)
T ss_pred CCC
Confidence 675
No 386
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=64.08 E-value=28 Score=38.14 Aligned_cols=82 Identities=15% Similarity=0.075 Sum_probs=59.2
Q ss_pred CCeEEEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc-ChhhHHHHHH
Q 002267 182 GWREVIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV-NPDTGLTIFS 258 (945)
Q Consensus 182 ~w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~-~~~~~~~~~~ 258 (945)
.-.+|+++.. +++|.....+.+++++++.|+++.... +...+...-...++.+...++|.|++.. .+......++
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~l~ 99 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPALK 99 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHHHH
Confidence 4468888874 468888888999999999999887532 2222333334677788888999999974 3444567888
Q ss_pred HHHhCCC
Q 002267 259 VAKSLGM 265 (945)
Q Consensus 259 ~a~~~g~ 265 (945)
++.+.|+
T Consensus 100 ~a~~~gI 106 (336)
T PRK15408 100 RAMQRGV 106 (336)
T ss_pred HHHHCCC
Confidence 8988775
No 387
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=63.70 E-value=23 Score=37.18 Aligned_cols=79 Identities=15% Similarity=0.132 Sum_probs=54.7
Q ss_pred EEEEEEE---eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHH
Q 002267 185 EVIAIFV---DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVA 260 (945)
Q Consensus 185 ~v~ii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a 260 (945)
||++|.. +++|.....+.+.+++++.|..+.....-. .+.......++++...++|.+|+.... ......++.+
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~~~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~ 78 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGPET--FDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRA 78 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECCCC--CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHH
Confidence 4677764 357888889999999999999886542211 144555677888878899999887533 3345567777
Q ss_pred HhCCC
Q 002267 261 KSLGM 265 (945)
Q Consensus 261 ~~~g~ 265 (945)
++.|+
T Consensus 79 ~~~~i 83 (271)
T cd06312 79 VAAGI 83 (271)
T ss_pred HHCCC
Confidence 77664
No 388
>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=63.69 E-value=31 Score=36.71 Aligned_cols=77 Identities=10% Similarity=0.001 Sum_probs=55.8
Q ss_pred EEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC-hhhHHHHHHHHHh
Q 002267 186 VIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-PDTGLTIFSVAKS 262 (945)
Q Consensus 186 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-~~~~~~~~~~a~~ 262 (945)
|++|..+ +.|.....+.+.+++++.|..+.....- .+.......++.+.+.++|.|++... .......++++.+
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~ 78 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNAN---GDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKAAD 78 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECCC---CCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHH
Confidence 6677754 6777888899999999999987764322 24455567788888889999988753 4445677888887
Q ss_pred CCC
Q 002267 263 LGM 265 (945)
Q Consensus 263 ~g~ 265 (945)
.|.
T Consensus 79 ~~i 81 (288)
T cd01538 79 AGI 81 (288)
T ss_pred CCC
Confidence 664
No 389
>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=63.52 E-value=27 Score=36.43 Aligned_cols=78 Identities=3% Similarity=-0.063 Sum_probs=53.4
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|+++.. +++|.......+.+++++.|..+..... ..+.......++++...++|.||+..........++.+.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT---DYDAEREADAVETLLRQRVDGLILTVADAATSPALDLLDAE 78 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC---CCCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhC
Confidence 556664 3567778889999999999998875432 12345556777788778899999864322333467778777
Q ss_pred CCC
Q 002267 264 GMT 266 (945)
Q Consensus 264 g~~ 266 (945)
|..
T Consensus 79 ~ip 81 (266)
T cd06282 79 RVP 81 (266)
T ss_pred CCC
Confidence 753
No 390
>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=63.16 E-value=25 Score=37.17 Aligned_cols=78 Identities=5% Similarity=-0.081 Sum_probs=53.9
Q ss_pred EEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHHH
Q 002267 185 EVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVAK 261 (945)
Q Consensus 185 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a~ 261 (945)
+|+++..+ ++|.......+.+++++.|.++..... ..+.......+..+...++|.||+.... +.....++.+.
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~ 77 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKALGYELISTDA---QGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAK 77 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEcC---CCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHHH
Confidence 35666643 677788889999999999998865422 1234445567888888899999987433 33345677777
Q ss_pred hCCC
Q 002267 262 SLGM 265 (945)
Q Consensus 262 ~~g~ 265 (945)
+.|.
T Consensus 78 ~~~i 81 (282)
T cd06318 78 AAGV 81 (282)
T ss_pred HCCC
Confidence 7664
No 391
>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=62.73 E-value=29 Score=38.33 Aligned_cols=84 Identities=15% Similarity=0.150 Sum_probs=56.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP- 250 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~- 250 (945)
..+.++++.+| +++.+|+....+ +...+.+.+.+++.|+.+.... +...++.+.+...++.+++.++|+||-.+.+
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~-~~~~~~v~~~l~~~~i~~~~~~-~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs 88 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL-KKSRPRFEAALAKSIIVVDVIV-FGGECSTEEVVKALCGAEEQEADVIIGVGGGK 88 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH-HHHHHHHHHHHHhcCCeeEEEE-cCCCCCHHHHHHHHHHHHhcCCCEEEEecCcH
Confidence 44566788888 888777744333 2556788889998887653332 3333466778888888888899998876543
Q ss_pred -hhHHHHHH
Q 002267 251 -DTGLTIFS 258 (945)
Q Consensus 251 -~~~~~~~~ 258 (945)
-+..+++.
T Consensus 89 ~~D~aK~ia 97 (349)
T cd08550 89 TLDTAKAVA 97 (349)
T ss_pred HHHHHHHHH
Confidence 35555553
No 392
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=62.65 E-value=1.1e+02 Score=27.11 Aligned_cols=84 Identities=10% Similarity=0.093 Sum_probs=46.8
Q ss_pred HHHcCCeEEEEEEEeCC-cccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHH
Q 002267 178 VEYYGWREVIAIFVDDD-YGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTI 256 (945)
Q Consensus 178 l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~ 256 (945)
+...|.+.|.-+-.|.+ -+......+.+++++.|+...+.=......+.+++....+.+......|.+-|-++.-+..+
T Consensus 23 la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra~~l 102 (110)
T PF04273_consen 23 LAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGAITEEDVEAFADALESLPKPVLAHCRSGTRASAL 102 (110)
T ss_dssp HHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT--HHHHHHHHHHHHTTTTSEEEE-SCSHHHHHH
T ss_pred HHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEECCCChhHHHH
Confidence 55589999988877743 35556677889999999987653222222456666666666665554566666677777666
Q ss_pred HHHHH
Q 002267 257 FSVAK 261 (945)
Q Consensus 257 ~~~a~ 261 (945)
+..++
T Consensus 103 ~~l~~ 107 (110)
T PF04273_consen 103 WALAQ 107 (110)
T ss_dssp HHHHH
T ss_pred HHHHh
Confidence 65544
No 393
>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=62.49 E-value=28 Score=36.20 Aligned_cols=78 Identities=5% Similarity=-0.080 Sum_probs=53.5
Q ss_pred EEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHHH
Q 002267 185 EVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVAK 261 (945)
Q Consensus 185 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a~ 261 (945)
+|++|..+ +.|.....+.+.+++++.|+++.....- .+.......++++...++|.||+.... ......+..+.
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~l~ 77 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDAQ---NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKKAN 77 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECCC---CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHHHH
Confidence 46777764 6788888999999999999887654222 234445577777777789999887543 33334666666
Q ss_pred hCCC
Q 002267 262 SLGM 265 (945)
Q Consensus 262 ~~g~ 265 (945)
+.+.
T Consensus 78 ~~~i 81 (267)
T cd01536 78 AAGI 81 (267)
T ss_pred HCCC
Confidence 6553
No 394
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=62.42 E-value=53 Score=34.36 Aligned_cols=71 Identities=18% Similarity=0.148 Sum_probs=43.3
Q ss_pred eHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCc-ccEEEecEEEecCcc---eeEE-ec-ccccccceEE
Q 002267 514 CIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNK-FDAAVGDITIVTNRT---KLVD-FT-QPYMESGLVV 587 (945)
Q Consensus 514 ~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~-~D~~~~~~~~t~~r~---~~~d-fs-~p~~~~~~~~ 587 (945)
.-++.+.+.++.|.++++.+- .-..+..++.+|. +|+.+.+-....++. ..+. .+ .+|....+++
T Consensus 41 ~~~l~~~Fe~~~g~~v~~~~~---------~Sg~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n~lvl 111 (257)
T PRK10677 41 LQDIAAQYKKEKGVDVVSSFA---------SSSTLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGNSLVV 111 (257)
T ss_pred HHHHHHHHHhhhCCeEEEEec---------ccHHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecCEEEE
Confidence 345677777777777555553 2347788888877 899887542222221 1221 11 3577888888
Q ss_pred EEEccC
Q 002267 588 VAPVQK 593 (945)
Q Consensus 588 vv~~~~ 593 (945)
++++..
T Consensus 112 ~~~~~~ 117 (257)
T PRK10677 112 VAPKAS 117 (257)
T ss_pred EEECCC
Confidence 888765
No 395
>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=61.47 E-value=30 Score=36.11 Aligned_cols=77 Identities=9% Similarity=0.045 Sum_probs=53.1
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|++|.. .+.|.......+++++++.|.++..... ..+.......++++.+.++|.+++..........++++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLANS---GEDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAES 78 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEecC---CCChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhc
Confidence 566664 3677778889999999999988754321 12344456677888888899998876444344577777776
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
|.
T Consensus 79 ~i 80 (268)
T cd06289 79 GI 80 (268)
T ss_pred CC
Confidence 75
No 396
>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=61.08 E-value=1.5e+02 Score=31.72 Aligned_cols=43 Identities=9% Similarity=0.017 Sum_probs=31.8
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.-.|++.+.+.+|+++++. . .+..-+...|.+|.+|+.+...
T Consensus 22 ~~~~i~~~iLE~~Gy~Ve~~--~-------~~~~~~~~al~~GdiD~~~e~W 64 (290)
T TIGR03414 22 ATTALASVLLEGLGYQPKVT--L-------LSVPVTYAGLKDGDLDVFLGNW 64 (290)
T ss_pred HHHHHHHHHHHHcCCcceeE--E-------ccHHHHHHHHHcCCceEecccc
Confidence 34467778888889987664 2 3457778889999999987653
No 397
>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=60.40 E-value=25 Score=39.63 Aligned_cols=79 Identities=11% Similarity=0.061 Sum_probs=58.1
Q ss_pred cCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc--ChhhHHHHHH
Q 002267 181 YGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV--NPDTGLTIFS 258 (945)
Q Consensus 181 ~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~--~~~~~~~~~~ 258 (945)
.+.+++.+|+.......+..+.+.+.|++.|+++.....+.+.++.+.+...+..+++.++|+||-.+ +.-++.+++.
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~iA 98 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPDPSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKIMW 98 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHHHH
Confidence 46689888875444444578889999999998876554555556778888999999999999999764 4446666665
Q ss_pred H
Q 002267 259 V 259 (945)
Q Consensus 259 ~ 259 (945)
.
T Consensus 99 ~ 99 (398)
T cd08178 99 L 99 (398)
T ss_pred H
Confidence 4
No 398
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=60.09 E-value=62 Score=32.65 Aligned_cols=89 Identities=13% Similarity=0.007 Sum_probs=59.7
Q ss_pred ChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEE
Q 002267 166 SDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFV 245 (945)
Q Consensus 166 ~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv 245 (945)
++......++.+... .++++|....+ ..+...+.++..+..+.+...-|...+..++...-+++++.++|+|+
T Consensus 111 P~ril~~lV~al~~~---~~vGVivP~~e----Q~~~~~~kW~~l~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIv 183 (221)
T PF07302_consen 111 PDRILPPLVAALVGG---HQVGVIVPLPE----QIAQQAEKWQPLGNPVVVAAASPYEGDEEELAAAARELAEQGADLIV 183 (221)
T ss_pred hHHhHHHHHHHhcCC---CeEEEEecCHH----HHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEE
Confidence 343333444444433 79999997654 34444555666666665554444335788899999999999999999
Q ss_pred EEc--ChhhHHHHHHHHH
Q 002267 246 VHV--NPDTGLTIFSVAK 261 (945)
Q Consensus 246 l~~--~~~~~~~~~~~a~ 261 (945)
+.| +.....++++++.
T Consensus 184 LDCmGYt~~~r~~~~~~~ 201 (221)
T PF07302_consen 184 LDCMGYTQEMRDIVQRAL 201 (221)
T ss_pred EECCCCCHHHHHHHHHHh
Confidence 985 6667777776654
No 399
>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=59.24 E-value=35 Score=35.62 Aligned_cols=77 Identities=9% Similarity=0.009 Sum_probs=53.5
Q ss_pred EEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHHHh
Q 002267 186 VIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVAKS 262 (945)
Q Consensus 186 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a~~ 262 (945)
|+++..+ +.|.....+.+.+++++.|.++..... ..+.......++++...++|.+|+.... ......++++++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~~---~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSIA---NQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKK 78 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHH
Confidence 4566654 677788899999999999988765321 1234455677777777899999986543 333566777777
Q ss_pred CCC
Q 002267 263 LGM 265 (945)
Q Consensus 263 ~g~ 265 (945)
.|+
T Consensus 79 ~~i 81 (267)
T cd06322 79 AGI 81 (267)
T ss_pred CCC
Confidence 664
No 400
>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=58.75 E-value=52 Score=34.25 Aligned_cols=76 Identities=12% Similarity=-0.002 Sum_probs=53.8
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|++|.. +++|-....+.+.+++++.|..+.....- .+.......++.+...++|.||+....... ..++++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~~~ 77 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNSD---ENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLLKR 77 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeCC---CCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHHhC
Confidence 566665 46777888899999999999987754321 234455677888888899999987543333 347788777
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
|.
T Consensus 78 ~i 79 (265)
T cd06299 78 GI 79 (265)
T ss_pred CC
Confidence 64
No 401
>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=58.74 E-value=32 Score=35.31 Aligned_cols=78 Identities=8% Similarity=0.065 Sum_probs=54.7
Q ss_pred EEEEEEEe---CCcccchHHHHHHHHhh--cCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHH
Q 002267 185 EVIAIFVD---DDYGRNGISVLGDALSK--KRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSV 259 (945)
Q Consensus 185 ~v~ii~~d---~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~ 259 (945)
+|++|.++ +.|+....+.+++++++ .++++.....- .+..+....++++...++++|++.........+...
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~ 77 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILADSQ---SDPERALEALRDLIQQGVDGIIGPPSSSSALAVVEL 77 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEecCC---CCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHHHH
Confidence 36777753 47778888899999999 77777654321 234566777888877789999988766555556777
Q ss_pred HHhCCC
Q 002267 260 AKSLGM 265 (945)
Q Consensus 260 a~~~g~ 265 (945)
+.+.+.
T Consensus 78 ~~~~~i 83 (269)
T cd01391 78 AAAAGI 83 (269)
T ss_pred HHHcCC
Confidence 777664
No 402
>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=58.27 E-value=33 Score=35.97 Aligned_cols=80 Identities=14% Similarity=0.125 Sum_probs=53.9
Q ss_pred EEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhh-HHHHHHHHH
Q 002267 185 EVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDT-GLTIFSVAK 261 (945)
Q Consensus 185 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~-~~~~~~~a~ 261 (945)
||++|..+ ++|.......+.+++++.|.++.....-. ..+.......++++...++|.||+...... ....++.+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~~ 79 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPAS-ETDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKEAK 79 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCcc-CCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHHH
Confidence 57777754 66777888999999999999877543211 123344556777777788999988644333 345677777
Q ss_pred hCCC
Q 002267 262 SLGM 265 (945)
Q Consensus 262 ~~g~ 265 (945)
+.|+
T Consensus 80 ~~~i 83 (273)
T cd06310 80 DAGI 83 (273)
T ss_pred HCCC
Confidence 6564
No 403
>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=58.15 E-value=47 Score=34.72 Aligned_cols=75 Identities=12% Similarity=-0.029 Sum_probs=50.1
Q ss_pred EEEEEEe-----CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHH
Q 002267 186 VIAIFVD-----DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVA 260 (945)
Q Consensus 186 v~ii~~d-----~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a 260 (945)
|+++.++ +.|.....+.+++++++.|..+..... . .........+..+...++|.||+...... ..+..+
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~--~~~~~l 76 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKFV-S--DEDEEEFELPSFLEDGKVDGIILLGGIST--EYIKEI 76 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEeC-C--CChHHHHHHHHHHHHCCCCEEEEeCCCCh--HHHHHH
Confidence 5666655 778888899999999999988765432 2 22333445566666778999998764333 236667
Q ss_pred HhCCC
Q 002267 261 KSLGM 265 (945)
Q Consensus 261 ~~~g~ 265 (945)
.+.|.
T Consensus 77 ~~~~i 81 (268)
T cd06277 77 KELGI 81 (268)
T ss_pred hhcCC
Confidence 76664
No 404
>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=57.72 E-value=28 Score=36.84 Aligned_cols=80 Identities=11% Similarity=0.081 Sum_probs=51.8
Q ss_pred EEEEEEEe---CCcccchHHHHHHHHhhcCcEEEEeecCCCC-CChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHH
Q 002267 185 EVIAIFVD---DDYGRNGISVLGDALSKKRAKISYKAPFSPG-ASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVA 260 (945)
Q Consensus 185 ~v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a 260 (945)
+|++|..+ ++|.....+.+.+++++.|..+......+.. .+.......++.+...++|.||+..........++.+
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l 80 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERV 80 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHH
Confidence 37778764 4677778889999999999876543211110 1234445677788788999999875433334556666
Q ss_pred HhCC
Q 002267 261 KSLG 264 (945)
Q Consensus 261 ~~~g 264 (945)
.+.+
T Consensus 81 ~~~~ 84 (280)
T cd06303 81 LASG 84 (280)
T ss_pred HhCC
Confidence 6655
No 405
>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=57.55 E-value=42 Score=35.13 Aligned_cols=77 Identities=8% Similarity=0.012 Sum_probs=52.8
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|++|.. ++.|-....+.+.+.+++.|..+.....- .+.......++.+...+.+.||+.........+++.+++.
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~ 78 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANSL---NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALASL 78 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeCC---CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhC
Confidence 566764 46777888899999999999987654321 2344456677778778899888865433334566677665
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
+.
T Consensus 79 ~i 80 (269)
T cd06281 79 DL 80 (269)
T ss_pred CC
Confidence 54
No 406
>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=57.52 E-value=33 Score=36.62 Aligned_cols=79 Identities=5% Similarity=0.047 Sum_probs=52.5
Q ss_pred EEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHHH
Q 002267 185 EVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVAK 261 (945)
Q Consensus 185 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a~ 261 (945)
||++|..+ +.|-......+.+++++.|..+.... ....+.......+..+...++|.||+.... ......++++.
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~--~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~~~ 78 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATT--DAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKKVA 78 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEec--CCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHHHH
Confidence 46666643 45666778889999999998876331 111234445567777777889988886433 22456778888
Q ss_pred hCCC
Q 002267 262 SLGM 265 (945)
Q Consensus 262 ~~g~ 265 (945)
+.|.
T Consensus 79 ~~~i 82 (294)
T cd06316 79 EAGI 82 (294)
T ss_pred HcCC
Confidence 7775
No 407
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=57.52 E-value=66 Score=31.10 Aligned_cols=91 Identities=19% Similarity=0.299 Sum_probs=53.6
Q ss_pred HHHHHhc--CcEEEEccCChh---HHHHHHHhhcccCccEEecccCCCCCCCCC-CCceEEecCChhHHHHHHHHHHHHc
Q 002267 108 ALQLMEN--EVVAAIGPQSSG---IAHVISHVVNELNVPLLSFGATDPTLTSLQ-YPYFLRTTQSDYYQMHAVADLVEYY 181 (945)
Q Consensus 108 a~~li~~--~v~aiiGp~~s~---~~~~va~~~~~~~iP~Is~~a~~~~ls~~~-~p~~~r~~p~d~~~~~ai~~~l~~~ 181 (945)
+.+++.+ +.+.++|..... ....+.++++..++|+++-..+...+.++. .|. ......+..++..-
T Consensus 27 aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~kgv~~~--------~~~lg~lg~~~~~p 98 (171)
T PRK00945 27 AAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLIDKGVDAK--------YINLHELTNYLKDP 98 (171)
T ss_pred HHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccccccccccCCccCC--------cccHHHHHhhccCc
Confidence 3344443 899999987644 667789999999999998555455555432 121 11223444444433
Q ss_pred CC---------eEEEEEEEeCCcccchHHHHHHH
Q 002267 182 GW---------REVIAIFVDDDYGRNGISVLGDA 206 (945)
Q Consensus 182 ~w---------~~v~ii~~d~~~g~~~~~~l~~~ 206 (945)
+| .-|.++..+..|....+..++.-
T Consensus 99 ~~e~~~g~~~~DlvlfvG~~~~~~~~~l~~lk~f 132 (171)
T PRK00945 99 NWKGLDGNGNYDLVIFIGVTYYYASQGLSALKHF 132 (171)
T ss_pred hhhhhcCCCCcCEEEEecCCchhHHHHHHHHhhc
Confidence 33 34455556666666555555543
No 408
>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=57.09 E-value=42 Score=37.02 Aligned_cols=85 Identities=8% Similarity=0.163 Sum_probs=56.4
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCC--CChHHHHHHHHhhccCCceEEEEEcC
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPG--ASRSAINSLLVGANLMESRVFVVHVN 249 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~--~~~~d~~~~l~~l~~~~~~vivl~~~ 249 (945)
..+.++++.++.+++.+|++...+.. ..+.+.+.+++.|+++......... ++.+.+...++.+++ ++|+||-.+.
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 34667778788899888874333322 3578888999999866433333322 566777788888877 8999987654
Q ss_pred --hhhHHHHHH
Q 002267 250 --PDTGLTIFS 258 (945)
Q Consensus 250 --~~~~~~~~~ 258 (945)
.-++.+++.
T Consensus 90 Gs~~D~aK~vA 100 (348)
T cd08175 90 GTINDITKYVS 100 (348)
T ss_pred cHHHHHHHHHH
Confidence 445555554
No 409
>cd08422 PBP2_CrgA_like The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain. This CD includes the substrate binding domain of LysR-type transcriptional regulator (LTTR) CrgA and its related homologs. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis further showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own
Probab=57.05 E-value=61 Score=31.20 Aligned_cols=66 Identities=14% Similarity=0.082 Sum_probs=39.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
++-.+++..+.++.+ .+++++.. . +.+. .+.+|++|+++... ......+. +.++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~-------~--~~~~-~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 78 (197)
T cd08422 14 LHLAPLLAEFLARYP-DVRLELVL-------S--DRLV-DLVEEGFDLAIRIG---ELPDSSLV-ARRLGPVRRVLVASP 78 (197)
T ss_pred HHHHHHHHHHHHhCC-ceEEEEec-------C--cccc-chhhcCccEEEEeC---CCCCcchh-hhhhhccCcEEEECH
Confidence 456778888888775 34555542 1 1233 45678899998532 11122232 456777777777765
Q ss_pred c
Q 002267 592 Q 592 (945)
Q Consensus 592 ~ 592 (945)
.
T Consensus 79 ~ 79 (197)
T cd08422 79 A 79 (197)
T ss_pred H
Confidence 4
No 410
>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=56.61 E-value=50 Score=34.87 Aligned_cols=79 Identities=11% Similarity=-0.004 Sum_probs=54.6
Q ss_pred eEEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhh-HHHHHHHH
Q 002267 184 REVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDT-GLTIFSVA 260 (945)
Q Consensus 184 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~-~~~~~~~a 260 (945)
|+|++|..+ ++|.......+.+++++.|..+..... ..+.+.....++.+...++|.||+...... ....++.+
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~ 77 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILDG---RGSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELELA 77 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHH
Confidence 467888764 667777889999999999988765422 124455567888888889999999754322 23455666
Q ss_pred HhCCC
Q 002267 261 KSLGM 265 (945)
Q Consensus 261 ~~~g~ 265 (945)
.+.+.
T Consensus 78 ~~~~i 82 (280)
T cd06315 78 QKAGI 82 (280)
T ss_pred HHCCC
Confidence 66554
No 411
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=56.42 E-value=43 Score=34.98 Aligned_cols=78 Identities=8% Similarity=-0.027 Sum_probs=51.4
Q ss_pred EEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|++|..+ +.|.....+.+.+++++.|.++.....-. .........++.+...++|.+|+..........++.+.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 79 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPCDS--GSPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEA 79 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeCCC--CchHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhc
Confidence 5666644 67888899999999999998876543221 1222455666667778899888864322234566666666
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
|+
T Consensus 80 ~i 81 (270)
T cd01545 80 GV 81 (270)
T ss_pred CC
Confidence 64
No 412
>PF01634 HisG: ATP phosphoribosyltransferase; InterPro: IPR013820 ATP phosphoribosyltransferase (2.4.2.17 from EC) is the enzyme that catalyzes the first step in the biosynthesis of histidine in bacteria, fungi and plants as shown below. It is a member of the larger phosphoribosyltransferase superfamily of enzymes which catalyse the condensation of 5-phospho-alpha-D-ribose 1-diphosphate with nitrogenous bases in the presence of divalent metal ions []. ATP + 5-phospho-alpha-D-ribose 1-diphosphate = 1-(5-phospho-D-ribosyl)-ATP + diphosphate Histidine biosynthesis is an energetically expensive process and ATP phosphoribosyltransferase activity is subject to control at several levels. Transcriptional regulation is based primarily on nutrient conditions and determines the amount of enzyme present in the cell, while feedback inihibition rapidly modulates activity in response to cellular conditions. The enzyme has been shown to be inhibited by 1-(5-phospho-D-ribosyl)-ATP, histidine, ppGpp (a signal associated with adverse environmental conditions) and ADP and AMP (which reflect the overall energy status of the cell). As this pathway of histidine biosynthesis is present only in prokayrotes, plants and fungi, this enzyme is a promising target for the development of novel antimicrobial compounds and herbicides. ATP phosphoribosyltransferase is found in two distinct forms: a long form containing two catalytic domains and a C-terminal regulatory domain, and a short form in which the regulatory domain is missing. The long form is catalytically competent, but in organisms with the short form, a histidyl-tRNA synthetase paralogue, HisZ, is required for enzyme activity []. This entry represents the catalytic region of this enzyme. The structures of the long form enzymes from Escherichia coli (P60757 from SWISSPROT) and Mycobacterium tuberculosis (P60759 from SWISSPROT) have been determined [, ]. The enzyme itself exists in equilibrium between an active dimeric form, an inactive hexameric form and higher aggregates. Interconversion between the various forms is largely reversible and is influenced by the binding of the natural substrates and inhibitors of the enzyme. The two catalytic domains are linked by a two-stranded beta-sheet and togther form a "periplasmic binding protein fold". A crevice between these domains contains the active site. The C-terminal domain is not directly involved in catalysis but appears to be involved the formation of hexamers, induced by the binding of inhibitors such as histidine to the enzyme, thus regulating activity.; GO: 0003879 ATP phosphoribosyltransferase activity, 0000105 histidine biosynthetic process, 0005737 cytoplasm; PDB: 1VE4_A 2VD3_B 1NH7_A 1NH8_A 1Z7N_G 1Z7M_E 1O64_A 1O63_A 1USY_F 1Q1K_A ....
Probab=56.12 E-value=15 Score=35.15 Aligned_cols=101 Identities=16% Similarity=0.193 Sum_probs=59.5
Q ss_pred CCCChHHhhcCCCCeEEeeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCcc
Q 002267 701 QIEGIDSLISSTEPIGVQDGSFAWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCE 780 (945)
Q Consensus 701 ~i~~~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~ 780 (945)
.+++++||.+ +++|+...-.....||.+ .+.+ .+++.....-|..-.+ |-.|++++-.......-++ +
T Consensus 57 ~~~~~~~l~~-~~rIATkyp~l~~~yf~~-~g~~-~~ii~l~GsvE~ap~~------glAD~IvDiv~TG~TLr~N---g 124 (163)
T PF01634_consen 57 PYKSVEDLKA-GLRIATKYPNLTRRYFAE-KGIN-VEIIKLSGSVELAPPL------GLADAIVDIVETGTTLRAN---G 124 (163)
T ss_dssp CGCCGGGGSS-TEEEEES-HHHHHHHHHH-CT-E-EEEEE-SS-TTHHHHT------TSSSEEEEEESSSHHHHHT---T
T ss_pred CCCCHHHhcc-CCEEEECCHHHHHHHHHH-cCCc-EEEEEccCCccccCCC------CCCCEEEEeccCcHHHHHC---C
Confidence 3677888864 677888777778888853 4433 5566666666655444 6789999887776665555 5
Q ss_pred EEEeCccccccceEEEecCCCc--chHHHHHHHHhc
Q 002267 781 FRTVGQEFTKSGWGFAFQRDSP--LAIDLSTAILQL 814 (945)
Q Consensus 781 ~~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~i~~l 814 (945)
|.+++..+. ..-.+...+.+- -.+.++..+.+|
T Consensus 125 L~~i~~i~~-s~a~LI~n~~~~~~k~~~i~~l~~~l 159 (163)
T PF01634_consen 125 LKEIETILE-SSARLIANKASLKEKEEKIDELVTRL 159 (163)
T ss_dssp EEEEEEEEE-EEEEEEEEHHHHHHCHHHHHHHHHHH
T ss_pred CEEeEEEEE-EEEEEEEcCccchhhHHHHHHHHHHH
Confidence 666644443 444455544442 233455555544
No 413
>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=55.35 E-value=42 Score=35.90 Aligned_cols=78 Identities=13% Similarity=0.057 Sum_probs=53.9
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHHHh
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVAKS 262 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a~~ 262 (945)
|++|.. ++.|.......+++++++.|..+....... .+.......++.+...++|.||+.... .....+++++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~~~~--~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~ 79 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVGPTT--ADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKARE 79 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEECCCC--CCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHH
Confidence 566653 467778888999999999999876431111 344555677777777889999986433 334667778877
Q ss_pred CCC
Q 002267 263 LGM 265 (945)
Q Consensus 263 ~g~ 265 (945)
.|+
T Consensus 80 ~~i 82 (298)
T cd06302 80 AGI 82 (298)
T ss_pred CCC
Confidence 665
No 414
>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=55.29 E-value=29 Score=38.70 Aligned_cols=80 Identities=6% Similarity=-0.026 Sum_probs=56.7
Q ss_pred HcCCeEEEEEEEeCCcc-cchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC--hhhHHHH
Q 002267 180 YYGWREVIAIFVDDDYG-RNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN--PDTGLTI 256 (945)
Q Consensus 180 ~~~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~--~~~~~~~ 256 (945)
.++.+++.+|+....+- .+..+.+.+.|++.|+++.....+.+.++.+.+...++.+++.++|+||-.+. .-++.+.
T Consensus 20 ~~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK~ 99 (375)
T cd08179 20 TLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIALGGGSPIDAAKA 99 (375)
T ss_pred HhcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHH
Confidence 34458888887544333 35567889999999988765444555567788899999999999999998754 4466665
Q ss_pred HHH
Q 002267 257 FSV 259 (945)
Q Consensus 257 ~~~ 259 (945)
+..
T Consensus 100 ia~ 102 (375)
T cd08179 100 MWI 102 (375)
T ss_pred HHH
Confidence 543
No 415
>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=55.16 E-value=43 Score=32.75 Aligned_cols=74 Identities=20% Similarity=0.228 Sum_probs=48.9
Q ss_pred CCCChHHhhcCCCCeEEeeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCcc
Q 002267 701 QIEGIDSLISSTEPIGVQDGSFAWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCE 780 (945)
Q Consensus 701 ~i~~~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~ 780 (945)
.+++.+||. +++|+.........|+. +.+++ .++++....-|..-. . |-.|++++-......+.++ +
T Consensus 100 ~~~~~~~l~--~~rIATkyp~i~~~~f~-~~Gi~-v~ii~l~GsvE~aP~--~----GlaD~IvDiv~TG~TL~~N---g 166 (182)
T TIGR00070 100 DISSVEDLK--GKRIATKYPNLARRYFE-KKGID-VEIIKLNGSVELAPL--L----GLADAIVDIVSTGTTLREN---G 166 (182)
T ss_pred CCCChHHhC--CCEEEECCHHHHHHHHH-HcCCe-EEEEECcceeecccC--C----CceeEEEEEeCCHHHHHHC---C
Confidence 467788886 88899887778888885 45553 556666555554222 3 7889998887776666555 4
Q ss_pred EEEeCcc
Q 002267 781 FRTVGQE 787 (945)
Q Consensus 781 ~~~~~~~ 787 (945)
|.++.+.
T Consensus 167 L~~ie~i 173 (182)
T TIGR00070 167 LRIIEVI 173 (182)
T ss_pred CEEeeEE
Confidence 5555433
No 416
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=54.82 E-value=3.9e+02 Score=30.90 Aligned_cols=140 Identities=11% Similarity=0.114 Sum_probs=75.5
Q ss_pred EEccCChhHHHHHHHhhc-ccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcc-
Q 002267 119 AIGPQSSGIAHVISHVVN-ELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIFVDDDYG- 196 (945)
Q Consensus 119 iiGp~~s~~~~~va~~~~-~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g- 196 (945)
|++|.+.....++..+.+ ...+=+|.++. . | ++|. +.....+...++.....-+++.|+|. +.||
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~H-G--------~-i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~-S~~Gn 264 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSH-G--------V-VWRD--NPTQIVELYLKWAADYQEDRITIFYD-TMSNN 264 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC-C--------c-eEeC--CHHHHHHHHHHHhhccCcCcEEEEEE-CCccH
Confidence 788887776666666554 23444554322 1 2 2452 22222233333333334578999984 3444
Q ss_pred -cchHHHHHHHHhhc--CcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh------hhHHHHHHHHHhCCCCC
Q 002267 197 -RNGISVLGDALSKK--RAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP------DTGLTIFSVAKSLGMTA 267 (945)
Q Consensus 197 -~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~------~~~~~~~~~a~~~g~~~ 267 (945)
+..++.+.+.+++. |+++.... +. ..+...++..+ .+++.|++.++. +....++.......+.+
T Consensus 265 Te~mA~~ia~gl~~~g~gv~v~~~~-v~----~~~~~~i~~~~--~~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~g 337 (479)
T PRK05452 265 TRMMADAIAQGIAEVDPRVAVKIFN-VA----RSDKNEILTNV--FRSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFRN 337 (479)
T ss_pred HHHHHHHHHHHHHhhCCCceEEEEE-CC----CCCHHHHHhHH--hhCCEEEEECCccCCcchHHHHHHHHHhhccCcCC
Confidence 56688899999877 45544322 22 22334444444 356788887532 34566666666666555
Q ss_pred CCeEEEEeCCC
Q 002267 268 GSYVWIATDWL 278 (945)
Q Consensus 268 ~~~~wi~~~~~ 278 (945)
+....+++-+|
T Consensus 338 K~~~vFGSygw 348 (479)
T PRK05452 338 KRASAFGSHGW 348 (479)
T ss_pred CEEEEEECCCc
Confidence 44444554443
No 417
>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=54.59 E-value=87 Score=28.34 Aligned_cols=70 Identities=14% Similarity=0.086 Sum_probs=44.0
Q ss_pred EEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC----hhhHHHHHHHHHhCCC
Q 002267 190 FVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN----PDTGLTIFSVAKSLGM 265 (945)
Q Consensus 190 ~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~----~~~~~~~~~~a~~~g~ 265 (945)
...++.-.-+..-+...++..|.+|.+--.. .+.+ ..+..+.+.+|++|++++. ...+..+++++++.|.
T Consensus 6 ~~~gd~H~lG~~~~~~~l~~~G~~vi~lG~~---vp~e---~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 6 KPGLDGHDRGAKVIARALRDAGFEVIYTGLR---QTPE---EIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred ecCCChhHHHHHHHHHHHHHCCCEEEECCCC---CCHH---HHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 3344444455666777888999988764332 2233 4555556678999999864 3455666667777654
No 418
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional
Probab=54.39 E-value=1.8e+02 Score=30.90 Aligned_cols=63 Identities=10% Similarity=0.059 Sum_probs=36.3
Q ss_pred HHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 515 IDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 515 ~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
.+++..+.+..+ .+++++.. . .....+.+|++|+++... ......+. +.|+....+++++++.
T Consensus 110 ~~~l~~f~~~~p-~i~i~l~~-------~---~~~~~l~~g~~Dl~i~~~---~~~~~~l~-~~~l~~~~~~~~~~~~ 172 (297)
T PRK11139 110 VPRLSSFNEAHP-DIDVRLKA-------V---DRLEDFLRDDVDVAIRYG---RGNWPGLR-VEKLLDEYLLPVCSPA 172 (297)
T ss_pred HHHHHHHHHHCC-CceEEEEe-------C---CChhhhccCCCCEEEEeC---CCCCCCce-EEEeccceeEEEeCHH
Confidence 456666666544 34555542 1 124678899999998532 22222233 4677777777776543
No 419
>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=53.88 E-value=33 Score=37.57 Aligned_cols=80 Identities=5% Similarity=-0.039 Sum_probs=54.1
Q ss_pred HHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC--hhhHHHH
Q 002267 179 EYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN--PDTGLTI 256 (945)
Q Consensus 179 ~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~--~~~~~~~ 256 (945)
+.++.+++.+|+....+..+..+.+.+.+++. +.+.....+.++++.+.+...+..+++.++|+||-.+. .-++.+.
T Consensus 18 ~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~D~aKa 96 (332)
T cd08180 18 KELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPDPPIEVVAKGIKKFLDFKPDIVIALGGGSAIDAAKA 96 (332)
T ss_pred HHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEECCchHHHHHHH
Confidence 45556899888855444444678888888876 55543334444466778888889998899999997643 4455555
Q ss_pred HHH
Q 002267 257 FSV 259 (945)
Q Consensus 257 ~~~ 259 (945)
+..
T Consensus 97 ~a~ 99 (332)
T cd08180 97 IIY 99 (332)
T ss_pred HHH
Confidence 433
No 420
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=53.84 E-value=89 Score=34.60 Aligned_cols=92 Identities=7% Similarity=-0.061 Sum_probs=59.4
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEe--ecCCCCCChHHHHHHHHhhccCCc---eEEEE
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYK--APFSPGASRSAINSLLVGANLMES---RVFVV 246 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~--~~~~~~~~~~d~~~~l~~l~~~~~---~vivl 246 (945)
..+.++++.++++++.+|++... .....+.+.+.+++.|+.+... ....+..+.+.+...++.+++.++ |+||.
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIa 98 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVVVLPDGEQYKSLETLEKIYDALLEAGLDRSDTLIA 98 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 34566677778899988885444 3457788888999888865421 122223466777888888876654 88887
Q ss_pred EcC--hhhHHHHHHHHHhCC
Q 002267 247 HVN--PDTGLTIFSVAKSLG 264 (945)
Q Consensus 247 ~~~--~~~~~~~~~~a~~~g 264 (945)
.+. .-++..++......|
T Consensus 99 vGGGsv~D~aK~iA~~~~~g 118 (358)
T PRK00002 99 LGGGVIGDLAGFAAATYMRG 118 (358)
T ss_pred EcCcHHHHHHHHHHHHhcCC
Confidence 654 346666655444444
No 421
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=53.84 E-value=61 Score=35.40 Aligned_cols=80 Identities=11% Similarity=0.015 Sum_probs=55.4
Q ss_pred CeEEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHH
Q 002267 183 WREVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVA 260 (945)
Q Consensus 183 w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a 260 (945)
-+.|+++..+ ++|.......+.+++++.|..+..... ..+.......++.+...++|.||+..........+..+
T Consensus 64 ~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 140 (342)
T PRK10014 64 SGVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQG---GKDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMA 140 (342)
T ss_pred CCEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHH
Confidence 3578888864 677788889999999999987654321 12344556777888788899999875433334566777
Q ss_pred HhCCC
Q 002267 261 KSLGM 265 (945)
Q Consensus 261 ~~~g~ 265 (945)
.+.|.
T Consensus 141 ~~~~i 145 (342)
T PRK10014 141 EEKGI 145 (342)
T ss_pred hhcCC
Confidence 76664
No 422
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=53.61 E-value=51 Score=35.14 Aligned_cols=80 Identities=3% Similarity=-0.047 Sum_probs=55.4
Q ss_pred CeEEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChh-hHHHHHHH
Q 002267 183 WREVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPD-TGLTIFSV 259 (945)
Q Consensus 183 w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~-~~~~~~~~ 259 (945)
-+.++++..+ ++|.......+.+++++.|+++...... .+.......++++...++|++++..... .....++.
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~~---~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~ 102 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDSQ---NNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKM 102 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecCC---CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHH
Confidence 5678888753 6677888999999999999988653221 2344455677777777899888765433 33456777
Q ss_pred HHhCCC
Q 002267 260 AKSLGM 265 (945)
Q Consensus 260 a~~~g~ 265 (945)
+++.|.
T Consensus 103 ~~~~~i 108 (295)
T PRK10653 103 ANQANI 108 (295)
T ss_pred HHHCCC
Confidence 777664
No 423
>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=53.59 E-value=58 Score=34.00 Aligned_cols=76 Identities=8% Similarity=-0.062 Sum_probs=51.7
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|++|.. +++|.....+.+.+++++.|..+.....- .+.+.-...++.+...++|.||+....... ..++++.+.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~~~ 77 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAGH---HSAEKEREAIEFLLERRCDALILHSKALSD-DELIELAAQ 77 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeCC---CchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhC
Confidence 455553 47788888999999999999987754321 233444567778778899999987543222 226777766
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
|.
T Consensus 78 ~i 79 (268)
T cd06270 78 VP 79 (268)
T ss_pred CC
Confidence 64
No 424
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=53.59 E-value=57 Score=35.64 Aligned_cols=80 Identities=10% Similarity=-0.025 Sum_probs=57.8
Q ss_pred CeEEEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhh-HHHHHHH
Q 002267 183 WREVIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDT-GLTIFSV 259 (945)
Q Consensus 183 w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~-~~~~~~~ 259 (945)
-.+|+++.. +++|.......+++++++.|..+..... ..+.......++.+...++|.||+...... ....++.
T Consensus 25 ~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~---~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~~ 101 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSA---NGNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVIKE 101 (330)
T ss_pred CceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHHHH
Confidence 467888774 4788889999999999999998775422 134455667888888889999998754322 3455677
Q ss_pred HHhCCC
Q 002267 260 AKSLGM 265 (945)
Q Consensus 260 a~~~g~ 265 (945)
+.+.|.
T Consensus 102 ~~~~~i 107 (330)
T PRK10355 102 AKQEGI 107 (330)
T ss_pred HHHCCC
Confidence 776663
No 425
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=53.50 E-value=64 Score=34.99 Aligned_cols=81 Identities=7% Similarity=-0.035 Sum_probs=52.9
Q ss_pred CCeEEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHH
Q 002267 182 GWREVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSV 259 (945)
Q Consensus 182 ~w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~ 259 (945)
.-+.|+++..+ ++|.......+.+++++.|..+.....- .+...-...++.+...++|.||+..........+++
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~ 136 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACSD---DQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQR 136 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHHH
Confidence 34578888753 5677778889999999999987654321 123333456777777789999886432222345666
Q ss_pred HHhCCC
Q 002267 260 AKSLGM 265 (945)
Q Consensus 260 a~~~g~ 265 (945)
+.+.|+
T Consensus 137 l~~~~i 142 (328)
T PRK11303 137 LQNDGL 142 (328)
T ss_pred HHhcCC
Confidence 666564
No 426
>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=52.27 E-value=1.4e+02 Score=28.67 Aligned_cols=34 Identities=15% Similarity=0.415 Sum_probs=28.1
Q ss_pred CcEEEEccCCh--hHHHHHHHhhcccCccEEecccC
Q 002267 115 EVVAAIGPQSS--GIAHVISHVVNELNVPLLSFGAT 148 (945)
Q Consensus 115 ~v~aiiGp~~s--~~~~~va~~~~~~~iP~Is~~a~ 148 (945)
+++.++|+... .....+..+++..++|+++-...
T Consensus 29 RPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~ 64 (162)
T TIGR00315 29 RPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADT 64 (162)
T ss_pred CcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCcc
Confidence 89999998764 77888899999999999975433
No 427
>PF14981 FAM165: FAM165 family
Probab=52.14 E-value=31 Score=24.51 Aligned_cols=33 Identities=18% Similarity=0.093 Sum_probs=28.1
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 002267 849 LKSFWGLFLICGIACFLALIFFFCRVCGQFRRF 881 (945)
Q Consensus 849 l~~~~g~f~i~~~g~~lal~vf~~e~~~~~~~~ 881 (945)
++++-.++||++.-.++-++.|..--+|++++.
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~krl 35 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKRL 35 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 567788999999999999999998888888775
No 428
>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=51.84 E-value=59 Score=33.65 Aligned_cols=75 Identities=11% Similarity=-0.103 Sum_probs=50.9
Q ss_pred EEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|+++..+ +.|.....+.+++++++.|.++..... ..+.......++++...++|.+|+...... ..++..+.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~~~ 77 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQMLLMNT---NFSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIKKL 77 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCEEEEEeC---CCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHhcC
Confidence 5666654 566677889999999999998865422 124455567778888889999998754322 3455666655
Q ss_pred C
Q 002267 264 G 264 (945)
Q Consensus 264 g 264 (945)
|
T Consensus 78 ~ 78 (259)
T cd01542 78 N 78 (259)
T ss_pred C
Confidence 5
No 429
>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=51.84 E-value=52 Score=34.42 Aligned_cols=77 Identities=6% Similarity=-0.017 Sum_probs=52.9
Q ss_pred EEEEEE---eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHHH
Q 002267 186 VIAIFV---DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVAK 261 (945)
Q Consensus 186 v~ii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a~ 261 (945)
|++|.. +++|.....+.+.+++++.|+.+..... ..+.......++.+...++|.|++.... +.....++.+.
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~ 78 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLDA---NGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAK 78 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEcC---CcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHH
Confidence 556664 4578888899999999999998775422 1244445566777777889999886543 33345667777
Q ss_pred hCCC
Q 002267 262 SLGM 265 (945)
Q Consensus 262 ~~g~ 265 (945)
+.|.
T Consensus 79 ~~~i 82 (275)
T cd06317 79 QAGI 82 (275)
T ss_pred HCCC
Confidence 7665
No 430
>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=51.25 E-value=50 Score=34.57 Aligned_cols=80 Identities=4% Similarity=-0.049 Sum_probs=52.6
Q ss_pred EEEEEEE--eCCcccchHHHHHHHHhhc---CcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHH
Q 002267 185 EVIAIFV--DDDYGRNGISVLGDALSKK---RAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFS 258 (945)
Q Consensus 185 ~v~ii~~--d~~~g~~~~~~l~~~l~~~---g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~ 258 (945)
||+++.. ++.|-....+.+.+++++. |.++.... +....+.......++++...++|.||+.... ......+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i-~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~ 79 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIV-TSADGDVAQQIADIRNLIAQGVDAIIINPASPTALNPVIE 79 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEE-ecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHHHH
Confidence 4666664 3567777888999999999 87432211 1211244556778888888899999997543 33345677
Q ss_pred HHHhCCC
Q 002267 259 VAKSLGM 265 (945)
Q Consensus 259 ~a~~~g~ 265 (945)
.+++.|.
T Consensus 80 ~~~~~~i 86 (272)
T cd06300 80 EACEAGI 86 (272)
T ss_pred HHHHCCC
Confidence 7777664
No 431
>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=51.09 E-value=49 Score=34.40 Aligned_cols=77 Identities=3% Similarity=-0.067 Sum_probs=52.7
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChh-hHHHHHHHHHh
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPD-TGLTIFSVAKS 262 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~-~~~~~~~~a~~ 262 (945)
|++|.. ++.|.......+.+++++.|..+... +...+..+....++++...++|.|++..... .....++.+.+
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~---~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~ 78 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYELTVL---DAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANE 78 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCceEEec---CCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHH
Confidence 455554 46788888999999999999888643 2123445566788888778899988864332 23456777776
Q ss_pred CCC
Q 002267 263 LGM 265 (945)
Q Consensus 263 ~g~ 265 (945)
.|.
T Consensus 79 ~~i 81 (268)
T cd06323 79 AGI 81 (268)
T ss_pred CCC
Confidence 664
No 432
>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=50.98 E-value=27 Score=31.37 Aligned_cols=86 Identities=17% Similarity=0.121 Sum_probs=46.4
Q ss_pred eEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhc--cCCceEEEEEcChhhHHHHHHHHH
Q 002267 184 REVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGAN--LMESRVFVVHVNPDTGLTIFSVAK 261 (945)
Q Consensus 184 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~--~~~~~vivl~~~~~~~~~~~~~a~ 261 (945)
|+|++|...+.-+. ....+.+.+.+.|.+|... .+..+.-+=......+. ...+|.++++..+.....+++++.
T Consensus 1 ksiAVvGaS~~~~~-~g~~v~~~l~~~G~~v~~V---np~~~~i~G~~~y~sl~e~p~~iDlavv~~~~~~~~~~v~~~~ 76 (116)
T PF13380_consen 1 KSIAVVGASDNPGK-FGYRVLRNLKAAGYEVYPV---NPKGGEILGIKCYPSLAEIPEPIDLAVVCVPPDKVPEIVDEAA 76 (116)
T ss_dssp -EEEEET--SSTTS-HHHHHHHHHHHTT-EEEEE---STTCSEETTEE-BSSGGGCSST-SEEEE-S-HHHHHHHHHHHH
T ss_pred CEEEEEcccCCCCC-hHHHHHHHHHhCCCEEEEE---CCCceEECcEEeeccccCCCCCCCEEEEEcCHHHHHHHHHHHH
Confidence 57888875443333 2344445555588776543 21111100011222333 367899999999999999999999
Q ss_pred hCCCCCCCeEEEEeC
Q 002267 262 SLGMTAGSYVWIATD 276 (945)
Q Consensus 262 ~~g~~~~~~~wi~~~ 276 (945)
++| -+.+|+.+.
T Consensus 77 ~~g---~~~v~~~~g 88 (116)
T PF13380_consen 77 ALG---VKAVWLQPG 88 (116)
T ss_dssp HHT----SEEEE-TT
T ss_pred HcC---CCEEEEEcc
Confidence 988 456999876
No 433
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=50.94 E-value=59 Score=34.88 Aligned_cols=78 Identities=14% Similarity=0.180 Sum_probs=53.6
Q ss_pred EEEEEEEe--CCcccchHHHHHHHHhh--cCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc-ChhhHHHHHHH
Q 002267 185 EVIAIFVD--DDYGRNGISVLGDALSK--KRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV-NPDTGLTIFSV 259 (945)
Q Consensus 185 ~v~ii~~d--~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~-~~~~~~~~~~~ 259 (945)
+|++|..+ +.|.......+.+++++ .|.++..... ..+.......++++...++|.||+.. .+......+++
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~~---~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~ 77 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYDA---KNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVINK 77 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHHHH
Confidence 46677654 56777778899999999 7877664422 23444455678888888999888864 33334677788
Q ss_pred HHhCCC
Q 002267 260 AKSLGM 265 (945)
Q Consensus 260 a~~~g~ 265 (945)
+.+.|+
T Consensus 78 ~~~~gi 83 (303)
T cd01539 78 AKQKNI 83 (303)
T ss_pred HHHCCC
Confidence 877675
No 434
>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=50.87 E-value=2.3e+02 Score=27.10 Aligned_cols=70 Identities=17% Similarity=0.176 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEc
Q 002267 512 GYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPV 591 (945)
Q Consensus 512 G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~ 591 (945)
.+..+++..+.++.+ .+++.+.. ++..++..++.+|++|+++.... .....+ .+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 80 (198)
T cd08447 13 SFLPRLLAAARAALP-DVDLVLRE-------MVTTDQIEALESGRIDLGLLRPP---FARPGL-ETRPLVREPLVAAVPA 80 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCceEEEecCC---CCCCCe-eEEEeecCceEEEecC
Confidence 466788888888875 24566654 56889999999999999985321 111222 2356677777777765
Q ss_pred cC
Q 002267 592 QK 593 (945)
Q Consensus 592 ~~ 593 (945)
..
T Consensus 81 ~~ 82 (198)
T cd08447 81 GH 82 (198)
T ss_pred CC
Confidence 54
No 435
>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=50.85 E-value=50 Score=34.60 Aligned_cols=77 Identities=8% Similarity=-0.092 Sum_probs=51.8
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhh-HHHHHHHHHh
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDT-GLTIFSVAKS 262 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~-~~~~~~~a~~ 262 (945)
|++|.. +++|.......+.+++++.|.++..... ..+.......++++...++|.||+...... ....+..+.+
T Consensus 2 i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~~~ 78 (277)
T cd06319 2 IAYIVSDLRIPFWQIMGRGVKSKAKALGYDAVELSA---ENSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLAAQ 78 (277)
T ss_pred eEEEeCCCCchHHHHHHHHHHHHHHhcCCeEEEecC---CCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHHHH
Confidence 566664 3677788889999999999988764321 123344456777777788999987653332 3456777777
Q ss_pred CCC
Q 002267 263 LGM 265 (945)
Q Consensus 263 ~g~ 265 (945)
.|.
T Consensus 79 ~~i 81 (277)
T cd06319 79 AKI 81 (277)
T ss_pred CCC
Confidence 664
No 436
>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=50.78 E-value=44 Score=35.41 Aligned_cols=77 Identities=16% Similarity=0.121 Sum_probs=53.9
Q ss_pred EEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHHH
Q 002267 185 EVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVAK 261 (945)
Q Consensus 185 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a~ 261 (945)
+|++|..+ ++|.....+.+.+++++.|..+... ... +.......++++...++|.||+.... .....+++++.
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~---~~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~ 76 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKI---DVP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKAK 76 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEc---cCC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHHH
Confidence 36666653 5677788899999999999887643 212 33444567777888889999987543 34556788888
Q ss_pred hCCC
Q 002267 262 SLGM 265 (945)
Q Consensus 262 ~~g~ 265 (945)
+.|.
T Consensus 77 ~~~i 80 (289)
T cd01540 77 AYNM 80 (289)
T ss_pred hCCC
Confidence 7774
No 437
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=50.60 E-value=59 Score=33.67 Aligned_cols=47 Identities=13% Similarity=0.101 Sum_probs=31.2
Q ss_pred ceEEEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHH
Q 002267 49 SSVRIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTM 106 (945)
Q Consensus 49 ~~i~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~ 106 (945)
.+|+||+.---+ +......++-+.++ .|++|+++...+--.|..|+.
T Consensus 29 ~~I~vg~~~~p~---a~ile~~~k~~~~k--------~Gi~l~i~~FtDY~~PN~AL~ 75 (268)
T COG1464 29 KTIKVGATPGPH---AEILEVVVKPALKK--------KGLDLKIVEFTDYVQPNEALA 75 (268)
T ss_pred CcEEEeecCCch---HHHHHHHHHHHHHh--------cCceEEEEEecCCcchhHHHh
Confidence 589999763332 22333355555554 278999999999888887753
No 438
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=50.56 E-value=83 Score=33.79 Aligned_cols=61 Identities=20% Similarity=0.122 Sum_probs=36.0
Q ss_pred CCCCChHHhhcCCCCeEEee-CchHHHH---HHHhhcccccccee--cCCHHHHHHHHhcCCCCCceeEEecc
Q 002267 700 SQIEGIDSLISSTEPIGVQD-GSFAWNY---LVDELKIAESRLVK--LKNMEEYSIALARGPKGGGVAAIVDE 766 (945)
Q Consensus 700 ~~i~~~~dL~~~~~~v~~~~-~s~~~~~---l~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~g~~~a~~~~ 766 (945)
..|+++.||. |++|.+.. ||-.+-. +.+..++....... .-...+..+++++ |.+|+.+.-
T Consensus 127 ~~Ikti~DL~--GKrV~iG~~gSgt~~~a~~il~a~Gi~~~~~~~~~~~~~a~~~~~l~~----g~iDA~~~~ 193 (321)
T COG2358 127 AGIKTIADLK--GKRVAIGPPGSGTEATARQILEALGITYDDYELDLGLGDAESADALKN----GTIDAAFYV 193 (321)
T ss_pred CCcceehhcC--CCEEeecCCCCccHHHHHHHHHHcCCCCcchhhhhhcCchhhHHHhhC----CcccEEEEe
Confidence 4799999998 99888753 4422222 22344444332221 1123345777877 899988764
No 439
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=50.07 E-value=1.1e+02 Score=30.38 Aligned_cols=86 Identities=8% Similarity=0.014 Sum_probs=49.5
Q ss_pred EEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc----ChhhHHHHHHHH
Q 002267 185 EVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV----NPDTGLTIFSVA 260 (945)
Q Consensus 185 ~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~----~~~~~~~~~~~a 260 (945)
+|.+....++.-.-+..-+...++.+|.+|.+- -.+.+. ..+++.+++.+||+|.+.+ ....+..+++++
T Consensus 86 ~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~L---G~~vp~---e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~~l 159 (197)
T TIGR02370 86 KVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDL---GRDVPI---DTVVEKVKKEKPLMLTGSALMTTTMYGQKDINDKL 159 (197)
T ss_pred eEEEEeCCCchhHHHHHHHHHHHHhCCcEEEEC---CCCCCH---HHHHHHHHHcCCCEEEEccccccCHHHHHHHHHHH
Confidence 454444455555556666677777778777643 211223 3444555556788777764 234566667777
Q ss_pred HhCCCCCCCeEEEEeC
Q 002267 261 KSLGMTAGSYVWIATD 276 (945)
Q Consensus 261 ~~~g~~~~~~~wi~~~ 276 (945)
++.|....-.+|++..
T Consensus 160 ~~~~~~~~v~i~vGG~ 175 (197)
T TIGR02370 160 KEEGYRDSVKFMVGGA 175 (197)
T ss_pred HHcCCCCCCEEEEECh
Confidence 7776554344555543
No 440
>PRK09701 D-allose transporter subunit; Provisional
Probab=49.98 E-value=1.2e+02 Score=32.67 Aligned_cols=85 Identities=7% Similarity=-0.041 Sum_probs=58.1
Q ss_pred HcCCeEEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHH
Q 002267 180 YYGWREVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTI 256 (945)
Q Consensus 180 ~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~ 256 (945)
.+.-..|++|..+ ++|.....+.+.+++++.|..+..... +...+.......++.+...++|.||+.... ......
T Consensus 21 ~~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~ 99 (311)
T PRK09701 21 AFAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVMP 99 (311)
T ss_pred hccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHH
Confidence 4566799999864 778888899999999999988764321 111233445567777777889999987543 333344
Q ss_pred HHHHHhCCC
Q 002267 257 FSVAKSLGM 265 (945)
Q Consensus 257 ~~~a~~~g~ 265 (945)
+.++.+.|+
T Consensus 100 l~~~~~~gi 108 (311)
T PRK09701 100 VARAWKKGI 108 (311)
T ss_pred HHHHHHCCC
Confidence 566676664
No 441
>TIGR01276 thiB thiamine ABC transporter, periplasmic binding protein. This model finds the thiamine (and thiamine pyrophosphate) ABC transporter periplasmic binding protein ThiB in proteobacteria. Completed genomes having this protein (E. coli, Vibrio cholera, Haemophilus influenzae) also have the permease ThiP, described by TIGRFAMs equivalog model TIGR01253.
Probab=49.98 E-value=3.4e+02 Score=29.05 Aligned_cols=83 Identities=11% Similarity=-0.102 Sum_probs=43.0
Q ss_pred cCCHHHHHHHHhcCCCCCceeEEecchhhH--HHHhcc-CCccEEEeCccccccceEEEecCCCcchHHHHHHHHhcccc
Q 002267 741 LKNMEEYSIALARGPKGGGVAAIVDELPYI--ELFMSK-TNCEFRTVGQEFTKSGWGFAFQRDSPLAIDLSTAILQLSEN 817 (945)
Q Consensus 741 ~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~--~~~~~~-~~~~~~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~ 817 (945)
..+..+....+.+ |++++.+...... ...... ....+....+-......+++++|+++-.+.-.+.|.-+.+.
T Consensus 176 ~~~~~~~~~~~~~----Ge~~i~i~~~~~~~~~~~~~~~~~~~~~~~~eG~~~~~~~~ai~k~a~n~e~A~~Fidflls~ 251 (309)
T TIGR01276 176 TKGWSEAYGLFLK----GESDLVLSYTTSPAYHILEEKKDNYAAANFSEGHYLQVEVAARTAASKQPELAQKFLQFLVSP 251 (309)
T ss_pred CCChHHHHHHHHc----CCcCEEEecCCcHHHHhhcccCcccceEecCCCCEeEEEEEEEeCCCCCHHHHHHHHHHHcCH
Confidence 3344566678888 8988876543211 111111 12222333322222345788899998666666666665544
Q ss_pred ccHHHHHHHh
Q 002267 818 GDLQKIHNKW 827 (945)
Q Consensus 818 G~~~~i~~~w 827 (945)
.....+..++
T Consensus 252 e~Q~~~~~~~ 261 (309)
T TIGR01276 252 AFQNAIPTGN 261 (309)
T ss_pred HHHHHHHhhC
Confidence 3333344443
No 442
>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=49.47 E-value=55 Score=34.23 Aligned_cols=77 Identities=8% Similarity=-0.054 Sum_probs=51.9
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhh--cCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChh-hHHHHHHHH
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSK--KRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPD-TGLTIFSVA 260 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~-~~~~~~~~a 260 (945)
|++|.. ++.|-......+.+++++ .|.++..... ..+.......++.+...++|.||+..... .....++.+
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~---~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~~~ 78 (271)
T cd06321 2 IGVSVGDLGNPFFVALAKGAEAAAKKLNPGVKVTVVSA---DYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVKRA 78 (271)
T ss_pred eEEEecccCCHHHHHHHHHHHHHHHHhCCCeEEEEccC---CCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHHHH
Confidence 566765 367888889999999999 7776654322 12344455677777778899998865332 235667777
Q ss_pred HhCCC
Q 002267 261 KSLGM 265 (945)
Q Consensus 261 ~~~g~ 265 (945)
.+.|.
T Consensus 79 ~~~~i 83 (271)
T cd06321 79 QAAGI 83 (271)
T ss_pred HHCCC
Confidence 77664
No 443
>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=49.40 E-value=45 Score=35.01 Aligned_cols=71 Identities=11% Similarity=0.095 Sum_probs=51.6
Q ss_pred eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHHHhCCC
Q 002267 192 DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVAKSLGM 265 (945)
Q Consensus 192 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a~~~g~ 265 (945)
+++|-....+.+.+++++.|.++.....- .+.......++.+...++|.||+.... ......++++.+.|+
T Consensus 10 ~~~~~~~~~~~~~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~i 81 (273)
T cd06309 10 ESPWRTAETKSIKDAAEKRGFDLKFADAQ---QKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGI 81 (273)
T ss_pred CCHHHHHHHHHHHHHHHhcCCEEEEeCCC---CCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCC
Confidence 57788889999999999999998864321 244455677888888899999886533 323456778877765
No 444
>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=49.37 E-value=58 Score=34.12 Aligned_cols=80 Identities=10% Similarity=0.007 Sum_probs=52.5
Q ss_pred EEEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHHH
Q 002267 185 EVIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVAK 261 (945)
Q Consensus 185 ~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a~ 261 (945)
+|++|.. +++|.....+.+.+++++.|..+.....-. ..+...-...++++...++|.+|+.... ......++.+.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~ 79 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAAPS-EGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVERAK 79 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEccCC-CCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHHH
Confidence 3666664 466777888999999999998876542211 1233344567777777889988876432 33345567777
Q ss_pred hCCC
Q 002267 262 SLGM 265 (945)
Q Consensus 262 ~~g~ 265 (945)
+.|.
T Consensus 80 ~~~i 83 (275)
T cd06320 80 KKGI 83 (275)
T ss_pred HCCC
Confidence 7664
No 445
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=48.95 E-value=76 Score=33.24 Aligned_cols=77 Identities=10% Similarity=0.011 Sum_probs=49.5
Q ss_pred CeEEEEEEE---------eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhH
Q 002267 183 WREVIAIFV---------DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTG 253 (945)
Q Consensus 183 w~~v~ii~~---------d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~ 253 (945)
.+.|++|.+ +++|.....+.+.+++++.|+.+..... . .. +.....+.+.+.++|.||+......
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~~-~--~~--~~~~~~~~l~~~~~dgiii~~~~~~- 76 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSFV-S--SP--DRDWLARYLASGRADGVILIGQHDQ- 76 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEeC-C--ch--hHHHHHHHHHhCCCCEEEEeCCCCC-
Confidence 567888875 3446667788899999999988765421 1 11 2334445555678998888653322
Q ss_pred HHHHHHHHhCCC
Q 002267 254 LTIFSVAKSLGM 265 (945)
Q Consensus 254 ~~~~~~a~~~g~ 265 (945)
...++++.+.|.
T Consensus 77 ~~~~~~~~~~~i 88 (275)
T cd06295 77 DPLPERLAETGL 88 (275)
T ss_pred hHHHHHHHhCCC
Confidence 244677777665
No 446
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=48.03 E-value=3.6e+02 Score=28.44 Aligned_cols=85 Identities=12% Similarity=0.063 Sum_probs=54.6
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.++||+.... ...+..+++..+.++.+ .+.+.+.. .+-++++.+|.+|++|+++...
T Consensus 97 ~~l~I~~~~~~--------------~~~~l~~~l~~f~~~~p-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 154 (294)
T PRK09986 97 GRIEIGIVGTA--------------LWGRLRPAMRHFLKENP-NVEWLLRE-------LSPSMQMAALERRELDAGIWRM 154 (294)
T ss_pred ceEEEEEehHH--------------hHHHHHHHHHHHHHhCC-CeEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 56999884221 12345667788877765 34566553 4467899999999999998521
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
. .......+. +.|+....+++++++..
T Consensus 155 ~-~~~~~~~l~-~~~l~~~~~~~v~~~~~ 181 (294)
T PRK09986 155 A-DLEPNPGFT-SRRLHESAFAVAVPEEH 181 (294)
T ss_pred C-ccCCCCCeE-EEEeecccEEEEEcCCC
Confidence 1 011223344 36777788888888776
No 447
>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=47.58 E-value=1e+02 Score=33.45 Aligned_cols=81 Identities=6% Similarity=-0.018 Sum_probs=53.6
Q ss_pred CCeEEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHH
Q 002267 182 GWREVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSV 259 (945)
Q Consensus 182 ~w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~ 259 (945)
.-+.|+++..+ +.|.......+.+++++.|..+..... . .+.......+..+...+.|.+|+..........++.
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~-~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~ 135 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACS-D--DNPDQEKVVIENLLARQVDALIVASCMPPEDAYYQK 135 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC-C--CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHHH
Confidence 34678888753 667778889999999999998765432 1 233344566777777889988886533212345566
Q ss_pred HHhCCC
Q 002267 260 AKSLGM 265 (945)
Q Consensus 260 a~~~g~ 265 (945)
+.+.+.
T Consensus 136 l~~~~i 141 (327)
T TIGR02417 136 LQNEGL 141 (327)
T ss_pred HHhcCC
Confidence 666554
No 448
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=47.37 E-value=75 Score=34.87 Aligned_cols=81 Identities=6% Similarity=-0.066 Sum_probs=55.2
Q ss_pred CeEEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHH
Q 002267 183 WREVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSV 259 (945)
Q Consensus 183 w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~ 259 (945)
-++|++|..+ +.|.....+.+.+++++.|..+.....-. ..+.......++.+...++|.||+.... ......+ +
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~-~~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l-~ 123 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGG-YYNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL-E 123 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCC-CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-H
Confidence 4788888855 66777788899999999999887653321 1233444567777778889999987533 3333455 6
Q ss_pred HHhCCC
Q 002267 260 AKSLGM 265 (945)
Q Consensus 260 a~~~g~ 265 (945)
+++.|.
T Consensus 124 ~~~~gi 129 (343)
T PRK10936 124 LQAANI 129 (343)
T ss_pred HHHCCC
Confidence 666664
No 449
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=47.17 E-value=42 Score=35.60 Aligned_cols=74 Identities=5% Similarity=-0.034 Sum_probs=52.9
Q ss_pred eEEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHH
Q 002267 184 REVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAK 261 (945)
Q Consensus 184 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~ 261 (945)
+.|++|.++ ++|....+..+.++++++|..+.....-. ..+-...++.+.+.++|.+|+.+...+...+....+
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~~----~~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~~~~ 77 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTGD----DEEKEEYIELLLQRRVDGIILASSENDDEELRRLIK 77 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEETT----THHHHHHHHHHHHTTSSEEEEESSSCTCHHHHHHHH
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCCC----chHHHHHHHHHHhcCCCEEEEecccCChHHHHHHHH
Confidence 468888865 77888899999999999999876543322 223338888899999999999866655333333333
No 450
>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=47.14 E-value=1.1e+02 Score=29.03 Aligned_cols=82 Identities=15% Similarity=0.167 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC
Q 002267 170 QMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN 249 (945)
Q Consensus 170 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~ 249 (945)
+++.+..+.++++.+++.++ +|..-.......+.+...-.|+++... +.++....+.+-+..+-++++++-+
T Consensus 13 HGQV~~~W~~~~~~~~IiVv-dD~~A~D~~~k~~lkma~P~gvk~~i~-------sve~a~~~l~~~~~~~~~v~vl~k~ 84 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVV-NDDVANDEVRQTLMGIVAPTGFKVRFV-------SLEKTINVIHKPAYHDQTIFLLFRN 84 (151)
T ss_pred hhHhhhhhhcccCCCEEEEE-cccccCCHHHHHHHHhhCCCCCEEEEE-------EHHHHHHHHhCcCCCCceEEEEECC
Confidence 56777788999999999666 344444556666666666667776542 3455566666655566789999999
Q ss_pred hhhHHHHHHH
Q 002267 250 PDTGLTIFSV 259 (945)
Q Consensus 250 ~~~~~~~~~~ 259 (945)
+.++..+++.
T Consensus 85 ~~da~~l~~~ 94 (151)
T TIGR00854 85 PQDVLTLVEG 94 (151)
T ss_pred HHHHHHHHHc
Confidence 9999988753
No 451
>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=46.93 E-value=74 Score=33.13 Aligned_cols=76 Identities=8% Similarity=0.048 Sum_probs=51.6
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|+++.. +++|.......+.+++++.|.++.....- .+.......++.+...++|.+++....... ..++.+.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~ 77 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYDVVLSESG---RRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALRRT 77 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecCC---CchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHhcC
Confidence 456654 47888899999999999999987654322 233445567778877889988876433222 346777766
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
+.
T Consensus 78 ~i 79 (270)
T cd06296 78 GI 79 (270)
T ss_pred CC
Confidence 64
No 452
>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=46.70 E-value=1.1e+02 Score=29.02 Aligned_cols=82 Identities=12% Similarity=0.095 Sum_probs=58.0
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC
Q 002267 170 QMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN 249 (945)
Q Consensus 170 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~ 249 (945)
+++.+..+.++++.+++.++ +|..-.......+.+...-.|+++... +.++....+.+-+..+-++++++-+
T Consensus 12 HGQV~~~W~~~~~~~~IvVv-dD~~A~D~~~k~~l~ma~P~gvk~~i~-------sve~a~~~l~~~~~~~~~v~il~k~ 83 (151)
T cd00001 12 HGQVATTWTKELNANRIIVV-NDEVANDELRKTLLKLAAPPGVKLRIF-------TVEKAIEAINSPKYDKQRVFLLFKN 83 (151)
T ss_pred hhHhhhhhhcccCCCEEEEE-cccccCCHHHHHHHHhhCCCCCeEEEE-------EHHHHHHHHhCcCCCCceEEEEECC
Confidence 56778889999999999666 444444556666666665567776532 3455566666655566789999999
Q ss_pred hhhHHHHHHH
Q 002267 250 PDTGLTIFSV 259 (945)
Q Consensus 250 ~~~~~~~~~~ 259 (945)
+.++..+++.
T Consensus 84 ~~~~~~l~~~ 93 (151)
T cd00001 84 PQDVLRLVEG 93 (151)
T ss_pred HHHHHHHHHc
Confidence 9999888763
No 453
>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=46.64 E-value=59 Score=34.14 Aligned_cols=70 Identities=9% Similarity=-0.038 Sum_probs=50.5
Q ss_pred CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC-hhhHHHHHHHHHhCCC
Q 002267 193 DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-PDTGLTIFSVAKSLGM 265 (945)
Q Consensus 193 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-~~~~~~~~~~a~~~g~ 265 (945)
++|.....+.+.+++++.|.++.....- .+.......++.+...++|.||+... .......++++.+.|+
T Consensus 11 ~~f~~~~~~gi~~~~~~~G~~~~~~~~~---~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~i 81 (272)
T cd06313 11 ATWCAQGKQAADEAGKLLGVDVTWYGGA---LDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGI 81 (272)
T ss_pred ChHHHHHHHHHHHHHHHcCCEEEEecCC---CCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCC
Confidence 5677778889999999999988765322 24455567788888888999998653 3345667788877665
No 454
>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=46.57 E-value=54 Score=31.03 Aligned_cols=83 Identities=13% Similarity=0.129 Sum_probs=61.2
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC
Q 002267 170 QMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN 249 (945)
Q Consensus 170 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~ 249 (945)
+++.+..++++++.++|.++ .|..........+.+...-.|+++... +.++....+.+-...+.++++++-+
T Consensus 13 HGQV~~~W~~~~~~~~IiVv-dD~~A~D~~~k~~l~ma~P~gvk~~i~-------sv~~a~~~l~~~~~~~~~v~ii~k~ 84 (151)
T PF03830_consen 13 HGQVATAWVKKLNANRIIVV-DDEVANDPFQKMILKMAAPAGVKLSIF-------SVEEAIEKLKKPEYSKKRVLIIVKS 84 (151)
T ss_dssp CTTHHHHHHHHHTTSEEEEE--HHHHHSHHHHHHHHHTSHTTSEEEEE--------HHHHHHHHCGGGGTTEEEEEEESS
T ss_pred eeeeeEEEhhhcccCEEEEE-CHHHhcCHHHHHHHHHhhcCCCceEEE-------EHHHHHHHHHhcccCCceEEEEECC
Confidence 35677889999999999666 455555566777777666678887642 4566677777777677899999999
Q ss_pred hhhHHHHHHHH
Q 002267 250 PDTGLTIFSVA 260 (945)
Q Consensus 250 ~~~~~~~~~~a 260 (945)
+.++..+++.-
T Consensus 85 ~~d~~~l~~~g 95 (151)
T PF03830_consen 85 PEDALRLVEAG 95 (151)
T ss_dssp HHHHHHHHHTT
T ss_pred HHHHHHHHhcC
Confidence 99998887653
No 455
>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=46.49 E-value=91 Score=34.27 Aligned_cols=85 Identities=12% Similarity=-0.039 Sum_probs=55.1
Q ss_pred HHHHHHHHHcCC--eEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC---CceEEEE
Q 002267 172 HAVADLVEYYGW--REVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLM---ESRVFVV 246 (945)
Q Consensus 172 ~ai~~~l~~~~w--~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vivl 246 (945)
..+.++++.+|. +++.+|++..... ..+.+.|++.|+.+.....+.+.++.+++....+..++. ++|+||-
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvtd~~~~~----~~v~~~L~~~g~~~~~f~~v~~nPt~~~v~~~~~~~~~~~~~~~D~IIa 87 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFVDDVFQG----KDLISRLPVESEDMIIWVDATEEPKTDQIDALTAQVKSFDGKLPCAIVG 87 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEECcchhh----hHHHHHHHhcCCcEEEEcCCCCCcCHHHHHHHHHHHHhhCCCCCCEEEE
Confidence 446666777763 5566666322221 567778888888755444566567778888888888876 8999997
Q ss_pred EcC--hhhHHHHHHHH
Q 002267 247 HVN--PDTGLTIFSVA 260 (945)
Q Consensus 247 ~~~--~~~~~~~~~~a 260 (945)
.+. .-++.+.+...
T Consensus 88 iGGGS~iD~AKaia~~ 103 (347)
T cd08184 88 IGGGSTLDVAKAVSNM 103 (347)
T ss_pred eCCcHHHHHHHHHHHH
Confidence 654 34555555443
No 456
>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=46.44 E-value=2.5e+02 Score=26.17 Aligned_cols=92 Identities=12% Similarity=-0.007 Sum_probs=55.5
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCC--CCCChHHH---HHHHHhhccCCceEEEEE
Q 002267 173 AVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFS--PGASRSAI---NSLLVGANLMESRVFVVH 247 (945)
Q Consensus 173 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~--~~~~~~d~---~~~l~~l~~~~~~vivl~ 247 (945)
.+.+.+...+--...-+|.+.... .....+.++++..|.++....... ...+..|. ...++-+...+.|.|++.
T Consensus 28 ~l~~~~~~~~~~~~~r~y~~~~~~-~~~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLv 106 (149)
T cd06167 28 KLLEFLRDGGEIVLARAYGNWTSP-ERQRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVLV 106 (149)
T ss_pred HHHHHHHhCCeEEEEEEEEecCCc-hhHHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEEE
Confidence 334444433223333444443211 456788999999999887654321 11122232 234444444578999998
Q ss_pred cChhhHHHHHHHHHhCCC
Q 002267 248 VNPDTGLTIFSVAKSLGM 265 (945)
Q Consensus 248 ~~~~~~~~~~~~a~~~g~ 265 (945)
+...+...+++.+++.|.
T Consensus 107 SgD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 107 SGDSDFVPLVERLRELGK 124 (149)
T ss_pred ECCccHHHHHHHHHHcCC
Confidence 888899999999999874
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=46.07 E-value=1e+02 Score=29.64 Aligned_cols=64 Identities=11% Similarity=0.056 Sum_probs=44.9
Q ss_pred CeEEEEEEEeCCccc---chHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc-CCceEEEEEc
Q 002267 183 WREVIAIFVDDDYGR---NGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANL-MESRVFVVHV 248 (945)
Q Consensus 183 w~~v~ii~~d~~~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vivl~~ 248 (945)
.-++++|...|.-+. .....+...+++.|.++.....++ .+.+.+...+++..+ .++|+|+..+
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~--Dd~~~i~~~l~~~~~~~~~DlVIttG 71 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVK--DDIYQIRAQVSAWIADPDVQVILITG 71 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcC--CCHHHHHHHHHHHHhcCCCCEEEECC
Confidence 457778765443222 234577888999999988877776 466778888887643 5789999864
No 458
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=45.69 E-value=1.7e+02 Score=30.79 Aligned_cols=87 Identities=16% Similarity=0.240 Sum_probs=50.6
Q ss_pred ccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCCh-hHHHHHHHhhcccCc
Q 002267 62 VIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSS-GIAHVISHVVNELNV 140 (945)
Q Consensus 62 ~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~~~~va~~~~~~~i 140 (945)
..|+.-..++.-.+.+|| |..+++.+ +..-++. ...+++..+...||-...+ ..-..+...+...++
T Consensus 80 ~vG~~Kve~~~~rl~~IN------P~~~V~~i--~~~i~~e----~~~~ll~~~~D~VIdaiD~~~~k~~L~~~c~~~~i 147 (268)
T PRK15116 80 NVGLAKAEVMAERIRQIN------PECRVTVV--DDFITPD----NVAEYMSAGFSYVIDAIDSVRPKAALIAYCRRNKI 147 (268)
T ss_pred hcChHHHHHHHHHHHhHC------CCcEEEEE--ecccChh----hHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHcCC
Confidence 345444456666667776 34455543 3322322 2334555566777765555 455568889999999
Q ss_pred cEEecccCCCCCCCCCCCceEEec
Q 002267 141 PLLSFGATDPTLTSLQYPYFLRTT 164 (945)
Q Consensus 141 P~Is~~a~~~~ls~~~~p~~~r~~ 164 (945)
|+|+.++....+. |.-+++.
T Consensus 148 p~I~~gGag~k~d----p~~~~~~ 167 (268)
T PRK15116 148 PLVTTGGAGGQID----PTQIQVV 167 (268)
T ss_pred CEEEECCcccCCC----CCeEEEE
Confidence 9998655544333 5556554
No 459
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=45.67 E-value=85 Score=32.65 Aligned_cols=76 Identities=11% Similarity=-0.008 Sum_probs=51.5
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|+++.. ++.|.......+.+++++.|..+... ....+.......++++.+.++|.+++..... ....++.+++.
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~---~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~~~ 77 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVA---SSGYDLDREYAQARKLLERGVDGLALIGLDH-SPALLDLLARR 77 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEe---cCCCCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHHhC
Confidence 566765 36777888899999999999887753 2123445556777888877899888764332 23455666666
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
|.
T Consensus 78 ~i 79 (268)
T cd06273 78 GV 79 (268)
T ss_pred CC
Confidence 64
No 460
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=45.52 E-value=1.4e+02 Score=28.46 Aligned_cols=81 Identities=9% Similarity=0.010 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHh-hcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc
Q 002267 170 QMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALS-KKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV 248 (945)
Q Consensus 170 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~-~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~ 248 (945)
+++.+..+.++++.+++.++ +|..-.......+.+.+. -.|+++... +.++....+.+ +..+-++++++-
T Consensus 17 HGQV~~~W~~~~~~~~IiVv-dD~vA~D~~~k~~lkma~~P~gvk~~i~-------sv~~a~~~l~~-~~~~~~vlvl~~ 87 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVV-DDVVANDDIQQKLMGITAETYGFGIRFF-------TIEKTINVIGK-AAPHQKIFLICR 87 (158)
T ss_pred hHHHHHhhhcccCCCEEEEE-cchhcCCHHHHHHHHhcCCCCCCEEEEE-------EHHHHHHHHHh-ccCCceEEEEEC
Confidence 57778889999999999666 344444455555555544 467776532 34556666776 556678999999
Q ss_pred ChhhHHHHHHH
Q 002267 249 NPDTGLTIFSV 259 (945)
Q Consensus 249 ~~~~~~~~~~~ 259 (945)
++.++..++++
T Consensus 88 ~~~da~~l~~~ 98 (158)
T PRK09756 88 TPQTVRKLVEG 98 (158)
T ss_pred CHHHHHHHHHc
Confidence 99999888763
No 461
>PRK10481 hypothetical protein; Provisional
Probab=45.45 E-value=1.9e+02 Score=29.37 Aligned_cols=68 Identities=9% Similarity=-0.062 Sum_probs=45.1
Q ss_pred CCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhH
Q 002267 182 GWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTG 253 (945)
Q Consensus 182 ~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~ 253 (945)
+-+++++|....+ ..+.-.+.+.+.|..+.....-|...+...+....++++..++|+||+.|.+-..
T Consensus 128 ~g~riGVitP~~~----qi~~~~~kw~~~G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~ 195 (224)
T PRK10481 128 GGHQVGVIVPVEE----QLAQQAQKWQVLQKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQ 195 (224)
T ss_pred CCCeEEEEEeCHH----HHHHHHHHHHhcCCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH
Confidence 4589999986543 2333334444558877655433322455577788888888999999998866544
No 462
>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=45.42 E-value=1.7e+02 Score=26.12 Aligned_cols=49 Identities=14% Similarity=0.112 Sum_probs=26.5
Q ss_pred CcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc
Q 002267 194 DYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV 248 (945)
Q Consensus 194 ~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~ 248 (945)
++-.-++..+...+++.|.++...... ... ....+.+++.++|+|.+.+
T Consensus 11 ~~~~lGl~~la~~l~~~G~~v~~~d~~---~~~---~~l~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 11 EVHPLGLLYLAAYLRKAGHEVDILDAN---VPP---EELVEALRAERPDVVGISV 59 (121)
T ss_dssp SSTSHHHHHHHHHHHHTTBEEEEEESS---B-H---HHHHHHHHHTTCSEEEEEE
T ss_pred cchhHHHHHHHHHHHHCCCeEEEECCC---CCH---HHHHHHHhcCCCcEEEEEc
Confidence 333445566666777777766543221 112 3444455556777777765
No 463
>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=45.36 E-value=80 Score=32.74 Aligned_cols=75 Identities=9% Similarity=0.096 Sum_probs=51.0
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|+++.. ++.|.....+.+.+.+++.|..+..... . ... +....++++...++|.|++....... ..++.+.+.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~--~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~~~ 76 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQPLLINT-D--DDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECRRN 76 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCeEEEEcC-C--CCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhc
Confidence 455554 4677788889999999999998765422 1 222 56677888888889988886433222 447777766
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
|.
T Consensus 77 ~i 78 (266)
T cd06278 77 GI 78 (266)
T ss_pred CC
Confidence 64
No 464
>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=45.35 E-value=87 Score=32.55 Aligned_cols=76 Identities=5% Similarity=-0.032 Sum_probs=50.7
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|+++.. ++.|-......+.+++++.|.++...... .+.......++.+...++|.|++.....+... ++.+.+.
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~-~~~~~~~ 77 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARERGYQLLIACSD---DDPETERETVETLIARQVDALIVAGSLPPDDP-YYLCQKA 77 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEcCCCCchHH-HHHHHhc
Confidence 455554 36677788889999999999987664332 23444556788888889999988754322222 5566666
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
|.
T Consensus 78 ~i 79 (264)
T cd06274 78 GL 79 (264)
T ss_pred CC
Confidence 64
No 465
>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=45.32 E-value=86 Score=34.25 Aligned_cols=85 Identities=6% Similarity=0.043 Sum_probs=55.1
Q ss_pred HHHHHHHHHcCC-eEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEee-cCCCCCChHHHHHHHHhhccCCceEEEEEcC
Q 002267 172 HAVADLVEYYGW-REVIAIFVDDDYGRNGISVLGDALSKKRAKISYKA-PFSPGASRSAINSLLVGANLMESRVFVVHVN 249 (945)
Q Consensus 172 ~ai~~~l~~~~w-~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~-~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~ 249 (945)
..+.++++.++. +++.+|++...+.. ..+.+.+.|++.|+++.... ...+.++.+.+...+..+++ ++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~-~~~~i~~~L~~~~~~~~i~~~~~~~~p~~~~v~~~~~~~~~-~~d~IIaiGG 89 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKV-AGKEIIERLESNNFTKEVLERDSLLIPDEYELGEVLIKLDK-DTEFLLGIGS 89 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHH-HHHHHHHHHHHcCCeEEEEecCCCCCCCHHHHHHHHHHhhc-CCCEEEEECC
Confidence 345566777775 78888875544333 24788888988887654221 22223466778888888887 8898887654
Q ss_pred --hhhHHHHHH
Q 002267 250 --PDTGLTIFS 258 (945)
Q Consensus 250 --~~~~~~~~~ 258 (945)
.-++..++.
T Consensus 90 Gsv~D~aK~iA 100 (332)
T cd08549 90 GTIIDLVKFVS 100 (332)
T ss_pred cHHHHHHHHHH
Confidence 446666654
No 466
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=45.27 E-value=3.3e+02 Score=31.93 Aligned_cols=129 Identities=15% Similarity=0.140 Sum_probs=79.1
Q ss_pred CChHHHHHHHHH-HHhcCcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHH
Q 002267 99 CSGFVGTMEALQ-LMENEVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADL 177 (945)
Q Consensus 99 ~~~~~a~~~a~~-li~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~ 177 (945)
++-..+++.+.+ +..+++.+||.-..+. ..+. +...+|+|...-+ ......++. .
T Consensus 37 ~~~~~~~~~a~~~~~~~~~dviIsrG~ta--~~i~---~~~~iPVv~i~~s------------------~~Dil~al~-~ 92 (526)
T TIGR02329 37 LGFEDAVREIRQRLGAERCDVVVAGGSNG--AYLK---SRLSLPVIVIKPT------------------GFDVMQALA-R 92 (526)
T ss_pred ccHHHHHHHHHHHHHhCCCcEEEECchHH--HHHH---HhCCCCEEEecCC------------------hhhHHHHHH-H
Confidence 566777887755 5566899999754432 2222 3457999863221 112334443 3
Q ss_pred HHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHH
Q 002267 178 VEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIF 257 (945)
Q Consensus 178 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~ 257 (945)
.+.++ .++++|.-.+. ...++.+.+.+ ++++... .+ .+.+|....+.++++.+.++||-.+ ...
T Consensus 93 a~~~~-~~ia~vg~~~~--~~~~~~~~~ll---~~~i~~~-~~---~~~~e~~~~~~~l~~~G~~~viG~~------~~~ 156 (526)
T TIGR02329 93 ARRIA-SSIGVVTHQDT--PPALRRFQAAF---NLDIVQR-SY---VTEEDARSCVNDLRARGIGAVVGAG------LIT 156 (526)
T ss_pred HHhcC-CcEEEEecCcc--cHHHHHHHHHh---CCceEEE-Ee---cCHHHHHHHHHHHHHCCCCEEECCh------HHH
Confidence 35555 56777764432 13455555555 4554432 23 3678999999999999999998543 234
Q ss_pred HHHHhCCCCC
Q 002267 258 SVAKSLGMTA 267 (945)
Q Consensus 258 ~~a~~~g~~~ 267 (945)
..|++.||.+
T Consensus 157 ~~A~~~gl~~ 166 (526)
T TIGR02329 157 DLAEQAGLHG 166 (526)
T ss_pred HHHHHcCCce
Confidence 6788999865
No 467
>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=45.03 E-value=78 Score=32.87 Aligned_cols=76 Identities=11% Similarity=0.035 Sum_probs=50.7
Q ss_pred EEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|++|..+ +.|.....+.+.+++++.|..+..... . .+.......++++...++|.|++...... ...++.+.+.
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~~~ 77 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAAGYQLLLGNT-G--YSPEREEELLRTLLSRRPAGLILTGLEHT-ERTRQLLRAA 77 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHcCCEEEEecC-C--CCchhHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHHhc
Confidence 5666643 566777888999999999988765322 1 23445567788888888999988754322 3455556655
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
|+
T Consensus 78 ~i 79 (268)
T cd01575 78 GI 79 (268)
T ss_pred CC
Confidence 54
No 468
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=45.00 E-value=2.2e+02 Score=29.57 Aligned_cols=130 Identities=7% Similarity=-0.037 Sum_probs=66.6
Q ss_pred HHHHHHH-hcCcEEEEccCChhHHHHHHHhhcccCccEEecc-cCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcC
Q 002267 106 MEALQLM-ENEVVAAIGPQSSGIAHVISHVVNELNVPLLSFG-ATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYG 182 (945)
Q Consensus 106 ~~a~~li-~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~-a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~ 182 (945)
+.+..|. +.++.+|+=|-.+..+.+...+-+..++|+|+.- .+...... ....-+-=.+.+.+......-+.++.++
T Consensus 51 ~~~~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~iie~~v~~a~~~~~~~~IgvLAT~~Ti~s~~y~~~i~~~~ 130 (251)
T TIGR00067 51 ELLTFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVGVIEPAIKAAIRLTANGRVLVIATNATIKSNAYHEALKEIA 130 (251)
T ss_pred HHHHHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEeecHHHHHHHHHhCCCCeEEEEeCHHHHhhhHHHHHHHHhC
Confidence 3344455 4588888877777766777778888899999732 11111100 0111222223333444555555666666
Q ss_pred CeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChh
Q 002267 183 WREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPD 251 (945)
Q Consensus 183 w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~ 251 (945)
.+-+ +.... . ..+.. +-+.|. .........+...+..+.+.++|.+|+.|+.-
T Consensus 131 ~~~~--v~~~~--~----~~lv~-~Ie~g~-------~~~~~~~~~l~~~l~~l~~~~~d~lILGCTh~ 183 (251)
T TIGR00067 131 NDLL--VEMLA--C----PELVP-LAEAGL-------LGEDYALECLKRYLRPLLDTLPDTVVLGCTHF 183 (251)
T ss_pred CCCE--EEecC--C----HHHHH-HHHcCC-------cCCHHHHHHHHHHHHHHhcCCCCEEEECcCCh
Confidence 5422 22110 1 11112 222331 11001234577778888777899999987654
No 469
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=44.63 E-value=2.7e+02 Score=26.26 Aligned_cols=121 Identities=16% Similarity=0.242 Sum_probs=72.5
Q ss_pred HHHHHHhc--CcEEEEccCCh--hHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcC
Q 002267 107 EALQLMEN--EVVAAIGPQSS--GIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYG 182 (945)
Q Consensus 107 ~a~~li~~--~v~aiiGp~~s--~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~ 182 (945)
.+..++.+ +...|+||..- ..-.-+..+.+++++|.+..+++...+.++. .-+......++..+++.=+
T Consensus 27 v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~~~~~~~~~-------i~~~~~~lh~it~~l~Dp~ 99 (170)
T COG1880 27 VVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASSMGNLIGRG-------IGSEYINLHAITQYLTDPN 99 (170)
T ss_pred HHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchhhcchhhcc-------cccchhHHHHHHHHhcCCC
Confidence 34445554 89999999865 4455677899999999997655555555432 2244555677888887755
Q ss_pred C---------eEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCC-------CChHHHHHHHHhh
Q 002267 183 W---------REVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPG-------ASRSAINSLLVGA 236 (945)
Q Consensus 183 w---------~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-------~~~~d~~~~l~~l 236 (945)
| .-|.++..-..|....+..++... +=.+|+....+-+. .+.+++-..|+++
T Consensus 100 w~G~dg~g~yDlviflG~~~yy~sq~Ls~lKhFs--~i~tiaId~~Y~pnAd~SFpNl~kde~~~~L~el 167 (170)
T COG1880 100 WPGFDGNGNYDLVIFLGSIYYYLSQVLSGLKHFS--NIKTIAIDRYYQPNADYSFPNLSKDEYLAYLDEL 167 (170)
T ss_pred CCCcCCCCCcceEEEEeccHHHHHHHHHHhhhhh--cceEEEeccccCcCccccCCCcCHHHHHHHHHHH
Confidence 5 345556555666666666665443 11233333333222 3455666666665
No 470
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=44.61 E-value=1.8e+02 Score=28.38 Aligned_cols=130 Identities=13% Similarity=0.173 Sum_probs=63.2
Q ss_pred CcEEEEccCChhHHHHHHHhhcccC--ccE-EecccCCCCCCC-CCCCceEEecCChhHHHHHHHHHHHHcCCeEEEEEE
Q 002267 115 EVVAAIGPQSSGIAHVISHVVNELN--VPL-LSFGATDPTLTS-LQYPYFLRTTQSDYYQMHAVADLVEYYGWREVIAIF 190 (945)
Q Consensus 115 ~v~aiiGp~~s~~~~~va~~~~~~~--iP~-Is~~a~~~~ls~-~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v~ii~ 190 (945)
++++++||.+|+-......+++... ... +++..-.|...+ .+-.|.|-+ . +.+-+.++.-..=...- |
T Consensus 3 r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fvs----~---~~f~~~~~~~~fie~~~-~ 74 (183)
T PF00625_consen 3 RPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFVS----K---EEFERMIKAGEFIEYGE-Y 74 (183)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE------H---HHHHHHHHTTHEEEEEE-E
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEEe----e---chhhhhhccccEEEEee-e
Confidence 6789999999998877777776542 333 333333333333 233455531 1 22222222211111111 3
Q ss_pred EeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhCC
Q 002267 191 VDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSLG 264 (945)
Q Consensus 191 ~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~g 264 (945)
.++.||.. .+.+.+.+++...++... +.. -+.+|+....+.++++..++....+-+.+++.|
T Consensus 75 ~g~~YGt~-~~~i~~~~~~gk~~il~~-------~~~----g~~~L~~~~~~~~~IfI~~~s~~~l~~~l~~r~ 136 (183)
T PF00625_consen 75 DGNYYGTS-KSAIDKVLEEGKHCILDV-------DPE----GVKQLKKAGFNPIVIFIKPPSPEVLKRRLRRRG 136 (183)
T ss_dssp TTEEEEEE-HHHHHHHHHTTTEEEEEE-------THH----HHHHHHHCTTTEEEEEEEESSHHHHHHHHHTTT
T ss_pred cchhhhhc-cchhhHhhhcCCcEEEEc-------cHH----HHHHHHhcccCceEEEEEccchHHHHHHHhccc
Confidence 45667754 577777777777766532 111 233444445454555443333444444444433
No 471
>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=44.34 E-value=95 Score=32.18 Aligned_cols=76 Identities=7% Similarity=0.048 Sum_probs=50.6
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|++|.. ++.|.......+.+++++.|..+..... ..+.......++++...++|.|++.....+. ..++++.+.
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~-~~l~~~~~~ 77 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAHGYQVLVCNS---DNDPEKEKEYLESLLAYQVDGLIVNPTGNNK-ELYQRLAKN 77 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEcC---CCCHHHHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHhcC
Confidence 455553 4667778889999999999988764321 1234455677888888889999887543333 235666665
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
|.
T Consensus 78 ~i 79 (267)
T cd06283 78 GK 79 (267)
T ss_pred CC
Confidence 53
No 472
>TIGR02136 ptsS_2 phosphate binding protein. Members of this family are phosphate-binding proteins. Most are found in phosphate ABC-transporter operons, but some are found in phosphate regulatory operons. This model separates members of the current family from the phosphate ABC transporter phosphate binding protein described by TIGRFAMs model TIGR00975.
Probab=44.19 E-value=24 Score=37.72 Aligned_cols=73 Identities=14% Similarity=0.059 Sum_probs=48.6
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcc-----eeEE-ecccccccceE
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRT-----KLVD-FTQPYMESGLV 586 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~-----~~~d-fs~p~~~~~~~ 586 (945)
+-.++++.+.++.+ .+++++.. ++..++++.|.+|++|+++..-....+.. +..+ -..|+....++
T Consensus 49 ~lp~~l~~f~~~~P-~i~v~i~~-------~~s~~l~~~L~~G~iDlai~~~~~~~~~~~~~~~~~~~l~~~~l~~~~l~ 120 (287)
T TIGR02136 49 LAEAAAEEFQKIHP-GVSVTVQG-------AGSGTGIKALINGTVDIGNSSRPIKDEELQKDKQKGIKLIEHKVAVDGLA 120 (287)
T ss_pred HHHHHHHHHHhhCC-CceEEEcc-------CCchHHHHHHHcCCCchhhccCCCCHHHHHHHhhcCCCceEEEEEEeeEE
Confidence 55678888887775 24566654 67899999999999999885322221110 0111 24688888999
Q ss_pred EEEEccC
Q 002267 587 VVAPVQK 593 (945)
Q Consensus 587 ~vv~~~~ 593 (945)
+++++..
T Consensus 121 lvv~~~h 127 (287)
T TIGR02136 121 VVVNKKN 127 (287)
T ss_pred EEECCCC
Confidence 9988664
No 473
>TIGR03850 bind_CPR_0540 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family. Members of this protein are the substrate-binding protein of a predicted carbohydrate transporter operon, together with permease subunits of ABC transporter homology families. This substrate-binding protein frequently co-occurs in genomes with a family of disaccharide phosphorylases, TIGR02336, suggesting that the molecule transported will include beta-D-galactopyranosyl-(1-3)-N-acetyl-D-glucosamine and related carbohydrates. Members of this family are sporadically strain by strain, often in species with a human host association, including Propionibacterium acnes and Clostridium perfringens, and Bacillus cereus.
Probab=44.08 E-value=81 Score=35.93 Aligned_cols=25 Identities=8% Similarity=0.215 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHhcCCCCCCCcEEEEEEe
Q 002267 68 GPAIAAAVDDVNSDPSILPGTTLNFVIR 95 (945)
Q Consensus 68 ~~a~~~Ave~iN~~~~il~g~~l~l~~~ 95 (945)
...++-.++++|+.. +|++|++...
T Consensus 47 ~~~~~~~~~~F~~~~---~~i~V~~~~~ 71 (437)
T TIGR03850 47 TKMWEEVVEAFEKSH---EGVKVELTVS 71 (437)
T ss_pred HHHHHHHHHHHHHHC---CCceEEEEeC
Confidence 345677889999873 4678888754
No 474
>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=43.76 E-value=1e+02 Score=32.04 Aligned_cols=76 Identities=7% Similarity=-0.031 Sum_probs=52.0
Q ss_pred EEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|+++.++ ++|.......+.+++++.|.++..... ..+.......++.+...++|.|++....... ..++++.+.
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~---~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~ 77 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYSTFVANT---GDNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELTRR 77 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHHHc
Confidence 5666654 677788889999999999988754321 1233455667888888899988887543333 346777766
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
+.
T Consensus 78 ~i 79 (265)
T cd06285 78 GV 79 (265)
T ss_pred CC
Confidence 64
No 475
>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=43.50 E-value=82 Score=32.70 Aligned_cols=76 Identities=8% Similarity=0.001 Sum_probs=45.2
Q ss_pred EEEEEEe------CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHH
Q 002267 186 VIAIFVD------DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSV 259 (945)
Q Consensus 186 v~ii~~d------~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~ 259 (945)
|++|..+ ++|.....+.+.+.+++.|+.+.....-. ..+......+.+...++|.||+....... ..+..
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~---~~~~~~~~~~~~~~~~vdgiii~~~~~~~-~~~~~ 77 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAEHGYDLVLLPVDP---DEDPLEVYRRLVESGLVDGVIISRTRPDD-PRVAL 77 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHHCCceEEEecCCC---cHHHHHHHHHHHHcCCCCEEEEecCCCCC-hHHHH
Confidence 4555544 67888889999999999998876553221 22222333333445678988886432221 23455
Q ss_pred HHhCCC
Q 002267 260 AKSLGM 265 (945)
Q Consensus 260 a~~~g~ 265 (945)
+.+.+.
T Consensus 78 ~~~~~i 83 (268)
T cd06271 78 LLERGF 83 (268)
T ss_pred HHhcCC
Confidence 555554
No 476
>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=43.33 E-value=2e+02 Score=31.71 Aligned_cols=100 Identities=13% Similarity=-0.009 Sum_probs=63.2
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEee--cCCCCCChHHHHHHHHhhccCCce---EEEEE
Q 002267 173 AVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKA--PFSPGASRSAINSLLVGANLMESR---VFVVH 247 (945)
Q Consensus 173 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~--~~~~~~~~~d~~~~l~~l~~~~~~---vivl~ 247 (945)
.+.++++.++-+++.+|++...+ ....+.+.+.+++.|+++.... ......+.+.+...+..+++.++| +||..
T Consensus 13 ~l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~IIAv 91 (355)
T cd08197 13 SVLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELLSVPSGEEHKTLSTLSDLVERALALGATRRSVIVAL 91 (355)
T ss_pred HHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEE
Confidence 34566777777899888765543 3366788899998887653221 222234567788888888888887 77765
Q ss_pred cC--hhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 248 VN--PDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 248 ~~--~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
+. .-++..++......| ..++.|-|.
T Consensus 92 GGGsv~D~ak~~A~~~~rg---ip~I~IPTT 119 (355)
T cd08197 92 GGGVVGNIAGLLAALLFRG---IRLVHIPTT 119 (355)
T ss_pred CCcHHHHHHHHHHHHhccC---CCEEEecCc
Confidence 43 345666655444334 345555554
No 477
>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=43.22 E-value=83 Score=34.52 Aligned_cols=82 Identities=5% Similarity=-0.031 Sum_probs=55.3
Q ss_pred HHHHHHH-HcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC--
Q 002267 173 AVADLVE-YYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-- 249 (945)
Q Consensus 173 ai~~~l~-~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-- 249 (945)
.+.++++ ..+.+++.+|++...+ +...+.+.+.+++.| .+... +.+..+.+.+...++.+++.++|+||-.+.
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~~-~~~~~~v~~~l~~~~-~~~~~--~~~~~~~~~v~~~~~~~~~~~~d~iIaiGGGs 89 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTTK-SIAGKKVEALLEDEG-EVDVV--IVEDATYEEVEKVESSARDIGADFVIGVGGGR 89 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCchH-HHHHHHHHHHHHhcC-CeEEE--EeCCCCHHHHHHHHHHhhhcCCCEEEEeCCch
Confidence 3555666 4567899888754433 356778888898888 54322 223457788888889998889999987654
Q ss_pred hhhHHHHHH
Q 002267 250 PDTGLTIFS 258 (945)
Q Consensus 250 ~~~~~~~~~ 258 (945)
.-++.+++.
T Consensus 90 ~~D~aK~~a 98 (339)
T cd08173 90 VIDVAKVAA 98 (339)
T ss_pred HHHHHHHHH
Confidence 345555554
No 478
>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=43.08 E-value=88 Score=32.65 Aligned_cols=77 Identities=8% Similarity=-0.010 Sum_probs=50.3
Q ss_pred EEEEEEe--CCcccchHHHHHHHHhhc-CcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHHH
Q 002267 186 VIAIFVD--DDYGRNGISVLGDALSKK-RAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVAK 261 (945)
Q Consensus 186 v~ii~~d--~~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a~ 261 (945)
|+++..+ +.|.......+.+.+++. |..+..... . .+..+-...++.+...++|.|++.... ......+..+.
T Consensus 2 ig~~~~~~~~~~~~~~~~~i~~~~~~~~g~~~~~~~~-~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~ 78 (270)
T cd06308 2 IGFSQCNLADPWRAAMNDEIQREASNYPDVELIIADA-A--DDNSKQVADIENFIRQGVDLLIISPNEAAPLTPVVEEAY 78 (270)
T ss_pred EEEEeeCCCCHHHHHHHHHHHHHHHhcCCcEEEEEcC-C--CCHHHHHHHHHHHHHhCCCEEEEecCchhhchHHHHHHH
Confidence 5666644 556677788899989886 888765422 2 234445567777777889999887533 32345666777
Q ss_pred hCCC
Q 002267 262 SLGM 265 (945)
Q Consensus 262 ~~g~ 265 (945)
+.|+
T Consensus 79 ~~~i 82 (270)
T cd06308 79 RAGI 82 (270)
T ss_pred HCCC
Confidence 6664
No 479
>cd08481 PBP2_GcdR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold. GcdR is involved in the glutaconate/glutarate-specific activation of the Pg promoter driving expression of a glutaryl-CoA dehydrogenase-encoding gene (gcdH). The GcdH protein is essential for the anaerobic catabolism of many aromatic compounds and some alicyclic and dicarboxylic acids. The structural topology of this substrate-binding domain is most similar to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplas
Probab=43.03 E-value=2.4e+02 Score=26.79 Aligned_cols=65 Identities=15% Similarity=0.083 Sum_probs=36.7
Q ss_pred eeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCcceeEEecccccccceEEEEEcc
Q 002267 513 YCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDITIVTNRTKLVDFTQPYMESGLVVVAPVQ 592 (945)
Q Consensus 513 ~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~~dfs~p~~~~~~~~vv~~~ 592 (945)
+-.+++..+.++.+ .+++++... .. ...+.+|++|+++.... .....+. +.++.+..++++++..
T Consensus 14 ~l~~~l~~f~~~~P-~i~i~i~~~-------~~---~~~l~~~~~Dl~l~~~~---~~~~~~~-~~~l~~~~~~~v~~~~ 78 (194)
T cd08481 14 WLIPRLPDFLARHP-DITVNLVTR-------DE---PFDFSQGSFDAAIHFGD---PVWPGAE-SEYLMDEEVVPVCSPA 78 (194)
T ss_pred HHHhhhhHHHHHCC-CceEEEEec-------cc---ccCcccCCCCEEEEcCC---CCCCCcc-ceecccCeeeecCCHH
Confidence 34456777777664 345555531 11 13578899999985321 1112232 4566677777776544
No 480
>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=42.99 E-value=84 Score=33.59 Aligned_cols=77 Identities=13% Similarity=0.140 Sum_probs=50.1
Q ss_pred EEEEE--eCCcccchHHHHHHHHhhcC-cEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC-hhhHHHHHHHHHh
Q 002267 187 IAIFV--DDDYGRNGISVLGDALSKKR-AKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-PDTGLTIFSVAKS 262 (945)
Q Consensus 187 ~ii~~--d~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-~~~~~~~~~~a~~ 262 (945)
++|.. ++.|.....+.+.+++++.| ..+.....- ..+.......++.+...++|.||+... .......++++++
T Consensus 2 gvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~i~~~~~--~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~ 79 (302)
T TIGR02637 2 GLVVKSLGNPFFEAANKGAEEAAKELGSVYIIYTGPT--GTTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMK 79 (302)
T ss_pred EEEeccCCCHHHHHHHHHHHHHHHHhCCeeEEEECCC--CCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHH
Confidence 44443 36677778889999999999 444432111 123444556788887788999888653 3344567788887
Q ss_pred CCC
Q 002267 263 LGM 265 (945)
Q Consensus 263 ~g~ 265 (945)
.|.
T Consensus 80 ~gi 82 (302)
T TIGR02637 80 RGI 82 (302)
T ss_pred CCC
Confidence 774
No 481
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=42.78 E-value=1.6e+02 Score=28.19 Aligned_cols=81 Identities=11% Similarity=0.065 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC
Q 002267 170 QMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN 249 (945)
Q Consensus 170 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~ 249 (945)
+++.+..+.++++.++|.++ +|..-.......+.....-.|+++... +.++....+++ ...+-++++++-+
T Consensus 15 HGQV~~~W~~~~~~~~IvVv-dD~~A~D~~~k~~l~ma~P~gvk~~i~-------sv~~a~~~l~~-~~~~~~v~il~k~ 85 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVA-NDEVAEDPVQQNLMEMVLAEGIAVRFW-------TLQKVIDNIHR-AADRQKILLVCKT 85 (157)
T ss_pred hHHhhhhhhcccCCCEEEEE-cchhcCCHHHHHHHHhhCCCCCeEEEE-------EHHHHHHHHhc-cCCCceEEEEECC
Confidence 57778889999999998655 444444456666666655567776532 44566667776 5566789999999
Q ss_pred hhhHHHHHHH
Q 002267 250 PDTGLTIFSV 259 (945)
Q Consensus 250 ~~~~~~~~~~ 259 (945)
+.++..+++.
T Consensus 86 ~~d~~~l~~~ 95 (157)
T PRK11425 86 PADFLTLVKG 95 (157)
T ss_pred HHHHHHHHHc
Confidence 9999888753
No 482
>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=42.67 E-value=1.1e+02 Score=31.78 Aligned_cols=77 Identities=8% Similarity=-0.020 Sum_probs=49.1
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|++|.+ ++.|.....+.+++++++.|..+.....-. .........++.+.+.++|.+++........ .+.++.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~~~ 78 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSMLAE--ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAAPA 78 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeCCC--CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHHhc
Confidence 556654 456777889999999999998876542211 1234556677778778899998865433333 23444454
Q ss_pred CC
Q 002267 264 GM 265 (945)
Q Consensus 264 g~ 265 (945)
|.
T Consensus 79 ~i 80 (264)
T cd01574 79 DV 80 (264)
T ss_pred CC
Confidence 53
No 483
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=42.51 E-value=1.4e+02 Score=32.40 Aligned_cols=79 Identities=4% Similarity=-0.052 Sum_probs=52.7
Q ss_pred CeEEEEEEEe--CCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHH
Q 002267 183 WREVIAIFVD--DDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVA 260 (945)
Q Consensus 183 w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a 260 (945)
-+.|+++..+ ++|.....+.+.+++++.|..+..... . .+.......++.+...++|.||+..... ....++.+
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~--~~~~~~~~~~~~~~~~~vdgiI~~~~~~-~~~~~~~l 138 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDAHGYQTMLAHY-G--YKPEMEQERLESMLSWNIDGLILTERTH-TPRTLKMI 138 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHHCCCEEEEecC-C--CCHHHHHHHHHHHHhcCCCEEEEcCCCC-CHHHHHHH
Confidence 3578888754 567778889999999999988765321 1 2333344567777778899999864222 23456666
Q ss_pred HhCCC
Q 002267 261 KSLGM 265 (945)
Q Consensus 261 ~~~g~ 265 (945)
.+.|+
T Consensus 139 ~~~~i 143 (331)
T PRK14987 139 EVAGI 143 (331)
T ss_pred HhCCC
Confidence 66664
No 484
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=41.95 E-value=1.4e+02 Score=28.30 Aligned_cols=98 Identities=9% Similarity=-0.006 Sum_probs=58.3
Q ss_pred cCChhHHHHHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceE
Q 002267 164 TQSDYYQMHAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRV 243 (945)
Q Consensus 164 ~p~d~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 243 (945)
++.-..++..+++.++..+..--.++.+.-.-....++.+.+.+.. ...+.....+.+..+..++...++++...+.+.
T Consensus 24 t~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~~~~~-~~~~~~~~~l~p~~~~~~~~~~l~~~~~~~~~~ 102 (152)
T TIGR00249 24 TTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVGDCLNL-PSSAEVLEGLTPCGDIGLVSDYLEALTNEGVAS 102 (152)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHHcCC-CcceEEccCcCCCCCHHHHHHHHHHHHhcCCCE
Confidence 3445577888888888765433344554444444455555444321 123333334443345566777777776545667
Q ss_pred EEEEcChhhHHHHHHHHHh
Q 002267 244 FVVHVNPDTGLTIFSVAKS 262 (945)
Q Consensus 244 ivl~~~~~~~~~~~~~a~~ 262 (945)
+++++..+....++..+-.
T Consensus 103 vliVgH~P~i~~l~~~l~~ 121 (152)
T TIGR00249 103 VLLVSHLPLVGYLVAELCP 121 (152)
T ss_pred EEEEeCCCCHHHHHHHHhC
Confidence 8888888888888877753
No 485
>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=41.94 E-value=80 Score=33.87 Aligned_cols=71 Identities=13% Similarity=0.023 Sum_probs=51.7
Q ss_pred eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcCh-hhHHHHHHHHHhCCC
Q 002267 192 DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNP-DTGLTIFSVAKSLGM 265 (945)
Q Consensus 192 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~-~~~~~~~~~a~~~g~ 265 (945)
+++|.....+.+++++++.|..+..... ..+.......++.+...++|.|++.... ......++.+.+.|+
T Consensus 9 ~~~~~~~~~~~i~~~a~~~g~~v~~~~~---~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~i 80 (302)
T TIGR02634 9 RLERWQKDRDIFVAAAESLGAKVFVQSA---NGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGI 80 (302)
T ss_pred chhhHHHHHHHHHHHHHhcCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCC
Confidence 5777888889999999999998865422 2344445578888888899999987543 334677778877664
No 486
>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=41.84 E-value=2.4e+02 Score=29.20 Aligned_cols=129 Identities=12% Similarity=0.055 Sum_probs=71.9
Q ss_pred ceEEEEEEeccCCccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhHH
Q 002267 49 SSVRIGALFTYDSVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSSGIA 128 (945)
Q Consensus 49 ~~i~IG~l~~l~~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 128 (945)
+.-+||.+.+........-..|+.-++++.+. +.+.......+..+...+.+.+.++++.+..+|+.. ....+
T Consensus 119 g~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai~~~-~d~~A 191 (260)
T cd06304 119 KTGKVGFVGGMPIPEVNRFINGFAAGAKSVNP------DITVLVIYTGSFFDPAKGKEAALALIDQGADVIFAA-AGGTG 191 (260)
T ss_pred cCCceEEEeccccHHHHHHHHHHHHHHHHhCC------CcEEEEEEecCccCcHHHHHHHHHHHhCCCCEEEEc-CCCCc
Confidence 34567777543222233345677777766431 233333333333345567777788877666788774 44555
Q ss_pred HHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHHHHHcCCeEE
Q 002267 129 HVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADLVEYYGWREV 186 (945)
Q Consensus 129 ~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~l~~~~w~~v 186 (945)
..+...+.+.++-++++..+. ++.-..|-+--...+....+..+++.+..-.|+..
T Consensus 192 ~gv~~al~~~gv~vigfD~~~--~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~~ 247 (260)
T cd06304 192 PGVIQAAKEAGVYAIGVDSDQ--SALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKGG 247 (260)
T ss_pred hHHHHHHHHcCCEEEeecCch--hhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCCc
Confidence 566666667777777665432 22222355555555656666666666555555433
No 487
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=41.77 E-value=4.3e+02 Score=27.63 Aligned_cols=83 Identities=8% Similarity=-0.042 Sum_probs=56.5
Q ss_pred CceEEEecCccccccceeccCCCCceeeeeHHHHHHHHHhCCCCccEEEEEcCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002267 485 MPLRIAVPNRVSYNEFVAKDKSPPGVKGYCIDVFEAAVNLLPYPVPHNYIMYGNGKRNPIYNDIVQQVALNKFDAAVGDI 564 (945)
Q Consensus 485 ~~l~v~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 564 (945)
+.++||+... ....+-.+++..+.+..+ .+++.+.. +...++++.|.+|++|+++...
T Consensus 89 ~~l~Ig~~~~--------------~~~~~l~~~l~~f~~~~P-~v~v~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 146 (275)
T PRK03601 89 NELSIGASAS--------------LWECMLTPWLGRLYQNQE-ALQFEARI-------AQRQSLVKQLHERQLDLLITTE 146 (275)
T ss_pred ceEEEeccHH--------------HHHHHHHHHHHHHHHhCC-CcEEEEEE-------CChHHHHHHHHcCCCCEEEEcC
Confidence 5699988322 113466778888877655 24566654 5678999999999999999643
Q ss_pred EEecCcceeEEecccccccceEEEEEccC
Q 002267 565 TIVTNRTKLVDFTQPYMESGLVVVAPVQK 593 (945)
Q Consensus 565 ~~t~~r~~~~dfs~p~~~~~~~~vv~~~~ 593 (945)
... . ..+ ...|+....+++++++..
T Consensus 147 ~~~--~-~~l-~~~~l~~~~~~~v~~~~~ 171 (275)
T PRK03601 147 APK--M-DEF-SSQLLGHFTLALYTSAPS 171 (275)
T ss_pred CCc--c-CCc-cEEEecceeEEEEecCch
Confidence 222 1 223 356888888999987665
No 488
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=41.53 E-value=3.2e+02 Score=27.58 Aligned_cols=91 Identities=16% Similarity=0.133 Sum_probs=56.7
Q ss_pred CCCeEEeeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceeEEecchhhHHHHhccCCccEEEeCcccccc
Q 002267 712 TEPIGVQDGSFAWNYLVDELKIAESRLVKLKNMEEYSIALARGPKGGGVAAIVDELPYIELFMSKTNCEFRTVGQEFTKS 791 (945)
Q Consensus 712 ~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 (945)
+++|+...-.....||.+ .+.+ .+++.....-|..-.+ |-.|++++-........++ +|.++...+ ..
T Consensus 115 ~~rIATkYp~it~~yf~~-~gv~-~~iv~l~GsvE~aP~~------GlAD~IvDivsTG~TLr~N---gL~~ie~Il-~s 182 (215)
T PRK01686 115 RLRVATKYPNIARRYFAE-KGEQ-VEIIKLYGSVELAPLV------GLADAIVDIVETGNTLRAN---GLVEVEEIM-DI 182 (215)
T ss_pred CCEEEeCCHHHHHHHHHH-cCCe-EEEEECcCceeecccc------CCccEEEEeecChHHHHHC---cCEEeeEEE-ee
Confidence 677888777778888854 4654 6666666555543222 7788999887777776555 566665444 34
Q ss_pred ceEEEecCCCc--chHHHHHHHHhc
Q 002267 792 GWGFAFQRDSP--LAIDLSTAILQL 814 (945)
Q Consensus 792 ~~~~~~~k~sp--l~~~i~~~i~~l 814 (945)
.-.+...+.|. -.+.++..+.+|
T Consensus 183 ~A~LI~n~~s~~~k~~~i~~l~~~l 207 (215)
T PRK01686 183 SARLIVNRASLKLKREEIRPLIEKL 207 (215)
T ss_pred EEEEEEecccchhhHHHHHHHHHHH
Confidence 44455566654 224555555554
No 489
>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=41.46 E-value=1.1e+02 Score=31.83 Aligned_cols=77 Identities=8% Similarity=-0.029 Sum_probs=51.9
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC-hh---hHHHHHHH
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-PD---TGLTIFSV 259 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-~~---~~~~~~~~ 259 (945)
|++|.. ++.|.......+.+++++.|..+...... .+.+.....++.+...++|.+++... .. .....+.+
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~ 78 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQYGYTVLLCNTY---RGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHYER 78 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHCCCEEEEEeCC---CChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHH
Confidence 456654 46788888999999999999987643221 23455567788888889998888642 22 22344566
Q ss_pred HHhCCC
Q 002267 260 AKSLGM 265 (945)
Q Consensus 260 a~~~g~ 265 (945)
+.+.|+
T Consensus 79 ~~~~~i 84 (273)
T cd06292 79 LAERGL 84 (273)
T ss_pred HHhCCC
Confidence 666664
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=41.00 E-value=1.2e+02 Score=28.79 Aligned_cols=62 Identities=11% Similarity=0.077 Sum_probs=42.2
Q ss_pred EEEEEEEeCC--ccc---chHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhcc-CCceEEEEEc
Q 002267 185 EVIAIFVDDD--YGR---NGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANL-MESRVFVVHV 248 (945)
Q Consensus 185 ~v~ii~~d~~--~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vivl~~ 248 (945)
++++|...++ .|+ .....+.+.+++.|.++.....++ .+.+++.+.+++..+ .++|+||..+
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~--Dd~~~i~~~l~~~~~~~~~DlVittG 69 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVP--DDKDEIREALIEWADEDGVDLILTTG 69 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcC--CCHHHHHHHHHHHHhcCCCCEEEECC
Confidence 4667655442 222 234567888999999988777776 456777787777643 3789998874
No 491
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=40.94 E-value=51 Score=32.26 Aligned_cols=28 Identities=21% Similarity=0.557 Sum_probs=25.8
Q ss_pred EEEEccCChhHHHHHHHhhcccCccEEe
Q 002267 117 VAAIGPQSSGIAHVISHVVNELNVPLLS 144 (945)
Q Consensus 117 ~aiiGp~~s~~~~~va~~~~~~~iP~Is 144 (945)
+.|+||.+++-+-....+++.+++|+|+
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hls 30 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLD 30 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEc
Confidence 6799999999999899999999999997
No 492
>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=40.91 E-value=89 Score=33.52 Aligned_cols=77 Identities=8% Similarity=0.057 Sum_probs=51.7
Q ss_pred EEEEEE---eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccC--CceEEEEEcChhhHHHHHHHH
Q 002267 186 VIAIFV---DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLM--ESRVFVVHVNPDTGLTIFSVA 260 (945)
Q Consensus 186 v~ii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vivl~~~~~~~~~~~~~a 260 (945)
|+++.. ++.|.......+++++++.|..+..... ..+.......++.+... ++|.||+.........+++.+
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~v~~~~~---~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~ 78 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIELEVLYA---ERDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLA 78 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCeEEEEeC---CCCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHH
Confidence 556653 4567777888999999999998765422 12344445677777777 899999864333345567777
Q ss_pred HhCCC
Q 002267 261 KSLGM 265 (945)
Q Consensus 261 ~~~g~ 265 (945)
.+.|+
T Consensus 79 ~~~gi 83 (305)
T cd06324 79 EGAGV 83 (305)
T ss_pred HhCCC
Confidence 77665
No 493
>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=40.72 E-value=2e+02 Score=31.56 Aligned_cols=101 Identities=11% Similarity=-0.001 Sum_probs=60.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCcccchHHHHHHHHhh-cCcEEEEeecCCCCCChHHHHHHHHhhccCC---ceEEEEE
Q 002267 172 HAVADLVEYYGWREVIAIFVDDDYGRNGISVLGDALSK-KRAKISYKAPFSPGASRSAINSLLVGANLME---SRVFVVH 247 (945)
Q Consensus 172 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~---~~vivl~ 247 (945)
..+.++++.++-+++.+|.+...+ +...+.+.+.++. .++.+..........+.+.+...+..+++.+ .|+||..
T Consensus 12 ~~l~~~~~~~~~~k~livtd~~v~-~~~~~~v~~~L~~~~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~~r~d~IIai 90 (344)
T cd08169 12 ESVESYTTRDLFDQYFFISDSGVA-DLIAHYIAEYLSKILPVHILVIEGGEEYKTFETVTRILERAIALGANRRTAIVAV 90 (344)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhhcCceEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEE
Confidence 334556777777888888754433 3566778888876 5665543222333346667777777777544 8888876
Q ss_pred cC--hhhHHHHHHHHHhCCCCCCCeEEEEeC
Q 002267 248 VN--PDTGLTIFSVAKSLGMTAGSYVWIATD 276 (945)
Q Consensus 248 ~~--~~~~~~~~~~a~~~g~~~~~~~wi~~~ 276 (945)
+. .-+...++......|+ .++-|-|.
T Consensus 91 GGGsv~D~ak~vA~~~~rgi---p~i~VPTT 118 (344)
T cd08169 91 GGGATGDVAGFVASTLFRGI---AFIRVPTT 118 (344)
T ss_pred CCcHHHHHHHHHHHHhccCC---cEEEecCC
Confidence 54 3456666655444443 34444443
No 494
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=40.61 E-value=87 Score=32.28 Aligned_cols=87 Identities=10% Similarity=0.007 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHc--CCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEE
Q 002267 170 QMHAVADLVEYY--GWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVH 247 (945)
Q Consensus 170 ~~~ai~~~l~~~--~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~ 247 (945)
.++.+++++... .-++|.++. |....+.+.+.|++.|+.|.....|.......+.......+++.+.|+|++.
T Consensus 103 ~~e~L~~~~~~~~~~~~~vL~~r-----g~~~r~~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~~~d~i~f~ 177 (240)
T PRK09189 103 DGVRLAETVAAALAPTARLLYLA-----GRPRAPVFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAILGGAPFDAVLLY 177 (240)
T ss_pred CHHHHHHHHHHhcCCCCcEEEec-----cCcccchhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHHhcCCCCEEEEe
Confidence 467777766432 446776665 3345577889999999887665544311111122334455555677777775
Q ss_pred cChhhHHHHHHHHHh
Q 002267 248 VNPDTGLTIFSVAKS 262 (945)
Q Consensus 248 ~~~~~~~~~~~~a~~ 262 (945)
+ +..+..+++....
T Consensus 178 S-~~~~~~f~~~~~~ 191 (240)
T PRK09189 178 S-RVAARRFFALMRL 191 (240)
T ss_pred C-HHHHHHHHHHHhh
Confidence 4 5567777776643
No 495
>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=40.41 E-value=1e+02 Score=28.43 Aligned_cols=47 Identities=13% Similarity=0.151 Sum_probs=35.5
Q ss_pred hHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEc
Q 002267 199 GISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHV 248 (945)
Q Consensus 199 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~ 248 (945)
....+.+.+++.|.++.+...++ .+...+.+.+.++.+. +|+|+..+
T Consensus 20 n~~~l~~~l~~~G~~v~~~~~v~--Dd~~~i~~~i~~~~~~-~DlvittG 66 (133)
T cd00758 20 NGPALEALLEDLGCEVIYAGVVP--DDADSIRAALIEASRE-ADLVLTTG 66 (133)
T ss_pred hHHHHHHHHHHCCCEEEEeeecC--CCHHHHHHHHHHHHhc-CCEEEECC
Confidence 45677888999999988766665 4667788888877543 89999874
No 496
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=40.37 E-value=3.5e+02 Score=31.74 Aligned_cols=129 Identities=14% Similarity=0.141 Sum_probs=78.2
Q ss_pred CChHHHHHHHHH-HHhcCcEEEEccCChhHHHHHHHhhcccCccEEecccCCCCCCCCCCCceEEecCChhHHHHHHHHH
Q 002267 99 CSGFVGTMEALQ-LMENEVVAAIGPQSSGIAHVISHVVNELNVPLLSFGATDPTLTSLQYPYFLRTTQSDYYQMHAVADL 177 (945)
Q Consensus 99 ~~~~~a~~~a~~-li~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~a~~~~ls~~~~p~~~r~~p~d~~~~~ai~~~ 177 (945)
..-..+++.+.+ +..+++.+||.-.++.. . +-+...||+|....+ ......++. .
T Consensus 47 ~~~~~~v~~~~~~~~~~~~dviIsrG~ta~--~---i~~~~~iPVv~i~~s------------------~~Dil~al~-~ 102 (538)
T PRK15424 47 LGFEKAVTYIRKRLATERCDAIIAAGSNGA--Y---LKSRLSVPVILIKPS------------------GFDVMQALA-R 102 (538)
T ss_pred hhHHHHHHHHHHHHhhCCCcEEEECchHHH--H---HHhhCCCCEEEecCC------------------HhHHHHHHH-H
Confidence 345667777744 55568999997544332 2 223468999863221 112344443 3
Q ss_pred HHHcCCeEEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHH
Q 002267 178 VEYYGWREVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIF 257 (945)
Q Consensus 178 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~ 257 (945)
.+.++ .++++|.-.+. ...++.+.+.+ ++++... .+ .+.+|....+.++++.+.++||-.+. ..
T Consensus 103 a~~~~-~~iavv~~~~~--~~~~~~~~~~l---~~~i~~~-~~---~~~~e~~~~v~~lk~~G~~~vvG~~~------~~ 166 (538)
T PRK15424 103 ARKLT-SSIGVVTYQET--IPALVAFQKTF---NLRIEQR-SY---VTEEDARGQINELKANGIEAVVGAGL------IT 166 (538)
T ss_pred HHhcC-CcEEEEecCcc--cHHHHHHHHHh---CCceEEE-Ee---cCHHHHHHHHHHHHHCCCCEEEcCch------HH
Confidence 35555 56777764332 12445555554 4555433 23 36789999999999999999986432 24
Q ss_pred HHHHhCCCCC
Q 002267 258 SVAKSLGMTA 267 (945)
Q Consensus 258 ~~a~~~g~~~ 267 (945)
..|.+.|+.+
T Consensus 167 ~~A~~~g~~g 176 (538)
T PRK15424 167 DLAEEAGMTG 176 (538)
T ss_pred HHHHHhCCce
Confidence 5688888865
No 497
>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=40.30 E-value=1.1e+02 Score=31.75 Aligned_cols=74 Identities=7% Similarity=-0.019 Sum_probs=49.6
Q ss_pred EEEEEE--eCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcChhhHHHHHHHHHhC
Q 002267 186 VIAIFV--DDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVNPDTGLTIFSVAKSL 263 (945)
Q Consensus 186 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~~~~~~~~~~~a~~~ 263 (945)
|+++.. ++.|.....+.+.+++++.|.++...... .+...-...++.+...++|.|++....... ..++.+.+.
T Consensus 2 i~~i~~~~~~~~~~~i~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~-~~~~~~~~~ 77 (260)
T cd06286 2 IGVVLPYINHPYFSQLVDGIEKAALKHGYKVVLLQTN---YDKEKELEYLELLKTKQVDGLILCSRENDW-EVIEPYTKY 77 (260)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeCC---CChHHHHHHHHHHHHcCCCEEEEeCCCCCH-HHHHHHhcC
Confidence 566665 36788888999999999999988654321 234444567777877889988886533222 344555543
No 498
>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=40.17 E-value=2.6e+02 Score=28.65 Aligned_cols=88 Identities=16% Similarity=0.224 Sum_probs=51.6
Q ss_pred CccccchHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCCh-hHHHHHHHhhcccC
Q 002267 61 SVIGRAAGPAIAAAVDDVNSDPSILPGTTLNFVIRDTNCSGFVGTMEALQLMENEVVAAIGPQSS-GIAHVISHVVNELN 139 (945)
Q Consensus 61 ~~~g~~~~~a~~~Ave~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~~~~va~~~~~~~ 139 (945)
...|+.-..++.-.+.++| |..+++.. +..-++. ...+++..+...||....+ ..-..+...+...+
T Consensus 60 ~diG~~Kae~~~~~l~~in------P~~~V~~~--~~~i~~~----~~~~l~~~~~D~VvdaiD~~~~k~~L~~~c~~~~ 127 (231)
T cd00755 60 STVGKPKVEVMAERIRDIN------PECEVDAV--EEFLTPD----NSEDLLGGDPDFVVDAIDSIRAKVALIAYCRKRK 127 (231)
T ss_pred hhCCCcHHHHHHHHHHHHC------CCcEEEEe--eeecCHh----HHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHhC
Confidence 4456666677777778887 33455443 3322322 2345555566677765444 44456788899999
Q ss_pred ccEEecccCCCCCCCCCCCceEEec
Q 002267 140 VPLLSFGATDPTLTSLQYPYFLRTT 164 (945)
Q Consensus 140 iP~Is~~a~~~~ls~~~~p~~~r~~ 164 (945)
+|+|+..+....+ .|.-+|..
T Consensus 128 ip~I~s~g~g~~~----dp~~i~i~ 148 (231)
T cd00755 128 IPVISSMGAGGKL----DPTRIRVA 148 (231)
T ss_pred CCEEEEeCCcCCC----CCCeEEEc
Confidence 9999854443333 25555544
No 499
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=39.95 E-value=24 Score=25.95 Aligned_cols=28 Identities=25% Similarity=0.511 Sum_probs=22.6
Q ss_pred hhHHHHHHHHHHHHhhhheeecccCCCC
Q 002267 608 PMWLVTGGFFLFVGAVVWILEHRFNNEF 635 (945)
Q Consensus 608 ~~W~~~~~~~~~~~~~~~~l~~~~~~~~ 635 (945)
++|.++..+++++++++|.+..+..+.+
T Consensus 12 ~~~~l~~~~~~Figiv~wa~~p~~k~~f 39 (48)
T cd01324 12 DSWGLLYLALFFLGVVVWAFRPGRKKAF 39 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCcchhH
Confidence 6788888899999999999976654443
No 500
>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=39.57 E-value=1.6e+02 Score=26.39 Aligned_cols=86 Identities=12% Similarity=0.023 Sum_probs=0.0
Q ss_pred EEEEEEEeCCcccchHHHHHHHHhhcCcEEEEeecCCCCCChHHHHHHHHhhccCCceEEEEEcC-hhhHHHHHHHHHhC
Q 002267 185 EVIAIFVDDDYGRNGISVLGDALSKKRAKISYKAPFSPGASRSAINSLLVGANLMESRVFVVHVN-PDTGLTIFSVAKSL 263 (945)
Q Consensus 185 ~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vivl~~~-~~~~~~~~~~a~~~ 263 (945)
+|.+.....+.-.-+..-+...++..|.+|.+-..-.+. ...++.+.+.++++|.+++. ......+.+.++++
T Consensus 1 ~vl~~~~~~e~H~lG~~~~~~~l~~~G~~V~~lg~~~~~------~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l 74 (119)
T cd02067 1 KVVIATVGGDGHDIGKNIVARALRDAGFEVIDLGVDVPP------EEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEEL 74 (119)
T ss_pred CEEEEeeCCchhhHHHHHHHHHHHHCCCEEEECCCCCCH------HHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHH
Q ss_pred CCCCC-CeEEEEeC
Q 002267 264 GMTAG-SYVWIATD 276 (945)
Q Consensus 264 g~~~~-~~~wi~~~ 276 (945)
.-..+ +..++...
T Consensus 75 ~~~~~~~~~i~vGG 88 (119)
T cd02067 75 KEAGLDDIPVLVGG 88 (119)
T ss_pred HHcCCCCCeEEEEC
Done!