Query 047109
Match_columns 808
No_of_seqs 326 out of 3501
Neff 10.1
Searched_HMMs 46136
Date Fri Mar 29 07:42:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047109.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047109hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054 Glutamate-gated AMPA-t 100.0 1.3E-92 2.9E-97 714.2 48.3 749 1-806 26-842 (897)
2 KOG1053 Glutamate-gated NMDA-t 100.0 9.3E-78 2E-82 632.0 55.6 677 49-805 83-852 (1258)
3 KOG4440 NMDA selective glutama 100.0 9.6E-80 2.1E-84 623.9 34.7 720 2-807 36-855 (993)
4 KOG1052 Glutamate-gated kainat 100.0 2.3E-55 5.1E-60 507.4 52.7 569 186-807 5-622 (656)
5 cd06364 PBP1_CaSR Ligand-bindi 100.0 8.7E-44 1.9E-48 395.1 39.4 362 2-375 13-503 (510)
6 cd06365 PBP1_Pheromone_recepto 100.0 6.4E-44 1.4E-48 394.0 37.5 361 2-375 3-462 (469)
7 cd06361 PBP1_GPC6A_like Ligand 100.0 1.4E-43 3.1E-48 382.9 37.7 334 3-367 1-395 (403)
8 cd06362 PBP1_mGluR Ligand bind 100.0 1.5E-43 3.4E-48 393.1 37.7 356 2-369 3-450 (452)
9 cd06374 PBP1_mGluR_groupI Liga 100.0 2.4E-43 5.2E-48 391.6 36.9 353 2-366 10-465 (472)
10 cd06375 PBP1_mGluR_groupII Lig 100.0 4.9E-43 1.1E-47 385.3 38.7 350 2-365 3-454 (458)
11 cd06376 PBP1_mGluR_groupIII Li 100.0 1.2E-42 2.5E-47 385.6 38.7 353 1-365 2-452 (463)
12 cd06393 PBP1_iGluR_Kainate_Glu 100.0 8.8E-43 1.9E-47 377.5 36.0 352 1-369 2-381 (384)
13 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 5E-42 1.1E-46 364.1 35.3 340 3-369 1-363 (364)
14 cd06366 PBP1_GABAb_receptor Li 100.0 8.9E-42 1.9E-46 366.9 35.2 333 3-369 1-346 (350)
15 cd06380 PBP1_iGluR_AMPA N-term 100.0 2.4E-41 5.1E-46 367.5 36.9 347 3-369 1-381 (382)
16 cd06392 PBP1_iGluR_delta_1 N-t 100.0 2.2E-41 4.8E-46 358.4 35.5 346 3-369 1-398 (400)
17 cd06386 PBP1_NPR_C_like Ligand 100.0 3.7E-41 8.1E-46 364.4 35.9 348 4-365 2-378 (387)
18 cd06370 PBP1_Speract_GC_like L 100.0 3.6E-41 7.9E-46 367.5 34.3 340 2-356 1-385 (404)
19 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 1.1E-40 2.4E-45 352.4 35.9 347 3-369 1-371 (372)
20 cd06363 PBP1_Taste_receptor Li 100.0 1.7E-40 3.8E-45 362.8 36.4 333 2-366 7-396 (410)
21 cd06372 PBP1_GC_G_like Ligand- 100.0 1.5E-40 3.3E-45 362.2 34.8 352 3-367 1-387 (391)
22 cd06352 PBP1_NPR_GC_like Ligan 100.0 2.1E-40 4.5E-45 361.8 35.6 355 3-368 1-384 (389)
23 cd06367 PBP1_iGluR_NMDA N-term 100.0 1.2E-40 2.7E-45 359.1 32.5 318 1-365 2-351 (362)
24 cd06373 PBP1_NPR_like Ligand b 100.0 1.3E-40 2.9E-45 363.2 32.7 352 3-366 1-389 (396)
25 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 5.7E-40 1.2E-44 350.3 35.4 345 3-369 1-369 (371)
26 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 6.4E-40 1.4E-44 351.1 35.4 344 3-369 1-368 (370)
27 cd06385 PBP1_NPR_A Ligand-bind 100.0 7.8E-40 1.7E-44 358.0 36.1 351 3-366 1-391 (405)
28 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 1.6E-39 3.4E-44 352.0 35.6 314 1-366 19-364 (377)
29 cd06371 PBP1_sensory_GC_DEF_li 100.0 1.1E-39 2.4E-44 352.0 33.6 341 3-363 1-369 (382)
30 KOG1056 Glutamate-gated metabo 100.0 8.9E-40 1.9E-44 358.9 32.2 375 1-411 31-494 (878)
31 cd06391 PBP1_iGluR_delta_2 N-t 100.0 5.1E-39 1.1E-43 344.8 37.0 349 3-369 1-398 (400)
32 cd06382 PBP1_iGluR_Kainate N-t 100.0 5.9E-40 1.3E-44 349.0 28.9 318 3-369 1-326 (327)
33 cd06394 PBP1_iGluR_Kainate_KA1 100.0 4.5E-39 9.8E-44 334.8 27.0 324 3-370 1-332 (333)
34 cd06384 PBP1_NPR_B Ligand-bind 100.0 4.2E-37 9.1E-42 335.2 35.8 352 3-366 1-392 (399)
35 cd06368 PBP1_iGluR_non_NMDA_li 100.0 2.2E-37 4.8E-42 329.3 30.9 319 3-369 1-323 (324)
36 PRK15404 leucine ABC transport 100.0 5.6E-36 1.2E-40 321.6 32.0 329 1-356 25-363 (369)
37 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 1.1E-35 2.3E-40 318.2 31.6 323 3-352 1-334 (334)
38 cd06346 PBP1_ABC_ligand_bindin 100.0 4.3E-36 9.3E-41 316.7 27.9 301 3-350 1-311 (312)
39 cd06381 PBP1_iGluR_delta_like 100.0 2.9E-35 6.2E-40 312.4 34.0 333 3-369 1-362 (363)
40 PF01094 ANF_receptor: Recepto 100.0 8.4E-36 1.8E-40 321.3 29.1 327 18-353 2-348 (348)
41 cd06338 PBP1_ABC_ligand_bindin 100.0 1.3E-35 2.8E-40 318.7 29.8 324 3-352 1-345 (345)
42 cd06345 PBP1_ABC_ligand_bindin 100.0 1.9E-35 4.1E-40 316.8 30.8 317 3-343 1-338 (344)
43 cd06355 PBP1_FmdD_like Peripla 100.0 5.6E-35 1.2E-39 312.6 32.5 335 3-360 1-345 (348)
44 TIGR03669 urea_ABC_arch urea A 100.0 9.3E-35 2E-39 311.0 32.3 338 2-364 1-349 (374)
45 cd06348 PBP1_ABC_ligand_bindin 100.0 1.4E-34 3.1E-39 310.2 31.2 322 3-348 1-342 (344)
46 cd06350 PBP1_GPCR_family_C_lik 100.0 2.4E-34 5.3E-39 309.4 29.8 303 3-366 1-340 (348)
47 COG0683 LivK ABC-type branched 100.0 4.5E-34 9.7E-39 306.1 30.4 334 1-356 10-356 (366)
48 TIGR03407 urea_ABC_UrtA urea A 100.0 1.3E-33 2.9E-38 303.1 33.2 329 2-353 1-338 (359)
49 cd06344 PBP1_ABC_ligand_bindin 100.0 6.8E-34 1.5E-38 302.9 28.8 316 3-343 1-326 (332)
50 cd06331 PBP1_AmiC_like Type I 100.0 1.1E-33 2.4E-38 301.6 30.0 320 3-343 1-327 (333)
51 cd06340 PBP1_ABC_ligand_bindin 100.0 5.2E-34 1.1E-38 305.4 27.4 318 3-343 1-341 (347)
52 cd06347 PBP1_ABC_ligand_bindin 100.0 1.8E-33 3.9E-38 301.0 31.3 316 3-343 1-328 (334)
53 cd06349 PBP1_ABC_ligand_bindin 100.0 6.5E-33 1.4E-37 296.8 32.1 327 3-356 1-339 (340)
54 cd06329 PBP1_SBP_like_3 Peripl 100.0 2.9E-33 6.3E-38 299.2 29.1 314 3-343 1-337 (342)
55 cd06343 PBP1_ABC_ligand_bindin 100.0 7.4E-33 1.6E-37 299.1 31.9 335 1-357 6-362 (362)
56 cd06357 PBP1_AmiC Periplasmic 100.0 2.5E-32 5.4E-37 293.3 34.2 339 3-361 1-347 (360)
57 cd06327 PBP1_SBP_like_1 Peripl 100.0 3.5E-33 7.6E-38 297.9 26.1 315 3-343 1-329 (334)
58 cd06359 PBP1_Nba_like Type I p 100.0 1.6E-32 3.4E-37 292.6 30.2 321 3-351 1-332 (333)
59 cd06356 PBP1_Amide_Urea_BP_lik 100.0 1.7E-32 3.8E-37 291.8 30.2 320 3-343 1-329 (334)
60 PF13458 Peripla_BP_6: Peripla 100.0 1.3E-32 2.8E-37 295.7 29.0 331 1-355 1-341 (343)
61 cd06358 PBP1_NHase Type I peri 100.0 7.3E-32 1.6E-36 287.4 31.6 315 3-340 1-324 (333)
62 cd06336 PBP1_ABC_ligand_bindin 100.0 2.4E-32 5.1E-37 292.6 27.4 317 3-344 1-342 (347)
63 cd06330 PBP1_Arsenic_SBP_like 100.0 2.7E-32 5.8E-37 293.0 27.6 317 3-343 1-339 (346)
64 cd06328 PBP1_SBP_like_2 Peripl 100.0 9.5E-32 2.1E-36 286.0 30.9 315 3-343 1-328 (333)
65 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 1.1E-31 2.5E-36 284.4 27.7 279 47-365 43-350 (362)
66 cd06360 PBP1_alkylbenzenes_lik 100.0 3.3E-31 7.2E-36 283.6 30.9 323 3-350 1-334 (336)
67 cd06335 PBP1_ABC_ligand_bindin 100.0 3.4E-31 7.4E-36 283.6 29.9 315 3-336 1-332 (347)
68 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 3.6E-30 7.8E-35 267.4 34.9 314 1-367 18-372 (382)
69 PF13433 Peripla_BP_5: Peripla 100.0 4.8E-31 1.1E-35 266.8 27.3 321 2-343 1-330 (363)
70 cd06334 PBP1_ABC_ligand_bindin 100.0 2E-31 4.2E-36 284.3 25.4 320 3-340 1-348 (351)
71 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 9.9E-31 2.2E-35 279.2 30.7 312 3-365 1-322 (328)
72 cd06383 PBP1_iGluR_AMPA_Like N 100.0 3E-31 6.5E-36 282.2 22.9 310 10-343 6-352 (368)
73 cd06332 PBP1_aromatic_compound 100.0 6.5E-30 1.4E-34 273.4 31.1 320 3-350 1-331 (333)
74 cd06337 PBP1_ABC_ligand_bindin 100.0 8.1E-30 1.8E-34 273.8 25.3 325 3-355 1-355 (357)
75 cd06326 PBP1_STKc_like Type I 100.0 2.2E-28 4.7E-33 261.8 29.4 317 2-341 1-331 (336)
76 cd06339 PBP1_YraM_LppC_lipopro 100.0 3.7E-28 7.9E-33 258.2 24.1 302 3-343 1-331 (336)
77 TIGR03863 PQQ_ABC_bind ABC tra 100.0 5.6E-27 1.2E-31 247.1 24.4 299 15-360 10-321 (347)
78 cd06341 PBP1_ABC_ligand_bindin 100.0 3.3E-26 7.2E-31 245.2 27.8 309 3-333 1-319 (341)
79 cd06269 PBP1_glutamate_recepto 99.9 5.4E-26 1.2E-30 239.1 26.9 221 3-235 1-235 (298)
80 KOG1055 GABA-B ion channel rec 99.9 6.9E-27 1.5E-31 248.5 17.3 349 2-368 42-432 (865)
81 cd06333 PBP1_ABC-type_HAAT_lik 99.9 2.5E-25 5.4E-30 235.2 27.1 277 3-302 1-293 (312)
82 cd04509 PBP1_ABC_transporter_G 99.9 2.9E-25 6.3E-30 233.6 24.6 277 3-300 1-290 (299)
83 cd06268 PBP1_ABC_transporter_L 99.9 7.4E-23 1.6E-27 215.2 25.7 276 3-302 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 1.2E-21 2.7E-26 197.6 29.8 321 15-367 17-366 (380)
85 PRK10797 glutamate and asparta 99.9 1.5E-20 3.3E-25 195.1 22.6 224 412-756 38-272 (302)
86 PRK09495 glnH glutamine ABC tr 99.9 3.3E-20 7.1E-25 188.6 22.7 220 412-756 23-244 (247)
87 PRK11260 cystine transporter s 99.8 2.1E-19 4.5E-24 184.7 22.3 223 412-756 39-262 (266)
88 PF00497 SBP_bac_3: Bacterial 99.8 6.1E-20 1.3E-24 184.3 16.4 221 416-756 1-225 (225)
89 PRK11917 bifunctional adhesin/ 99.8 5.4E-19 1.2E-23 179.9 22.1 218 412-754 36-258 (259)
90 PRK15010 ABC transporter lysin 99.8 1.3E-18 2.8E-23 178.2 22.3 224 412-756 24-255 (260)
91 PRK15007 putative ABC transpor 99.8 1.4E-18 3.1E-23 176.3 21.4 218 412-755 19-242 (243)
92 TIGR02995 ectoine_ehuB ectoine 99.8 1.4E-18 3E-23 179.3 19.0 228 412-756 31-262 (275)
93 TIGR01096 3A0103s03R lysine-ar 99.8 3.7E-18 8E-23 174.3 21.3 219 413-754 23-250 (250)
94 PRK15437 histidine ABC transpo 99.8 1.2E-17 2.5E-22 171.0 21.4 223 412-756 24-255 (259)
95 PRK10859 membrane-bound lytic 99.7 3.2E-17 6.9E-22 181.4 19.3 220 412-756 41-267 (482)
96 TIGR03870 ABC_MoxJ methanol ox 99.7 5E-16 1.1E-20 157.1 17.1 211 415-753 1-241 (246)
97 PRK09959 hybrid sensory histid 99.7 1.6E-15 3.4E-20 189.6 23.2 219 412-756 300-521 (1197)
98 TIGR02285 conserved hypothetic 99.7 2.1E-15 4.6E-20 155.0 17.2 232 412-756 16-262 (268)
99 TIGR03871 ABC_peri_MoxJ_2 quin 99.6 6E-15 1.3E-19 148.5 18.9 213 415-755 1-229 (232)
100 COG0834 HisJ ABC-type amino ac 99.6 8.4E-15 1.8E-19 151.9 20.1 227 412-756 32-265 (275)
101 PRK09959 hybrid sensory histid 99.6 5E-15 1.1E-19 185.2 20.1 223 412-756 54-278 (1197)
102 cd00134 PBPb Bacterial peripla 99.6 2.1E-13 4.5E-18 135.6 21.0 215 416-754 1-218 (218)
103 smart00062 PBPb Bacterial peri 99.6 1.6E-13 3.6E-18 136.2 19.8 216 415-754 1-219 (219)
104 cd01391 Periplasmic_Binding_Pr 99.5 4.9E-13 1.1E-17 137.6 22.0 215 3-234 1-221 (269)
105 PF00060 Lig_chan: Ligand-gate 99.5 1.1E-15 2.4E-20 141.8 1.3 93 541-633 1-101 (148)
106 PF04348 LppC: LppC putative l 99.4 1.1E-11 2.3E-16 137.4 16.7 303 2-353 220-534 (536)
107 COG4623 Predicted soluble lyti 99.3 2.1E-11 4.5E-16 120.5 14.3 221 412-756 21-248 (473)
108 smart00079 PBPe Eukaryotic hom 99.1 5E-10 1.1E-14 101.7 11.0 110 639-755 14-133 (134)
109 PF10613 Lig_chan-Glu_bd: Liga 98.9 2.8E-10 6.1E-15 85.1 1.4 60 427-490 1-65 (65)
110 cd01537 PBP1_Repressors_Sugar_ 98.8 1.8E-07 3.9E-12 96.0 18.7 205 3-228 1-211 (264)
111 cd01536 PBP1_ABC_sugar_binding 98.7 1.3E-06 2.9E-11 89.8 20.6 204 3-227 1-212 (267)
112 cd06267 PBP1_LacI_sugar_bindin 98.6 1.5E-06 3.3E-11 89.1 18.8 205 3-228 1-210 (264)
113 cd06325 PBP1_ABC_uncharacteriz 98.6 2.4E-06 5.3E-11 88.7 19.8 197 3-219 1-208 (281)
114 COG3107 LppC Putative lipoprot 98.6 1.3E-06 2.8E-11 91.2 16.9 308 3-360 259-603 (604)
115 TIGR01098 3A0109s03R phosphate 98.6 7.1E-07 1.5E-11 91.1 13.9 199 413-740 31-254 (254)
116 PRK00489 hisG ATP phosphoribos 98.6 3.6E-07 7.8E-12 94.1 10.9 164 480-756 52-220 (287)
117 cd06300 PBP1_ABC_sugar_binding 98.5 8.1E-06 1.8E-10 84.3 18.6 199 3-219 1-208 (272)
118 cd06320 PBP1_allose_binding Pe 98.4 4.6E-05 1E-09 78.8 20.7 199 3-220 1-207 (275)
119 cd06282 PBP1_GntR_like_2 Ligan 98.3 2.8E-05 6.1E-10 79.9 18.4 201 3-226 1-207 (266)
120 cd06317 PBP1_ABC_sugar_binding 98.2 0.00018 3.9E-09 74.3 19.8 201 3-220 1-212 (275)
121 cd06323 PBP1_ribose_binding Pe 98.1 0.0002 4.2E-09 73.7 19.7 205 3-230 1-214 (268)
122 cd06273 PBP1_GntR_like_1 This 98.1 0.00017 3.7E-09 74.1 18.3 202 3-225 1-208 (268)
123 cd06319 PBP1_ABC_sugar_binding 98.0 0.00053 1.1E-08 70.9 20.4 199 3-220 1-210 (277)
124 cd01545 PBP1_SalR Ligand-bindi 98.0 0.00032 7E-09 72.2 18.4 210 3-230 1-215 (270)
125 cd06309 PBP1_YtfQ_like Peripla 98.0 0.00061 1.3E-08 70.3 19.5 208 3-230 1-220 (273)
126 cd06310 PBP1_ABC_sugar_binding 98.0 0.0012 2.6E-08 68.0 21.7 210 3-230 1-217 (273)
127 PF13407 Peripla_BP_4: Peripla 97.9 0.00054 1.2E-08 70.0 18.4 199 4-219 1-206 (257)
128 cd06312 PBP1_ABC_sugar_binding 97.9 0.0008 1.7E-08 69.3 19.7 198 3-220 1-208 (271)
129 cd06301 PBP1_rhizopine_binding 97.9 0.0013 2.9E-08 67.7 21.0 209 3-230 1-218 (272)
130 cd06305 PBP1_methylthioribose_ 97.9 0.0013 2.8E-08 67.8 19.9 209 3-230 1-217 (273)
131 PRK10653 D-ribose transporter 97.8 0.0025 5.5E-08 66.5 21.4 206 3-230 28-240 (295)
132 COG2984 ABC-type uncharacteriz 97.8 0.004 8.6E-08 62.5 20.9 198 1-219 30-240 (322)
133 TIGR03431 PhnD phosphonate ABC 97.7 0.00061 1.3E-08 70.8 15.0 114 629-750 129-259 (288)
134 cd06284 PBP1_LacI_like_6 Ligan 97.7 0.0027 5.9E-08 65.1 19.2 198 3-222 1-203 (267)
135 cd06289 PBP1_MalI_like Ligand- 97.7 0.0022 4.8E-08 65.8 18.2 202 3-224 1-207 (268)
136 cd06311 PBP1_ABC_sugar_binding 97.7 0.0056 1.2E-07 63.1 20.9 204 3-220 1-210 (274)
137 cd06321 PBP1_ABC_sugar_binding 97.6 0.0077 1.7E-07 61.9 21.3 207 3-231 1-215 (271)
138 cd06308 PBP1_sensor_kinase_lik 97.6 0.0066 1.4E-07 62.4 20.8 209 3-231 1-217 (270)
139 cd06298 PBP1_CcpA_like Ligand- 97.6 0.0046 9.9E-08 63.4 19.1 207 3-230 1-213 (268)
140 cd06271 PBP1_AglR_RafR_like Li 97.6 0.0039 8.5E-08 63.9 18.5 204 4-228 2-214 (268)
141 cd06322 PBP1_ABC_sugar_binding 97.6 0.014 3.1E-07 59.7 22.1 194 4-219 2-203 (267)
142 cd06281 PBP1_LacI_like_5 Ligan 97.6 0.0031 6.7E-08 64.8 17.1 203 3-227 1-208 (269)
143 cd06275 PBP1_PurR Ligand-bindi 97.5 0.006 1.3E-07 62.6 18.9 206 3-228 1-211 (269)
144 cd01574 PBP1_LacI Ligand-bindi 97.5 0.01 2.2E-07 60.8 20.1 204 3-228 1-207 (264)
145 cd06288 PBP1_sucrose_transcrip 97.5 0.0047 1E-07 63.4 17.4 203 3-229 1-211 (269)
146 cd01575 PBP1_GntR Ligand-bindi 97.5 0.009 2E-07 61.2 18.9 204 3-227 1-209 (268)
147 cd06270 PBP1_GalS_like Ligand 97.4 0.012 2.6E-07 60.4 19.4 201 3-223 1-205 (268)
148 cd01538 PBP1_ABC_xylose_bindin 97.4 0.021 4.5E-07 59.4 21.2 200 3-221 1-216 (288)
149 PRK10703 DNA-binding transcrip 97.4 0.0098 2.1E-07 63.6 19.3 207 3-228 61-272 (341)
150 cd01542 PBP1_TreR_like Ligand- 97.4 0.013 2.8E-07 59.8 19.1 203 3-230 1-208 (259)
151 TIGR01481 ccpA catabolite cont 97.4 0.013 2.9E-07 62.2 19.6 200 3-223 61-264 (329)
152 cd06303 PBP1_LuxPQ_Quorum_Sens 97.4 0.023 5.1E-07 58.7 20.9 209 3-230 1-224 (280)
153 cd01539 PBP1_GGBP Periplasmic 97.4 0.025 5.4E-07 59.3 21.2 205 3-222 1-228 (303)
154 cd06286 PBP1_CcpB_like Ligand- 97.4 0.014 3E-07 59.5 18.9 200 3-225 1-205 (260)
155 cd06293 PBP1_LacI_like_11 Liga 97.4 0.017 3.7E-07 59.3 19.6 205 3-228 1-210 (269)
156 cd06296 PBP1_CatR_like Ligand- 97.4 0.011 2.4E-07 60.6 18.1 207 3-230 1-214 (270)
157 cd01540 PBP1_arabinose_binding 97.3 0.023 5E-07 59.0 20.4 212 3-230 1-229 (289)
158 cd06294 PBP1_ycjW_transcriptio 97.3 0.015 3.2E-07 59.8 18.7 202 3-225 1-213 (270)
159 cd06306 PBP1_TorT-like TorT-li 97.3 0.02 4.3E-07 58.8 19.4 195 3-219 1-207 (268)
160 PF00532 Peripla_BP_1: Peripla 97.3 0.016 3.4E-07 59.8 18.4 209 3-230 3-216 (279)
161 cd06283 PBP1_RegR_EndR_KdgR_li 97.3 0.025 5.5E-07 57.8 20.2 206 3-228 1-211 (267)
162 cd06274 PBP1_FruR Ligand bindi 97.3 0.026 5.6E-07 57.7 20.0 206 3-228 1-211 (264)
163 cd06299 PBP1_LacI_like_13 Liga 97.3 0.02 4.3E-07 58.5 19.0 205 3-228 1-208 (265)
164 cd06295 PBP1_CelR Ligand bindi 97.3 0.018 3.9E-07 59.3 18.6 202 3-227 5-218 (275)
165 cd06285 PBP1_LacI_like_7 Ligan 97.3 0.019 4.1E-07 58.8 18.5 198 3-223 1-203 (265)
166 cd06318 PBP1_ABC_sugar_binding 97.2 0.049 1.1E-06 56.2 21.5 199 3-219 1-214 (282)
167 PF04392 ABC_sub_bind: ABC tra 97.2 0.013 2.9E-07 60.9 17.0 182 3-205 1-195 (294)
168 cd06316 PBP1_ABC_sugar_binding 97.2 0.042 9E-07 57.3 20.9 211 3-231 1-220 (294)
169 cd06313 PBP1_ABC_sugar_binding 97.2 0.046 9.9E-07 56.2 20.6 178 41-230 31-216 (272)
170 cd06290 PBP1_LacI_like_9 Ligan 97.2 0.028 6E-07 57.5 18.9 201 3-224 1-205 (265)
171 cd06291 PBP1_Qymf_like Ligand 97.2 0.034 7.3E-07 56.9 19.1 198 3-226 1-204 (265)
172 PRK10014 DNA-binding transcrip 97.1 0.036 7.9E-07 59.2 19.8 201 3-222 66-270 (342)
173 PRK11303 DNA-binding transcrip 97.1 0.054 1.2E-06 57.5 20.8 203 3-227 63-270 (328)
174 cd06324 PBP1_ABC_sugar_binding 97.1 0.047 1E-06 57.2 19.6 204 3-225 1-232 (305)
175 PRK10423 transcriptional repre 97.1 0.05 1.1E-06 57.6 20.0 205 3-228 58-268 (327)
176 cd06278 PBP1_LacI_like_2 Ligan 97.1 0.044 9.5E-07 56.0 18.9 192 3-218 1-197 (266)
177 cd06304 PBP1_BmpA_like Peripla 97.1 0.033 7.2E-07 56.8 17.7 199 3-218 1-202 (260)
178 PRK10936 TMAO reductase system 97.1 0.1 2.2E-06 55.7 21.9 205 2-229 47-262 (343)
179 cd06354 PBP1_BmpA_PnrA_like Pe 97.0 0.036 7.7E-07 56.8 17.8 196 3-218 1-206 (265)
180 cd06292 PBP1_LacI_like_10 Liga 97.0 0.068 1.5E-06 54.9 19.5 207 3-228 1-214 (273)
181 cd06297 PBP1_LacI_like_12 Liga 97.0 0.057 1.2E-06 55.4 18.8 202 3-228 1-213 (269)
182 PRK09701 D-allose transporter 97.0 0.21 4.5E-06 52.5 23.3 209 3-230 26-250 (311)
183 cd06277 PBP1_LacI_like_1 Ligan 97.0 0.065 1.4E-06 54.9 18.9 199 4-223 2-205 (268)
184 PRK09526 lacI lac repressor; R 96.9 0.13 2.8E-06 54.9 21.6 201 3-227 65-272 (342)
185 cd06279 PBP1_LacI_like_3 Ligan 96.9 0.052 1.1E-06 56.2 18.0 196 3-223 1-223 (283)
186 cd06314 PBP1_tmGBP Periplasmic 96.9 0.18 3.9E-06 51.7 21.8 205 3-230 1-213 (271)
187 TIGR02417 fruct_sucro_rep D-fr 96.9 0.076 1.7E-06 56.3 19.2 200 3-226 62-268 (327)
188 cd06302 PBP1_LsrB_Quorum_Sensi 96.9 0.15 3.3E-06 53.2 20.9 200 3-220 1-210 (298)
189 COG1609 PurR Transcriptional r 96.9 0.16 3.6E-06 53.7 21.1 198 3-223 60-265 (333)
190 cd06280 PBP1_LacI_like_4 Ligan 96.8 0.084 1.8E-06 53.9 18.5 200 3-228 1-205 (263)
191 cd01541 PBP1_AraR Ligand-bindi 96.8 0.1 2.2E-06 53.6 19.1 208 3-229 1-217 (273)
192 TIGR02955 TMAO_TorT TMAO reduc 96.8 0.24 5.1E-06 51.6 21.6 203 3-229 1-215 (295)
193 PRK14987 gluconate operon tran 96.8 0.13 2.9E-06 54.5 20.1 203 3-228 65-272 (331)
194 cd06307 PBP1_uncharacterized_s 96.8 0.28 6.1E-06 50.4 21.8 210 3-230 1-219 (275)
195 PRK10727 DNA-binding transcrip 96.7 0.11 2.5E-06 55.4 19.3 202 3-226 61-268 (343)
196 cd06272 PBP1_hexuronate_repres 96.7 0.075 1.6E-06 54.2 17.0 198 3-226 1-203 (261)
197 COG1879 RbsB ABC-type sugar tr 96.6 0.47 1E-05 50.1 22.3 213 2-231 34-254 (322)
198 PRK09492 treR trehalose repres 96.6 0.18 4E-06 53.0 19.2 188 3-219 64-256 (315)
199 PRK10355 xylF D-xylose transpo 96.5 0.25 5.5E-06 52.3 20.0 199 2-220 26-236 (330)
200 cd01543 PBP1_XylR Ligand-bindi 96.5 0.17 3.7E-06 51.7 17.8 203 3-230 1-207 (265)
201 PRK11041 DNA-binding transcrip 96.3 0.31 6.7E-06 51.1 19.1 207 2-229 36-247 (309)
202 cd06353 PBP1_BmpA_Med_like Per 96.2 0.2 4.3E-06 50.9 16.2 198 3-218 1-200 (258)
203 PRK10401 DNA-binding transcrip 96.1 0.54 1.2E-05 50.3 19.9 202 3-226 61-268 (346)
204 TIGR02637 RhaS rhamnose ABC tr 96.1 0.98 2.1E-05 47.1 21.2 198 4-219 1-209 (302)
205 PRK15395 methyl-galactoside AB 96.0 1.2 2.5E-05 47.3 21.3 202 2-219 25-249 (330)
206 TIGR02634 xylF D-xylose ABC tr 95.8 0.76 1.6E-05 48.0 19.0 167 42-219 31-208 (302)
207 TIGR02405 trehalos_R_Ecol treh 95.8 0.8 1.7E-05 48.0 19.3 188 3-219 61-253 (311)
208 PF12974 Phosphonate-bd: ABC t 95.8 0.095 2.1E-06 52.8 11.6 117 629-753 99-230 (243)
209 PRK15408 autoinducer 2-binding 95.7 1.5 3.3E-05 46.4 20.7 198 3-219 25-233 (336)
210 PRK11553 alkanesulfonate trans 95.6 0.13 2.8E-06 54.2 12.0 66 629-701 123-193 (314)
211 TIGR01729 taurine_ABC_bnd taur 95.3 0.12 2.5E-06 54.1 10.5 65 629-700 94-163 (300)
212 cd01544 PBP1_GalR Ligand-bindi 95.3 0.74 1.6E-05 47.1 16.4 197 3-227 1-211 (270)
213 cd06315 PBP1_ABC_sugar_binding 94.9 2.5 5.4E-05 43.5 19.0 201 3-222 2-216 (280)
214 TIGR02990 ectoine_eutA ectoine 94.7 0.48 1E-05 47.0 12.3 91 123-217 108-204 (239)
215 PF14503 YhfZ_C: YhfZ C-termin 93.4 0.15 3.3E-06 49.4 5.7 172 442-734 24-208 (232)
216 PF03466 LysR_substrate: LysR 93.1 6.2 0.00014 37.8 17.1 178 448-742 21-206 (209)
217 cd06287 PBP1_LacI_like_8 Ligan 92.6 2.6 5.7E-05 43.0 14.0 155 64-229 54-212 (269)
218 cd05466 PBP2_LTTR_substrate Th 92.4 7.5 0.00016 36.3 16.4 70 447-530 14-83 (197)
219 PF12683 DUF3798: Protein of u 92.4 13 0.00027 37.0 20.0 207 2-219 3-224 (275)
220 PF07885 Ion_trans_2: Ion chan 91.8 0.58 1.3E-05 37.4 6.3 55 575-629 22-78 (79)
221 TIGR00035 asp_race aspartate r 91.5 1.6 3.4E-05 43.4 10.4 89 49-168 58-146 (229)
222 PF02608 Bmp: Basic membrane p 91.1 17 0.00037 37.9 18.2 206 2-219 2-212 (306)
223 COG3221 PhnD ABC-type phosphat 90.9 6.8 0.00015 40.3 14.5 102 636-742 142-260 (299)
224 TIGR03427 ABC_peri_uca ABC tra 89.8 3.8 8.3E-05 43.1 11.9 66 629-701 100-170 (328)
225 PF13379 NMT1_2: NMT1-like fam 89.2 2.6 5.7E-05 42.6 10.0 84 637-726 120-213 (252)
226 cd08418 PBP2_TdcA The C-termin 88.8 21 0.00046 33.6 16.9 71 447-529 14-84 (201)
227 PF03808 Glyco_tran_WecB: Glyc 88.7 5.1 0.00011 37.6 10.8 101 121-233 35-137 (172)
228 PF09084 NMT1: NMT1/THI5 like; 88.5 3.5 7.5E-05 40.4 10.1 54 629-689 87-145 (216)
229 TIGR02122 TRAP_TAXI TRAP trans 88.4 2.2 4.8E-05 44.9 9.2 43 449-500 48-90 (320)
230 PRK10200 putative racemase; Pr 88.3 2.9 6.4E-05 41.4 9.2 91 47-168 56-147 (230)
231 COG1794 RacX Aspartate racemas 87.6 21 0.00047 34.4 13.9 88 49-168 58-146 (230)
232 cd08468 PBP2_Pa0477 The C-term 87.2 27 0.00059 33.1 16.6 74 446-530 13-86 (202)
233 TIGR01728 SsuA_fam ABC transpo 87.1 7.1 0.00015 40.1 11.9 61 637-701 100-165 (288)
234 cd08459 PBP2_DntR_NahR_LinR_li 87.0 24 0.00052 33.4 15.0 70 447-530 14-83 (201)
235 PF13377 Peripla_BP_3: Peripla 86.6 2.5 5.5E-05 38.9 7.5 98 127-228 1-101 (160)
236 cd08442 PBP2_YofA_SoxR_like Th 86.5 28 0.00061 32.5 16.8 70 446-529 13-82 (193)
237 COG3473 Maleate cis-trans isom 86.0 18 0.00038 34.3 12.0 89 124-216 107-201 (238)
238 PF06506 PrpR_N: Propionate ca 85.6 19 0.00042 33.9 12.8 128 49-219 17-144 (176)
239 PRK11151 DNA-binding transcrip 85.4 41 0.00089 34.9 16.8 70 447-530 105-174 (305)
240 cd06353 PBP1_BmpA_Med_like Per 85.1 9.3 0.0002 38.7 11.2 89 3-101 122-210 (258)
241 cd06276 PBP1_FucR_like Ligand- 85.0 44 0.00095 33.4 17.5 145 58-225 45-192 (247)
242 PRK12679 cbl transcriptional r 84.9 47 0.001 34.7 16.9 194 446-756 106-307 (316)
243 cd08417 PBP2_Nitroaromatics_li 84.9 29 0.00063 32.7 14.4 69 447-529 14-82 (200)
244 CHL00180 rbcR LysR transcripti 84.7 53 0.0012 34.1 17.2 73 447-530 109-181 (305)
245 PRK12684 transcriptional regul 84.6 45 0.00097 34.8 16.6 95 652-756 210-306 (313)
246 PRK09860 putative alcohol dehy 84.0 4.6 0.0001 43.6 8.8 81 123-205 19-99 (383)
247 PF13685 Fe-ADH_2: Iron-contai 84.0 8.1 0.00018 38.6 9.8 103 124-233 8-111 (250)
248 cd06533 Glyco_transf_WecG_TagA 83.3 13 0.00028 34.9 10.4 100 121-232 33-134 (171)
249 PF01177 Asp_Glu_race: Asp/Glu 83.2 47 0.001 32.3 15.9 123 62-216 61-198 (216)
250 PRK10339 DNA-binding transcrip 83.2 17 0.00036 38.3 12.7 149 65-226 113-265 (327)
251 PRK10341 DNA-binding transcrip 82.6 45 0.00098 34.7 15.7 71 447-529 111-181 (312)
252 COG1454 EutG Alcohol dehydroge 82.4 6.5 0.00014 41.8 8.8 92 123-216 17-110 (377)
253 PRK15454 ethanol dehydrogenase 82.3 5.8 0.00013 43.0 8.8 81 123-205 37-117 (395)
254 cd08192 Fe-ADH7 Iron-containin 81.6 6.5 0.00014 42.3 8.9 80 123-204 12-91 (370)
255 cd08463 PBP2_DntR_like_4 The C 81.5 50 0.0011 31.4 15.8 72 446-530 13-84 (203)
256 cd08421 PBP2_LTTR_like_1 The C 81.5 47 0.001 31.1 16.4 69 447-529 14-82 (198)
257 PRK09791 putative DNA-binding 81.0 61 0.0013 33.5 15.9 88 412-530 93-180 (302)
258 cd08190 HOT Hydroxyacid-oxoaci 80.8 6.6 0.00014 42.9 8.6 81 123-205 11-91 (414)
259 PRK10624 L-1,2-propanediol oxi 80.4 7.9 0.00017 41.8 9.0 80 123-204 18-97 (382)
260 cd08462 PBP2_NodD The C-termin 80.3 51 0.0011 31.1 14.2 68 448-530 15-82 (200)
261 PRK11233 nitrogen assimilation 80.3 57 0.0012 33.9 15.3 68 447-528 106-173 (305)
262 cd08426 PBP2_LTTR_like_5 The C 80.0 53 0.0011 30.8 15.9 69 447-529 14-82 (199)
263 cd08460 PBP2_DntR_like_1 The C 79.5 39 0.00085 31.9 13.0 70 446-530 13-82 (200)
264 cd08193 HVD 5-hydroxyvalerate 79.3 8.7 0.00019 41.5 8.9 81 123-205 14-94 (376)
265 PRK11242 DNA-binding transcrip 79.0 74 0.0016 32.7 15.7 71 446-530 104-174 (296)
266 TIGR02424 TF_pcaQ pca operon t 78.9 79 0.0017 32.6 15.9 72 447-530 107-178 (300)
267 cd08551 Fe-ADH iron-containing 78.9 9.7 0.00021 41.0 9.1 80 123-204 11-90 (370)
268 PRK07475 hypothetical protein; 78.7 16 0.00036 36.5 10.0 135 37-205 39-207 (245)
269 cd08189 Fe-ADH5 Iron-containin 77.6 10 0.00022 40.9 8.8 80 123-204 14-93 (374)
270 cd08461 PBP2_DntR_like_3 The C 77.6 63 0.0014 30.3 14.2 70 446-529 13-82 (198)
271 cd08427 PBP2_LTTR_like_2 The C 77.5 62 0.0013 30.1 15.6 72 446-529 13-84 (195)
272 cd08469 PBP2_PnbR The C-termin 77.5 70 0.0015 30.8 14.7 70 447-530 14-83 (221)
273 cd08438 PBP2_CidR The C-termin 77.4 62 0.0013 30.1 16.6 71 446-530 13-83 (197)
274 TIGR02638 lactal_redase lactal 77.1 11 0.00024 40.7 8.9 81 123-205 17-97 (379)
275 cd08433 PBP2_Nac The C-teminal 76.8 66 0.0014 30.1 16.6 70 446-529 13-82 (198)
276 cd08466 PBP2_LeuO The C-termin 76.7 67 0.0014 30.1 15.3 70 447-530 14-83 (200)
277 TIGR00363 lipoprotein, YaeC fa 76.5 58 0.0013 32.9 13.2 79 669-753 171-250 (258)
278 cd08194 Fe-ADH6 Iron-containin 76.5 12 0.00026 40.4 8.9 81 123-205 11-91 (375)
279 PF00465 Fe-ADH: Iron-containi 75.7 7.3 0.00016 41.9 7.1 89 124-216 12-102 (366)
280 cd08411 PBP2_OxyR The C-termin 75.0 74 0.0016 29.8 15.6 69 447-529 15-83 (200)
281 PF02608 Bmp: Basic membrane p 75.0 14 0.0003 38.5 8.8 93 3-103 128-225 (306)
282 cd08465 PBP2_ToxR The C-termin 74.6 78 0.0017 29.9 13.8 70 446-529 13-82 (200)
283 PRK11480 tauA taurine transpor 74.1 15 0.00032 38.7 8.7 61 629-696 116-181 (320)
284 PF07287 DUF1446: Protein of u 74.0 46 0.001 35.3 12.0 90 39-148 23-113 (362)
285 cd08181 PPD-like 1,3-propanedi 73.8 15 0.00033 39.3 8.8 80 124-205 15-94 (357)
286 cd08413 PBP2_CysB_like The C-t 73.8 81 0.0017 29.7 14.9 72 446-530 13-84 (198)
287 cd08188 Fe-ADH4 Iron-containin 73.7 16 0.00034 39.5 9.0 81 123-205 16-96 (377)
288 cd08412 PBP2_PAO1_like The C-t 73.5 79 0.0017 29.5 15.3 71 446-530 13-83 (198)
289 TIGR00696 wecB_tagA_cpsF bacte 73.4 40 0.00087 31.7 10.4 98 121-231 35-134 (177)
290 PRK12683 transcriptional regul 73.3 1.2E+02 0.0026 31.5 15.4 70 448-530 108-177 (309)
291 PRK03692 putative UDP-N-acetyl 72.5 32 0.00069 34.3 10.0 99 121-231 92-191 (243)
292 cd08419 PBP2_CbbR_RubisCO_like 71.6 86 0.0019 29.1 16.3 69 447-529 13-81 (197)
293 PRK10837 putative DNA-binding 71.5 1.2E+02 0.0027 30.9 17.1 70 447-530 103-172 (290)
294 cd08185 Fe-ADH1 Iron-containin 71.4 17 0.00036 39.4 8.5 79 123-204 14-93 (380)
295 PRK12682 transcriptional regul 71.1 1.3E+02 0.0029 31.1 17.4 72 446-530 106-177 (309)
296 TIGR00787 dctP tripartite ATP- 70.6 80 0.0017 31.9 12.9 100 629-742 130-232 (257)
297 cd08176 LPO Lactadehyde:propan 70.5 18 0.00038 39.1 8.4 81 123-205 16-96 (377)
298 cd08191 HHD 6-hydroxyhexanoate 70.3 21 0.00046 38.6 9.1 79 124-205 12-90 (386)
299 KOG1419 Voltage-gated K+ chann 70.0 6.7 0.00014 42.6 4.8 88 543-630 235-324 (654)
300 PRK12681 cysB transcriptional 69.8 1.5E+02 0.0032 31.1 15.3 70 447-529 107-176 (324)
301 COG0078 ArgF Ornithine carbamo 69.6 85 0.0018 32.1 12.1 158 3-199 46-211 (310)
302 cd08467 PBP2_SyrM The C-termin 68.9 1E+02 0.0023 28.9 15.3 70 446-529 13-82 (200)
303 cd08434 PBP2_GltC_like The sub 66.7 1.1E+02 0.0023 28.3 16.0 69 447-529 14-82 (195)
304 TIGR00067 glut_race glutamate 65.6 50 0.0011 33.2 10.0 40 57-97 52-91 (251)
305 PRK15424 propionate catabolism 65.0 1.2E+02 0.0025 34.5 13.6 128 49-219 47-174 (538)
306 PRK00865 glutamate racemase; P 64.8 52 0.0011 33.3 10.1 114 62-205 63-188 (261)
307 cd08186 Fe-ADH8 Iron-containin 64.3 27 0.00059 37.7 8.4 80 124-204 12-94 (383)
308 cd08187 BDH Butanol dehydrogen 64.0 29 0.00062 37.6 8.5 79 124-205 18-97 (382)
309 TIGR02329 propionate_PrpR prop 63.6 1.5E+02 0.0032 33.6 14.1 135 49-229 37-171 (526)
310 cd08423 PBP2_LTTR_like_6 The C 63.3 1.3E+02 0.0028 28.0 14.9 72 447-529 14-87 (200)
311 cd08429 PBP2_NhaR The C-termin 63.2 1.4E+02 0.003 28.4 16.9 72 446-528 13-84 (204)
312 cd08420 PBP2_CysL_like C-termi 63.0 1.3E+02 0.0028 27.9 16.5 71 446-530 13-83 (201)
313 COG1744 Med Uncharacterized AB 62.4 86 0.0019 33.2 11.4 73 3-82 163-235 (345)
314 cd08171 GlyDH-like2 Glycerol d 62.3 27 0.00059 37.1 7.8 78 124-205 12-89 (345)
315 PF14981 FAM165: FAM165 family 61.9 13 0.00028 25.3 3.2 32 776-807 3-34 (51)
316 cd08441 PBP2_MetR The C-termin 61.6 1.4E+02 0.003 27.8 16.5 69 447-529 14-82 (198)
317 cd08464 PBP2_DntR_like_2 The C 60.9 1.4E+02 0.0031 27.7 15.0 70 446-529 13-82 (200)
318 TIGR01256 modA molybdenum ABC 59.9 1.1E+02 0.0025 29.6 11.4 71 666-742 135-205 (216)
319 cd06305 PBP1_methylthioribose_ 59.8 30 0.00066 35.0 7.6 78 137-219 1-81 (273)
320 cd08415 PBP2_LysR_opines_like 59.7 1.5E+02 0.0032 27.5 15.1 70 446-529 13-82 (196)
321 PRK13010 purU formyltetrahydro 59.0 2.2E+02 0.0048 29.3 13.4 94 66-165 10-119 (289)
322 KOG3857 Alcohol dehydrogenase, 58.7 51 0.0011 34.0 8.2 92 108-204 42-137 (465)
323 PF13407 Peripla_BP_4: Peripla 58.3 16 0.00035 36.7 5.1 78 138-219 1-81 (257)
324 cd08170 GlyDH Glycerol dehydro 58.1 34 0.00074 36.5 7.7 77 124-205 12-88 (351)
325 cd08437 PBP2_MleR The substrat 58.0 1.6E+02 0.0035 27.4 16.1 71 447-529 14-84 (198)
326 cd06267 PBP1_LacI_sugar_bindin 57.5 27 0.00058 34.9 6.7 76 138-219 2-79 (264)
327 cd08425 PBP2_CynR The C-termin 57.5 1.6E+02 0.0035 27.3 15.7 70 447-530 15-84 (197)
328 cd08416 PBP2_MdcR The C-termin 57.4 1.6E+02 0.0035 27.3 15.9 73 446-530 13-85 (199)
329 PF12727 PBP_like: PBP superfa 56.4 1.9E+02 0.0041 27.7 13.2 85 644-740 100-192 (193)
330 cd02071 MM_CoA_mut_B12_BD meth 55.9 79 0.0017 27.6 8.4 61 152-219 15-79 (122)
331 cd08448 PBP2_LTTR_aromatics_li 55.8 1.7E+02 0.0037 27.0 16.0 70 446-529 13-82 (197)
332 COG1910 Periplasmic molybdate- 55.7 1E+02 0.0022 29.7 9.3 97 637-746 96-203 (223)
333 cd01537 PBP1_Repressors_Sugar_ 55.4 28 0.0006 34.8 6.4 78 137-219 1-80 (264)
334 COG1707 ACT domain-containing 55.4 43 0.00093 30.3 6.3 84 15-100 92-177 (218)
335 cd08436 PBP2_LTTR_like_3 The C 55.3 1.7E+02 0.0037 26.9 16.8 71 446-529 13-83 (194)
336 PRK09423 gldA glycerol dehydro 55.2 45 0.00098 35.8 8.1 78 123-205 18-95 (366)
337 cd08182 HEPD Hydroxyethylphosp 54.6 53 0.0012 35.3 8.5 76 124-204 12-87 (367)
338 TIGR02667 moaB_proteo molybden 54.5 79 0.0017 29.3 8.5 66 134-202 3-71 (163)
339 cd08440 PBP2_LTTR_like_4 TThe 54.4 1.8E+02 0.0038 26.8 17.2 70 446-529 13-82 (197)
340 cd06301 PBP1_rhizopine_binding 54.4 35 0.00075 34.5 6.9 78 137-219 1-82 (272)
341 cd08435 PBP2_GbpR The C-termin 54.0 1.8E+02 0.004 26.9 17.2 71 448-530 15-85 (201)
342 PRK00856 pyrB aspartate carbam 54.0 2E+02 0.0044 29.8 12.2 134 4-169 48-187 (305)
343 cd08444 PBP2_Cbl The C-termina 53.5 1.9E+02 0.0042 27.0 16.1 72 446-530 13-84 (198)
344 PF13380 CoA_binding_2: CoA bi 52.8 17 0.00036 31.6 3.5 87 136-231 1-89 (116)
345 PF04273 DUF442: Putative phos 52.7 1.5E+02 0.0032 25.4 9.2 84 129-214 22-106 (110)
346 COG0426 FpaA Uncharacterized f 52.6 3.2E+02 0.007 29.3 14.9 149 3-170 214-363 (388)
347 cd06277 PBP1_LacI_like_1 Ligan 52.1 54 0.0012 33.1 7.9 75 138-219 2-81 (268)
348 cd08456 PBP2_LysR The C-termin 51.5 2E+02 0.0043 26.6 14.5 70 446-529 13-82 (196)
349 cd08453 PBP2_IlvR The C-termin 51.2 2.1E+02 0.0045 26.6 16.5 73 447-530 14-86 (200)
350 PF07302 AroM: AroM protein; 50.9 1.3E+02 0.0029 29.3 9.5 74 136-215 126-201 (221)
351 PRK09508 leuO leucine transcri 50.9 2.5E+02 0.0055 29.1 12.9 71 446-530 125-195 (314)
352 PRK11063 metQ DL-methionine tr 50.7 2.9E+02 0.0063 28.1 13.8 39 449-497 46-85 (271)
353 PLN03192 Voltage-dependent pot 50.6 22 0.00048 43.0 5.3 51 578-628 251-303 (823)
354 cd07766 DHQ_Fe-ADH Dehydroquin 50.4 64 0.0014 34.1 8.3 77 124-204 12-88 (332)
355 PRK11013 DNA-binding transcrip 49.4 3.2E+02 0.0069 28.3 17.0 70 447-530 108-177 (309)
356 PRK09756 PTS system N-acetylga 48.9 1.4E+02 0.0029 27.6 8.9 79 123-212 18-97 (158)
357 PRK11118 putative monooxygenas 48.9 20 0.00043 29.5 3.0 31 6-36 7-37 (100)
358 cd08178 AAD_C C-terminal alcoh 48.9 49 0.0011 36.0 7.2 70 133-204 19-88 (398)
359 PRK05452 anaerobic nitric oxid 48.8 3.1E+02 0.0067 30.7 13.5 129 70-220 198-336 (479)
360 TIGR00854 pts-sorbose PTS syst 48.3 1.3E+02 0.0029 27.4 8.7 80 123-212 14-93 (151)
361 cd06312 PBP1_ABC_sugar_binding 48.1 50 0.0011 33.4 6.9 79 137-219 1-83 (271)
362 PRK15421 DNA-binding transcrip 48.0 3.4E+02 0.0074 28.2 15.4 69 448-530 104-172 (317)
363 cd01391 Periplasmic_Binding_Pr 47.8 51 0.0011 32.6 6.9 78 137-219 1-83 (269)
364 cd06289 PBP1_MalI_like Ligand- 47.6 52 0.0011 33.1 6.9 77 138-219 2-80 (268)
365 COG2247 LytB Putative cell wal 47.4 2.8E+02 0.0061 28.6 11.4 120 68-219 30-155 (337)
366 cd01536 PBP1_ABC_sugar_binding 46.9 58 0.0013 32.6 7.2 78 137-219 1-81 (267)
367 cd00001 PTS_IIB_man PTS_IIB, P 46.9 1.4E+02 0.0031 27.2 8.7 80 123-212 13-92 (151)
368 cd08175 G1PDH Glycerol-1-phosp 46.1 72 0.0016 34.0 7.8 78 124-204 12-90 (348)
369 cd01538 PBP1_ABC_xylose_bindin 45.9 77 0.0017 32.5 7.9 77 138-219 2-81 (288)
370 cd08550 GlyDH-like Glycerol_de 45.6 76 0.0016 33.8 7.9 77 124-205 12-88 (349)
371 cd08451 PBP2_BudR The C-termin 45.4 2.5E+02 0.0054 25.9 15.4 70 447-529 15-84 (199)
372 cd06282 PBP1_GntR_like_2 Ligan 44.6 65 0.0014 32.3 7.1 77 138-219 2-80 (266)
373 cd00578 L-fuc_L-ara-isomerases 44.4 2.9E+02 0.0064 30.6 12.6 93 2-102 1-99 (452)
374 cd06306 PBP1_TorT-like TorT-li 44.3 60 0.0013 32.8 6.8 80 137-219 1-82 (268)
375 PRK15408 autoinducer 2-binding 44.1 86 0.0019 33.1 8.0 82 134-219 22-106 (336)
376 cd06299 PBP1_LacI_like_13 Liga 44.1 1.1E+02 0.0023 30.7 8.6 76 138-219 2-79 (265)
377 cd06303 PBP1_LuxPQ_Quorum_Sens 44.0 57 0.0012 33.3 6.6 81 137-218 1-84 (280)
378 cd08414 PBP2_LTTR_aromatics_li 43.9 2.6E+02 0.0056 25.7 16.7 69 447-529 14-82 (197)
379 COG0715 TauA ABC-type nitrate/ 43.9 1.1E+02 0.0023 32.3 8.8 62 637-702 135-202 (335)
380 PRK11425 PTS system N-acetylga 43.6 1.8E+02 0.0038 26.8 8.8 79 123-212 16-94 (157)
381 cd06322 PBP1_ABC_sugar_binding 43.6 73 0.0016 32.0 7.3 77 138-219 2-81 (267)
382 TIGR00249 sixA phosphohistidin 42.6 1.2E+02 0.0025 27.7 7.6 95 119-216 27-121 (152)
383 cd08183 Fe-ADH2 Iron-containin 42.5 1E+02 0.0022 33.2 8.4 75 124-205 12-86 (374)
384 cd08179 NADPH_BDH NADPH-depend 41.3 59 0.0013 35.0 6.3 72 133-205 21-92 (375)
385 cd01545 PBP1_SalR Ligand-bindi 41.1 1.1E+02 0.0024 30.6 8.2 78 138-219 2-81 (270)
386 COG1922 WecG Teichoic acid bio 40.8 1.2E+02 0.0025 30.4 7.6 100 121-233 95-197 (253)
387 cd06310 PBP1_ABC_sugar_binding 40.4 74 0.0016 32.1 6.8 80 137-219 1-83 (273)
388 TIGR00655 PurU formyltetrahydr 40.4 4.2E+02 0.0092 27.1 12.3 93 66-164 1-109 (280)
389 PRK10537 voltage-gated potassi 40.1 96 0.0021 33.6 7.6 55 574-628 165-221 (393)
390 cd00886 MogA_MoaB MogA_MoaB fa 40.1 1.5E+02 0.0033 27.0 8.0 63 137-202 2-69 (152)
391 TIGR03339 phn_lysR aminoethylp 40.0 4E+02 0.0087 26.7 16.5 69 448-530 99-167 (279)
392 KOG0025 Zn2+-binding dehydroge 39.9 1.7E+02 0.0038 29.7 8.5 95 108-218 163-257 (354)
393 PRK11482 putative DNA-binding 39.9 4.5E+02 0.0098 27.3 15.4 68 447-530 131-198 (317)
394 TIGR02709 branched_ptb branche 39.7 2.4E+02 0.0052 28.6 9.7 100 42-144 45-156 (271)
395 PRK12680 transcriptional regul 39.0 4.8E+02 0.01 27.3 16.5 70 447-529 107-176 (327)
396 PRK10014 DNA-binding transcrip 38.8 1.2E+02 0.0027 31.8 8.4 80 135-219 64-145 (342)
397 cd06302 PBP1_LsrB_Quorum_Sensi 38.4 94 0.002 32.0 7.2 78 138-219 2-82 (298)
398 cd08180 PDD 1,3-propanediol de 38.3 82 0.0018 33.3 6.8 71 131-204 18-88 (332)
399 cd06318 PBP1_ABC_sugar_binding 38.3 81 0.0018 32.0 6.7 77 138-219 2-81 (282)
400 PRK11303 DNA-binding transcrip 38.1 1.3E+02 0.0028 31.5 8.3 80 135-219 61-142 (328)
401 cd00755 YgdL_like Family of ac 38.1 3E+02 0.0065 27.2 10.2 118 15-145 63-182 (231)
402 cd01540 PBP1_arabinose_binding 37.4 84 0.0018 32.1 6.6 77 137-219 1-80 (289)
403 COG0426 FpaA Uncharacterized f 37.0 4.9E+02 0.011 27.9 11.8 142 70-234 195-343 (388)
404 PRK11062 nhaR transcriptional 36.8 4.8E+02 0.01 26.7 16.4 72 446-528 106-177 (296)
405 cd08458 PBP2_NocR The C-termin 36.4 3.5E+02 0.0076 25.0 15.9 69 447-529 14-82 (196)
406 cd06281 PBP1_LacI_like_5 Ligan 36.0 1.1E+02 0.0024 30.7 7.3 77 138-219 2-80 (269)
407 cd08549 G1PDH_related Glycerol 36.0 1.4E+02 0.003 31.6 7.9 77 124-204 12-90 (332)
408 cd08443 PBP2_CysB The C-termin 36.0 3.6E+02 0.0079 25.0 15.4 72 446-530 13-84 (198)
409 PF12683 DUF3798: Protein of u 35.9 99 0.0021 31.0 6.2 99 121-228 17-138 (275)
410 PF08803 ydhR: Putative mono-o 35.8 50 0.0011 27.3 3.5 32 6-37 4-35 (97)
411 PRK10094 DNA-binding transcrip 35.7 5.1E+02 0.011 26.7 15.5 70 448-529 108-177 (308)
412 cd06296 PBP1_CatR_like Ligand- 35.7 1.5E+02 0.0034 29.6 8.3 76 138-219 2-79 (270)
413 cd06315 PBP1_ABC_sugar_binding 35.5 1.4E+02 0.0031 30.3 8.0 79 136-219 1-82 (280)
414 PRK09906 DNA-binding transcrip 35.5 5E+02 0.011 26.5 14.7 70 447-530 104-173 (296)
415 cd06270 PBP1_GalS_like Ligand 35.0 1.8E+02 0.004 29.1 8.7 76 138-219 2-79 (268)
416 cd01539 PBP1_GGBP Periplasmic 35.0 1.2E+02 0.0026 31.4 7.4 78 137-219 1-83 (303)
417 cd06316 PBP1_ABC_sugar_binding 35.0 94 0.002 31.9 6.6 79 137-219 1-82 (294)
418 cd06323 PBP1_ribose_binding Pe 35.0 1E+02 0.0022 30.8 6.8 77 138-219 2-81 (268)
419 PRK13957 indole-3-glycerol-pho 34.9 3.9E+02 0.0086 26.7 10.3 86 124-219 64-152 (247)
420 cd01542 PBP1_TreR_like Ligand- 34.9 1.2E+02 0.0026 30.2 7.2 75 138-218 2-78 (259)
421 PLN02821 1-hydroxy-2-methyl-2- 34.7 1.3E+02 0.0028 32.8 7.2 57 39-96 335-393 (460)
422 cd08449 PBP2_XapR The C-termin 34.5 3.7E+02 0.0079 24.7 15.8 72 446-529 13-84 (197)
423 TIGR02370 pyl_corrinoid methyl 34.3 2.8E+02 0.006 26.7 9.1 88 137-232 86-177 (197)
424 PLN02245 ATP phosphoribosyl tr 34.0 3.4E+02 0.0074 29.2 10.2 94 639-742 197-296 (403)
425 COG1419 FlhF Flagellar GTP-bin 33.5 1.7E+02 0.0038 31.4 7.9 72 123-205 221-292 (407)
426 cd06295 PBP1_CelR Ligand bindi 33.4 1.4E+02 0.003 30.2 7.4 78 134-219 2-88 (275)
427 cd08457 PBP2_OccR The C-termin 33.4 3.9E+02 0.0084 24.6 16.0 69 446-528 13-81 (196)
428 PRK00002 aroB 3-dehydroquinate 33.2 1.5E+02 0.0033 31.6 7.9 78 124-204 20-102 (358)
429 PRK10653 D-ribose transporter 33.1 1.9E+02 0.0041 29.7 8.5 80 135-219 26-108 (295)
430 COG4213 XylF ABC-type xylose t 33.1 5.7E+02 0.012 26.4 14.5 172 46-226 62-246 (341)
431 cd06317 PBP1_ABC_sugar_binding 33.0 1.2E+02 0.0027 30.5 7.0 77 138-219 2-82 (275)
432 PLN00125 Succinyl-CoA ligase [ 33.0 4.3E+02 0.0094 27.3 10.6 143 51-216 79-232 (300)
433 PRK11716 DNA-binding transcrip 32.9 5E+02 0.011 25.8 14.8 69 447-528 81-149 (269)
434 TIGR02417 fruct_sucro_rep D-fr 32.7 2E+02 0.0043 30.0 8.7 81 134-219 59-141 (327)
435 cd06324 PBP1_ABC_sugar_binding 32.6 1.1E+02 0.0025 31.5 6.8 77 138-219 2-83 (305)
436 cd08177 MAR Maleylacetate redu 32.3 1.2E+02 0.0025 32.2 6.7 78 123-205 11-88 (337)
437 cd08446 PBP2_Chlorocatechol Th 32.2 1.9E+02 0.0041 26.8 7.9 70 447-530 15-84 (198)
438 PRK11074 putative DNA-binding 32.2 5.7E+02 0.012 26.2 14.7 71 448-530 107-177 (300)
439 cd00758 MoCF_BD MoCF_BD: molyb 32.1 2E+02 0.0043 25.5 7.2 61 151-215 19-80 (133)
440 PRK10355 xylF D-xylose transpo 31.7 1.7E+02 0.0037 30.7 8.0 80 135-219 25-107 (330)
441 cd06300 PBP1_ABC_sugar_binding 31.6 1.3E+02 0.0029 30.2 7.0 80 137-219 1-86 (272)
442 cd06278 PBP1_LacI_like_2 Ligan 31.5 1.7E+02 0.0037 29.1 7.8 75 138-219 2-78 (266)
443 cd08452 PBP2_AlsR The C-termin 31.3 2.2E+02 0.0048 26.5 8.1 70 447-530 14-83 (197)
444 cd06285 PBP1_LacI_like_7 Ligan 31.1 1.6E+02 0.0035 29.4 7.5 76 138-219 2-79 (265)
445 cd06304 PBP1_BmpA_like Peripla 31.0 5.4E+02 0.012 25.6 12.6 127 3-140 122-249 (260)
446 PRK02261 methylaspartate mutas 31.0 3.9E+02 0.0084 23.9 9.4 70 152-230 19-92 (137)
447 PF03830 PTSIIB_sorb: PTS syst 30.9 1.2E+02 0.0027 27.6 5.7 82 123-214 14-95 (151)
448 cd06274 PBP1_FruR Ligand bindi 30.9 1.5E+02 0.0033 29.6 7.3 76 138-219 2-79 (264)
449 PRK09701 D-allose transporter 30.8 1.7E+02 0.0036 30.4 7.6 84 133-219 22-108 (311)
450 KOG3713 Voltage-gated K+ chann 30.8 41 0.00089 36.5 2.9 62 554-619 358-421 (477)
451 cd00885 cinA Competence-damage 30.7 2E+02 0.0043 26.9 7.2 47 151-201 19-65 (170)
452 cd08486 PBP2_CbnR The C-termin 30.6 2.1E+02 0.0046 26.8 7.9 71 446-530 14-84 (198)
453 PRK01686 hisG ATP phosphoribos 30.3 5.3E+02 0.011 25.2 11.4 94 637-742 114-209 (215)
454 cd03522 MoeA_like MoeA_like. T 30.3 2.6E+02 0.0056 29.2 8.6 103 108-214 125-240 (312)
455 PRK10936 TMAO reductase system 30.2 1.6E+02 0.0034 31.2 7.4 81 135-219 46-129 (343)
456 cd06292 PBP1_LacI_like_10 Liga 29.9 2.5E+02 0.0054 28.2 8.7 77 138-219 2-84 (273)
457 cd06578 HemD Uroporphyrinogen- 29.9 3.5E+02 0.0076 26.4 9.6 88 121-217 106-195 (239)
458 cd06319 PBP1_ABC_sugar_binding 29.6 1.4E+02 0.0031 30.0 6.9 77 138-219 2-81 (277)
459 cd06307 PBP1_uncharacterized_s 29.5 1.4E+02 0.0031 30.1 6.7 80 137-219 1-84 (275)
460 PRK00843 egsA NAD(P)-dependent 29.5 2E+02 0.0042 30.7 7.9 75 124-204 22-97 (350)
461 TIGR02637 RhaS rhamnose ABC tr 29.3 1.6E+02 0.0035 30.3 7.2 77 139-219 2-82 (302)
462 PRK10481 hypothetical protein; 29.2 4E+02 0.0086 26.2 9.1 67 135-207 129-195 (224)
463 cd06273 PBP1_GntR_like_1 This 28.9 1.7E+02 0.0037 29.2 7.2 76 138-219 2-79 (268)
464 COG1058 CinA Predicted nucleot 28.5 1.4E+02 0.0031 29.9 6.0 49 150-202 20-68 (255)
465 cd08173 Gro1PDH Sn-glycerol-1- 28.4 2.2E+02 0.0047 30.1 8.0 75 124-204 13-88 (339)
466 PRK06027 purU formyltetrahydro 28.4 6.7E+02 0.014 25.8 12.1 98 66-169 7-121 (286)
467 PRK09189 uroporphyrinogen-III 28.3 2.1E+02 0.0045 28.4 7.5 114 91-216 75-191 (240)
468 PF08173 YbgT_YccB: Membrane b 28.2 1.5E+02 0.0032 18.3 3.6 22 783-804 3-24 (28)
469 TIGR00670 asp_carb_tr aspartat 28.2 6.9E+02 0.015 25.9 11.7 134 4-170 42-182 (301)
470 PRK01045 ispH 4-hydroxy-3-meth 28.0 69 0.0015 33.0 3.9 52 44-96 189-241 (298)
471 cd06320 PBP1_allose_binding Pe 27.9 1.7E+02 0.0036 29.5 7.0 80 137-219 1-83 (275)
472 cd03364 TOPRIM_DnaG_primases T 27.8 1.1E+02 0.0024 24.0 4.4 40 127-168 36-75 (79)
473 PRK00278 trpC indole-3-glycero 27.8 5.1E+02 0.011 26.1 10.1 87 123-219 72-161 (260)
474 PF01936 NYN: NYN domain; Int 27.7 2.8E+02 0.0061 24.6 7.7 99 123-229 22-126 (146)
475 cd06321 PBP1_ABC_sugar_binding 27.6 1.7E+02 0.0037 29.3 7.0 77 138-219 2-83 (271)
476 PRK15138 aldehyde reductase; P 27.5 2.3E+02 0.0049 30.7 8.0 77 124-205 20-96 (387)
477 cd08205 RuBisCO_IV_RLP Ribulos 27.4 7.3E+02 0.016 26.6 11.7 104 18-136 180-283 (367)
478 COG0134 TrpC Indole-3-glycerol 27.4 1.9E+02 0.0041 28.9 6.6 86 124-219 69-157 (254)
479 cd06309 PBP1_YtfQ_like Peripla 27.2 1.5E+02 0.0031 30.0 6.3 71 144-219 10-81 (273)
480 TIGR02634 xylF D-xylose ABC tr 27.2 1.8E+02 0.0038 30.1 7.0 70 145-219 10-80 (302)
481 TIGR01501 MthylAspMutase methy 27.0 3.8E+02 0.0081 23.9 7.8 71 152-231 17-91 (134)
482 TIGR00177 molyb_syn molybdenum 26.9 3E+02 0.0065 24.8 7.5 61 151-215 27-88 (144)
483 PRK15116 sulfur acceptor prote 26.9 6.2E+02 0.013 25.7 10.4 81 59-145 115-208 (268)
484 PRK13371 4-hydroxy-3-methylbut 26.8 88 0.0019 33.3 4.5 55 41-96 263-319 (387)
485 PF02602 HEM4: Uroporphyrinoge 26.7 2.3E+02 0.005 27.8 7.5 115 91-217 73-190 (231)
486 PRK12360 4-hydroxy-3-methylbut 26.5 71 0.0015 32.6 3.6 52 43-95 187-239 (281)
487 cd08172 GlyDH-like1 Glycerol d 26.4 1.7E+02 0.0038 31.0 6.9 75 124-205 13-87 (347)
488 cd01324 cbb3_Oxidase_CcoQ Cyto 26.3 50 0.0011 23.3 1.8 26 543-568 12-37 (48)
489 cd06283 PBP1_RegR_EndR_KdgR_li 26.3 2.1E+02 0.0045 28.5 7.3 76 138-219 2-79 (267)
490 PF04392 ABC_sub_bind: ABC tra 26.3 94 0.002 32.1 4.7 67 137-205 1-70 (294)
491 COG0796 MurI Glutamate racemas 26.1 6.3E+02 0.014 25.6 10.0 39 58-97 59-97 (269)
492 cd08430 PBP2_IlvY The C-termin 25.8 5.2E+02 0.011 23.6 17.0 71 446-529 13-83 (199)
493 cd01575 PBP1_GntR Ligand-bindi 25.7 1.9E+02 0.004 28.9 6.8 76 138-219 2-79 (268)
494 cd06271 PBP1_AglR_RafR_like Li 25.6 1.9E+02 0.004 28.9 6.8 76 138-219 2-83 (268)
495 PF00218 IGPS: Indole-3-glycer 25.5 4.3E+02 0.0094 26.6 8.9 87 123-219 70-159 (254)
496 PF00072 Response_reg: Respons 25.5 2.8E+02 0.0061 22.9 7.0 58 151-218 9-69 (112)
497 PF05961 Chordopox_A13L: Chord 25.4 1.1E+02 0.0023 23.2 3.3 23 785-807 5-27 (68)
498 COG3340 PepE Peptidase E [Amin 25.3 5.4E+02 0.012 25.0 8.8 100 121-231 19-126 (224)
499 TIGR02136 ptsS_2 phosphate bin 25.2 96 0.0021 31.9 4.5 72 447-529 49-127 (287)
500 PRK11921 metallo-beta-lactamas 25.1 8E+02 0.017 26.5 11.8 165 43-232 172-344 (394)
No 1
>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1.3e-92 Score=714.19 Aligned_cols=749 Identities=18% Similarity=0.291 Sum_probs=620.9
Q ss_pred CeEEEEEEecCCcchhhHHHHHHHHHHHHHhcCCC--cceEEEEEEecC-CCCHHHHHHHHHHhhhcCCeEEEEecCCCh
Q 047109 1 EVHVGVILDMRSWAGKISNSCISMAISDFYALNTH--YKTRLVLHSRDS-KGDPLHALTTVLNLMQNVDLQAIICTEMTP 77 (808)
Q Consensus 1 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~--l~~~l~~~~~d~-~~~~~~a~~~a~~li~~~~v~aiiG~~~~s 77 (808)
.|.||.+||.+.. +...|+++|+...|.++.- .|.+|..++..- ..+....+.+.|+..+. ||.||+|.. +.
T Consensus 26 tiqigglF~~n~~---qe~~Afr~~~~~~~~~~~~~~~pf~L~~~~d~~e~a~Sf~~tnafCsq~s~-Gv~Aifg~y-d~ 100 (897)
T KOG1054|consen 26 TIQIGGLFPRNTD---QEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLESANSFAVTNAFCSQFSR-GVYAIFGFY-DK 100 (897)
T ss_pred ceeeccccCCcch---HHHHHHHHHHHHhhcCCCCCCCCcccccccchhhhhhhHHHHHHHHHHHhh-hHhhheecc-cc
Confidence 3788999998775 6678999999998886553 347777766542 37888899999999988 999999999 88
Q ss_pred hHHHHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHH
Q 047109 78 TGAHILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYL 156 (808)
Q Consensus 78 ~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~ 156 (808)
.....+..+|+..++|+|+|+..... ++ +.+++.|+.. .++++++.||+|.+++++| |.+.|. ..++.+
T Consensus 101 ks~~~ltsfc~aLh~~~vtpsfp~~~--~~~Fviq~RP~l~------~al~s~i~hy~W~~fv~ly-D~~rg~-s~Lqai 170 (897)
T KOG1054|consen 101 KSVNTLTSFCGALHVSFVTPSFPTDG--DNQFVIQMRPALK------GALLSLIDHYKWEKFVYLY-DTDRGL-SILQAI 170 (897)
T ss_pred cchhhhhhhccceeeeeecccCCcCC--CceEEEEeCchHH------HHHHHHHHhcccceEEEEE-cccchH-HHHHHH
Confidence 88999999999999999999874333 34 8899999876 7999999999999999999 455677 889999
Q ss_pred HHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccccc
Q 047109 157 FDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFL 236 (808)
Q Consensus 157 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 236 (808)
.+.+.+++++|..... .. ..+...|+.+++.+...+.+.+++.|..+....++.++.+.+....+||||+++......
T Consensus 171 ~~~a~~~nw~VtA~~v-~~-~~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~d~ 248 (897)
T KOG1054|consen 171 MEAAAQNNWQVTAINV-GN-INDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFTDI 248 (897)
T ss_pred HHHHHhcCceEEEEEc-CC-cccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCchh
Confidence 9999999999987643 33 335667999999999888898999999999888998998888888999999998754322
Q ss_pred ccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhh-----
Q 047109 237 HSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTE----- 311 (808)
Q Consensus 237 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~----- 311 (808)
+. +....+..++.+++..+.++|..++|.++|++....+.|+.....+.+.++++|||+.+.++|++.+...
T Consensus 249 dl---~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~~~~ 325 (897)
T KOG1054|consen 249 DL---ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRIDIS 325 (897)
T ss_pred hH---HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhhchh
Confidence 22 2222236789999999999999999999999998888888776677888999999999999999987644
Q ss_pred ---------------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCCCCCcccccc
Q 047109 312 ---------------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPTTRITKEMNS 375 (808)
Q Consensus 312 ---------------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~~~~~~~~ 375 (808)
+..|..+.++++++.++|+||+|.| ..|.|.++ ..+|+++..++.+++|.|++.+++....+.
T Consensus 326 rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Ny-t~~i~elk~~~~rk~~~W~e~~~fv~~~t~ 404 (897)
T KOG1054|consen 326 RRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNY-TIDIVELKSNGSRKVGYWNEGEGFVPGSTV 404 (897)
T ss_pred ccCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccc-eEEEEEeccCCcceeeeecccCceeecccc
Confidence 2367889999999999999999999 99999999 999999999999999999999887554431
Q ss_pred cccccccCCCCCCCCCCCCceeEcCCCCccCCCccCCCCeEEEEeecCCccceEEEeeCC---CCCCccceEEEEeHHHH
Q 047109 376 SVFINKMDNISSSSPNGELEAIIWPGGSVAIPVGSGKINKLRIGVPVNGHIEFVHVVRDP---QSVNATLIVKGFCVDVF 452 (808)
Q Consensus 376 ~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~l~v~~~~~~~~p~~~~~~~~---~~~~~~~~~~G~~~dl~ 452 (808)
- + . .......+.+++.|.+.. ..||++..++. .+| ++++|||+||+
T Consensus 405 a------~------~--------------~~d~~~~~n~tvvvttiL--~spyvm~kkn~~~~egn---~ryEGyCvdLa 453 (897)
T KOG1054|consen 405 A------Q------S--------------RNDQASKENRTVVVTTIL--ESPYVMLKKNHEQLEGN---ERYEGYCVDLA 453 (897)
T ss_pred c------c------c--------------cccccccccceEEEEEec--CCchhHHHhhHHHhcCC---cccceeHHHHH
Confidence 0 0 0 000011145666676664 36777766553 356 89999999999
Q ss_pred HHHHHHCCCceeEEEEecCCCCC-CCCCC-HHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEecCCC
Q 047109 453 KAAIDSLTFEVPYEFIPFEDPNG-RMPGS-YNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRN 530 (808)
Q Consensus 453 ~~ia~~l~~~~~~~~~~~~~~~~-~~~~~-~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~ 530 (808)
.+||++.++++++.++..+.... ..+++ |+||+++|..|++|++++++++|.+|++.+|||.|+++.++.+|+++|++
T Consensus 454 ~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIKKPqK 533 (897)
T KOG1054|consen 454 AEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIKKPQK 533 (897)
T ss_pred HHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEeCccc
Confidence 99999999988888876544222 36666 99999999999999999999999999999999999999999999999966
Q ss_pred C--ccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCC------C-------CcchhhHHHHHHHHhhhcCc-
Q 047109 531 N--NMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQGS------P-------AHQFGMIFWYSFSTLVFSQR- 594 (808)
Q Consensus 531 ~--~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~------~-------~~~~~~~~~~~~~~l~~~~~- 594 (808)
+ ..+.|+.|+..++|+||+.+++-++++++++.|++|++|+-. . .+++-+++|++++++|||+.
T Consensus 534 sk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFMQQG~D 613 (897)
T KOG1054|consen 534 SKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFMQQGCD 613 (897)
T ss_pred CCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHHhcCCC
Confidence 6 999999999999999999999999999999999999887522 1 14677999999999999994
Q ss_pred cccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhh--------hccCCcee--eecCCcHHHhhhccCCCc-ccc
Q 047109 595 EKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIK--------LASRDNIG--SQLGSFVPGALSNLNFKD-SRL 663 (808)
Q Consensus 595 ~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~--------~~~~~~i~--~~~~s~~~~~l~~~~~~~-~~~ 663 (808)
..|||.|+||+.++||||+||++++|||||++|||+++|. +.++.+|. +..+.....+++.....- .++
T Consensus 614 I~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr~Skiavy~kM 693 (897)
T KOG1054|consen 614 ISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRRSKIAVYEKM 693 (897)
T ss_pred CCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHhhhhHHHHHHH
Confidence 5899999999999999999999999999999999999998 34455554 455555566665432210 000
Q ss_pred ----------cccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC-CCceEEeccccccccceEEEEeCCCCChHH
Q 047109 664 ----------KKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY-STDYTMIAPNYTTTSGFGFVFQKGSPLVHD 732 (808)
Q Consensus 664 ----------~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~k~sp~~~~ 732 (808)
+...+..|.++.+ |++.|.+||+.++...+|..++. | +...+|..+. +.+|+++.||||.++..
T Consensus 694 W~yM~SaepsVFv~t~aeGv~rV---RksKGkyAfLLEsTmNey~eqRkPC-DTMKVGgNLd-s~GYGiATp~Gsslr~~ 768 (897)
T KOG1054|consen 694 WTYMKSAEPSVFVRTTAEGVARV---RKSKGKYAFLLESTMNEYIEQRKPC-DTMKVGGNLD-SKGYGIATPKGSSLRNA 768 (897)
T ss_pred HHHHhcCCcceeeehhhhHHHHH---HhcCCceEeehHhhhhhhhhccCCc-cceecccccC-CcceeecCCCCcccccc
Confidence 1122334444444 57778999999999888877654 9 6778899999 99999999999999999
Q ss_pred HHHHHHhhhhcCchHHHHHHhcCCCCCCccccCCCCCCcCCcccccchhHHHHHHHHHHHHHHHHHHHHHHhhc
Q 047109 733 ISRAIAKLREEGTLRKIEIEWFNDQQSSFMHVDSTSNNPSSLSLTNFGGLFLITGISSTLALVAFLVSSIHKKR 806 (808)
Q Consensus 733 ~~~~i~~l~e~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~~l~g~f~ll~~g~~la~~vf~~E~~~~~~ 806 (808)
+|.++++|.|.|+++++++||+.++++|..-..+..++...|++.+++|+||+|..|+++|.++.++|+++++|
T Consensus 769 vNLAvLkL~E~G~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr 842 (897)
T KOG1054|consen 769 VNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSR 842 (897)
T ss_pred hhhhhhhhcccchHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999854555566689999999999999999999999999999999876
No 2
>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=9.3e-78 Score=632.02 Aligned_cols=677 Identities=21% Similarity=0.385 Sum_probs=543.8
Q ss_pred CCHHHHHHHHHHhhhcCCeEEEEecCCCh--hHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhH
Q 047109 49 GDPLHALTTVLNLMQNVDLQAIICTEMTP--TGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQS 121 (808)
Q Consensus 49 ~~~~~a~~~a~~li~~~~v~aiiG~~~~s--~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~ 121 (808)
.||..-+...|+++...+|++|+-..++. ++++.+.-++.+.+||+|+....+...+++ .|+++.|+.+ +
T Consensus 83 tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sie---q 159 (1258)
T KOG1053|consen 83 TDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIE---Q 159 (1258)
T ss_pred CCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHH---H
Confidence 89999999999999999999999755122 456666678889999999987765542554 8999999999 9
Q ss_pred HHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhc--CCcEEEEEEecCCCCCChHH-HHHHHHHhcCCCCeEE
Q 047109 122 QAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHD--NDIDIARRITISMSSNTDDQ-VIEKLSMLKSSETKVF 198 (808)
Q Consensus 122 ~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~--~g~~i~~~~~~~~~~~~~~~-~~~~l~~l~~~~~~vi 198 (808)
|+++|+++|+.|+|..++++....+.-. .+...+++.... .|+.+........ +.+| ..-...++|+-++.||
T Consensus 160 qa~Vml~iL~~ydW~~Fs~vtt~~pg~~-~f~~~ir~~~d~s~vgwe~i~v~~l~~---s~~d~~a~~q~qLkki~a~Vi 235 (1258)
T KOG1053|consen 160 QAQVMLKILEEYDWYNFSLVTTQFPGNR-TFVSLIRQTNDNSHVGWEMINVLTLDP---STDDLLAKLQAQLKKIQAPVI 235 (1258)
T ss_pred HHHHHHHHHHHcCcceeEEEEeecCchH-HHHHHHHHhhhhccccceeeeeeecCC---CCCchHHHHHHHHHhcCCcEE
Confidence 9999999999999999999998876655 777777777665 3666655444443 2223 2233345666678999
Q ss_pred EEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhcc
Q 047109 199 VVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLN 278 (808)
Q Consensus 199 il~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~ 278 (808)
+++|+.++|..|+..|.++||++++|+||++...... +.. +..+ ..|++.+.... |+
T Consensus 236 llyC~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~-~~~-pa~~---P~GLisv~~~~------------w~------ 292 (1258)
T KOG1053|consen 236 LLYCSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL-EPR-PAEF---PLGLISVSYDT------------WR------ 292 (1258)
T ss_pred EEEecHHHHHHHHHHHHhcCCcCCceEEEeehhccCC-CCC-CccC---ccceeeeeccc------------hh------
Confidence 9999999999999999999999999999997765432 111 1121 44555554322 11
Q ss_pred CCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhh------------------cCChHHHHHHHHcCccccceeEEEe-eCC
Q 047109 279 NQNAEVSELDVHGILAYDTVWALAKASEKLKTE------------------ISNETCYYKQILNSRFTGLSGDFQL-ING 339 (808)
Q Consensus 279 ~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~------------------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g 339 (808)
..+.+..-|++-++|.|...+... +..+..+.++|.|+.|+| +.+.| ++|
T Consensus 293 ---------~~l~~rVrdgvaiva~aa~s~~~~~~~lp~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf~~~g 361 (1258)
T KOG1053|consen 293 ---------YSLEARVRDGVAIVARAASSMLRIHGFLPEPKMDCREQEETRLTSGETLHRFLANVTWDG--RDLSFNEDG 361 (1258)
T ss_pred ---------hhHHHHHhhhHHHHHHHHHHHHhhcccCCCcccccccccCccccchhhhhhhhheeeecc--cceeecCCc
Confidence 113566779999999998888654 126778999999999999 78999 999
Q ss_pred cccCCccEEEEEeec-CcEEEEEEEeCCCCCcccccccccccccCCCCCCCCCCCCceeEcCCCCccCCCccCCCCeEEE
Q 047109 340 KLTSSRAFEIVNVIG-KTVKIVGFWTPTTRITKEMNSSVFINKMDNISSSSPNGELEAIIWPGGSVAIPVGSGKINKLRI 418 (808)
Q Consensus 340 ~~~~~~~~~i~~~~~-~~~~~vg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~l~v 418 (808)
-.+.. ...++.+.+ ..|..||.|.... +. ++.-+||.- .+.+........|+|
T Consensus 362 ~~v~p-~lvvI~l~~~r~We~VG~We~~~-----L~-------------------M~y~vWPr~-~~~~q~~~d~~HL~V 415 (1258)
T KOG1053|consen 362 YLVHP-NLVVIDLNRDRTWERVGSWENGT-----LV-------------------MKYPVWPRY-HKFLQPVPDKLHLTV 415 (1258)
T ss_pred eeecc-ceEEEecCCCcchheeceecCCe-----EE-------------------Eeccccccc-cCccCCCCCcceeEE
Confidence 88887 566665554 4499999998654 11 455678833 223333325568999
Q ss_pred EeecCCccceEEEee-CCC------------------------CCC-ccceEEEEeHHHHHHHHHHCCCceeEEEEecCC
Q 047109 419 GVPVNGHIEFVHVVR-DPQ------------------------SVN-ATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFED 472 (808)
Q Consensus 419 ~~~~~~~~p~~~~~~-~~~------------------------~~~-~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~ 472 (808)
.+..+ +||+...+ ||. .|. ...|++|||+||+++||+.+||++++.++.+++
T Consensus 416 vTLeE--~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~FtYDLYlVtnGK 493 (1258)
T KOG1053|consen 416 VTLEE--RPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFTYDLYLVTNGK 493 (1258)
T ss_pred EEecc--CCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcceEEEEecCCc
Confidence 98854 88887643 110 000 127899999999999999999999998887765
Q ss_pred CCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEecCCCC-ccceeeccCchhHHHHHHHH
Q 047109 473 PNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNN-NMWIFLKPLKPNLWLTTAAL 551 (808)
Q Consensus 473 ~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~-~~~~~~~pF~~~vW~~i~~~ 551 (808)
-.-+.||.|+|||++|..+++||++++++|+++|.+.+|||.|+..+++.+||.+.+-. +.-+|+.||++.+|++++++
T Consensus 494 hGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWVmmFVm 573 (1258)
T KOG1053|consen 494 HGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWVMMFVM 573 (1258)
T ss_pred ccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHHHHHHH
Confidence 44469999999999999999999999999999999999999999999999999999777 99999999999999999999
Q ss_pred HHHH-HhhheeeecccCCCCC---------CCCCcchhhHHHHHHHHhhhcC--ccccccchhhHHHHHHHHHHHHHHHH
Q 047109 552 FVLT-GFVVWIIERPINDEFQ---------GSPAHQFGMIFWYSFSTLVFSQ--REKLLSNWSKFVVIVWVFVVLILTSS 619 (808)
Q Consensus 552 ~~~~-~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~l~~~~--~~~p~s~s~Ril~~~w~~~~lil~~~ 619 (808)
++++ ++..++++++++..+. +...+++++++|..|+.++... .+.|++.++||++.+|.+||+|+.++
T Consensus 574 ~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAfFavifLAs 653 (1258)
T KOG1053|consen 574 CLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAFFAVIFLAS 653 (1258)
T ss_pred HHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHHHHHHHHHH
Confidence 8755 5567799999876543 2235789999999999988766 56899999999999999999999999
Q ss_pred hhhhhheeeeehhhh----------------hccCCceeeecCCcHHHhhhccCCCc--ccccccC--CHHHHHHHHhcC
Q 047109 620 YTATLTSMLTVQQIK----------------LASRDNIGSQLGSFVPGALSNLNFKD--SRLKKYN--SAEEFANALSKG 679 (808)
Q Consensus 620 Y~a~L~s~lt~~~~~----------------~~~~~~i~~~~~s~~~~~l~~~~~~~--~~~~~~~--~~~~~~~~l~~~ 679 (808)
|||||+|||.-+++- .....++|.+.++..+.++++ ++++ ..++.|+ ..+++++.|++|
T Consensus 654 YTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~-Nyp~MHeYM~kyNq~~v~dal~sLK~g 732 (1258)
T KOG1053|consen 654 YTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRS-NYPEMHEYMVKYNQPGVEDALESLKNG 732 (1258)
T ss_pred HHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHh-ccHHHHHHHHHhccCchHHHHHHHhcc
Confidence 999999999543332 112568999988887888865 3332 4455665 668999999777
Q ss_pred CCCCceEEEEechhhHHHHHhcC--CCceEEec--cccccccceEEEEeCCCCChHHHHHHHHhhhhcCchHHHHHHhcC
Q 047109 680 SKNGGISAIIDEIPYIKAFLAKY--STDYTMIA--PNYTTTSGFGFVFQKGSPLVHDISRAIAKLREEGTLRKIEIEWFN 755 (808)
Q Consensus 680 ~~~~~~~a~~~~~~~~~~~~~~~--~~~l~~~~--~~~~~~~~~~~~~~k~sp~~~~~~~~i~~l~e~G~~~~~~~~~~~ 755 (808)
+ .|||++|...++|.+.++ | +|.++| ..+. ..+||++++||||++..||.+|++++.+|.++.+++.|+.
T Consensus 733 K----LDAFIyDaAVLnY~agkDegC-KLvTIGsgKvFA-ttGYGIal~k~Spwkr~IdlallQy~gdGeme~Le~~Wlt 806 (1258)
T KOG1053|consen 733 K----LDAFIYDAAVLNYMAGKDEGC-KLVTIGSGKVFA-TTGYGIALPKNSPWKRQIDLALLQYLGDGEMEMLETLWLT 806 (1258)
T ss_pred c----chhHHHHHHHHHHhhccCCCc-eEEEecCCceee-ecceeeecCCCCcchhhHHHHHHHHhccchHHHHHHHHhh
Confidence 7 999999999999999876 9 899888 8899 9999999999999999999999999999999999999998
Q ss_pred CCCCCccccCCCCCCcCCcccccchhHHHHHHHHHHHHHHHHHHHHHHhh
Q 047109 756 DQQSSFMHVDSTSNNPSSLSLTNFGGLFLITGISSTLALVAFLVSSIHKK 805 (808)
Q Consensus 756 ~~~~~~~~~~~~~~~~~~l~l~~l~g~f~ll~~g~~la~~vf~~E~~~~~ 805 (808)
+.|.. +..+..+.+|++++|.|+||+|++|+++|+++|++|.+++.
T Consensus 807 --gic~n--~k~evmSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvYw 852 (1258)
T KOG1053|consen 807 --GICHN--SKNEVMSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVYW 852 (1258)
T ss_pred --ccccc--chhhhhhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78886 66778889999999999999999999999999999998754
No 3
>KOG4440 consensus NMDA selective glutamate-gated ion channel receptor subunit GRIN1 [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=9.6e-80 Score=623.90 Aligned_cols=720 Identities=21% Similarity=0.338 Sum_probs=581.5
Q ss_pred eEEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEE--EecCCCCHHHHHHHHHHhhhcCCeEEEEecC-CCh-
Q 047109 2 VHVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLH--SRDSKGDPLHALTTVLNLMQNVDLQAIICTE-MTP- 77 (808)
Q Consensus 2 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~--~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~-~~s- 77 (808)
++||.+++.+ ..+.-+.-++.++|++.+ +.++.+- ......++.+.+-.+|+-+-+..|.+|+-.. ++|
T Consensus 36 ~nig~Vlst~-----~~ee~F~~t~~hln~~~~--s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~vSh~~Ts~ 108 (993)
T KOG4440|consen 36 VNIGAVLSTR-----KHEEMFRETVNHLNKRHG--SWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLVSHPPTSN 108 (993)
T ss_pred eeeeeeeech-----hHHHHHHHHHHHhhcccc--ceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEecCCCCCC
Confidence 4566666543 357788899999997542 4555542 2224567778777777754445888888532 122
Q ss_pred --hHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCcccc
Q 047109 78 --TGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSD 150 (808)
Q Consensus 78 --~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~ 150 (808)
-+-.+++..++.++||++.....+.. +|+ +|+|++|+.+ +|+.+..+.|.+|.|++|.++.+||.-|+
T Consensus 109 d~f~p~~vSYT~gFY~iPV~G~~~Rda~-fSdKnIh~sFlRtvpPys---hqa~VwleMl~~~~y~~vi~l~s~d~~gr- 183 (993)
T KOG4440|consen 109 DHFTPTPVSYTAGFYRIPVLGLTTRDAI-FSDKNIHLSFLRTVPPYS---HQASVWLEMLRVYSYNHVILLVSDDHEGR- 183 (993)
T ss_pred cccccccceeeccceeeeeeeeeehhhh-hccCceeeeEeecCCCcc---chhHHHHHHHHHhhcceEEEEEcccccch-
Confidence 23345567888999999999999999 998 8999999999 99999999999999999999999998888
Q ss_pred CcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 151 NIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 151 ~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
.....++..+++..-+......+.. +..+++..|..+|..++|++++....++|..++++|.+++|++.+|+||++.
T Consensus 184 a~~~r~qt~~e~~~~~~e~v~~f~p---~~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnmTG~G~VWiV~E 260 (993)
T KOG4440|consen 184 AAQKRLQTLLEERESKAEKVLQFDP---GTKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNMTGSGYVWIVGE 260 (993)
T ss_pred hHHhHHHHHHHHHhhhhhhheecCc---ccchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcccCceEEEEEec
Confidence 7766777666655544444334443 6678999999999999999999999999999999999999999999999998
Q ss_pred ccccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhh
Q 047109 231 STMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKT 310 (808)
Q Consensus 231 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~ 310 (808)
.....- +. ..|++|.+.....+ ..++.-|+|.++|.|++++.+
T Consensus 261 ~a~~~n--------n~-PdG~LGlqL~~~~~----------------------------~~~hirDsv~vlasAv~e~~~ 303 (993)
T KOG4440|consen 261 RAISGN--------NL-PDGILGLQLINGKN----------------------------ESAHIRDSVGVLASAVHELLE 303 (993)
T ss_pred cccccC--------CC-CCceeeeEeecCcc----------------------------ccceehhhHHHHHHHHHHHHh
Confidence 754321 11 56888887754322 245677999999999999986
Q ss_pred h----------------cCChHHHHHHHHcCc-cccceeEEEe-eCCcccCCccEEEEEee-cCcEEEEEEEeCCCCCcc
Q 047109 311 E----------------ISNETCYYKQILNSR-FTGLSGDFQL-INGKLTSSRAFEIVNVI-GKTVKIVGFWTPTTRITK 371 (808)
Q Consensus 311 ~----------------~~~~~~l~~~l~~~~-~~g~tG~v~f-~~g~~~~~~~~~i~~~~-~~~~~~vg~~~~~~~~~~ 371 (808)
. +..+..+.+.+...+ ..|.||+|.| ++|+|... .|+|+|+. +...+.+|.|+..-
T Consensus 304 ~e~I~~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a-~YdiiN~hq~rk~Vg~~~yd~~r---- 378 (993)
T KOG4440|consen 304 KENITDPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFA-NYDIINLHQNRKLVGVGIYDGTR---- 378 (993)
T ss_pred hccCCCCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeec-cceeEehhhhhhhhhhcccccee----
Confidence 5 235667777776644 5789999999 99999998 99999994 55566666666321
Q ss_pred cccccccccccCCCCCCCCCCCCceeEcCCCCccCCCccCCCCeEEEEeecCCccceEEEeeC-----------------
Q 047109 372 EMNSSVFINKMDNISSSSPNGELEAIIWPGGSVAIPVGSGKINKLRIGVPVNGHIEFVHVVRD----------------- 434 (808)
Q Consensus 372 ~~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~l~v~~~~~~~~p~~~~~~~----------------- 434 (808)
..- +..+|+||++..+.|....-.+.||+.+.. -+||++....
T Consensus 379 -~~~-----------------nd~~IiWpGg~~~KP~gi~~pthLrivTi~--~~PFVYv~p~~sd~~c~eef~~~~d~~ 438 (993)
T KOG4440|consen 379 -VIP-----------------NDRKIIWPGGETEKPRGIQMPTHLRIVTIH--QEPFVYVKPTLSDGTCKEEFTVNGDPV 438 (993)
T ss_pred -ecc-----------------CCceeecCCCCcCCCccccccceeEEEEec--cCCeEEEecCCCCcchhhhccccCCcc
Confidence 110 247899999999999887767899999994 4889987511
Q ss_pred -------CC-----CCC--ccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCC--------C-CCCCHHHHHHHHHcC
Q 047109 435 -------PQ-----SVN--ATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNG--------R-MPGSYNDLIDQVYFQ 491 (808)
Q Consensus 435 -------~~-----~~~--~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~--------~-~~~~~~~~~~~l~~g 491 (808)
++ .+. ...|+.|+|+||+-+++..+||+++..+.+.+...- . ...+|+|++++|.++
T Consensus 439 ~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~G~iGEL~~~ 518 (993)
T KOG4440|consen 439 KKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWNGMIGELLSG 518 (993)
T ss_pred cceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccceehhhhhhhhCC
Confidence 00 000 115789999999999999999999999988664321 1 334799999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCC-ccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCC-
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNN-NMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDE- 569 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~-~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~- 569 (808)
++||++++++++++|.+.++||.|+..-++.++.+++.+. ....|+.||+..+|+++.++++++++++++++|++|.+
T Consensus 519 ~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYlLDrfSPFgR 598 (993)
T KOG4440|consen 519 QADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYLLDRFSPFGR 598 (993)
T ss_pred ccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccc
Confidence 9999999999999999999999999999999999999665 88899999999999999999999999999999999865
Q ss_pred CCCC-------CCcchhhHHHHHHHHhhhcC-cc-ccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhh------
Q 047109 570 FQGS-------PAHQFGMIFWYSFSTLVFSQ-RE-KLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIK------ 634 (808)
Q Consensus 570 ~~~~-------~~~~~~~~~~~~~~~l~~~~-~~-~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~------ 634 (808)
+... ..-.++.++|++||.++.++ ++ .|||+|+|++.++|.-||+|++++|||||++||.+++.+
T Consensus 599 Fk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdrPe~~ltGi 678 (993)
T KOG4440|consen 599 FKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDRPEERLTGI 678 (993)
T ss_pred eeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeecCccccccCC
Confidence 2211 22478999999999999988 44 799999999999999999999999999999999988876
Q ss_pred ----h---ccCCceeeecCCcHHHhhhccC-----CCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC
Q 047109 635 ----L---ASRDNIGSQLGSFVPGALSNLN-----FKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY 702 (808)
Q Consensus 635 ----~---~~~~~i~~~~~s~~~~~l~~~~-----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~ 702 (808)
+ ..+...+.+.+|..+.|++..- +....-.-|.+.+++++.+++|+ .+||+.|+.-++|..++.
T Consensus 679 nDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~gk----L~AFIWDS~rLEfEAs~~ 754 (993)
T KOG4440|consen 679 NDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDGK----LHAFIWDSARLEFEASQK 754 (993)
T ss_pred CCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHcCc----eeEEEeecceeeehhhcc
Confidence 1 1234568889999999996521 11122234667788899998887 999999999999999999
Q ss_pred CCceEEeccccccccceEEEEeCCCCChHHHHHHHHhhhhcCchHHHHHHhcCCC-CCCccccCCCCCCcCCcccccchh
Q 047109 703 STDYTMIAPNYTTTSGFGFVFQKGSPLVHDISRAIAKLREEGTLRKIEIEWFNDQ-QSSFMHVDSTSNNPSSLSLTNFGG 781 (808)
Q Consensus 703 ~~~l~~~~~~~~~~~~~~~~~~k~sp~~~~~~~~i~~l~e~G~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~l~~l~g 781 (808)
| +|...|+.|. .++|+++++|+||+.+.+..+|++++|+|+|+++.++|+... ++|.. ..+..+..|++++|.|
T Consensus 755 C-eLvT~GeLFg-RSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~---~~~k~PatLgl~NMag 829 (993)
T KOG4440|consen 755 C-ELVTTGELFG-RSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECD---SRSKAPATLGLENMAG 829 (993)
T ss_pred c-ceEecccccc-ccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhh---hhccCccccccccccc
Confidence 9 8999999999 999999999999999999999999999999999999999873 23332 2456788999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcC
Q 047109 782 LFLITGISSTLALVAFLVSSIHKKRP 807 (808)
Q Consensus 782 ~f~ll~~g~~la~~vf~~E~~~~~~~ 807 (808)
+|++.+.|+.++++..++|+.|+|++
T Consensus 830 vFiLV~~Gia~GifLifiEv~Ykrh~ 855 (993)
T KOG4440|consen 830 VFILVAGGIAAGIFLIFIEVAYKRHK 855 (993)
T ss_pred EEEEEecchhheeeEEEEeehhhhhh
Confidence 99999999999999999999998763
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=2.3e-55 Score=507.42 Aligned_cols=569 Identities=34% Similarity=0.541 Sum_probs=469.8
Q ss_pred HHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCC-ccccccccceeEEEeeccCCcHHH
Q 047109 186 KLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMD-SSVVESSMQGVLGFKRYVPASKQL 264 (808)
Q Consensus 186 ~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~-~~~~~~~~~g~~~~~~~~~~~~~~ 264 (808)
.+.+++....+++++.+.+..+..++.++.++||...+|+|+.++......+... ....+. .++.++...+.+.....
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~s~~~ 83 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDELYSLIDV-MNGVLGLRGHIPRSELL 83 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhcccccccchhh-eeeEEeeccCCCccHHH
Confidence 3445555778899999998889999999999999999999999998776555443 233344 66777888888888888
Q ss_pred HHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhh------------cCChHHHHHHHHcCccc---c
Q 047109 265 RNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTE------------ISNETCYYKQILNSRFT---G 329 (808)
Q Consensus 265 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~------------~~~~~~l~~~l~~~~~~---g 329 (808)
+.|..+|+.. .. .+..++..+||++.++|.|+++.... ...+..+.+.++..... |
T Consensus 84 ~~~~~~~~~~-~~--------~~~~~~~~~~D~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (656)
T KOG1052|consen 84 QNFVTRWQTS-NV--------ELLVYALWAYDAIQALARAVESLLNIGNLSLSCGRNNSWLDALGVFNFGKKLLVVNLSG 154 (656)
T ss_pred HHHHHHHhhc-cc--------cccchhhHHHHHHHHHHHHHHHhhcCCCCceecCCCCcccchhHHHHHHHhhhhhcccc
Confidence 8898888765 11 24567999999999999999988732 11455666777665443 4
Q ss_pred ceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCCCCCcccccccccccccCCCCCCCCCCCCceeEcCCCCccCCC
Q 047109 330 LSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPTTRITKEMNSSVFINKMDNISSSSPNGELEAIIWPGGSVAIPV 408 (808)
Q Consensus 330 ~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~ 408 (808)
.+|.+.+ .++.+... .+++++..+.+...+|.|++..+ ..|.||+.....|.
T Consensus 155 ~~~~~~~~~~~~~~~~-~~~i~n~~~~~~~~ig~W~~~~~--------------------------~~i~~~~~~~~~~~ 207 (656)
T KOG1052|consen 155 VTGQFQFFRGGLLEYF-KYEILNLNGSGERRIGYWYPRGG--------------------------ENISWPGKDYFVPK 207 (656)
T ss_pred ceeEEEecCCCccccc-eEEEEEecCcCceeEEEecCCCC--------------------------ceeeccCCcccCcC
Confidence 5666777 78888888 99999999999888999998653 35678877777777
Q ss_pred ccC---CCCeEEEEeecCCccceEEEeeC--CC-CCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHH
Q 047109 409 GSG---KINKLRIGVPVNGHIEFVHVVRD--PQ-SVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYN 482 (808)
Q Consensus 409 ~~~---~~~~l~v~~~~~~~~p~~~~~~~--~~-~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~ 482 (808)
.+- .+++++|++.. -+||....++ .. ++ ..+.|+|+||++++++.+||+++++.++.+.....++|+|+
T Consensus 208 ~~~~~~~~~~l~v~~~~--~~P~~~~~~~~~~~~~~---~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~ 282 (656)
T KOG1052|consen 208 GWFFPTNGKPLRVGVVT--EPPFVDLVEDLAILNGN---DRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWD 282 (656)
T ss_pred CccccCCCceEEEEEec--cCCceeeeecccccCCC---CccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChh
Confidence 665 48999999995 4667776655 21 33 78999999999999999999999988887663334668999
Q ss_pred HHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEecCCCC-ccceeeccCchhHHHHHHHHHHHHHhhhee
Q 047109 483 DLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNN-NMWIFLKPLKPNLWLTTAALFVLTGFVVWI 561 (808)
Q Consensus 483 ~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~-~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~ 561 (808)
|++++|.+|++|++ ++++++++|.+.+|||.||+..+++++++++... ..+.|+.||++.+|++++++++++++++|+
T Consensus 283 g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~ 361 (656)
T KOG1052|consen 283 GLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWI 361 (656)
T ss_pred HHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999 8999999999999999999999999999999665 589999999999999999999999999999
Q ss_pred eecccCCCCCCC----CCcchhhHHHHHHHHhhhcC-ccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhh--
Q 047109 562 IERPINDEFQGS----PAHQFGMIFWYSFSTLVFSQ-REKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIK-- 634 (808)
Q Consensus 562 ~~~~~~~~~~~~----~~~~~~~~~~~~~~~l~~~~-~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~-- 634 (808)
++++.+.++... ....+.+++|.++++++.|+ .+.|++.++|++.++||++++|++++|||+|+|+||.+++.
T Consensus 362 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~~ 441 (656)
T KOG1052|consen 362 LERLSPYELPPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRSP 441 (656)
T ss_pred HhccccccCCccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCc
Confidence 999888877111 11345678999999999887 56899999999999999999999999999999999998886
Q ss_pred ------h--ccCCceeeecCCcHHHhhhcc----CCCcc-cccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhc
Q 047109 635 ------L--ASRDNIGSQLGSFVPGALSNL----NFKDS-RLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAK 701 (808)
Q Consensus 635 ------~--~~~~~i~~~~~s~~~~~l~~~----~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~ 701 (808)
+ ..+..+|...++....++++. ..... ....+.+.+++.+.+++|.. +-.+++.+.....+....
T Consensus 442 i~~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~--~~~~~~~~~~~~~~~~~~ 519 (656)
T KOG1052|consen 442 IDSLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPS--GGYAFASDELYLAYLFLR 519 (656)
T ss_pred ccCHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCC--CceEEEeccHHHHHHHhh
Confidence 1 367788999999989888664 12223 56788899999999988843 446666666666666655
Q ss_pred C--CCceEEeccccccccceEEEEeCCCCChHHHHHHHHhhhhcCchHHHHHHhcCCC---CCCccccCCCCCCcCCccc
Q 047109 702 Y--STDYTMIAPNYTTTSGFGFVFQKGSPLVHDISRAIAKLREEGTLRKIEIEWFNDQ---QSSFMHVDSTSNNPSSLSL 776 (808)
Q Consensus 702 ~--~~~l~~~~~~~~~~~~~~~~~~k~sp~~~~~~~~i~~l~e~G~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~l 776 (808)
+ | +++.+++.+. ..+++ ++||||||++.++.+|+++.|.|.+.++.++|+... ..|.. . .....+++
T Consensus 520 ~~~c-~~~~v~~~~~-~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~--~---~~~~~l~~ 591 (656)
T KOG1052|consen 520 DEIC-DLTEVGEPFL-YKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQ--T---EKTKALDL 591 (656)
T ss_pred cCCC-ceEEeCCccc-CCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCC--c---ccccccch
Confidence 4 8 8999999999 99999 999999999999999999999999999999999985 44444 1 15678999
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 047109 777 TNFGGLFLITGISSTLALVAFLVSSIHKKRP 807 (808)
Q Consensus 777 ~~l~g~f~ll~~g~~la~~vf~~E~~~~~~~ 807 (808)
+++.|+|+++++|+++|+++|++|+++++++
T Consensus 592 ~~~~g~F~i~~~g~~lal~vfi~E~~~~~~~ 622 (656)
T KOG1052|consen 592 ESFWGLFLILLVGYLLALLVFILELLYSRRR 622 (656)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999998764
No 5
>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=8.7e-44 Score=395.14 Aligned_cols=362 Identities=19% Similarity=0.227 Sum_probs=304.8
Q ss_pred eEEEEEEecCC----------------------cchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHH
Q 047109 2 VHVGVILDMRS----------------------WAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTV 58 (808)
Q Consensus 2 i~IG~i~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a 58 (808)
|.||++||... ..|.+...|+++|+++||+++++|| ++|+++++|+|+++..|++.+
T Consensus 13 ~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~a~~~a 92 (510)
T cd06364 13 IILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSKALEAT 92 (510)
T ss_pred EEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHHHHHHH
Confidence 68999999873 2278889999999999999999999 899999999999999999999
Q ss_pred HHhhhcCC------------------eEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccC
Q 047109 59 LNLMQNVD------------------LQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQD 115 (808)
Q Consensus 59 ~~li~~~~------------------v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~ 115 (808)
.+++.+++ |.|||||. +|.++.+++++++.++||+|+++++++. +++ +|||+.|+
T Consensus 93 ~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~-sS~~s~ava~~~~~~~IP~IS~~sss~~-ls~~~~yp~ffRt~ps 170 (510)
T cd06364 93 LSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGAT-GSGVSTAVANLLGLFYIPQVSYASSSRL-LSNKNQFKSFLRTIPN 170 (510)
T ss_pred HHHHhcccccccccccccccCCCCCceEEEECCC-chhHHHHHHHHhccccccccccccCCcc-cCCccccCCeeEcCCC
Confidence 99987644 46999999 9999999999999999999999999998 886 69999999
Q ss_pred CchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCC
Q 047109 116 DEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSET 195 (808)
Q Consensus 116 ~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~ 195 (808)
+. .+++++++++++|+|++|++|+.|++||+ ...+.|.+.+++.|+||+..+.++. ..+..++.+++.+++++++
T Consensus 171 d~---~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~-~~~~~~~~~~~~~Gi~I~~~~~i~~-~~~~~d~~~~l~klk~~~a 245 (510)
T cd06364 171 DE---HQATAMADIIEYFRWNWVGTIAADDDYGR-PGIEKFREEAEERDICIDFSELISQ-YSDEEEIQRVVEVIQNSTA 245 (510)
T ss_pred hH---HHHHHHHHHHHHcCCeEEEEEEecCcchH-HHHHHHHHHHHHCCcEEEEEEEeCC-CCCHHHHHHHHHHHHhcCC
Confidence 99 99999999999999999999999999999 9999999999999999999887765 4467799999999999999
Q ss_pred eEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHH-------
Q 047109 196 KVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFT------- 268 (808)
Q Consensus 196 ~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------- 268 (808)
|+||+.+...++..++++|+++|+ .+++||+++.|.............. +.|++++.+...+.+.+++|.
T Consensus 246 ~vVvl~~~~~~~~~ll~qa~~~g~--~~~iwI~s~~w~~~~~~~~~~~~~~-~gg~lg~~~~~~~i~~f~~~l~~l~p~~ 322 (510)
T cd06364 246 KVIVVFSSGPDLEPLIKEIVRRNI--TGKIWLASEAWASSSLIAMPEYFDV-MGGTIGFALKAGQIPGFREFLQKVHPKK 322 (510)
T ss_pred eEEEEEeCcHHHHHHHHHHHHhCC--CCcEEEEEchhhcccccccCCccce-eeEEEEEEECCCcCccHHHHHHhCCccc
Confidence 999999999999999999999998 4689999998875433322334455 788999988887777666653
Q ss_pred --------HHHHHHhhccCCC---C---------------------------CCC------------C--cchhhhhHhh
Q 047109 269 --------LKWKREMYLNNQN---A---------------------------EVS------------E--LDVHGILAYD 296 (808)
Q Consensus 269 --------~~~~~~~~~~~~~---~---------------------------~~~------------~--~~~~~~~~yd 296 (808)
+.|++.|+|..+. . ... + ....+.+.||
T Consensus 323 ~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~~ 402 (510)
T cd06364 323 SSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVYL 402 (510)
T ss_pred CCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHHH
Confidence 4578888876321 0 000 0 1234677999
Q ss_pred HHHHHHHHHHHHhhhc----------------CChHHHHHHHHcCccccceeE-EEe-eCCcccCCccEEEEEeec---C
Q 047109 297 TVWALAKASEKLKTEI----------------SNETCYYKQILNSRFTGLSGD-FQL-INGKLTSSRAFEIVNVIG---K 355 (808)
Q Consensus 297 av~~~a~Al~~~~~~~----------------~~~~~l~~~l~~~~~~g~tG~-v~f-~~g~~~~~~~~~i~~~~~---~ 355 (808)
||+++|+|||++..|- -+++++.++|++++|.|.+|. |.| ++|+... .|+|++||. +
T Consensus 403 AVyAvAhaLh~~~~c~~~~~~~~~~~c~~~~~~~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~~~--~YdI~n~q~~~~~ 480 (510)
T cd06364 403 AVYSIAHALQDIYTCTPGKGLFTNGSCADIKKVEAWQVLKHLRHLNFTDNMGEQVRFDEGGDLVG--NYSIINWHLSPED 480 (510)
T ss_pred HHHHHHHHHHHHhcCCCCCCCccCCCCCCCCCCCHHHHHHHHHhcEEecCCCCEEEEecCCCCcc--ceeEEEeeecCCC
Confidence 9999999999997441 157899999999999999886 999 9999987 999999993 3
Q ss_pred c---EEEEEEEeCCCCCcccccc
Q 047109 356 T---VKIVGFWTPTTRITKEMNS 375 (808)
Q Consensus 356 ~---~~~vg~~~~~~~~~~~~~~ 375 (808)
+ +++||.|++.......+.+
T Consensus 481 ~~~~~v~VG~~~~~~~~~~~l~i 503 (510)
T cd06364 481 GSVVFKEVGYYNVYAKKGERLFI 503 (510)
T ss_pred CcEEEEEEEEEcCCCCCCceEEe
Confidence 3 7899999875443334443
No 6
>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=6.4e-44 Score=394.03 Aligned_cols=361 Identities=17% Similarity=0.189 Sum_probs=301.3
Q ss_pred eEEEEEEecCC----------------------cchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHH
Q 047109 2 VHVGVILDMRS----------------------WAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTV 58 (808)
Q Consensus 2 i~IG~i~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a 58 (808)
|.||++||... ..|.+...|+.+|+++||+++.+|| ++|++.+.|+||++..|++++
T Consensus 3 i~igglf~vh~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~Am~~Ai~~IN~~~~lLp~~~Lg~~i~dtc~~~~~a~~~~ 82 (469)
T cd06365 3 LVIGGFFPLYTLSGPFETDDWHPFSADLDFRLLLKNYQHVLALLFAIEEINKNPHLLPNISLGFHIYNVLHSDRKALESS 82 (469)
T ss_pred eeEeceEEEEEeccccccccccCccccccccccchhhHHHHHHHHHHHHHhCCCCCCCCceEEEEEECCCCccHHHHHHH
Confidence 68999999851 1178888999999999999999999 999999999999999999999
Q ss_pred HHhhhc-------------CCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhh
Q 047109 59 LNLMQN-------------VDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQ 120 (808)
Q Consensus 59 ~~li~~-------------~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~ 120 (808)
.+++.. +++.|||||. +|..+.+++++++.++||+|+++++++. +++ +|||+.|++.
T Consensus 83 ~~~~~~~~~~~~~~~C~~~~~vvavIG~~-~S~~s~~va~i~~~~~IP~Is~~sts~~-lsd~~~yp~ffRt~psd~--- 157 (469)
T cd06365 83 LMWLSGEGETIPNYSCRRQRKSVAVIGGP-SWALSATIATLLGLYKFPQLTYGPFDPL-LSDRVQFPSLYQMAPKDT--- 157 (469)
T ss_pred HHHHhCCCcccCCccCCCCCceEEEEcCC-ccHHHHHHHHHhhhhcccceeeccCCcc-ccchhhCCcceEecCCch---
Confidence 999964 5799999999 9999999999999999999999999998 986 7999999999
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCC--hHHHHHHHHHhcCCCCeEE
Q 047109 121 SQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNT--DDQVIEKLSMLKSSETKVF 198 (808)
Q Consensus 121 ~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~--~~~~~~~l~~l~~~~~~vi 198 (808)
.++.++++++++|+|++|++|+.|++||. ...+.+.+.+++.|+||+..+.++. ... ..++..++++++++++|+|
T Consensus 158 ~q~~ai~~li~~f~W~~Vaiv~~d~~yg~-~~~~~~~~~~~~~gi~I~~~~~i~~-~~~~~~~~~~~~l~~i~~~~arvI 235 (469)
T cd06365 158 SLPLGMVSLMLHFSWTWVGLVISDDDRGE-QFLSDLREEMQRNGICLAFVEKIPV-NMQLYLTRAEKYYNQIMTSSAKVI 235 (469)
T ss_pred hHHHHHHHHHHhcCCeEEEEEEecChhHH-HHHHHHHHHHHHCCeEEEEEEEecC-CchhhHHHHHHHHHHhhcCCCeEE
Confidence 99999999999999999999999999999 9999999999999999999988876 332 2478999999999999999
Q ss_pred EEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHH----------
Q 047109 199 VVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFT---------- 268 (808)
Q Consensus 199 il~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~---------- 268 (808)
|+++..+++..++.++.+.+. .+++||+++.|....... ....+. ++|++++.+..++.+.+++|.
T Consensus 236 vl~~~~~~~~~l~~~~~~~~~--~~~~wi~s~~w~~~~~~~-~~~~~~-~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~ 311 (469)
T cd06365 236 IIYGDTDSLLEVSFRLWQYLL--IGKVWITTSQWDVTTSPK-DFTLNS-FHGTLIFSHHHSEIPGFKDFLQTVNPSKYPE 311 (469)
T ss_pred EEEcCcHHHHHHHHHHHHhcc--CceEEEeecccccccccc-ccccce-eeEEEEEEeccCcCcchHHHhhccCcccCCC
Confidence 999999888777655555553 579999999987543222 223445 889999999988888888764
Q ss_pred -----HHHHHHhhccCCCC-----------CCC--------C--cchhhhhHhhHHHHHHHHHHHHhhhc----------
Q 047109 269 -----LKWKREMYLNNQNA-----------EVS--------E--LDVHGILAYDTVWALAKASEKLKTEI---------- 312 (808)
Q Consensus 269 -----~~~~~~~~~~~~~~-----------~~~--------~--~~~~~~~~ydav~~~a~Al~~~~~~~---------- 312 (808)
+.|++.|+|..+.. ... + ....+.+.||||+++|+|||++..|.
T Consensus 312 npw~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~~~~~~~ 391 (469)
T cd06365 312 DIFLEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQSENNGK 391 (469)
T ss_pred ccHHHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCCCcCCCC
Confidence 45788887763211 110 0 12357889999999999999998651
Q ss_pred ---CChHHHHHHHHcCccccceeE-EEe-eCCcccCCccEEEEEeec--Cc---EEEEEEEeCCCCCcccccc
Q 047109 313 ---SNETCYYKQILNSRFTGLSGD-FQL-INGKLTSSRAFEIVNVIG--KT---VKIVGFWTPTTRITKEMNS 375 (808)
Q Consensus 313 ---~~~~~l~~~l~~~~~~g~tG~-v~f-~~g~~~~~~~~~i~~~~~--~~---~~~vg~~~~~~~~~~~~~~ 375 (808)
.++.++.++|++++|.|.+|. |.| ++|++.. .|+|+++|. ++ +++||.|++..+....+.+
T Consensus 392 ~~~~~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~~~--~YdI~n~q~~~~~~~~~~~VG~~~~~~~~~~~l~i 462 (469)
T cd06365 392 RLIFLPWQLHSFLKNIQFKNPAGDEVNLNQKRKLDT--EYDILNYWNFPQGLGLKVKVGEFSPQAPSGQQLSI 462 (469)
T ss_pred CCCccHHHHHHHHHhccccCCCCCEEEecCCCCcCc--eeeEEEEEECCCCCEEEEEEEEEeCCCCCCcEEEE
Confidence 157789999999999999996 999 9999987 999999983 22 7999999875443333443
No 7
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=100.00 E-value=1.4e-43 Score=382.88 Aligned_cols=334 Identities=19% Similarity=0.211 Sum_probs=285.6
Q ss_pred EEEEEEecCC-----------c----------chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHh
Q 047109 3 HVGVILDMRS-----------W----------AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNL 61 (808)
Q Consensus 3 ~IG~i~~~~~-----------~----------~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~l 61 (808)
.||++||... + .|.+...|+++|+|+||+++++.+++|++++.|+|++|..|++++.+|
T Consensus 1 ~lgglf~vh~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~Lpg~~L~~~i~Dt~~~~~~a~~~a~~l 80 (403)
T cd06361 1 IIGGLFAIHEAMLSVEDTPSRPQIQECVGFEIKGFLQTLAMIHAIEMINNSTLLLGVTLGYEIYDTCSEVTTAMAAVLRF 80 (403)
T ss_pred CEEEEEECcccccccccccCCCCCCcccccChhHHHHHHHHHHHHHHHhCCCCCCCCEEceEEEeCCCChHHHHHHHHHH
Confidence 3799999863 1 278888999999999999984444999999999999999999999999
Q ss_pred hhc------------------CCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCch
Q 047109 62 MQN------------------VDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEA 118 (808)
Q Consensus 62 i~~------------------~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~ 118 (808)
+++ ++|.|||||. +|+.+.+++.+++.++||+|++++++|. |++ +|||+.|+|.
T Consensus 81 i~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~-~S~~s~ava~v~~~~~IP~IS~~ats~~-Ls~~~~~~~ffRt~p~D~- 157 (403)
T cd06361 81 LSKFNCSRSTVEFKCDYSQYVPRIKAVIGAG-YSEISMAVSRMLNLQLIPQVSYASTAEI-LSDKIRFPSFLRTVPSDF- 157 (403)
T ss_pred HhhcccccccccccccCCCCCCCeEEEECCC-cchHHHHHHHHhccCCcceEecCcCCcc-cCCcccCCCeeECCCchH-
Confidence 975 5899999999 9999999999999999999999999999 986 7999999999
Q ss_pred hhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCCh-----HHHHHHHHHhcCC
Q 047109 119 SQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTD-----DQVIEKLSMLKSS 193 (808)
Q Consensus 119 ~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~-----~~~~~~l~~l~~~ 193 (808)
.+++++++++++++|++|++|+++++||. ...+.|.+.+++.|+||+..+.++. .... .++..+++.++++
T Consensus 158 --~qa~ai~~li~~~~w~~Vaii~~~d~yG~-~~~~~f~~~~~~~GicIa~~e~~~~-~~~~~~~~~~~~~~~~~~ik~~ 233 (403)
T cd06361 158 --YQTKAMAHLIKKSGWNWVGIIITDDDYGR-SALETFIIQAEANGVCIAFKEILPA-SLSDNTKLNRIIRTTEKIIEEN 233 (403)
T ss_pred --hHHHHHHHHHHHcCCcEEEEEEecCchHH-HHHHHHHHHHHHCCeEEEEEEEecC-ccCcchhHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999 9999999999999999999888865 3211 4566666778889
Q ss_pred CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHH
Q 047109 194 ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKR 273 (808)
Q Consensus 194 ~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~ 273 (808)
++|+||+.+..+++..++++|+++|+ +++||++++|.............. ..|++++.+.....+.+++|.+.
T Consensus 234 ~a~vVvv~~~~~~~~~l~~~a~~~g~---~~~wigs~~w~~~~~~~~~~~~~~-~~g~ig~~~~~~~~~~F~~~~~~--- 306 (403)
T cd06361 234 KVNVIVVFARQFHVFLLFNKAIERNI---NKVWIASDNWSTAKKILTDPNVKK-IGKVVGFTFKSGNISSFHQFLKN--- 306 (403)
T ss_pred CCeEEEEEeChHHHHHHHHHHHHhCC---CeEEEEECcccCccccccCCcccc-cceEEEEEecCCccchHHHHHHH---
Confidence 99999999999999999999999998 699999999976433332233344 67889998877666665555443
Q ss_pred HhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhh-------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCc
Q 047109 274 EMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTE-------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSR 345 (808)
Q Consensus 274 ~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~-------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~ 345 (808)
.+ ..++||||+++|+||++++.+ ..+++++.++|++++|.|.+|++.| ++|+...
T Consensus 307 ~~---------------~~~v~~AVyaiA~Al~~~~~~~~c~~~~~~~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~~~-- 369 (403)
T cd06361 307 LL---------------IHSIQLAVFALAHAIRDLCQERQCQNPNAFQPWELLGQLKNVTFEDGGNMYHFDANGDLNL-- 369 (403)
T ss_pred hh---------------HHHHHHHHHHHHHHHHHhccCCCCCCCCCcCHHHHHHHHheeEEecCCceEEECCCCCCCc--
Confidence 22 345899999999999998731 1278999999999999999889999 9999866
Q ss_pred cEEEEEeecCc----EEEEEEEeCCC
Q 047109 346 AFEIVNVIGKT----VKIVGFWTPTT 367 (808)
Q Consensus 346 ~~~i~~~~~~~----~~~vg~~~~~~ 367 (808)
.|+|++++.++ +++||.|++..
T Consensus 370 ~y~I~~~~~~~~~~~~~~vg~~~~~~ 395 (403)
T cd06361 370 GYDVVLWKEDNGHMTVTIMAEYDPQN 395 (403)
T ss_pred ceEEEEeEecCCcEEEEEEEEEeCCC
Confidence 89999999533 89999998754
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=1.5e-43 Score=393.13 Aligned_cols=356 Identities=19% Similarity=0.252 Sum_probs=300.8
Q ss_pred eEEEEEEecCC-------------cchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhc---
Q 047109 2 VHVGVILDMRS-------------WAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQN--- 64 (808)
Q Consensus 2 i~IG~i~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~--- 64 (808)
|.||++||... ..|.+...|+++|+++||++++++| ++|++.+.|+|++|..|++.+.+++.+
T Consensus 3 ~~igglfp~h~~~~~~~~c~~~~~~~G~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~a~~~a~~li~~~~~ 82 (452)
T cd06362 3 IILGGLFPVHSKGTGGEPCGEIKEQRGIQRLEAMLFALDEINNDPTLLPGITLGAHILDTCSRDTYALEQSLEFVRASLT 82 (452)
T ss_pred eEEEEEEecccCCCCCCCCcCccccchHHHHHHHHHHHHHhhCCCCCCCCCeeCcEEEEeCCCchHHHHHHHHHHhhhhh
Confidence 78999999875 2377779999999999999999997 999999999999999999999999864
Q ss_pred -------------------CCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhh
Q 047109 65 -------------------VDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQ 120 (808)
Q Consensus 65 -------------------~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~ 120 (808)
++|.|||||. +|+++.+++++++.++||+|+++++++. +++ ++||+.|++.
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~v~aviG~~-~S~~~~av~~~~~~~~ip~Is~~sts~~-ls~~~~~~~~fR~~p~d~--- 157 (452)
T cd06362 83 KIDDCVYCDGGSPPPNNSPKPVAGVIGAS-YSSVSIQVANLLRLFKIPQISYASTSPE-LSDKTRYDYFSRTVPPDS--- 157 (452)
T ss_pred cCCccccccCCCcccccCCCCeEEEECCC-CCchHHHHHHHhccccCcccccccCchh-hccccccCCEEEecCChH---
Confidence 5899999999 9999999999999999999999999998 885 8999999999
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC-CCCeEEE
Q 047109 121 SQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS-SETKVFV 199 (808)
Q Consensus 121 ~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~vii 199 (808)
.++.++++++++++|++|++|+++++||. ...+.+.+.+++.|++|+..+.++. ..+..++.+++++|++ +++|+||
T Consensus 158 ~~~~a~~~~l~~~~w~~vaii~~~~~~G~-~~~~~~~~~~~~~gi~i~~~~~~~~-~~~~~d~~~~l~~l~~~~~a~vii 235 (452)
T cd06362 158 FQAQAMVDIVKAFNWTYVSTVASEGNYGE-KGIEAFEKLAAERGICIAGSEKIPS-SATEEEFDNIIRKLLSKPNARVVV 235 (452)
T ss_pred HHHHHHHHHHHHCCCcEEEEEEeCCHHHH-HHHHHHHHHHHHCCeeEEEEEEcCC-CCCHHHHHHHHHHHhhcCCCeEEE
Confidence 99999999999999999999999999999 9999999999999999999888876 4467899999999987 5799999
Q ss_pred EEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHH------------
Q 047109 200 VHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNF------------ 267 (808)
Q Consensus 200 l~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f------------ 267 (808)
+.+..+++..++++|+++|++ .+++||.++.|....... ...... .+|++++.+.....+.+++|
T Consensus 236 l~~~~~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~~-~~~~~~-~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~ 312 (452)
T cd06362 236 LFCREDDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSVV-EGLEDV-AEGAITIELQSAEVPGFDEYFLSLTPENNSRN 312 (452)
T ss_pred EEcChHHHHHHHHHHHHcCCc-CceEEEEeccccccchhh-cccccc-cceEEEEEecccccccHHHHhhhCCcCcCCCC
Confidence 999999999999999999996 568999999887532221 122334 77888887776665555553
Q ss_pred ---HHHHHHHhhccCCCCCC----------------CCcchhhhhHhhHHHHHHHHHHHHhhh-------------cCCh
Q 047109 268 ---TLKWKREMYLNNQNAEV----------------SELDVHGILAYDTVWALAKASEKLKTE-------------ISNE 315 (808)
Q Consensus 268 ---~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~ydav~~~a~Al~~~~~~-------------~~~~ 315 (808)
.+.|+..+.|..+.... .....+++++||||+++|+||+++..+ ..++
T Consensus 313 ~~~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~~~~c~~~~~~~~ 392 (452)
T cd06362 313 PWFREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGTTGLCDAMKPIDG 392 (452)
T ss_pred hHHHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCccCCCH
Confidence 34566667664321110 012447899999999999999999632 1378
Q ss_pred HHHHHHHHcCcccccee-EEEe-eCCcccCCccEEEEEeec----CcEEEEEEEeCCCCC
Q 047109 316 TCYYKQILNSRFTGLSG-DFQL-INGKLTSSRAFEIVNVIG----KTVKIVGFWTPTTRI 369 (808)
Q Consensus 316 ~~l~~~l~~~~~~g~tG-~v~f-~~g~~~~~~~~~i~~~~~----~~~~~vg~~~~~~~~ 369 (808)
..|.++|++++|.|++| +|.| ++|++.. .|+|++++. .++++||.|++..++
T Consensus 393 ~~l~~~l~~v~f~g~tg~~v~Fd~~G~~~~--~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 393 RKLLFYLRNVSFSGLAGGPVRFDANGDGPG--RYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred HHHHHHHHhCCcCCCCCceEEECCCCCCCC--ceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 89999999999999998 6999 9999988 999999983 248999999877654
No 9
>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=2.4e-43 Score=391.61 Aligned_cols=353 Identities=16% Similarity=0.244 Sum_probs=298.4
Q ss_pred eEEEEEEecCC-----------------cchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhh
Q 047109 2 VHVGVILDMRS-----------------WAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQ 63 (808)
Q Consensus 2 i~IG~i~~~~~-----------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~ 63 (808)
|.||++||... ..|.+...|+.+|+++||+++++|| ++|++.+.|+|+++..|++.+.+++.
T Consensus 10 ~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~~i~ 89 (472)
T cd06374 10 IIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQSIEFIR 89 (472)
T ss_pred EEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHHHHHHHh
Confidence 68999999863 1277788999999999999999999 99999999999999999999999986
Q ss_pred c-------------------------CCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeec
Q 047109 64 N-------------------------VDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQID 113 (808)
Q Consensus 64 ~-------------------------~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~ 113 (808)
+ ++|.|||||. +|.++.+++++++.++||+|+++++++. +++ ++||+.
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~-~S~~~~ava~~~~~~~iP~Is~~ats~~-ls~~~~~p~~fRt~ 167 (472)
T cd06374 90 DSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPG-SSSVAIQVQNLLQLFNIPQIAYSATSID-LSDKTLFKYFLRVV 167 (472)
T ss_pred hcccccccccccccccCCCcccccCCCCeEEEECCC-cchHHHHHHHHhhhhcccccccccCchh-hcccccCCceEEcC
Confidence 2 4899999999 9999999999999999999999999998 886 799999
Q ss_pred cCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC
Q 047109 114 QDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS 193 (808)
Q Consensus 114 p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~ 193 (808)
|++. .++.++++++++|+|++|++||++++||. ...+.+.+.+++.|+||+..+.++. ..+..++..++.+|++.
T Consensus 168 p~d~---~~~~al~~l~~~~~W~~Vaii~~~~~yg~-~~~~~~~~~~~~~gi~i~~~~~i~~-~~~~~d~~~~l~~lk~~ 242 (472)
T cd06374 168 PSDT---LQARAMLDIVKRYNWTYVSAVHTEGNYGE-SGMEAFKELAAHEGLCIAHSDKIYS-NAGEQSFDRLLRKLRSR 242 (472)
T ss_pred CChH---HHHHHHHHHHHHCCCcEEEEEEecchHHH-HHHHHHHHHHHHCCeeEEEEEEecC-CCchHHHHHHHHHHHhc
Confidence 9999 99999999999999999999999999999 9999999999999999999888765 44678999999999965
Q ss_pred --CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHH----
Q 047109 194 --ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNF---- 267 (808)
Q Consensus 194 --~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f---- 267 (808)
+++||++++....++.++++|+++|+. .+++||+++.|........ ..... .+|.+++.+..++.+.+++|
T Consensus 243 ~~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~~~-~~~~~-~~G~l~~~~~~~~~~~F~~~l~~l 319 (472)
T cd06374 243 LPKARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDVVE-GYEEE-AEGGITIKLQSPEVPSFDDYYLKL 319 (472)
T ss_pred CCCcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHhhh-cchhh-hheeEEEEecCCCCccHHHHHHhC
Confidence 566777778888899999999999994 5589999999875322221 23334 78999998888887777775
Q ss_pred -----------HHHHHHHhhccCCCCCCC------------------CcchhhhhHhhHHHHHHHHHHHHhhh-------
Q 047109 268 -----------TLKWKREMYLNNQNAEVS------------------ELDVHGILAYDTVWALAKASEKLKTE------- 311 (808)
Q Consensus 268 -----------~~~~~~~~~~~~~~~~~~------------------~~~~~~~~~ydav~~~a~Al~~~~~~------- 311 (808)
.+.|+..++|..+..... ....+++++||||+++|+|||++..+
T Consensus 320 ~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~~~~ 399 (472)
T cd06374 320 RPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPGHVG 399 (472)
T ss_pred CcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCCCCC
Confidence 457888888764211000 01245679999999999999998632
Q ss_pred ----c--CChHHHHHHHHcCcccccee-EEEe-eCCcccCCccEEEEEeec-----CcEEEEEEEeCC
Q 047109 312 ----I--SNETCYYKQILNSRFTGLSG-DFQL-INGKLTSSRAFEIVNVIG-----KTVKIVGFWTPT 366 (808)
Q Consensus 312 ----~--~~~~~l~~~l~~~~~~g~tG-~v~f-~~g~~~~~~~~~i~~~~~-----~~~~~vg~~~~~ 366 (808)
. .++..|.++|++++|.|++| +|.| ++|++.. .|+|++++. .++++||.|++.
T Consensus 400 ~c~~~~~~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~~--~ydI~n~~~~~~~~~~~~~VG~w~~~ 465 (472)
T cd06374 400 LCDAMKPIDGRKLLEYLLKTSFSGVSGEEVYFDENGDSPG--RYDIMNLQYTEDLRFDYINVGSWHEG 465 (472)
T ss_pred CCcCCCCCCHHHHHHHHHhCcccCCCCCeEEEcCCCCCCC--ceEEEEEEECCCCCEEEEEEEEEeCC
Confidence 0 25789999999999999999 6999 9999987 999999994 248999999853
No 10
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=4.9e-43 Score=385.28 Aligned_cols=350 Identities=19% Similarity=0.263 Sum_probs=300.3
Q ss_pred eEEEEEEecCC-------------cchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhh----
Q 047109 2 VHVGVILDMRS-------------WAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQ---- 63 (808)
Q Consensus 2 i~IG~i~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~---- 63 (808)
|.||++||... ..|.+...|+.+|+++||+++++|| ++|++.++|+|+++..|++.+.+++.
T Consensus 3 ~~igglFp~h~~~~~~~~C~~~~~~~g~~~~~Am~~AIe~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~~i~~~~~ 82 (458)
T cd06375 3 LVLGGLFPVHEKGEGTEECGRINEDRGIQRLEAMLFAIDRINNDPRILPGIKLGVHILDTCSRDTYALEQSLEFVRASLT 82 (458)
T ss_pred EEEEEEEEeeeCCCCCCCCcCccccchHHHHHHHHHHHHHHhCCCCCCCCceeccEEEecCCCcHHHHHHHHHHHhhhhh
Confidence 78999999862 2388899999999999999999999 99999999999999999999988883
Q ss_pred --------------------cCCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCch
Q 047109 64 --------------------NVDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEA 118 (808)
Q Consensus 64 --------------------~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~ 118 (808)
.++|.|||||. +|..+.+++++++.++||+|+++++++. |++ +|||+.|+|.
T Consensus 83 ~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~-~S~~s~ava~~~~~~~IP~Is~~sts~~-Ls~~~~~~~ffRt~psd~- 159 (458)
T cd06375 83 KVDTSEYECPDGSYAVQENSPLAIAGVIGGS-YSSVSIQVANLLRLFQIPQISYASTSAK-LSDKSRYDYFARTVPPDF- 159 (458)
T ss_pred cccccccccccCCccccccCCCCeEEEEcCC-CchHHHHHHHHhhhccccceeeccCChh-hcccccCCCeEEecCCcH-
Confidence 24799999999 9999999999999999999999999999 986 8999999999
Q ss_pred hhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC-CCCeE
Q 047109 119 SQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS-SETKV 197 (808)
Q Consensus 119 ~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~v 197 (808)
.+++++++++++|+|++|+++|++++||. ...+.|.+.+++.|+||+..+.++. ..+..++..+++++++ +++|+
T Consensus 160 --~qa~ai~~ll~~~~W~~Vaii~~~~~yG~-~~~~~~~~~~~~~gi~i~~~~~i~~-~~~~~d~~~~l~~l~~~~~a~v 235 (458)
T cd06375 160 --YQAKAMAEILRFFNWTYVSTVASEGDYGE-TGIEAFEQEARLRNICIATSEKVGR-SADRKSYDSVIRKLLQKPNARV 235 (458)
T ss_pred --HHHHHHHHHHHHCCCeEEEEEEeCchHHH-HHHHHHHHHHHHCCeeEEEEEEecC-CCCHHHHHHHHHHHhccCCCEE
Confidence 99999999999999999999999999999 9999999999999999999888876 5566899999999875 79999
Q ss_pred EEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHH---------
Q 047109 198 FVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFT--------- 268 (808)
Q Consensus 198 iil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~--------- 268 (808)
||+.+..+++..++++|+++|++ +.||++++|........ ..... ..|++++.+...+.+.+++|.
T Consensus 236 Vvl~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~~-~~~~~-~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~ 310 (458)
T cd06375 236 VVLFTRSEDARELLAAAKRLNAS---FTWVASDGWGAQESIVK-GSEDV-AEGAITIELASHPIPDFDRYFQSLTPETNT 310 (458)
T ss_pred EEEecChHHHHHHHHHHHHcCCc---EEEEEeccccccchhhh-ccchh-hceEEEEEeccccchhHHHHHHhCCcCcCC
Confidence 99999999999999999999983 89999999874322111 12234 789999999988888888764
Q ss_pred ------HHHHHHhhccCCCCCC--------C--------CcchhhhhHhhHHHHHHHHHHHHhhh-----------c--C
Q 047109 269 ------LKWKREMYLNNQNAEV--------S--------ELDVHGILAYDTVWALAKASEKLKTE-----------I--S 313 (808)
Q Consensus 269 ------~~~~~~~~~~~~~~~~--------~--------~~~~~~~~~ydav~~~a~Al~~~~~~-----------~--~ 313 (808)
+.|++.|+|..+.... . .....+.++||||+++|+|||++..+ . -
T Consensus 311 ~n~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~~~~c~~~~~~ 390 (458)
T cd06375 311 RNPWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNTTKLCDAMKPL 390 (458)
T ss_pred CCcHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCC
Confidence 4688888887532110 0 11346888999999999999999842 0 1
Q ss_pred ChHHHH-HHHHcCccc-----cceeE-EEe-eCCcccCCccEEEEEee--cCc----EEEEEEEeC
Q 047109 314 NETCYY-KQILNSRFT-----GLSGD-FQL-INGKLTSSRAFEIVNVI--GKT----VKIVGFWTP 365 (808)
Q Consensus 314 ~~~~l~-~~l~~~~~~-----g~tG~-v~f-~~g~~~~~~~~~i~~~~--~~~----~~~vg~~~~ 365 (808)
+++++. .+|++++|. |.+|. |.| ++|+... .|+|+++| .++ +++||.|+.
T Consensus 391 ~~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~~~--~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 391 DGKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDGLG--RYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CHHHHHHHHHHhccccccccCCCCCCeeEECCCCCCCc--ceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 678888 599999999 99886 999 9999887 89999999 332 789999964
No 11
>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=1.2e-42 Score=385.58 Aligned_cols=353 Identities=15% Similarity=0.228 Sum_probs=292.7
Q ss_pred CeEEEEEEecC--Cc-----------chhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHH----HHHHhh
Q 047109 1 EVHVGVILDMR--SW-----------AGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALT----TVLNLM 62 (808)
Q Consensus 1 ~i~IG~i~~~~--~~-----------~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~----~a~~li 62 (808)
.|+||++||.+ ++ .|.+...|+++|+++||++++++| ++|++++.|+|+++..+.+ .+.+++
T Consensus 2 di~igglfp~h~~~~~~~~c~~~~~~~g~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~~~~~a~~~~~~l~ 81 (463)
T cd06376 2 DITLGGLFPVHARGPAGVPCGDIKKENGIHRLEAMLYALDQINSDPDLLPNVTLGARILDTCSRDTYALEQSLTFVQALI 81 (463)
T ss_pred CeEEEEEEeeeeCCCCCCCccccccchhHHHHHHHHHHHHHhhCCCCCCCCceEccEEEeccCCcHHHHHHHHHHHhhhh
Confidence 47999999988 43 366678999999999999999998 9999999999988765444 444444
Q ss_pred hc------------------CCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchh
Q 047109 63 QN------------------VDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEAS 119 (808)
Q Consensus 63 ~~------------------~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~ 119 (808)
++ ++|.|||||. +|..+.+++++++.++||+|+++++++. +++ +|||+.|++.
T Consensus 82 ~~~~~~~~C~~~~~~~~~~~~~V~aviG~~-~S~~t~ava~i~~~~~iP~Is~~ats~~-ls~~~~~~~ffR~~p~d~-- 157 (463)
T cd06376 82 QKDTSDVRCTNGEPPVFVKPEKVVGVIGAS-ASSVSIMVANILRLFQIPQISYASTAPE-LSDDRRYDFFSRVVPPDS-- 157 (463)
T ss_pred hcccccCcCCCCCccccCCCCCeEEEECCC-CchHHHHHHHHhccccCcccccccCChh-hcccccCCceEEccCCHH--
Confidence 32 4899999999 9999999999999999999999999999 875 6999999999
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcC-CcEEEEEEecCCCCCChHHHHHHHHHhcC-CCCeE
Q 047109 120 QSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDN-DIDIARRITISMSSNTDDQVIEKLSMLKS-SETKV 197 (808)
Q Consensus 120 ~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~v 197 (808)
.+++++++++++|+|++|++|+++++||. ...+.|.+.+++. +++|...+.++. ..+..|+..++++|++ +++|+
T Consensus 158 -~~~~ai~~~i~~~~w~~Vaii~~~~~yg~-~~~~~~~~~~~~~g~~~v~~~~~i~~-~~~~~d~~~~l~~ik~~~~~~v 234 (463)
T cd06376 158 -FQAQAMVDIVKALGWNYVSTLASEGNYGE-SGVEAFTQISREAGGVCIAQSIKIPR-EPRPGEFDKIIKRLLETPNARA 234 (463)
T ss_pred -HHHHHHHHHHHHcCCeEEEEEEeCChHHH-HHHHHHHHHHHHcCCceEEEEEecCC-CCCHHHHHHHHHHHhccCCCeE
Confidence 99999999999999999999999999999 9999999999987 578877666665 5567899999999986 79999
Q ss_pred EEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHH---------
Q 047109 198 FVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFT--------- 268 (808)
Q Consensus 198 iil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~--------- 268 (808)
||+.+..+++..++++|+++|+++ .++||+++.|........ ..... ..|.+++.+.....+.+++|.
T Consensus 235 Ivl~~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~-~~~~~-~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~ 311 (463)
T cd06376 235 VIIFANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL-QQEDV-AEGAITILPKRASIEGFDAYFTSRTLENNR 311 (463)
T ss_pred EEEecChHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc-cCcce-eeeEEEEEeccccchhHHHHHHhCCcccCC
Confidence 999999999999999999999853 599999999875332211 12233 789999988877777777754
Q ss_pred ------HHHHHHhhccCCC--CC--------C--CC--------cchhhhhHhhHHHHHHHHHHHHhh---------h--
Q 047109 269 ------LKWKREMYLNNQN--AE--------V--SE--------LDVHGILAYDTVWALAKASEKLKT---------E-- 311 (808)
Q Consensus 269 ------~~~~~~~~~~~~~--~~--------~--~~--------~~~~~~~~ydav~~~a~Al~~~~~---------~-- 311 (808)
+.|++.|+|..+. .. . .. ....++++||||+++|+|||++.. |
T Consensus 312 ~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~~~~~C~~ 391 (463)
T cd06376 312 RNVWFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPGYTGVCPE 391 (463)
T ss_pred CCcHHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCcc
Confidence 4788888886431 10 0 00 123688999999999999999862 2
Q ss_pred --cCChHHHHHHHHcCcccccee-EEEe-eCCcccCCccEEEEEeec-----CcEEEEEEEeC
Q 047109 312 --ISNETCYYKQILNSRFTGLSG-DFQL-INGKLTSSRAFEIVNVIG-----KTVKIVGFWTP 365 (808)
Q Consensus 312 --~~~~~~l~~~l~~~~~~g~tG-~v~f-~~g~~~~~~~~~i~~~~~-----~~~~~vg~~~~ 365 (808)
..++..|.++|++++|.|.+| +|.| ++|++.. .|+|.+++. .++++||.|++
T Consensus 392 ~~~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~~~--~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 392 MEPADGKKLLKYIRAVNFNGSAGTPVMFNENGDAPG--RYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred CCCCCHHHHHHHHHhCCccCCCCCeEEeCCCCCCCC--ceEEEEEEecCCCceeEEEEEEECC
Confidence 126889999999999999999 5999 9999998 899999993 24899999974
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=8.8e-43 Score=377.47 Aligned_cols=352 Identities=18% Similarity=0.278 Sum_probs=295.0
Q ss_pred CeEEEEEEe-cCCcc---hhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCC-CCHHHHHHHHHHhhhcCCeEEEEecC
Q 047109 1 EVHVGVILD-MRSWA---GKISNSCISMAISDFYALNTHYK-TRLVLHSRDSK-GDPLHALTTVLNLMQNVDLQAIICTE 74 (808)
Q Consensus 1 ~i~IG~i~~-~~~~~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~-~~~~~a~~~a~~li~~~~v~aiiG~~ 74 (808)
+|+||+++| ++|.. |...+.|+++|+++||++++++| .+|.+.+.+.+ +++..+...+|+++.+ +|.|||||.
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~~-~V~AiiGp~ 80 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLAL-GVVAIFGPS 80 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhccccc-CcEEEECCC
Confidence 489999999 77754 77899999999999999999999 99999998855 4776888999998864 999999999
Q ss_pred CChhHHHHHHHhcCCCCccEEeccCCCCccccc---ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccC
Q 047109 75 MTPTGAHILAEIGSKAKIPVISLYATLPSSLTS---YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDN 151 (808)
Q Consensus 75 ~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~---~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~ 151 (808)
+|..+.+++++++.++||+|++++++|. +++ +++|+.|++. .++.++++++++|+|++|++||+++. |. .
T Consensus 81 -~S~~~~av~~i~~~~~iP~Is~~~t~~~-lt~~~~~~~~~~~~~~---~~~~a~~~~~~~~~wk~vaily~~~~-g~-~ 153 (384)
T cd06393 81 -QGSCTNAVQSICNALEVPHIQLRWKHHP-LDNKDTFYVNLYPDYA---SLSHAILDLVQYLKWRSATVVYDDST-GL-I 153 (384)
T ss_pred -ChHHHHHHHHHHhccCCCeEeccCCCcc-cCccceeEEEeccCHH---HHHHHHHHHHHHcCCcEEEEEEeCch-hH-H
Confidence 9999999999999999999999999988 876 6678888888 88999999999999999999997664 65 4
Q ss_pred cHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 047109 152 IIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTAS 231 (808)
Q Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 231 (808)
.++.+.+.+++.|++|+. +.++. ++.|+.++|++||+.++++||+.+..+++..+++||+++||..+.|+|++++.
T Consensus 154 ~l~~~~~~~~~~g~~v~~-~~~~~---~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~ 229 (384)
T cd06393 154 RLQELIMAPSRYNIRLKI-RQLPT---DSDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTL 229 (384)
T ss_pred HHHHHHHhhhccCceEEE-EECCC---CchHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccC
Confidence 567888888899999886 44554 56799999999999999999999999999999999999999999999998886
Q ss_pred cccccccCCcccc-ccccceeEEEeeccCCcHHHHHHHHHHHHH-hhccC-CCCCC--CCcchhhhhHhhHHHHHHHHHH
Q 047109 232 TMNFLHSMDSSVV-ESSMQGVLGFKRYVPASKQLRNFTLKWKRE-MYLNN-QNAEV--SELDVHGILAYDTVWALAKASE 306 (808)
Q Consensus 232 ~~~~~~~~~~~~~-~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~-~~~~~--~~~~~~~~~~ydav~~~a~Al~ 306 (808)
.....+. +.. .. ..+++++...+++.+..++|.++|++. ++..+ |.... ..+...++++||||+++++|++
T Consensus 230 ~~~~~~~---~~~~~~-~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~ 305 (384)
T cd06393 230 DLYALDL---EPYRYS-GVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQ 305 (384)
T ss_pred ccccccc---hhhhcC-cceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHh
Confidence 5433222 111 11 345688888888899999999999854 54421 11111 1235679999999999999999
Q ss_pred HHhhh------------cCChHHHHHHHHcCccccceeEEEe-e-CCcccCCccEEEEEeecCcEEEEEEEeCCCCC
Q 047109 307 KLKTE------------ISNETCYYKQILNSRFTGLSGDFQL-I-NGKLTSSRAFEIVNVIGKTVKIVGFWTPTTRI 369 (808)
Q Consensus 307 ~~~~~------------~~~~~~l~~~l~~~~~~g~tG~v~f-~-~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~~ 369 (808)
++.+. +..|..|.++|++++|+|+||++.| + +|.|.++ .++|+++.++|+++||.|++..++
T Consensus 306 ~~~~~~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~-~~~i~~~~~~g~~~vg~W~~~~g~ 381 (384)
T cd06393 306 RAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDF-DLDIISLKEDGLEKVGVWNPNTGL 381 (384)
T ss_pred hhhhcCCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeee-EEEEEEecCCcceeeEEEcCCCCc
Confidence 77532 2356799999999999999999999 5 6789988 999999999999999999998875
No 13
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=5e-42 Score=364.14 Aligned_cols=340 Identities=16% Similarity=0.282 Sum_probs=289.5
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
+||+||+.+.. +.+.|+++|++++|.+..++| .+++ . +..|+.++.+++|+++++ ||.|||||. ++.++..
T Consensus 1 ~iG~if~~~~~---~~~~af~~av~~~N~~~~l~~-~~~~--~-~~~dsf~~~~~~C~~~~~-gV~AI~Gp~-s~~~a~~ 71 (364)
T cd06390 1 QIGGLFPNQQS---QEHAAFRFALSQLTEPPKLLP-QIDI--V-NISDSFEMTYTFCSQFSK-GVYAIFGFY-DRKTVNM 71 (364)
T ss_pred CCceeeCCCCh---HHHHHHHHHHHHhccCccccc-ceEE--e-ccccHHHHHHHHHHHhhc-CceEEEccC-ChhHHHH
Confidence 58999998653 578999999999999875555 1111 1 347999999999999998 999999999 9999999
Q ss_pred HHHhcCCCCccEEeccCCCCccccc--ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhh
Q 047109 83 LAEIGSKAKIPVISLYATLPSSLTS--YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSL 160 (808)
Q Consensus 83 ~~~~~~~~~iP~is~~~~~~~~ls~--~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~ 160 (808)
++++|+..+||+|+++. |. .+. +++++.|+ . ++|+++++++|+|++|++||+++ ||. ..++.+.+.+
T Consensus 72 v~sic~~~~vP~i~~~~--~~-~~~~~~~i~~~P~-~-----~~Ai~diI~~~~W~~v~iIYd~d-~g~-~~lq~l~~~~ 140 (364)
T cd06390 72 LTSFCGALHVCFITPSF--PV-DTSNQFVLQLRPE-L-----QDALISVIEHYKWQKFVYIYDAD-RGL-SVLQKVLDTA 140 (364)
T ss_pred HHHhhcCCCCCceecCC--CC-CCCCceEEEeChh-H-----HHHHHHHHHHcCCcEEEEEEeCC-ccH-HHHHHHHHhh
Confidence 99999999999999865 33 333 88899987 3 68999999999999999999655 999 9999999999
Q ss_pred hcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCC
Q 047109 161 HDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMD 240 (808)
Q Consensus 161 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~ 240 (808)
++.|++|......+. +..++...|+++++.++++||+.|..+.+..+++++.+.++...+|+||+++......+.
T Consensus 141 ~~~~~~I~~~~~~~~---~~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~~-- 215 (364)
T cd06390 141 AEKNWQVTAVNILTT---TEEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDIDL-- 215 (364)
T ss_pred hccCceeeEEEeecC---ChHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccccH--
Confidence 999999998766554 456999999999999999999999999999999999988888999999999954322221
Q ss_pred ccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhh----------
Q 047109 241 SSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKT---------- 310 (808)
Q Consensus 241 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~---------- 310 (808)
.+.... .+|++|++.+.+..+..++|.++|++......|......+..+++++||||+++|+|++++..
T Consensus 216 ~~~~~~-~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~~~ 294 (364)
T cd06390 216 TKFRES-GANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRRGN 294 (364)
T ss_pred HHHhcC-CcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCCC
Confidence 223334 889999999999999999999999887776665544445778899999999999999997632
Q ss_pred ---h-------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCCCCC
Q 047109 311 ---E-------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPTTRI 369 (808)
Q Consensus 311 ---~-------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~~ 369 (808)
| +..|..|.++|++++|+|+||++.| ++|+|..+ .++|+++.+.|+++||.|++..++
T Consensus 295 ~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~-~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 295 AGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNY-TLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred CCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccc-eEEEEEecCCcceEEEEECCCCCc
Confidence 1 2358899999999999999999999 99999998 999999999999999999988765
No 14
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=100.00 E-value=8.9e-42 Score=366.87 Aligned_cols=333 Identities=40% Similarity=0.697 Sum_probs=291.2
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
|||+++|++| ..|.....|+++|+++||+++++++ ++|++++.|++|+|..|++++++|+.+++|.+||||. ||..+
T Consensus 1 ~IG~~~p~sGa~~G~~~~~~~~lAv~~iN~~gg~~~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~~v~~viG~~-~s~~~ 79 (350)
T cd06366 1 RIGAIFDLSGSWIGKAALPAIEMALEDVNADNSILPGYRLVLHVRDSKCDPVQAASAALDLLENKPVVAIIGPQ-CSSVA 79 (350)
T ss_pred CEEEEEecCCCcccHHHHHHHHHHHHHHhcCCCcCCCcEEEEEecCCCCCHHHHHHHHHHHhccCCceEEECCC-cHHHH
Confidence 6999999997 3389999999999999999986555 9999999999999999999999999988999999999 99999
Q ss_pred HHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPY 155 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~ 155 (808)
.++++++..++||+|+++++++. +++ ++||+.|++. .++.++++++++++|+++++|+++++||. ...+.
T Consensus 80 ~a~~~~~~~~~ip~i~~~~~~~~-l~~~~~~~~~~r~~p~~~---~~~~a~~~~~~~~~~~~v~ii~~~~~~g~-~~~~~ 154 (350)
T cd06366 80 EFVAEVANEWNVPVLSFAATSPS-LSSRLQYPYFFRTTPSDS---SQNPAIAALLKKFGWRRVATIYEDDDYGS-GGLPD 154 (350)
T ss_pred HHHHHHhhcCCeeEEeccCCCcc-ccccccCCceEEcccchH---hHHHHHHHHHHHCCCcEEEEEEEcCcccc-hhHHH
Confidence 99999999999999999999888 843 8999999999 99999999999999999999999999999 99999
Q ss_pred HHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccc
Q 047109 156 LFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNF 235 (808)
Q Consensus 156 ~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~ 235 (808)
+.+.+++.|++|+..+.++. ..+..|+.+++++++++++|+|++++...++..++++++++|+..++++||.++.+...
T Consensus 155 ~~~~~~~~g~~v~~~~~~~~-~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~ 233 (350)
T cd06366 155 LVDALQEAGIEISYRAAFPP-SANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGYVWILTDWLSSN 233 (350)
T ss_pred HHHHHHHcCCEEEEEeccCC-CCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCEEEEECcchhhh
Confidence 99999999999999888776 32367999999999999999999999999999999999999998778999998865532
Q ss_pred c----ccCCccccccccceeEEEeeccCC-cHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhh
Q 047109 236 L----HSMDSSVVESSMQGVLGFKRYVPA-SKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKT 310 (808)
Q Consensus 236 ~----~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~ 310 (808)
. .......... .+|++++..+.+. .+.+++|.++|+++++...+. ...++.+++++||++++
T Consensus 234 ~~~~~~~~~~~~~~~-~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~p~~~a~~~YDav~~---------- 300 (350)
T cd06366 234 WWSSSDCTDEEMLEA-MQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE--LTEPSIYALYAYDAVWA---------- 300 (350)
T ss_pred hccCCCCChHHHHHh-hceEEEEeecccccCccHHHHHHHHHHHhcccCcC--cCCCCcccchhhhheee----------
Confidence 2 1111222344 7888998887776 788999999999998754211 11356779999999996
Q ss_pred hcCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCCCCC
Q 047109 311 EISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPTTRI 369 (808)
Q Consensus 311 ~~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~~ 369 (808)
+++|+|++|++.| ++|++... .++++++.++++++||.|++..++
T Consensus 301 -------------~~~~~G~~G~v~fd~~~~~~~~-~~~~~~~~~~~~~~vg~~~~~~~~ 346 (350)
T cd06366 301 -------------STNFNGLSGPVQFDGGRRLASP-AFEIINIIGKGYRKIGFWSSESGL 346 (350)
T ss_pred -------------eceEEeeeeeEEEcCCCccCCc-ceEEEEecCCceEEEEEEeCCCCc
Confidence 5689999999999 99998766 999999998899999999987664
No 15
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=2.4e-41 Score=367.53 Aligned_cols=347 Identities=18% Similarity=0.324 Sum_probs=288.4
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCC-CCHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSK-GDPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~-~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
+||+||+.++ ...+.|+++|+++||++...++ .+|.+.+.++. +|+.++.+++|+++++ +|.|||||. +|.++
T Consensus 1 ~iG~if~~~~---~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~-~V~aiiGp~-~s~~~ 75 (382)
T cd06380 1 PIGGLFDVDE---DQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSR-GVFAIFGSY-DKSSV 75 (382)
T ss_pred CceeEECCCC---hHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhc-CcEEEEecC-cHHHH
Confidence 5899999985 4788999999999999876666 88887787765 8999999999999976 999999999 99999
Q ss_pred HHHHHhcCCCCccEEeccCCCCccccc---ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTS---YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLF 157 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~---~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~ 157 (808)
.+++++++.++||+|+++++.+. +++ |+||+.|+.. .++++++++++|++|++||++++ |. ...+.+.
T Consensus 76 ~~~~~~~~~~~iP~i~~~~~~~~-l~~~~~~~fr~~p~~~------~a~~~~~~~~~wk~vaii~~~~~-~~-~~~~~~~ 146 (382)
T cd06380 76 NTLTSYSDALHVPFITPSFPTND-LDDGNQFVLQMRPSLI------QALVDLIEHYGWRKVVYLYDSDR-GL-LRLQQLL 146 (382)
T ss_pred HHHHHHHhcCCCCeEecCCCccc-CCCCCcEEEEeccchh------HHHHHHHHhcCCeEEEEEECCCc-ch-HHHHHHH
Confidence 99999999999999999999888 765 8999988643 47889999999999999997665 55 6677888
Q ss_pred HhhhcCC--cEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccc
Q 047109 158 DSLHDND--IDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNF 235 (808)
Q Consensus 158 ~~~~~~g--~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~ 235 (808)
+.+++.| +.+... .+.. ..+..|+..+|++||+.++|+||+.+..+++..+++||+++||..++|+||+++.....
T Consensus 147 ~~~~~~g~~i~v~~~-~~~~-~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~ 224 (382)
T cd06380 147 DYLREKDNKWQVTAR-RVDN-VTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDD 224 (382)
T ss_pred HHHhccCCceEEEEE-EecC-CCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCccc
Confidence 8898888 666543 2322 22457999999999999999999999999999999999999999999999998765433
Q ss_pred cccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhh----
Q 047109 236 LHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTE---- 311 (808)
Q Consensus 236 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~---- 311 (808)
.+.. ..... ..++.++....+..+..++|.++|++.++...|......+..+++++||||+++|+|++++++.
T Consensus 225 ~~~~--~~~~~-~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~ 301 (382)
T cd06380 225 IDLS--KFLFG-GVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSG 301 (382)
T ss_pred ccHH--HhccC-ceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 2221 11111 3456777766667888999999999988765543333346678999999999999999998641
Q ss_pred ----------------------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCCCC
Q 047109 312 ----------------------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPTTR 368 (808)
Q Consensus 312 ----------------------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~ 368 (808)
+.+|..|.++|++++|+|++|++.| ++|++... .++|++++++++++||.|++..+
T Consensus 302 ~~~~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~-~~~i~~~~~~~~~~vg~w~~~~g 380 (382)
T cd06380 302 RHRIDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNY-TLDVVELKTRGLRKVGYWNEDDG 380 (382)
T ss_pred ccccccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccc-cEEEEEecCCCceEEEEECCCcC
Confidence 1258899999999999999999999 99999986 89999999889999999998776
Q ss_pred C
Q 047109 369 I 369 (808)
Q Consensus 369 ~ 369 (808)
+
T Consensus 381 ~ 381 (382)
T cd06380 381 L 381 (382)
T ss_pred c
Confidence 4
No 16
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=2.2e-41 Score=358.42 Aligned_cols=346 Identities=17% Similarity=0.288 Sum_probs=278.0
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEE-ecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYK-TRLVLHS-RDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~-~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
+||+||+.+.. +.+.|+++|++++|.+..+++ .+|.+.+ .++.+|+..+..++|+++++ ||.|||||. ++.++
T Consensus 1 ~iG~if~~~~~---~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~-gV~AI~Gp~-s~~~a 75 (400)
T cd06392 1 HIGAIFEENAA---KDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQ-GILALVTST-GCASA 75 (400)
T ss_pred CeeeccCCCch---HHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhc-CeEEEECCC-chhHH
Confidence 48999998663 468999999999999998888 9999999 88999999999999999976 999999999 99999
Q ss_pred HHHHHhcCCCCccEEeccC-----------CCCccccc--ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCc
Q 047109 81 HILAEIGSKAKIPVISLYA-----------TLPSSLTS--YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTW 147 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~-----------~~~~~ls~--~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~ 147 (808)
..++++|+..+||+|+++. ++|. ++. +.+.+.|+ . .+.+|+++++.+|+|++|+++| |++|
T Consensus 76 ~~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~-~~~~~~~~~lrp~-~---~~~~Ai~dlV~~~~W~~v~~iY-D~d~ 149 (400)
T cd06392 76 NALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPS-PEGEEYTLAARPP-V---RLNDVMLKLVTELRWQKFIVFY-DSEY 149 (400)
T ss_pred HHHHHHhccCcCCcEeecccccccccccccCCCC-cCcCceeEEecCc-h---HHHHHHHHHHHhCCCcEEEEEE-ECcc
Confidence 9999999999999999866 3355 554 77788887 6 7788999999999999999999 7889
Q ss_pred cccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHH--------HHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 148 GSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIE--------KLSMLKSSETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 148 g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~--------~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
|. ..++.+.+.+.+.+..|.... +.. . ...++.+ .|.+++..+ ++||+.|+++.+..++++|.++||
T Consensus 150 gl-~~lq~L~~~~~~~~~~I~~~~-v~~-~-~~~~~~~~l~~~~~~~L~~~~~~~-r~iVv~~s~~~~~~il~qA~~lgM 224 (400)
T cd06392 150 DI-RGLQSFLDQASRLGLDVSLQK-VDR-N-ISRVFTNLFTTMKTEELNRYRDTL-RRAILLLSPRGAQTFINEAVETNL 224 (400)
T ss_pred cH-HHHHHHHHHHhhcCceEEEEE-ccc-C-cchhhhhHHHHHHHhhhhhccccc-eEEEEEcCcHHHHHHHHHHHHhCc
Confidence 99 889999999999999988654 221 0 1112333 344444334 889999999999999999999999
Q ss_pred CCCCeEEEEeCccccccccCCccccccccc-eeEEEeeccCCcHHHHHHH----HHHHHHhhccCCCCCCCCcchhhhhH
Q 047109 220 MSKGYSWIVTASTMNFLHSMDSSVVESSMQ-GVLGFKRYVPASKQLRNFT----LKWKREMYLNNQNAEVSELDVHGILA 294 (808)
Q Consensus 220 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~~~~~~~~~~~~~~ 294 (808)
...+|+||+++......+.. +.... .. ++++++.+.+......+|. .+|++......++. ...+..+++++
T Consensus 225 ~~~~y~wI~t~~~~~~~dl~--~~~~g-~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~-~~~l~~~aala 300 (400)
T cd06392 225 ASKDSHWVFVNEEISDTEIL--ELVHS-ALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGY-LQMLQVSNLYL 300 (400)
T ss_pred ccCCeEEEEecCCcccccHH--HHhcc-cccceeeEEEecCCcHHHHHHHHHHHHHHHhhhccccccc-ccccchhHHHH
Confidence 99999999999876543322 22222 33 5677988877766555553 56654433221111 11367889999
Q ss_pred hhHHHHHHHHHHHHh-----------hh-------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEee--
Q 047109 295 YDTVWALAKASEKLK-----------TE-------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVI-- 353 (808)
Q Consensus 295 ydav~~~a~Al~~~~-----------~~-------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~-- 353 (808)
||||+++|+|+++.. +| +..|..|.++|++++|+|+||+|.| ++|+|..+ .|+|++++
T Consensus 301 yDaV~~~A~Al~~ll~~~~~~~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~-~ldIi~l~~~ 379 (400)
T cd06392 301 YDSVLMLANAFHRKLEDRKWHSMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHV-QFEILGTSYS 379 (400)
T ss_pred HHHHHHHHHHHHHHhhccccCCCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCC-ceEEEecccc
Confidence 999999999999753 12 3368899999999999999999999 99999999 99999965
Q ss_pred ---cCcEEEEEEEeCCCCC
Q 047109 354 ---GKTVKIVGFWTPTTRI 369 (808)
Q Consensus 354 ---~~~~~~vg~~~~~~~~ 369 (808)
+.|+++||.|++..++
T Consensus 380 ~~~g~g~~~iG~W~~~~gl 398 (400)
T cd06392 380 ETFGKDVRRLATWDSEKGL 398 (400)
T ss_pred ccCCCCceEeEEecCCCCC
Confidence 5669999999998775
No 17
>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=3.7e-41 Score=364.45 Aligned_cols=348 Identities=16% Similarity=0.192 Sum_probs=284.0
Q ss_pred EEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 4 VGVILDMRSWA---GKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 4 IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|=+|+|.++.. +...+.|+++|+++||+++++++ ++|++++.|++|++..+..++..+..+ +|.|||||. ||.+
T Consensus 2 ~~~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~~-~v~aiiGp~-~s~~ 79 (387)
T cd06386 2 VLVLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCAR-KPDLILGPV-CEYA 79 (387)
T ss_pred cEEECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHhh-CCCEEECCC-CccH
Confidence 44688876644 67789999999999999999877 999999999999998788887777764 999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc------ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCc-
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS------YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNI- 152 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~------~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~- 152 (808)
+.+++.+++.++||+|+++++++. +++ ++||+.|++. .++.++++++++|+|++|++||++++|++ ..
T Consensus 80 ~~~va~ia~~~~iP~Is~~a~~~~-~s~~~~~yp~~~R~~p~~~---~~~~a~~~ll~~~~W~~vaiiy~~~~~~~-~~~ 154 (387)
T cd06386 80 AAPVARLASHWNIPMISAGALAAG-FSHKKSEYSHLTRVAPSYV---KMGETFSALFERFHWRSALLVYEDDKQER-NCY 154 (387)
T ss_pred HHHHHHHHHhCCCcEEccccCchh-hccCcccCCeeEEecCchH---HHHHHHHHHHHhCCCeEEEEEEEcCCCCc-cce
Confidence 999999999999999999998888 864 4999999999 99999999999999999999999999988 65
Q ss_pred --HHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 153 --IPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 153 --~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
.+.+.+.+++.|++|+..+..+. +..++..++++++++. |+||++++.+.++.++++|+++||+.++|+||..+
T Consensus 155 ~~~~~l~~~~~~~gi~v~~~~~~~~---~~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d 230 (387)
T cd06386 155 FTLEGVHHVFQEEGYHMSIYPFDET---KDLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIE 230 (387)
T ss_pred ehHHHHHHHHHhcCceEEEEecCCC---CcccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEe
Confidence 89999999999999987655433 4568999999999877 99999999999999999999999999999999998
Q ss_pred ccccc-c--------ccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHH
Q 047109 231 STMNF-L--------HSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWAL 301 (808)
Q Consensus 231 ~~~~~-~--------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~ 301 (808)
...+. . +..+.....+ ...+.++....+..+.+++|.+++++.+...........++.+++++||||+++
T Consensus 231 ~~~~~~~~~~~w~~~~~~~~~~~~a-~~~~~~v~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~ 309 (387)
T cd06386 231 LFNSSSYGDGSWKRGDKHDFEAKQA-YSSLNTVTLLRTVKPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLY 309 (387)
T ss_pred cccccccCCCCCccCCCcCHHHHHH-HHhheEEeccCCCChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHH
Confidence 65310 0 0011000111 222333333333457889999988866543211111123557899999999999
Q ss_pred HHHHHHHhhh---cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeec---CcEEEEEEEeC
Q 047109 302 AKASEKLKTE---ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIG---KTVKIVGFWTP 365 (808)
Q Consensus 302 a~Al~~~~~~---~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~---~~~~~vg~~~~ 365 (808)
|+|++++... ..+|..|.++|++++|+|++|++.| ++|+|.. .|.++.+++ .++++||.|..
T Consensus 310 A~Al~~~~~~g~~~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~~--~~~v~~~~~~~~~~~~~~~~~~~ 378 (387)
T cd06386 310 ALALHEVLKNGYSKKDGTKITQRMWNRTFEGIAGQVSIDANGDRYG--DFSVIAMTDVEAGTYEVVGNYFG 378 (387)
T ss_pred HHHHHHHhhCCCCCCCHHHHHHHHhCCceeeccccEEECCCCCccc--cEEEEEccCCCCccEEEEeEEcc
Confidence 9999999321 2388999999999999999999999 9999988 999999973 34999999985
No 18
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=100.00 E-value=3.6e-41 Score=367.46 Aligned_cols=340 Identities=19% Similarity=0.249 Sum_probs=281.5
Q ss_pred eEEEEEEecCCc-c---hhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCC
Q 047109 2 VHVGVILDMRSW-A---GKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMT 76 (808)
Q Consensus 2 i~IG~i~~~~~~-~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~ 76 (808)
||||++.|++|+ . |.....|+++|+++||+++++++ ++|++++.|++|+|.+|++++++|+++ +|.+||||. |
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li~~-~v~aiiGp~-~ 78 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWWKR-GVVAFIGPE-C 78 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHHhc-CceEEECCC-c
Confidence 799999999993 5 99999999999999999999976 999999999999999999999999976 999999999 8
Q ss_pred hhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccC
Q 047109 77 PTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDN 151 (808)
Q Consensus 77 s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~ 151 (808)
|.. +++.+++.++||+|+++++++. +++ +|+|+.|++. .++.++++++++++|+++++|+++++||. .
T Consensus 79 S~~--~~a~i~~~~~iP~Is~~a~~~~-l~~~~~~~~f~r~~~~~~---~~~~a~~~~~~~~~w~~vaii~~~~~~g~-~ 151 (404)
T cd06370 79 TCT--TEARLAAAWNLPMISYKCDEEP-VSDKSKYPTFARTVPPSI---QVVKSVIALLKHFNWNKFSVVYENDSKYS-S 151 (404)
T ss_pred hhH--HHHHHHhhcCCcEEecccCCcc-ccccccCCCeEEcCCCHH---HHHHHHHHHHHHCCCcEEEEEEecCcccH-H
Confidence 854 4557999999999999999888 875 6889999999 99999999999999999999999999999 9
Q ss_pred cHHHHHHhhhcCCcEEEEEEecCCCCC-----ChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCC-CCCeE
Q 047109 152 IIPYLFDSLHDNDIDIARRITISMSSN-----TDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMM-SKGYS 225 (808)
Q Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~-----~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~-~~~~~ 225 (808)
..+.+++.+++.|++|+..+.++. .. ...++..+++++++. ++++|+++...+++.++++|+++||. ..+|+
T Consensus 152 ~~~~~~~~~~~~g~~iv~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~~~~~y~ 229 (404)
T cd06370 152 VFETLKEEAELRNITISHVEYYAD-FYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLLESGDYM 229 (404)
T ss_pred HHHHHHHHHHHcCCEEEEEEEECC-CCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCCCCCcEE
Confidence 999999999999999999888865 21 146899999988764 67888888888899999999999998 57899
Q ss_pred EEEeCcccccc---------------c---cCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCC-----
Q 047109 226 WIVTASTMNFL---------------H---SMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNA----- 282 (808)
Q Consensus 226 ~i~~~~~~~~~---------------~---~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~----- 282 (808)
||+.+...... . ........+ +++++++..... .+.+++|.++|++.........
T Consensus 230 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~ 307 (404)
T cd06370 230 VLGVDIEYYDRDSQDYYSLHRGFQSREYNRSDDEKALEA-MKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGES 307 (404)
T ss_pred EEEEchhhccccchhhhhhhhhhccccccccccHHHHHH-hHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccc
Confidence 99876421100 0 000112233 677777665544 6778899999988754421110
Q ss_pred -CCCCcchhhhhHhhHHHHHHHHHHHHhhh---cCChHHHHHHHHcCcccccee-EEEe-eCCcccCCccEEEEEeecCc
Q 047109 283 -EVSELDVHGILAYDTVWALAKASEKLKTE---ISNETCYYKQILNSRFTGLSG-DFQL-INGKLTSSRAFEIVNVIGKT 356 (808)
Q Consensus 283 -~~~~~~~~~~~~ydav~~~a~Al~~~~~~---~~~~~~l~~~l~~~~~~g~tG-~v~f-~~g~~~~~~~~~i~~~~~~~ 356 (808)
....++.+++++||||+++|+|++++.++ ..++..|.++|++++|+|++| +|.| ++|++.. .|.+++++++.
T Consensus 308 ~~~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~~~--~y~v~~~~~~~ 385 (404)
T cd06370 308 ELVLEIDIEAAYLYDAVMLYAKALDETLLEGGDIYNGTAIVSHILNRTYRSITGFDMYIDENGDAEG--NYSVLALQPIP 385 (404)
T ss_pred ccccccceeeehhHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHhCcccccccCceEEEcCCCCccc--ceEEEEecccc
Confidence 11246678999999999999999998543 127889999999999999999 8999 9999987 89999998643
No 19
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.1e-40 Score=352.42 Aligned_cols=347 Identities=14% Similarity=0.243 Sum_probs=292.1
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc--eEEEEEEec-CCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYK--TRLVLHSRD-SKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~--~~l~~~~~d-~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
.||+||+.+.. +.+.|+++|++++|.+..+++ .+|...+.. ...|+.++.+++|+++++ ||.||+||. ++.+
T Consensus 1 ~iG~iF~~~~~---~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~~-GV~AIfGp~-~~~s 75 (372)
T cd06387 1 SIGGLFMRNTV---QEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFSR-GVYAIFGFY-DQMS 75 (372)
T ss_pred CcceeecCCcH---HHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhhc-ccEEEEecC-CHhH
Confidence 38999996553 568999999999999887776 477775544 358999999999999998 999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHh
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDS 159 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~ 159 (808)
+..+.++|+..+||+|++....+. -.++.+++.|+. .+|+++++++|+|++|+++| |+++|. ..++.+.+.
T Consensus 76 ~~~v~s~c~~~~iP~i~~~~~~~~-~~~~~l~l~P~l------~~Ai~diI~~~~Wr~~~~iY-d~d~gl-~~Lq~L~~~ 146 (372)
T cd06387 76 MNTLTSFCGALHTSFITPSFPTDA-DVQFVIQMRPAL------KGAILSLLAHYKWEKFVYLY-DTERGF-SILQAIMEA 146 (372)
T ss_pred HHHHHHhhccccCCeeeeCCCCCC-CCceEEEEChhH------HHHHHHHHHhcCCCEEEEEe-cCchhH-HHHHHHHHh
Confidence 999999999999999998543222 111778888883 58999999999999999999 667888 888999999
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccC
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSM 239 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 239 (808)
++..++.|......+. ....+++..++++++.+.++||+.|+++.+..++++|.++||++.+|+||+++......+..
T Consensus 147 ~~~~~~~V~~~~v~~~--~~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl~ 224 (372)
T cd06387 147 AVQNNWQVTARSVGNI--KDVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISLE 224 (372)
T ss_pred hccCCceEEEEEeccC--CchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccHH
Confidence 9999998876643333 24568999999999999999999999999999999999999999999999998655433321
Q ss_pred CccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhh---------
Q 047109 240 DSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKT--------- 310 (808)
Q Consensus 240 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~--------- 310 (808)
+.... ..+++|++...+..+..++|.++|++......|+.....+..+++++||||+++|+|++++..
T Consensus 225 --~~~~g-~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~~~ 301 (372)
T cd06387 225 --RVMHG-GANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSRRG 301 (372)
T ss_pred --HhccC-CcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCcccCC
Confidence 12222 556999999999999999999999887776666554445678899999999999999997632
Q ss_pred ----h-------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCCCCC
Q 047109 311 ----E-------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPTTRI 369 (808)
Q Consensus 311 ----~-------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~~ 369 (808)
| +..|..|.++|++++|+|+||++.| ++|+|..+ .++|+++.++|+++||.|++..++
T Consensus 302 ~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~-~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 302 SAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNY-TIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred CCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccc-eEEEEEecCCCceeEEEECCCCCc
Confidence 2 2468899999999999999999999 99999999 999999999999999999998775
No 20
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=1.7e-40 Score=362.85 Aligned_cols=333 Identities=18% Similarity=0.217 Sum_probs=283.5
Q ss_pred eEEEEEEecCC------------------c---chhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHH
Q 047109 2 VHVGVILDMRS------------------W---AGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVL 59 (808)
Q Consensus 2 i~IG~i~~~~~------------------~---~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~ 59 (808)
+.||++||.+- + .|.....|+++|+++||+++|++| ++|++++.|+|+ +..|++.+.
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~a~~lAv~~IN~~ggil~g~~l~~~~~D~~~-~~~a~~~~~ 85 (410)
T cd06363 7 YLLGGLFPLHYATSALPHRRPEPLDCSSYRFNLSGYRLFQAMRFAVEEINNSTSLLPGVTLGYEIFDHCS-DSANFPPTL 85 (410)
T ss_pred EEEEEEeECcccccccccCCCCCccCccCccCHHHHHHHHHHHHHHHHHhCCCccCCCCeeceEEEecCC-cHHHHHHHH
Confidence 57899998653 1 177888999999999999999996 999999999966 777999999
Q ss_pred Hhhhc---------------CCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchh
Q 047109 60 NLMQN---------------VDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEAS 119 (808)
Q Consensus 60 ~li~~---------------~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~ 119 (808)
+|+++ ++|.|||||. +|+.+.+++++++.++||+|+++++++. +++ ++||+.|++.
T Consensus 86 ~li~~~~~~~~~~c~~~~~~~~V~aIiGp~-~S~~~~av~~i~~~~~vp~is~~~~~~~-lt~~~~~~~~fr~~~~~~-- 161 (410)
T cd06363 86 SLLSVNGSRIEPQCNYTNYQPRVVAVIGPD-SSTLALTVAPLFSFFLIPQISYGASSEV-LSNKELYPSFLRTVPSDK-- 161 (410)
T ss_pred HHHhccCcccCcccccccCCCCeEEEECCC-ccHHHHHHHHHhcccccccccccccCcc-ccccccCCCeeEecCCcH--
Confidence 99864 6999999999 9999999999999999999999999888 875 7999999999
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCC-CChHHHHHHHHHhcCCCCeEE
Q 047109 120 QSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSS-NTDDQVIEKLSMLKSSETKVF 198 (808)
Q Consensus 120 ~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~-~~~~~~~~~l~~l~~~~~~vi 198 (808)
.++.++++++++++|+++++++++++||. ...+.+.+.+++.|++|+..+.++. . .+..|+.+++++++++++|+|
T Consensus 162 -~~~~al~~~l~~~~~k~vaii~~~~~~g~-~~~~~~~~~l~~~gi~i~~~~~~~~-~~~~~~d~~~~l~~i~~~~~dvI 238 (410)
T cd06363 162 -DQIEAMVQLLQEFGWNWVAFLGSDDEYGR-DGLQLFSELIANTGICIAYQGLIPL-DTDPETDYQQILKQINQTKVNVI 238 (410)
T ss_pred -HHHHHHHHHHHHCCCcEEEEEEeCChhHH-HHHHHHHHHHHHCCeEEEEEEEecC-CCchHHHHHHHHHHHhcCCCeEE
Confidence 99999999999999999999999999999 9999999999999999998887765 2 246799999999999999999
Q ss_pred EEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhcc
Q 047109 199 VVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLN 278 (808)
Q Consensus 199 il~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~ 278 (808)
++.+..+++..++++|+++|+ .+..||+++.|.............. ..+++++....+..+.+++|.+.
T Consensus 239 il~~~~~~~~~il~qa~~~g~--~~~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~f~~~-------- 307 (410)
T cd06363 239 VVFASRQPAEAFFNSVIQQNL--TGKVWIASEAWSLNDELPSLPGIRN-IGTVLGVAQQTVTIPGFSDFIYS-------- 307 (410)
T ss_pred EEEcChHHHHHHHHHHHhcCC--CCCEEEEeCcccccccccCCcccee-eccEEEEEeCCCCCccHHHHHHH--------
Confidence 999999999999999999998 4558999887653211111122223 44677777777777778887765
Q ss_pred CCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhh---------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEE
Q 047109 279 NQNAEVSELDVHGILAYDTVWALAKASEKLKTE---------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFE 348 (808)
Q Consensus 279 ~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~---------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~ 348 (808)
+++.+||||+++|+|++++..+ -.+++.|.++|++++|.|++|++.| ++|++.. .++
T Consensus 308 -----------~~~~~YDaV~~~a~Al~~a~~~~~~~~~~~~~~~~~~l~~~L~~~~~~g~~g~i~fd~~G~~~~--~~~ 374 (410)
T cd06363 308 -----------FAFSVYAAVYAVAHALHNVLQCGSGGCPKRVPVYPWQLLEELKKVNFTLLGQTVRFDENGDPNF--GYD 374 (410)
T ss_pred -----------HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHHhccEEecCCcEEEeCCCCCCcc--ceE
Confidence 2567999999999999998432 0157889999999999999999999 9999776 899
Q ss_pred EEEeecC----cEEEEEEEeCC
Q 047109 349 IVNVIGK----TVKIVGFWTPT 366 (808)
Q Consensus 349 i~~~~~~----~~~~vg~~~~~ 366 (808)
|++++.+ ++++||.|++.
T Consensus 375 i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 375 IVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred EEEEEEcCCceeEEEEEEEECC
Confidence 9999744 38999999875
No 21
>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=1.5e-40 Score=362.15 Aligned_cols=352 Identities=13% Similarity=0.174 Sum_probs=281.9
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
+||++.|.++.. |.....|+++|+++||++++++| ++|++++.|++|++.+|+.++++++.+++|.|||||. ||.
T Consensus 1 ~vg~~~p~~~~~~~~~~~~~~a~~lAi~~IN~~~~~l~~~~l~~~~~D~~~~~~~a~~~~~~l~~~~~v~aiiGp~-~S~ 79 (391)
T cd06372 1 TVGFQAPWNISHPFSAQRLGAALQIAMDKVNSDPVYLGNYSMEFTYTNSTCSAKESLAGFIDQVQKEHISALFGPA-CPE 79 (391)
T ss_pred CceeeccccccCchhhhhHHHHHHHHHHHHhcCCCCCCCceEEEEEecCCCCccHHHHHHHHHHHhcCceEEECCC-CCc
Confidence 689999987653 66777899999999999999999 9999999999999999999999999877999999999 999
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecC---Cccc-
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDN---TWGS- 149 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~---~~g~- 149 (808)
++.+++++++.++||+|+++++++. +++ +++|+.|++. .++.++++++++|+|++|+++|+++ .++.
T Consensus 80 ~~~av~~va~~~~iP~is~~s~s~~-ls~~~~~~~~~r~~p~~~---~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~ 155 (391)
T cd06372 80 AAEVTGLLASQWNIPMFGFVGQTAK-LDNRFLYDTYVKLVPPKQ---KIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEV 155 (391)
T ss_pred HHHHHHHHHhccCccEEEeecCCcc-ccccccCCceEEecCchh---hHHHHHHHHHHHCCCeEEEEEEeccccchhhhH
Confidence 9999999999999999999999998 875 7899999999 9999999999999999999999653 2331
Q ss_pred cCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 047109 150 DNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVT 229 (808)
Q Consensus 150 ~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 229 (808)
....+.+.+.++ .+++++..+.++. +..++...+.+.+++++|+||+++..++++.++++|+++||..++|+||.+
T Consensus 156 ~~~~~~~~~~~~-~~~~i~~~~~~~~---~~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~ 231 (391)
T cd06372 156 DELWKAVENQLK-FHFNITATVRYSS---SNPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLL 231 (391)
T ss_pred HHHHHHHHHHHh-hCEEEEEEEecCC---CChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEe
Confidence 023444555553 6788888777655 446777666666678999999999999999999999999998878999995
Q ss_pred Cc-----ccccccc-CCccccccccceeEEEeeccCC-cHHHHHHHHHHHHHhhccCCCCC----CCCcchhhhhHhhHH
Q 047109 230 AS-----TMNFLHS-MDSSVVESSMQGVLGFKRYVPA-SKQLRNFTLKWKREMYLNNQNAE----VSELDVHGILAYDTV 298 (808)
Q Consensus 230 ~~-----~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~----~~~~~~~~~~~ydav 298 (808)
.. |...... ........ ..+++++.+.... .+..++|.++|++++... |.+. ......+++++||||
T Consensus 232 ~~~~~~~w~~~~~~~~~~~~~~~-~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~-p~~~~~~~~~~~~~~a~~~yDav 309 (391)
T cd06372 232 QQFEDNFWKEVLTDDQVQHLPKV-YESVFLIAPSSYGGYSGGYEFRKQVYQKLKRP-PFQSSLSSEEQVSPYSAYLHDAV 309 (391)
T ss_pred hhhcCccccccCCCcchHHHHHH-HhhEEEEecCCCCCCcchhHHHHHHHHHHhcC-CccccccccccchHHHHHHHHHH
Confidence 32 3211110 00112123 5677777665432 355778888888776532 2111 113467899999999
Q ss_pred HHHHHHHHHHhhh---cCChHHHHHHHH---cCccccceeEEEe-eCCcccCCccEEEEEeec--C--cEEEEEEEeCCC
Q 047109 299 WALAKASEKLKTE---ISNETCYYKQIL---NSRFTGLSGDFQL-INGKLTSSRAFEIVNVIG--K--TVKIVGFWTPTT 367 (808)
Q Consensus 299 ~~~a~Al~~~~~~---~~~~~~l~~~l~---~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~--~--~~~~vg~~~~~~ 367 (808)
+++|+|++++.++ +.+|..+.+.|+ +++|+|++|+|.| ++|+|.. .|.|++++. + .+++||.|+..+
T Consensus 310 ~~~A~Al~~~~~~g~~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r~~--~y~i~~~~~~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 310 LLYALAVKEMLKAGKDFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKRQM--DYSVYALQKSGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred HHHHHHHHHHHhcCCCCCCHHHHHHHHhhccCceEeccceeEEECCCCCcce--eEEEEeccccCCccceeeEEEecchh
Confidence 9999999997654 347889999999 6899999999999 9999988 999999985 3 289999998743
No 22
>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=2.1e-40 Score=361.76 Aligned_cols=355 Identities=18% Similarity=0.251 Sum_probs=304.1
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCc-ceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHY-KTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l-~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
|||+++|++|+. |.....|+++|+++||++++++ +++|++++.|++|+|..+++++.+++.+++|.+||||. ||+
T Consensus 1 kvG~~~~~sG~~~~~g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~~~~~~a~~~a~~l~~~~~v~aiiG~~-~s~ 79 (389)
T cd06352 1 TVGVLLPWNTDYPFSLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTECSESVALLAAVDLYWEHNVDAFIGPG-CPY 79 (389)
T ss_pred CeEEEcCCCCCCCchhhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCCCchhhhHHHHHHHHhhcCCcEEECCC-Chh
Confidence 699999999965 8889999999999999999654 59999999999999999999999999888999999999 999
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC-ccccCc
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT-WGSDNI 152 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~-~g~~~~ 152 (808)
.+.++++++..++||+|+++++++. +++ ++||+.|++. .++.++++++++++|++++++++++. ||. ..
T Consensus 80 ~~~a~~~~~~~~~ip~Is~~~~~~~-~~~~~~~~~~fr~~~~~~---~~~~a~~~~l~~~~~~~v~ii~~~~~~~g~-~~ 154 (389)
T cd06352 80 ACAPVARLAAHWNIPMISWGCVALS-LSDKSEYPTLTRTLPPAR---KLGEAVLALLRWFNWHVAVVVYSDDSENCF-FT 154 (389)
T ss_pred HHHHHHHHHhcCCCCEecccccccc-cCccccCCceeecCCcHH---HHHHHHHHHHHHcCceEEEEEEecCCccHH-HH
Confidence 9999999999999999999999888 873 8999999999 99999999999999999999998887 899 89
Q ss_pred HHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 047109 153 IPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTAST 232 (808)
Q Consensus 153 ~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~ 232 (808)
.+.+.+.+++.|++|+..+.++. .....++..++++++++. |+|++++.+.++..++++++++|+...+++||..+.+
T Consensus 155 ~~~~~~~~~~~G~~v~~~~~~~~-~~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~ 232 (389)
T cd06352 155 LEALEAALREFNLTVSHVVFMED-NSGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLF 232 (389)
T ss_pred HHHHHHHHHhcCCeEEEEEEecC-CccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehh
Confidence 99999999999999999888766 211579999999999877 9999999999999999999999998778999998776
Q ss_pred ccccc-----------cCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCC--CCCCcchhhhhHhhHHH
Q 047109 233 MNFLH-----------SMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNA--EVSELDVHGILAYDTVW 299 (808)
Q Consensus 233 ~~~~~-----------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~~~~~ydav~ 299 (808)
..... ......... ..+++++.+..+.++.+++|.++|+++++..+... ....++.+++++|||++
T Consensus 233 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~ 311 (389)
T cd06352 233 NYSLPYQNSYPWERGDGDDEKAKEA-YDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVL 311 (389)
T ss_pred ccccccCCCCCcccCCcccHHHHHH-HHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHH
Confidence 54321 011112233 67888887777778889999999998886532100 11235678999999999
Q ss_pred HHHHHHHHHhhh---cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecC--cEEEEEEEeCCCC
Q 047109 300 ALAKASEKLKTE---ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGK--TVKIVGFWTPTTR 368 (808)
Q Consensus 300 ~~a~Al~~~~~~---~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~--~~~~vg~~~~~~~ 368 (808)
++++|++++..+ ..++..+.+.|+++.|+|++|++.| ++|++.. .|.|++++++ .+..++.++...+
T Consensus 312 ~~a~Al~~~~~~~~~~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~ 384 (389)
T cd06352 312 LYAHALNETLAEGGDYNGGLIITRRMWNRTFSGITGPVTIDENGDREG--DYSLLDLDSTGGQLEVVYLYDTSSG 384 (389)
T ss_pred HHHHHHHHHHHhCCCCCchHHHHHHhcCcEEEeeeeeEEEcCCCCeee--eEEEEEecCCCceEEEEEeccccce
Confidence 999999999754 1267889999999999999999999 9999998 9999999965 3888888876554
No 23
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=100.00 E-value=1.2e-40 Score=359.07 Aligned_cols=318 Identities=21% Similarity=0.296 Sum_probs=276.7
Q ss_pred CeEEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 1 EVHVGVILDMRSWAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 1 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
.|+||+++|.++. ..+++.|+..+|.+..... .+++++..|+.+||.+++.++|+++.+++|.+|+||. +|+.
T Consensus 2 ~~~ig~~~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~-~s~~ 75 (362)
T cd06367 2 TVNIGVVLSGSSS-----EPAFRDAVTAANFRHNLPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSD-PTDE 75 (362)
T ss_pred ceEEEEEecCCcc-----hhhHHHHhhhccccccCCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEecC-CCCc
Confidence 3799999999863 5899999999998875333 9999999999999999999999999887999999999 9888
Q ss_pred ---HHHHHHhcCCCCccEEeccCCCCccc-cc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCcccc
Q 047109 80 ---AHILAEIGSKAKIPVISLYATLPSSL-TS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSD 150 (808)
Q Consensus 80 ---~~~~~~~~~~~~iP~is~~~~~~~~l-s~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~ 150 (808)
+.+++.+++.++||+|+++++++. + ++ ++||+.|++. .+++++++++++|+|++|++||++++||.
T Consensus 76 ~~~~~~~~~v~~~~~iP~Is~~~~~~~-~~s~~~~~~~~~R~~p~~~---~~~~ai~~ll~~~~w~~vaii~~~~~~g~- 150 (362)
T cd06367 76 EAVAQILDFTSAQTRIPVVGISGRESI-FMSDKNIHSLFLQTGPSLE---QQADVMLEILEEYDWHQFSVVTSRDPGYR- 150 (362)
T ss_pred cchhhhhhhhhhhhcCcEEEeeccccc-cccCCCcccceEeecCcHH---HHHHHHHHHHHHcCCeEEEEEEEcCcccH-
Confidence 999999999999999999999988 8 64 8999999999 99999999999999999999999999999
Q ss_pred CcHHHHHHhhhcCCcE--EEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 151 NIIPYLFDSLHDNDID--IARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 151 ~~~~~~~~~~~~~g~~--i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
+..+.+++.+++.|++ ++....++. . ...++...+.++++.++|+|++.|+.+++..++++|.++||+.++|+||+
T Consensus 151 ~~~~~l~~~l~~~g~~~~i~~~~~~~~-~-~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~ 228 (362)
T cd06367 151 DFLDRVETTLEESFVGWEFQLVLTLDL-S-DDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIV 228 (362)
T ss_pred HHHHHHHHHHHhcccceeeeeeEEecc-C-CCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 9999999999999999 766665554 2 22278889999999999999999999999999999999999988999999
Q ss_pred eCccccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHH
Q 047109 229 TASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKL 308 (808)
Q Consensus 229 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~ 308 (808)
++.+..... ...+. ..|++++++... ..+++++||||+++|+|++++
T Consensus 229 ~~~~~~~~~----~~~~~-~~G~~g~~~~~~----------------------------~~~~~~~~Dav~~~a~Al~~~ 275 (362)
T cd06367 229 GELALGSGL----APEGL-PVGLLGVGLDTW----------------------------YSLEARVRDAVAIVARAAESL 275 (362)
T ss_pred CcccccccC----CccCC-CCeeEEEEeccc----------------------------ccHHHHHHHHHHHHHHHHHHH
Confidence 999864211 12233 678899877532 124788999999999999988
Q ss_pred hhh------------------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEee-cCcEEEEEEEeC
Q 047109 309 KTE------------------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVI-GKTVKIVGFWTP 365 (808)
Q Consensus 309 ~~~------------------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~-~~~~~~vg~~~~ 365 (808)
.++ +.+|..+.++|++++|.|.+|+|.| ++|++... .|+|++++ +.+|++||.|++
T Consensus 276 ~~~~~~~~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~-~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 276 LRDKGALPEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNP-KLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred HHhcCCCCCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccc-eEEEEEecCCCcceEEEEEcC
Confidence 542 2367789999999999999999999 99999866 99999999 788999999984
No 24
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=1.3e-40 Score=363.23 Aligned_cols=352 Identities=17% Similarity=0.208 Sum_probs=288.5
Q ss_pred EEEEEEecCC-c--c-hhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCC----CHHHHHHHHHHhhhcCCeEEEEec
Q 047109 3 HVGVILDMRS-W--A-GKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKG----DPLHALTTVLNLMQNVDLQAIICT 73 (808)
Q Consensus 3 ~IG~i~~~~~-~--~-g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~----~~~~a~~~a~~li~~~~v~aiiG~ 73 (808)
+||+++|.+| . . |.....|+++|+++||+++++++ ++|++++.|+++ ++..++.++.+++.+++|.|||||
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 5999999997 2 2 77889999999999999998876 999999999998 899999999999877799999999
Q ss_pred CCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCcc
Q 047109 74 EMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWG 148 (808)
Q Consensus 74 ~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g 148 (808)
. ||..+.+++++++.++||+|+++++++. +++ ++||+.|++. .++.++++++++++|+++++++++++++
T Consensus 81 ~-~S~~~~av~~~~~~~~ip~Is~~as~~~-lt~~~~~~~~fr~~p~~~---~~~~a~~~~~~~~~w~~vaii~~~~~~~ 155 (396)
T cd06373 81 G-CEYAAAPVARFAAHWNVPVLTAGAPAAG-FSDKSEYSTLTRTGPSYT---KLGEFVLALHEHFNWSRAALLYHDDKND 155 (396)
T ss_pred C-ccchhHHHHHHHhcCCCceECccCCccc-cccchhcCceeeccccHH---HHHHHHHHHHHHcCCeEEEEEEECCCCC
Confidence 9 9999999999999999999999999998 875 6999999999 9999999999999999999999887764
Q ss_pred ----ccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCe
Q 047109 149 ----SDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGY 224 (808)
Q Consensus 149 ----~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~ 224 (808)
. ...+.+.+.+++.|++|+... +.. .....|+.++|+++++.. |+|++++..++++.++++|+++|++..+|
T Consensus 156 ~~~~~-~~~~~~~~~~~~~g~~v~~~~-~~~-~~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~~y 231 (396)
T cd06373 156 DRPCY-FTLEGVYTVLKEENITVSDFP-FDE-DKELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSGEY 231 (396)
T ss_pred cchHH-HHHHHHHHHHhhcCceeeEEe-ecC-CccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCcE
Confidence 4 467889999999999987543 433 111469999999999765 99999999999999999999999998999
Q ss_pred EEEEeCcccccc----ccC---C----ccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCC-CCCCCCcchhhh
Q 047109 225 SWIVTASTMNFL----HSM---D----SSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQ-NAEVSELDVHGI 292 (808)
Q Consensus 225 ~~i~~~~~~~~~----~~~---~----~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~~~~~ 292 (808)
+||..+...... ... . .....+ .++++++....+..+.+++|.++|++....++. ......+..+++
T Consensus 232 v~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~ 310 (396)
T cd06373 232 VFFNIDLFGSSLYGGGPWWWERGDEDDEKAKEA-YQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAG 310 (396)
T ss_pred EEEEEccchhhhccCCCCcCCCCCcccHHHHHH-HHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHH
Confidence 999876542110 000 0 111123 457777777777778899999999876332211 011113567899
Q ss_pred hHhhHHHHHHHHHHHHhhh---cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEe---ecCcEEEEEEEeC
Q 047109 293 LAYDTVWALAKASEKLKTE---ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNV---IGKTVKIVGFWTP 365 (808)
Q Consensus 293 ~~ydav~~~a~Al~~~~~~---~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~---~~~~~~~vg~~~~ 365 (808)
++||||+++++|++++..+ ..++.+|.++|++++|+|++|++.| ++|++.. .|.++++ +++.++.+|.|++
T Consensus 311 ~~YDav~~~a~Al~~~~~~~~~~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~~~--~~~v~~~~~~~~g~~~~~~~~~~ 388 (396)
T cd06373 311 AFYDAVLLYALALNETLAEGGDPRDGTNITRRMWNRTFEGITGNVSIDENGDRES--DFSLWDMTDTETGTFEVVANYNG 388 (396)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCCChHHHHHHhcCCceecccCceEeecCCcccc--eeeeeeccCCCCceEEEEeeccc
Confidence 9999999999999997422 1278999999999999999999999 9999987 8888776 3556999999987
Q ss_pred C
Q 047109 366 T 366 (808)
Q Consensus 366 ~ 366 (808)
.
T Consensus 389 ~ 389 (396)
T cd06373 389 S 389 (396)
T ss_pred c
Confidence 4
No 25
>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=5.7e-40 Score=350.31 Aligned_cols=345 Identities=15% Similarity=0.253 Sum_probs=281.5
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc--eEEEEEEec-CCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYK--TRLVLHSRD-SKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~--~~l~~~~~d-~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||+||+.+.. +...|+++|++.+|.+..+++ .+|...+.. +..|+.++.+++|+++++ ||.|||||. +|..
T Consensus 1 ~iG~if~~~~~---~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~~-gV~AI~Gp~-ss~~ 75 (371)
T cd06388 1 QIGGLFIRNTD---QEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYSR-GVFAIFGLY-DKRS 75 (371)
T ss_pred CCceeecCCch---HHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHhC-CceEEEecC-CHHH
Confidence 58999996553 467999999999998875543 566666544 458999999999999998 999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHh
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDS 159 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~ 159 (808)
+.+++++|+..+||+|+++.+ . -..+.||+...+. . ..++++++++++|++++++|+++ +|. ..++.|.+.
T Consensus 76 ~~~v~~i~~~~~IP~I~~~~~--~-~~~~~f~i~~~p~---~-~~a~~~~i~~~~wk~vaiiYd~~-~~~-~~lq~l~~~ 146 (371)
T cd06388 76 VHTLTSFCSALHISLITPSFP--T-EGESQFVLQLRPS---L-RGALLSLLDHYEWNRFVFLYDTD-RGY-SILQAIMEK 146 (371)
T ss_pred HHHHHHHhhCCCCCeeecCcc--c-cCCCceEEEeChh---h-hhHHHHHHHhcCceEEEEEecCC-ccH-HHHHHHHHh
Confidence 999999999999999998754 2 1224455544443 2 47788899999999999999534 555 678999999
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccC
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSM 239 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 239 (808)
+++.|++|+..+..+. ++.|++++|++|+++++++||+.|.++.+..+++||+++||..++|+||+++......+.
T Consensus 147 ~~~~g~~v~~~~~~~~---~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l- 222 (371)
T cd06388 147 AGQNGWQVSAICVENF---NDASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISL- 222 (371)
T ss_pred hHhcCCeeeeEEeccC---CcHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccccH-
Confidence 9999999887654443 356999999999999999999999999999999999999999999999998864332221
Q ss_pred CccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHh----------
Q 047109 240 DSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLK---------- 309 (808)
Q Consensus 240 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~---------- 309 (808)
.+.... ..++.+++..++..+..++|.++|++.+...+|+.. ..+...++++||||+++++|++++.
T Consensus 223 -~~~~~g-~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~-~~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~~~~ 299 (371)
T cd06388 223 -ERFMHG-GANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSE-SPPKYTSALTYDGVLVMAEAFRNLRRQKIDISRRG 299 (371)
T ss_pred -HHHhcc-CCceEEEEeecCCChhHHHHHHHHHhcCccccCCCC-CCccchHHHHHHHHHHHHHHHHHHHhcCCCcccCC
Confidence 111121 445888888888888999999999887766654422 1467789999999999999999864
Q ss_pred ---hh-------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCCCCC
Q 047109 310 ---TE-------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPTTRI 369 (808)
Q Consensus 310 ---~~-------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~~ 369 (808)
+| +..|..|.++|++++|+|+||++.| ++|+|..+ .++|++++++|+++||.|++..++
T Consensus 300 ~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~-~l~Ii~l~~~g~~kvG~W~~~~g~ 369 (371)
T cd06388 300 NAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNY-TMDVFELKSNGPRKIGYWNDMDKL 369 (371)
T ss_pred CCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccc-eEEEEEccCCCceEEEEEcCCCCc
Confidence 22 2245789999999999999999999 99999998 999999999999999999998875
No 26
>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=6.4e-40 Score=351.07 Aligned_cols=344 Identities=14% Similarity=0.250 Sum_probs=281.9
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEec-CCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRD-SKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d-~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
+||+||+.... +.+.|+++|++.+|... .+|...+.. +..|+..+.+++|+++++ ||.||+||. +|.++.
T Consensus 1 ~ig~if~~~~~---~~~~af~~a~~~~n~~~----~~l~~~~~~~~~~dsf~~~~~~C~~~~~-GV~AI~Gp~-ss~~~~ 71 (370)
T cd06389 1 QIGGLFPRGAD---QEYSAFRVGMVQFSTSE----FRLTPHIDNLEVANSFAVTNAFCSQFSR-GVYAIFGFY-DKKSVN 71 (370)
T ss_pred CCceeecCCch---HHHHHHHHHHHHhcccC----ceeeeeeEEecccchHHHHHHHHHHhhc-CcEEEEecC-CHHHHH
Confidence 58999997664 56899999999999863 355543332 458999999999999998 999999999 999999
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLH 161 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~ 161 (808)
+++++|+.++||+|+++++.+. -..+.+++.|+. ..++++++++|+|++|+++|+ ++||. ..++.+.+.++
T Consensus 72 ~v~~i~~~~~IP~I~~~~~~~~-~~~f~~~~~p~~------~~ai~d~i~~~~wk~vailYd-sd~gl-~~lq~l~~~~~ 142 (370)
T cd06389 72 TITSFCGTLHVSFITPSFPTDG-THPFVIQMRPDL------KGALLSLIEYYQWDKFAYLYD-SDRGL-STLQAVLDSAA 142 (370)
T ss_pred HHHHhhccCCCCeeeecCCCCC-CCceEEEecchh------hhHHHHHHHhcCCcEEEEEec-CchHH-HHHHHHHHhhc
Confidence 9999999999999998765222 111667777773 589999999999999999997 55999 99999999999
Q ss_pred cCCcEEEEEE--ecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccC
Q 047109 162 DNDIDIARRI--TISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSM 239 (808)
Q Consensus 162 ~~g~~i~~~~--~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 239 (808)
+.|+.|+... .+.. ..+..|++++|++|+++++++||+.|+.+++..+++||.++||+.++|+||+++......+..
T Consensus 143 ~~g~~V~~~~~~~i~~-~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l~ 221 (370)
T cd06389 143 EKKWQVTAINVGNINN-DRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDLS 221 (370)
T ss_pred cCCceEEEEEeecCCC-ccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccCCccccchh
Confidence 9998877543 2222 224569999999999999999999999999999999999999999999999988644332221
Q ss_pred CccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhh---------
Q 047109 240 DSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKT--------- 310 (808)
Q Consensus 240 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~--------- 310 (808)
. .... ..++.+++..++..+..++|.++|++.....+|+.....+...++++||||+++++|++++..
T Consensus 222 ~--~~~~-~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~~~~ 298 (370)
T cd06389 222 K--IQFG-GANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEISRRG 298 (370)
T ss_pred h--hccC-CcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCC
Confidence 1 1111 446788888888889999999999875444444432234778899999999999999998742
Q ss_pred ----h-------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCCCCC
Q 047109 311 ----E-------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPTTRI 369 (808)
Q Consensus 311 ----~-------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~~ 369 (808)
| +.+|..|.++|++++|+|+||++.| ++|+|..+ .++|++++++|+++||.|++..++
T Consensus 299 ~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~-~~~ii~l~~~g~~kvG~W~~~~~~ 368 (370)
T cd06389 299 NAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINY-TINVMELKSNGPRKIGYWSEVDKM 368 (370)
T ss_pred CCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccc-eEEEEEecCCcceEEEEEcCCCCc
Confidence 2 2368899999999999999999999 99999998 999999999999999999998775
No 27
>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=7.8e-40 Score=358.01 Aligned_cols=351 Identities=17% Similarity=0.165 Sum_probs=280.9
Q ss_pred EEEEEEecCCcc---h-hhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHH-----HHHHHHhhhcCCeEEEEe
Q 047109 3 HVGVILDMRSWA---G-KISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHA-----LTTVLNLMQNVDLQAIIC 72 (808)
Q Consensus 3 ~IG~i~~~~~~~---g-~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a-----~~~a~~li~~~~v~aiiG 72 (808)
+||+++|++++. | ..+..|+++|+++||+++++++ ++|++++.|+++++..+ ...+.++...++|.+|||
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 599999999873 4 6788899999999999999996 99999999997666543 344444434469999999
Q ss_pred cCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEE-EEEecCC
Q 047109 73 TEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVI-LIYEDNT 146 (808)
Q Consensus 73 ~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~-ii~~d~~ 146 (808)
|. ||.++.+++.+++.++||+|+++++++. +++ ++||+.|++. .++.++++++++|+|++++ ++|.++.
T Consensus 81 p~-~S~~~~~va~~a~~~~iP~Is~~a~~~~-l~~~~~~~~~~R~~p~~~---~~~~a~~~~~~~~~w~~va~ii~~~~~ 155 (405)
T cd06385 81 PG-CDYTASPVARFTTHWDVPLVTAGAPALG-FGVKDEYATITRTGPTHK---KLGEFVLHIHQHFGWRSHAMLIYSDNK 155 (405)
T ss_pred CC-ccchHHHHHHHHhccCCcEEccccChhh-cCCcccCcceEEecCchH---HHHHHHHHHHHhCCCeEEEEEEEecCc
Confidence 99 9999999999999999999999999888 875 7899999999 9999999999999999998 4565543
Q ss_pred -ccccC---cHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 047109 147 -WGSDN---IIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSK 222 (808)
Q Consensus 147 -~g~~~---~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~ 222 (808)
++. . ..+.+.+.+++.|++|+..+..+. +..++..+|+++++. .|+|++++..++++.++++|.++||+.+
T Consensus 156 ~~~~-~~~~~~~~l~~~~~~~gi~v~~~~~~~~---~~~d~~~~l~~ik~~-~~iii~~~~~~~~~~i~~~a~~~g~~~~ 230 (405)
T cd06385 156 VDDR-PCYFAMEGLYMELKKNNITVVDLVFEED---DLINYTTLLQDIKQK-GRVIYVCCSPDIFRRLMLQFWREGLPSE 230 (405)
T ss_pred cccc-chHHHHHHHHHHHHhCCeEEEEeeccCC---chhhHHHHHHHHhhc-ceEEEEeCCHHHHHHHHHHHHHcCCCCC
Confidence 333 3 468899999999999998753323 467999999999875 4999999999999999999999999999
Q ss_pred CeEEEEeCcccccccc------------CCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCC-CCCCcch
Q 047109 223 GYSWIVTASTMNFLHS------------MDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNA-EVSELDV 289 (808)
Q Consensus 223 ~~~~i~~~~~~~~~~~------------~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~ 289 (808)
+|+||+++.+...... .+.....+ +++++......+.++.+++|.++|++.....+... ....++.
T Consensus 231 ~y~~i~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a-~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~ 309 (405)
T cd06385 231 DYVFFYIDLFGASLQGPDPKRPWYRGDADDAAAREA-FQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNI 309 (405)
T ss_pred cEEEEEeecchhhccCCCCCCCCCCCCcccHHHHHh-hheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHH
Confidence 9999998664322110 00112233 57777776666667889999999988632111000 0012567
Q ss_pred hhhhHhhHHHHHHHHHHHHhhh---cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEe---ecCcEEEEEE
Q 047109 290 HGILAYDTVWALAKASEKLKTE---ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNV---IGKTVKIVGF 362 (808)
Q Consensus 290 ~~~~~ydav~~~a~Al~~~~~~---~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~---~~~~~~~vg~ 362 (808)
+++++||||+++|.|++++... +.+|+.|.++|++++|+|++|++.| ++|+|.. .|.++++ ++++++.||.
T Consensus 310 ~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~~--~~~~~~~~~~~~g~~~~v~~ 387 (405)
T cd06385 310 IAGGFYDGVMLYAHALNETMAKGGTRPPGTAITQRMWNRTFYGVTGFVKIDDNGDRET--DFALWDMTDTESGDFQVVSV 387 (405)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHhhCceEeeceeEEEEcCCCCEec--eeEEEEccCCCCCcEEEEEE
Confidence 8999999999999999997322 2378999999999999999999999 9999987 8988866 4566999999
Q ss_pred EeCC
Q 047109 363 WTPT 366 (808)
Q Consensus 363 ~~~~ 366 (808)
|+..
T Consensus 388 ~~~~ 391 (405)
T cd06385 388 YNGT 391 (405)
T ss_pred Eccc
Confidence 9863
No 28
>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=1.6e-39 Score=352.00 Aligned_cols=314 Identities=19% Similarity=0.312 Sum_probs=258.7
Q ss_pred CeEEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHH-HhhhcCCeEEEEe-cCCCh
Q 047109 1 EVHVGVILDMRSWAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVL-NLMQNVDLQAIIC-TEMTP 77 (808)
Q Consensus 1 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~-~li~~~~v~aiiG-~~~~s 77 (808)
+|+||+++|.+ ....|+++|++++|++.+.++ .++.-...+..+++.++..++| +|+++ +|.|||| +..++
T Consensus 19 ~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~-~V~aii~~~~~ss 92 (377)
T cd06379 19 TVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLISN-QVYAVIVSHPPTS 92 (377)
T ss_pred EEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhhc-ceEEEEEeCCCCC
Confidence 48999999843 468999999999999654333 3333322222346666555555 67775 9999984 32022
Q ss_pred h---HHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccc
Q 047109 78 T---GAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGS 149 (808)
Q Consensus 78 ~---~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~ 149 (808)
. .+.+++.+++.++||+|+++++++. +++ ++||+.|++. .++.++++++++++|++++++|++++||.
T Consensus 93 ~~~~~~~~v~~~~~~~~iP~Is~~a~~~~-ls~~~~~~~~~R~~psd~---~~~~a~~~~l~~~~w~~vaii~~~~~~g~ 168 (377)
T cd06379 93 NDHLTPTSVSYTAGFYRIPVVGISTRDSI-FSDKNIHLSFLRTVPPYS---HQADVWLEMLRSFKWNKVILLVSDDHEGR 168 (377)
T ss_pred cccccHHHHHHHhhCCCCcEEecccCCcc-ccCccccccEEEecCCHH---HHHHHHHHHHHHcCCeEEEEEEEcCcchh
Confidence 2 4677788999999999999998888 875 8999999999 99999999999999999999999999999
Q ss_pred cCcHHHHHHhhhcCCc----EEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeE
Q 047109 150 DNIIPYLFDSLHDNDI----DIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYS 225 (808)
Q Consensus 150 ~~~~~~~~~~~~~~g~----~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~ 225 (808)
...+.+++.+++.|+ +|+..+.++. +..++..+++++++.++|+|++++..+++..++++|+++||++++|+
T Consensus 169 -~~~~~~~~~~~~~g~~~~~~v~~~~~~~~---~~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~~~ 244 (377)
T cd06379 169 -AAQKRFETLLEEREIEFKIKVEKVVEFEP---GEKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEGYV 244 (377)
T ss_pred -HHHHHHHHHHHhcCCccceeeeEEEecCC---chhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCEE
Confidence 999999999999999 8888777765 56799999999999999999999999999999999999999988899
Q ss_pred EEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHH
Q 047109 226 WIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKAS 305 (808)
Q Consensus 226 ~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al 305 (808)
||.++.+... ... ..|++++++... ..+++++||||+++|+|+
T Consensus 245 wi~t~~~~~~--------~~~-~~g~~g~~~~~~----------------------------~~~~~~~yDAV~~~A~Al 287 (377)
T cd06379 245 WIVSEQAGAA--------RNA-PDGVLGLQLING----------------------------KNESSHIRDAVAVLASAI 287 (377)
T ss_pred EEEecccccc--------ccC-CCceEEEEECCC----------------------------CCHHHHHHHHHHHHHHHH
Confidence 9999987432 122 568888876542 124678999999999999
Q ss_pred HHHhhh----------------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCC
Q 047109 306 EKLKTE----------------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPT 366 (808)
Q Consensus 306 ~~~~~~----------------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~ 366 (808)
+++.++ +..|..+.++|++++|+|++|++.| ++|++... .|+|+++++.++++||.|++.
T Consensus 288 ~~~~~~~~~~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~-~~~I~~~~~~~~~~VG~w~~~ 364 (377)
T cd06379 288 QELFEKENITEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFA-NYDIMNIQNRKLVQVGLYNGD 364 (377)
T ss_pred HHHHcCCCCCCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCc-cEEEEEecCCCceEeeEEcCc
Confidence 998532 1257899999999999999999999 99999866 899999999999999999863
No 29
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=100.00 E-value=1.1e-39 Score=351.98 Aligned_cols=341 Identities=14% Similarity=0.154 Sum_probs=274.9
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
|||++.|++|.. |...+.|+++|+++||+++++++ ++|++++.|++|++..++.++.++ +++|.|||||. ||.
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~--~~~V~aviGp~-~S~ 77 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY--EGYASAFVGPV-NPG 77 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc--cCCceEEECCC-Cch
Confidence 699999998865 78899999999999999999965 999999999999988887655543 35899999999 999
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcH
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNII 153 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~ 153 (808)
++.+++.+++.++||+|++++++|. +++ +|+|+.|++. .++++++++|+|+++++|+++++++. ...
T Consensus 78 ~~~a~a~va~~~~iP~Is~~a~~~~-lt~~~~y~~f~r~~~~~~------~~~~~~~~~~~w~~vaii~~~~~~~~-~~~ 149 (382)
T cd06371 78 YCEAAALLAKEWDKALFSWGCVNYE-LDDVRSYPTFARTLPSPS------RVLFTVLRYFRWAHVAIVSSPQDIWV-ETA 149 (382)
T ss_pred HHHHHHHHHHhcCceEEecccCchh-hcCcccCCCceecCCCcH------HHHHHHHHHCCCeEEEEEEecccchH-HHH
Confidence 9999999999999999999999998 885 7889988754 56888999999999999999999998 899
Q ss_pred HHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCC-CeEEEEEcCH-----HHHHHHHHHHHHcCCCCCCeEEE
Q 047109 154 PYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSE-TKVFVVHMSH-----ALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 154 ~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~-----~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
+.+.+.+++.|++|+..+.++. +..|+.++|++||+.+ +|+||+++.. .++..+++||+++||+..+|+||
T Consensus 150 ~~l~~~l~~~gi~v~~~~~~~~---~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i 226 (382)
T cd06371 150 QKLASALRAHGLPVGLVTSMGP---DEKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFI 226 (382)
T ss_pred HHHHHHHHHCCCcEEEEEEecC---CHHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEE
Confidence 9999999999999998877765 5679999999999887 6999998876 67889999999999998899999
Q ss_pred EeCcccccc-------ccC--CccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCC-CCcchhhhhHhhH
Q 047109 228 VTASTMNFL-------HSM--DSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEV-SELDVHGILAYDT 297 (808)
Q Consensus 228 ~~~~~~~~~-------~~~--~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~-~~~~~~~~~~yda 297 (808)
.++...... ... +.....+ .++++++....+..+..++|.+.|+.. ..|.... ..++.+++++|||
T Consensus 227 ~~d~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~~~~~~~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~~YDa 302 (382)
T cd06371 227 PYDTLLYSLPYRNVSYPALRNNSKLRRA-YDAVLTITMDSGEQSFYEAFRAAQERG---EIPSDLEPEQVSPLFGTIYNS 302 (382)
T ss_pred EeccccccCCCCCccccCCCCCHHHHHH-hHhhEEEEecCCCCcHHHHHHHHHhcC---CCCCCCCccccchhHHHHHHH
Confidence 988532111 100 1111134 677777766554444455555543211 1111111 1244566789999
Q ss_pred HHHHHHHHHHHhhh--cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEE
Q 047109 298 VWALAKASEKLKTE--ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFW 363 (808)
Q Consensus 298 v~~~a~Al~~~~~~--~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~ 363 (808)
++++|+|++++++. -.++.++.++|++++|+|++|++.| ++|++.. .|.|+++.++|++-+-.+
T Consensus 303 v~~~a~Al~~a~~~g~~~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~~~--~~~v~~~~~~~~~~~~~~ 369 (382)
T cd06371 303 IYLLAHAVENARAAGGGVSGANLAQHTRNLEFQGFNQRLRTDSGGGGQA--PYVVLDTDGKGDQLYPTY 369 (382)
T ss_pred HHHHHHHHHHHHHhCCCccHHHHHHHHhCccccccceEEEecCCCCccc--ceEEEecCCCCCeeeeeE
Confidence 99999999999632 1278999999999999999999999 9999987 999999999886555443
No 30
>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=8.9e-40 Score=358.93 Aligned_cols=375 Identities=19% Similarity=0.297 Sum_probs=324.5
Q ss_pred CeEEEEEEecCC-------------cchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhc--
Q 047109 1 EVHVGVILDMRS-------------WAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQN-- 64 (808)
Q Consensus 1 ~i~IG~i~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~-- 64 (808)
.|.||++||-.. +.|.+...|+.+|+++||+ +.+|| .+|++.++|+|..+..|++...+++..
T Consensus 31 di~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~Fv~~~~ 109 (878)
T KOG1056|consen 31 DIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLSFVRASL 109 (878)
T ss_pred CeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHHHHHhcc
Confidence 377999998531 1278888999999999999 89999 999999999999999999999998765
Q ss_pred --------------CCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHH
Q 047109 65 --------------VDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKG 125 (808)
Q Consensus 65 --------------~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a 125 (808)
..|.+|||+. .|..+.+++.+..-++||||+|+++++. ||| +|.|+.|+|. .|++|
T Consensus 110 ~~~~~e~~c~~g~sp~v~~VIG~s-~Ssvsi~vanlLrlf~ipQisyaSts~~-LSdk~ry~~F~RtVP~D~---~Qa~A 184 (878)
T KOG1056|consen 110 TSDDSEVRCPDGYSPPVVAVIGPS-YSSVSIAVANLLRLFLIPQISYASTSPD-LSDKTRYDYFLRTVPSDV---FQAQA 184 (878)
T ss_pred cCCCcceecCCCCCCceeEEeCCC-CchHHHHHHHHHHhhcCceeccccCCcc-cccchhhhceeeecCChH---HHHHH
Confidence 4589999999 9999999999999999999999999999 999 8999999999 99999
Q ss_pred HHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC-CCCeEEEEEcCH
Q 047109 126 IADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS-SETKVFVVHMSH 204 (808)
Q Consensus 126 ~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~~ 204 (808)
|++++++|+|++|..++++++||+ ...++|.+..++.|+||...+.++. ...++.+...++++.. .++++||+++..
T Consensus 185 m~~il~~f~W~yVstv~s~~dYGE-~Gieaf~~~a~~~~iCIa~s~ki~~-~~~~~~~~~~l~kl~~~~~a~vvV~F~~~ 262 (878)
T KOG1056|consen 185 MVDILKKFNWNYVSTVASEGDYGE-SGIEAFKEEAAERGICIAFSEKIYQ-LSIEQEFDCVLRKLLETPNARVVVVFCRG 262 (878)
T ss_pred HHHHHHHhCeeEeeehhcCccchh-hhHHHHHHhHHhcCceEEehhhccc-ccchhHHHHHHHHHhhcCCCeEEEEecCc
Confidence 999999999999999999999999 9999999999999999999988877 5677889999999987 899999999999
Q ss_pred HHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHH---------------H
Q 047109 205 ALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFT---------------L 269 (808)
Q Consensus 205 ~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~---------------~ 269 (808)
++++.++++|+++++++ .++||++++|....+.... .... .+|+.++....+..+.+++|. +
T Consensus 263 ~~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~~~-~e~~-a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~e 339 (878)
T KOG1056|consen 263 EDARRLLKAARRANLTG-EFLWIASDGWASQNSPTEA-PERE-AEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFAE 339 (878)
T ss_pred chHHHHHHHHHHhCCCc-ceEEEecchhhccCChhhh-hhhh-hceeEEEEecCCcchhHHHHHHhcCccccccCcccch
Confidence 99999999999999843 5999999999865333222 1223 789999999988888887764 4
Q ss_pred HHHHHhhccCCCCCC----------C----------CcchhhhhHhhHHHHHHHHHHHHhhhc-------------CChH
Q 047109 270 KWKREMYLNNQNAEV----------S----------ELDVHGILAYDTVWALAKASEKLKTEI-------------SNET 316 (808)
Q Consensus 270 ~~~~~~~~~~~~~~~----------~----------~~~~~~~~~ydav~~~a~Al~~~~~~~-------------~~~~ 316 (808)
.|++.|+|..+.... . +-......++|||+++|+||+.+.+++ -+|+
T Consensus 340 ~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~~~~~~C~~m~~~dg~ 419 (878)
T KOG1056|consen 340 FWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCPGTSGLCSAMKAIDGS 419 (878)
T ss_pred hhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcCCccccCcCccccCHH
Confidence 688888888763210 0 001246779999999999999998761 2899
Q ss_pred HHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCc----EEEEEEEeCCCCCcccccccccccccCCCCCCCCC
Q 047109 317 CYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKT----VKIVGFWTPTTRITKEMNSSVFINKMDNISSSSPN 391 (808)
Q Consensus 317 ~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~----~~~vg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 391 (808)
.+.+.+++++|.+..|.+.| ++||... .|+|++++..+ +..+|.|+.... ++
T Consensus 420 ~L~~~l~~vnF~~~~~~v~Fd~~gD~~~--~y~I~~~~~~~~~~~y~~vg~w~~~~~----l~----------------- 476 (878)
T KOG1056|consen 420 LLLKYLLNVNFTGPAGSVRFDENGDGPG--RYDILNYQLTNGSYTYKEVGYWSEGLS----LN----------------- 476 (878)
T ss_pred HHHhhhheeEEecCCCceeecCCCCCcc--ceeEEEeeccCCCccceeeeeeccccc----cc-----------------
Confidence 99999999999999999999 9999999 99999999433 889999998764 22
Q ss_pred CCCceeEcCCCCccCCCccC
Q 047109 392 GELEAIIWPGGSVAIPVGSG 411 (808)
Q Consensus 392 ~~~~~i~w~~~~~~~p~~~~ 411 (808)
..++.|..+...+|++.|
T Consensus 477 --i~~~~w~~~~~~v~~S~C 494 (878)
T KOG1056|consen 477 --IEDLDWTTKPSGVPKSVC 494 (878)
T ss_pred --ceeeeeccCCCCCccccc
Confidence 467889988888999999
No 31
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=100.00 E-value=5.1e-39 Score=344.76 Aligned_cols=349 Identities=18% Similarity=0.328 Sum_probs=279.3
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc-e--EEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYK-T--RLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~--~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||+||+.+...+ +.|+++|+++||++..++| . ++.+.+.|+ +|+..+..++|++++. +|.|||||. ++..
T Consensus 1 ~IGaif~~~s~~~---~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~-~d~f~a~~~~c~l~~~-gv~ai~Gp~-~~~~ 74 (400)
T cd06391 1 HIGAIFDESAKKD---DEVFRMAVADLNQNNEILQTEKITVSVTFVDG-NNPFQAVQEACELMNQ-GILALVSSI-GCTS 74 (400)
T ss_pred CcceeeccCCchH---HHHHHHHHHHhcCCccccCCCcceEEEEEeeC-CCcHHHHHHHHHHHhC-CeEEEECCC-cchH
Confidence 5999999988644 5799999999999998888 7 555588899 5999999999999966 999999998 8888
Q ss_pred HHHHHHhcCCCCccEEec----cCCC-----Cccccc----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC
Q 047109 80 AHILAEIGSKAKIPVISL----YATL-----PSSLTS----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT 146 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~----~~~~-----~~~ls~----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~ 146 (808)
+..++.+|+.++||+|++ ++++ |. +++ |.+.+.|+ . .+++++++++++|+|++++++| |++
T Consensus 75 ~~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~-~~~~~~~y~~~~rp~-~---~~~~ai~~li~~f~W~~v~i~~-d~~ 148 (400)
T cd06391 75 AGSLQSLADAMHIPHLFIQRSTAGTPRSSCGLT-RSNRNDDYTLSVRPP-V---YLNDVILRVVTEYAWQKFIIFY-DTD 148 (400)
T ss_pred HHHHHHHhccCcCCeEEeecccccCccccCCCC-CCCCcccceEEecCh-H---HHHHHHHHHHHHcCCcEEEEEE-eCC
Confidence 899999999999999974 3322 33 332 55555565 6 7889999999999999999865 566
Q ss_pred ccccCcHHHHHHhhhcCCcEEEEEEecCCCCCCh---HHHHH-HHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 047109 147 WGSDNIIPYLFDSLHDNDIDIARRITISMSSNTD---DQVIE-KLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMM 220 (808)
Q Consensus 147 ~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~---~~~~~-~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~ 220 (808)
+|. ..++.+.+.+++.|+||.... +.. ...+ ..+.. .+++|++ +..++||+.|..+.+..++++|.++||+
T Consensus 149 ~~~-~~l~~l~~~~~~~~i~I~~~~-~~~-~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~ 225 (400)
T cd06391 149 YDI-RGIQEFLDKVSQQGMDVALQK-VEN-NINKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLV 225 (400)
T ss_pred ccH-HHHHHHHHHHHHcCCeEEEEe-cCc-chhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCC
Confidence 788 889999999999999999743 221 1110 12322 4456655 6679999999999999999999999999
Q ss_pred CCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhcc--CCCCC-CCCcchhhhhHhhH
Q 047109 221 SKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLN--NQNAE-VSELDVHGILAYDT 297 (808)
Q Consensus 221 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~--~~~~~-~~~~~~~~~~~yda 297 (808)
+.+|+||++++.....+..+ ...+. ..|+.+++++.+.+....+|..+|+..+... .|... ...+..+++++|||
T Consensus 226 ~~~y~wi~t~~~~~~~dl~~-~~~~~-~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDa 303 (400)
T cd06391 226 AFDCHWIIINEEISDMDVQE-LVRRS-IGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDT 303 (400)
T ss_pred CCCeEEEEeCccccccccch-HHhcc-cceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHH
Confidence 99999999999877665432 22233 5677778888877778888888888766432 12221 12356789999999
Q ss_pred HHHHHHHHHHHhh-----------h-------cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEee-----
Q 047109 298 VWALAKASEKLKT-----------E-------ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVI----- 353 (808)
Q Consensus 298 v~~~a~Al~~~~~-----------~-------~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~----- 353 (808)
|+++|+|++++.. | +..|..|.++|++++|+|+||++.| ++|+|..+ .|+|+++.
T Consensus 304 V~~~A~A~~~l~~~~~~~~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~-~~dIin~~~~~~~ 382 (400)
T cd06391 304 VLLLANAFHKKLEDRKWHSMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNV-HFEILGTNYGEDL 382 (400)
T ss_pred HHHHHHHHHHHHhhccccCCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCC-ceEEEEeeccccC
Confidence 9999999998642 2 2368899999999999999999999 89999998 99999996
Q ss_pred cCcEEEEEEEeCCCCC
Q 047109 354 GKTVKIVGFWTPTTRI 369 (808)
Q Consensus 354 ~~~~~~vg~~~~~~~~ 369 (808)
++|+++||.|++..++
T Consensus 383 ~~g~rkiG~Ws~~~gl 398 (400)
T cd06391 383 GRGVRKLGCWNPITGL 398 (400)
T ss_pred CCcceEEEEEcCCcCC
Confidence 8899999999998775
No 32
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=5.9e-40 Score=348.99 Aligned_cols=318 Identities=19% Similarity=0.305 Sum_probs=271.3
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCC-CCHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSK-GDPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~-~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
+||++|++ ..|...+.|+++|+++||+++|+++ ++|++++.|++ +++..+.+++|+++++ +|.+||||. +|+.+
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~-~V~aiiG~~-~S~~~ 76 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQ-GVAAIFGPS-SSEAS 76 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhc-CcEEEECCC-ChhHH
Confidence 69999997 4567899999999999999999986 99999999998 9999999999999987 999999999 99999
Q ss_pred HHHHHhcCCCCccEEeccCCCCccccc--ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTS--YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFD 158 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~--~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 158 (808)
.+++++++.++||+|+++++++. ++. ++||+.|++. .++.++++++++++|++++++|++++++. . +.+
T Consensus 77 ~av~~~~~~~~vP~Is~~~~~~~-~~~~~~~fr~~p~~~---~~~~a~~~~~~~~~w~~vavl~~~~~~~~-~----l~~ 147 (327)
T cd06382 77 SIVQSICDAKEIPHIQTRWDPEP-KSNRQFTINLYPSNA---DLSRAYADIVKSFNWKSFTIIYESAEGLL-R----LQE 147 (327)
T ss_pred HHHHHHHhccCCCceeccCCcCc-cccccceEEeCCCHH---HHHHHHHHHHHhcCCcEEEEEecChHHHH-H----HHH
Confidence 99999999999999999888887 765 8899999999 99999999999999999999999887655 3 444
Q ss_pred hhhcCCc---EEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccc
Q 047109 159 SLHDNDI---DIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNF 235 (808)
Q Consensus 159 ~~~~~g~---~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~ 235 (808)
.+++.+. .+.. +.++. +. |+.++|.+++++++|+|++.+..+++..++++|+++||..+.++|++++.....
T Consensus 148 ~~~~~~~~g~~v~~-~~~~~---~~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~ 222 (327)
T cd06382 148 LLQAFGISGITITV-RQLDD---DL-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHT 222 (327)
T ss_pred HHHhhccCCCeEEE-EEccC---Cc-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccc
Confidence 4444443 4544 44544 44 999999999999999999999999999999999999998888999998775544
Q ss_pred cccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCCh
Q 047109 236 LHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISNE 315 (808)
Q Consensus 236 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~~ 315 (808)
.+.. ..... ..+++++....++++.+++|.++|++.++...+......++.+++.+|||++++
T Consensus 223 ~~l~--~~~~~-~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~-------------- 285 (327)
T cd06382 223 LDLE--DYRYS-GVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF-------------- 285 (327)
T ss_pred cchh--hhccC-ceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe--------------
Confidence 3221 11222 457788888888889999999999999976533333344677899999999977
Q ss_pred HHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCCCCC
Q 047109 316 TCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPTTRI 369 (808)
Q Consensus 316 ~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~~ 369 (808)
|+||++.| ++|+|.++ .++|+++.++++++||.|++..++
T Consensus 286 -------------g~tG~v~f~~~g~r~~~-~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 -------------GLTGRIEFDSSGQRSNF-TLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred -------------ecccceeeCCCCCEeee-EEEEEeccccCceEEEEECCCCCc
Confidence 99999999 99999999 999999999999999999988764
No 33
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=100.00 E-value=4.5e-39 Score=334.82 Aligned_cols=324 Identities=16% Similarity=0.306 Sum_probs=261.8
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHH-HHHHHHHHhhhcCCeEEEEecCCChhH-
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPL-HALTTVLNLMQNVDLQAIICTEMTPTG- 79 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~-~a~~~a~~li~~~~v~aiiG~~~~s~~- 79 (808)
+||+||+++...|...+.|+++|++++|+++++++ .+|++++.|+++++. .+..++|+++++ +|.|||||. +|..
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l~~-gV~AIiGp~-ss~~~ 78 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQILPK-GVVSVLGPS-SSPAS 78 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHHhc-CeEEEECCC-CchHH
Confidence 58999999998899999999999999999999999 799999999998876 788899999966 999999999 8864
Q ss_pred HHHHHHhcCCCCccEEeccCCC-Cccccc--c-eeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATL-PSSLTS--Y-SIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPY 155 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~-~~~ls~--~-~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~ 155 (808)
+.+++++|+..+||+|+++.+. |. +.. + .+++.|++. .+++|+++++++|+|++|++||+++++-. .+.+.
T Consensus 79 ~~~v~~i~~~~~VP~Is~~~~~~~~-~~~~~~~~i~l~P~~~---~~~~Ai~dli~~~~W~~v~~iYe~d~~l~-~L~~~ 153 (333)
T cd06394 79 SSIVSHICGEKEIPHFKVGPEETPK-LQYLRFASVNLHPSNE---DISVAVAGILNSFNYPTASLICAKAECLL-RLEEL 153 (333)
T ss_pred HHHHHHHhhccCCceEEeccccCcc-cccccceEEEecCCHH---HHHHHHHHHHHhcCCCEEEEEEeCcHHHH-HHHHH
Confidence 6799999999999999987543 33 333 3 578999999 99999999999999999999999987543 22232
Q ss_pred HHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccc
Q 047109 156 LFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNF 235 (808)
Q Consensus 156 ~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~ 235 (808)
++. ....+..+.... ..++.|+.++|++|+++++++||+.|..+.+..++++|+++||..+.|+|++++.....
T Consensus 154 l~~-~~~~~~~i~~~~-----~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~ 227 (333)
T cd06394 154 LRQ-FLISKETLSVRM-----LDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPL 227 (333)
T ss_pred HHh-hcccCCceeeEE-----ccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCccc
Confidence 222 222233333211 11456899999999999999999999999999999999999999999999999987653
Q ss_pred cccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCCh
Q 047109 236 LHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISNE 315 (808)
Q Consensus 236 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~~ 315 (808)
.+.. +.... ..++++++..+++.+..++|.+.|++.+.+.............++++||||+++
T Consensus 228 ~~L~--~~~~~-~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~-------------- 290 (333)
T cd06394 228 LRLD--SIVDD-RSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV-------------- 290 (333)
T ss_pred ccHH--HhhcC-CcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE--------------
Confidence 2221 11122 456889999999999999999999887633211111111234689999999977
Q ss_pred HHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCCCCCc
Q 047109 316 TCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPTTRIT 370 (808)
Q Consensus 316 ~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~~~ 370 (808)
|+||+|.| ++|.|.++ .++|++++.+|.++||.|++..+++
T Consensus 291 -------------glTg~i~f~~~g~R~~~-~l~v~~l~~~g~~kig~W~~~~gl~ 332 (333)
T cd06394 291 -------------GLTGRIEFNSKGQRSNY-TLKILQKTRSGFRQIGQWHSNETLS 332 (333)
T ss_pred -------------eeecceecCCCCcCccc-EEEEEEecCCcceEEEEEeCCCCcC
Confidence 99999999 99999999 9999999999999999999988764
No 34
>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=4.2e-37 Score=335.23 Aligned_cols=352 Identities=14% Similarity=0.169 Sum_probs=274.3
Q ss_pred EEEEEEecCCc---ch-hhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCH----HHHHHHHHHhhhcCCeEEEEec
Q 047109 3 HVGVILDMRSW---AG-KISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDP----LHALTTVLNLMQNVDLQAIICT 73 (808)
Q Consensus 3 ~IG~i~~~~~~---~g-~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~----~~a~~~a~~li~~~~v~aiiG~ 73 (808)
+||+++|.+.. .| ..+..|+++|+++||+++++++ ++|++++.|+++++ ..+...+..+...+++.+||||
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 58999986553 12 2356799999999999998765 99999999986554 4333333222122478999999
Q ss_pred CCChhHHHHHHHhcCCCCccEEeccCCCCccccc------ceeeeccCCchhhHHHHHHHHHHHhcCCc-EEEEEEecCC
Q 047109 74 EMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS------YSIQIDQDDEASQSQAKGIADLIRVFKWK-HVILIYEDNT 146 (808)
Q Consensus 74 ~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~------~~~r~~p~~~~~~~~~~a~~~ll~~~~w~-~v~ii~~d~~ 146 (808)
. ||.++.+++++++.++||+|+++++++. +++ ++||+.|++. .++.++..++++|+|+ ++++||.++.
T Consensus 81 ~-~S~~~~av~~i~~~~~iP~Is~~at~~~-ls~~~~~y~~~fR~~p~~~---~~~~~~~~i~~~~~w~~~vaiiy~~~~ 155 (399)
T cd06384 81 G-CVYPTASVARFATHWRLPLITAGAPAFG-FSNKTDEYRTTVRTGPSTT---KLGEFVNHLHEHFNWTSRAALLYLDLK 155 (399)
T ss_pred C-CchHHHHHHHHHhhcCCcEEeeccchhh-hccccccCCceEEecCcHH---HHHHHHHHHHHhCCCcEEEEEEEecCC
Confidence 9 9999999999999999999999999888 764 4999999999 9999988889999999 6889987542
Q ss_pred c---cccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 047109 147 W---GSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKG 223 (808)
Q Consensus 147 ~---g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~ 223 (808)
. +.+...+.+.+.+++.|++|+....... +..|+.++|.++++ ++|+|++++..+++..+++||+++||+.++
T Consensus 156 ~~~~~~~~~~~~~~~~~~~~gi~v~~~~~~~~---~~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~~~ 231 (399)
T cd06384 156 TDDRPHYFISEGVFLALQEENANVSAHPYHIE---KNSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTPGD 231 (399)
T ss_pred ccCCcceEehHHHHHHHHhcCceEEEEEEecc---chhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCCCc
Confidence 2 2112467788888999999998655443 56799999999996 899999999999999999999999999999
Q ss_pred eEEEEeCcccccccc-------------CCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCC-CCCCcch
Q 047109 224 YSWIVTASTMNFLHS-------------MDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNA-EVSELDV 289 (808)
Q Consensus 224 ~~~i~~~~~~~~~~~-------------~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~ 289 (808)
|+||..+........ .......+ +++++++....+..+.+++|.++|++.+...+... .....++
T Consensus 232 y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a-~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~ 310 (399)
T cd06384 232 YVFFYLDVFGESLRVKSPRESYKQMNHSSWTVLKEA-FKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNF 310 (399)
T ss_pred EEEEEehhcccccccCCCCccccCCCCcccHHHHHH-HhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhh
Confidence 999987754321110 01112234 77888888777777889999999987543221110 0011356
Q ss_pred hhhhHhhHHHHHHHHHHHHhhh---cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEE---EeecCcEEEEEE
Q 047109 290 HGILAYDTVWALAKASEKLKTE---ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIV---NVIGKTVKIVGF 362 (808)
Q Consensus 290 ~~~~~ydav~~~a~Al~~~~~~---~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~---~~~~~~~~~vg~ 362 (808)
+++++||||+++|.|++++... +.+|.+|.++|++++|+|++|++.| ++|+|.. .+.++ ++++++++.+|.
T Consensus 311 ~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r~~--~~~~~~~~~~~~g~~~~v~~ 388 (399)
T cd06384 311 IAGCFYDGVMLYAMALNETLAEGGSQKDGLNITRKMQDRRFWGVTGLVSIDKNNDRDI--DFDLWAMTDHETGKYEVVAH 388 (399)
T ss_pred hhhhhHHHHHHHHHHHHHHHhcCCCCCCcHhHHHHHhCceeecceeEEEECCCCCccc--ceEEEEeecCCCCeEEEEEE
Confidence 7999999999999999998322 2378899999999999999999999 9999987 77774 556777999999
Q ss_pred EeCC
Q 047109 363 WTPT 366 (808)
Q Consensus 363 ~~~~ 366 (808)
|+..
T Consensus 389 ~~~~ 392 (399)
T cd06384 389 YNGI 392 (399)
T ss_pred EcCC
Confidence 9864
No 35
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=2.2e-37 Score=329.32 Aligned_cols=319 Identities=19% Similarity=0.325 Sum_probs=271.1
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecC-CCCHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDS-KGDPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~-~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
+||+|+|.++ .....|+++|+++||+++|++| .+|++.+.|+ ++++..+++++|+|++ ++|.+||||. +|..+
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~-~~V~aiiG~~-~S~~~ 75 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLS-QGVAAIFGPS-SSSSA 75 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHh-cCcEEEECCC-CHHHH
Confidence 6999999998 5788999999999999999998 7999999997 5999999999999998 5999999999 99999
Q ss_pred HHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHh
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDS 159 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~ 159 (808)
.+++++++.++||+|+++++++. +++ +.+++.|++. .++.++++++++++|++++++|++++++. ..+.+.+.
T Consensus 76 ~av~~i~~~~~ip~is~~~~~~~-~~~~~~~~~~~~~~---~~~~a~~~~~~~~~w~~vaii~~~~~~~~--~l~~~~~~ 149 (324)
T cd06368 76 NTVQSICDALEIPHITTSWSPNP-KPRQFTINLYPSMR---DLSDALLDLIKYFGWRKFVYIYDSDEGLL--RLQELLDA 149 (324)
T ss_pred HHHHHHHhccCCCcEEecCCcCC-CCCcceEEecCCHH---HHHHHHHHHHHhcCCCEEEEEECCcHhHH--HHHHHHHh
Confidence 99999999999999999999988 865 6677778888 89999999999999999999998776554 55677777
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccC
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSM 239 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 239 (808)
+++.|++++.....+ ..+|+++++.++++.++|+|++.+..+++..++++|+++||..+.++||+++......+.
T Consensus 150 ~~~~g~~v~~~~~~~----~~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~- 224 (324)
T cd06368 150 LSPKGIQVTVRRLDD----DTDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL- 224 (324)
T ss_pred hccCCceEEEEEecC----CchHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch-
Confidence 888899988765332 223899999999999999999999999999999999999998889999998765432211
Q ss_pred CccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCChHHHH
Q 047109 240 DSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISNETCYY 319 (808)
Q Consensus 240 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~~~~l~ 319 (808)
...... ..++.++....+.++.+++|.++|++.++...|......+..+++++||+|+++
T Consensus 225 -~~~~~~-~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~------------------ 284 (324)
T cd06368 225 -ELFRYG-GVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF------------------ 284 (324)
T ss_pred -hhhhcC-CceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe------------------
Confidence 111222 456777777777889999999999998876433222234677899999999977
Q ss_pred HHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEEEEEeCCCCC
Q 047109 320 KQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIVGFWTPTTRI 369 (808)
Q Consensus 320 ~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~vg~~~~~~~~ 369 (808)
||++.| ++|+|.++ .++|+++.+++++.+|.|++..++
T Consensus 285 -----------tg~~~f~~~g~~~~~-~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 -----------TGRIQFDENGQRSNF-TLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred -----------eeeeEeCCCCcCcce-EEEEEEEcCCCceEEEEECCCCCC
Confidence 999999 99999999 999999999999999999987654
No 36
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=5.6e-36 Score=321.56 Aligned_cols=329 Identities=15% Similarity=0.149 Sum_probs=282.2
Q ss_pred CeEEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCCh
Q 047109 1 EVHVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTP 77 (808)
Q Consensus 1 ~i~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s 77 (808)
+|+||++.|+||+. |...+.|+++|+++||+.+|+++++|++++.|++++|..+++++.+|+. ++|.+|||+. +|
T Consensus 25 ~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi~G~~ielv~~D~~~~p~~a~~~~~~Li~-~~V~~iiG~~-~s 102 (369)
T PRK15404 25 DIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGIKGDKLEGVEYDDACDPKQAVAVANKVVN-DGIKYVIGHL-CS 102 (369)
T ss_pred ceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCCCCeEEEEEeecCCCCHHHHHHHHHHHHh-CCceEEEcCC-Cc
Confidence 69999999999986 8889999999999999999999999999999999999999999999997 5999999999 99
Q ss_pred hHHHHHHHhcCCCCccEEeccCCCCccccc----ceeeeccCCchhhHHHHHHHHHH-HhcCCcEEEEEEecCCccccCc
Q 047109 78 TGAHILAEIGSKAKIPVISLYATLPSSLTS----YSIQIDQDDEASQSQAKGIADLI-RVFKWKHVILIYEDNTWGSDNI 152 (808)
Q Consensus 78 ~~~~~~~~~~~~~~iP~is~~~~~~~~ls~----~~~r~~p~~~~~~~~~~a~~~ll-~~~~w~~v~ii~~d~~~g~~~~ 152 (808)
..+.++++++...+||+|++.+++|. +++ ++||+.|.+. .++.++++++ +.++|++++++++|+.||+ +.
T Consensus 103 ~~~~a~~~~~~~~~ip~i~~~s~~~~-l~~~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~k~va~i~~d~~~g~-~~ 177 (369)
T PRK15404 103 SSTQPASDIYEDEGILMITPAATAPE-LTARGYQLIFRTIGLDS---DQGPTAAKYILEKVKPKRIAVLHDKQQYGE-GL 177 (369)
T ss_pred hhHHHhHHHHHHCCCeEEecCCCCHH-HhcCCCceEEeCCCCcH---HHHHHHHHHHHHhcCCCEEEEEeCCCchhH-HH
Confidence 99999999999999999999998888 875 7999999999 9999999976 5679999999999999999 99
Q ss_pred HHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 047109 153 IPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTAST 232 (808)
Q Consensus 153 ~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~ 232 (808)
.+.+.+.+++.|++++..+.++. +..|+.+++.+++++++|+|++.+...++..+++++++.|+. ..|+.++..
T Consensus 178 ~~~~~~~~~~~G~~v~~~~~~~~---g~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~---~~~i~~~~~ 251 (369)
T PRK15404 178 ARSVKDGLKKAGANVVFFEGITA---GDKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLK---TQFMGPEGV 251 (369)
T ss_pred HHHHHHHHHHcCCEEEEEEeeCC---CCCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCC---CeEEecCcC
Confidence 99999999999999998877776 667999999999999999999888888899999999999973 346666543
Q ss_pred ccccccCCccccccccceeEEEeec-cCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhh
Q 047109 233 MNFLHSMDSSVVESSMQGVLGFKRY-VPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTE 311 (808)
Q Consensus 233 ~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~ 311 (808)
... .. ....... .+|+++..++ ...+|..++|.+.|++.++.. +..++..+||++++++.|++++++.
T Consensus 252 ~~~-~~-~~~~~~~-~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------~~~~~~~~Y~~~~~l~~Al~~aG~~ 320 (369)
T PRK15404 252 GNK-SL-SNIAGPA-SEGMLVTLPKRYDQDPANKAIVDAFKAKKQDP--------SGPFVWTTYAAVQSLAAGINRAGSD 320 (369)
T ss_pred CCH-HH-HHhhhhh-hcCcEEEccCCCccChhHHHHHHHHHHhcCCC--------CccchHHHHHHHHHHHHHHHhhCCC
Confidence 221 11 0111123 5676654432 234578899999998875321 3446788999999999999999886
Q ss_pred cCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCc
Q 047109 312 ISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKT 356 (808)
Q Consensus 312 ~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~ 356 (808)
++..|.++|++.+|+|++|++.| .+|+.... .|.|++|+++|
T Consensus 321 --~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~-~~~i~~~~~~~ 363 (369)
T PRK15404 321 --DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGF-EFGVFEWHADG 363 (369)
T ss_pred --CHHHHHHHHHhCCCCcceEeeEECCCCCcccC-CEEEEEEEcCC
Confidence 89999999999999999999999 98988765 99999999776
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=1.1e-35 Score=318.19 Aligned_cols=323 Identities=18% Similarity=0.204 Sum_probs=280.3
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||++.|+||+. |.....|+++|++++|+++++.+++|++++.|++|+|..+++.+.+|+.+ +|.+|+||. ++..
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~i~~~~~D~~~~~~~~~~~~~~li~~-~v~aiiG~~-~s~~ 78 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGGKGVKLELVVEDDQADPKQAVAVAQKLVDD-GVVGVVGHL-NSGV 78 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCChHHHHHHHHHHHhC-CceEEECCC-ccHh
Confidence 699999999976 88899999999999999998888999999999999999999999999998 999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc----ceeeeccCCchhhHHHHHHHHHH-HhcCCcEEEEEEecCCccccCcHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS----YSIQIDQDDEASQSQAKGIADLI-RVFKWKHVILIYEDNTWGSDNIIP 154 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~----~~~r~~p~~~~~~~~~~a~~~ll-~~~~w~~v~ii~~d~~~g~~~~~~ 154 (808)
+.+++.+++..+||+|+++++++. +++ ++||+.|++. .++.++++++ ++++|+++++++++++||. ...+
T Consensus 79 ~~~~~~~~~~~~ip~i~~~~~~~~-~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~-~~~~ 153 (334)
T cd06342 79 TIPASPIYADAGIVMISPAATNPK-LTERGYKNVFRVVARDD---QQGPAAAKYAVETLKAKKVAIIDDKTAYGQ-GLAD 153 (334)
T ss_pred HHHhHHHHHhCCCeEEecCCCCch-hhcCCCceEEeccCCcH---HHHHHHHHHHHHhcCCCEEEEEeCCcchhh-HHHH
Confidence 999999999999999999887666 654 8999999999 9999999976 5789999999999999999 9999
Q ss_pred HHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 047109 155 YLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN 234 (808)
Q Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 234 (808)
.+++.+++.|++|+..+.++. +..++.+.+.+++++++++|++.+..+++..+++++++.|+ ...|+..+.+..
T Consensus 154 ~~~~~~~~~g~~v~~~~~~~~---~~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~ 227 (334)
T cd06342 154 EFKKALKAAGGKVVAREGTTD---GATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGL---KAPFMGGDGLCD 227 (334)
T ss_pred HHHHHHHHcCCEEEEEecCCC---CCccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCC---CCcEEecCccCC
Confidence 999999999999999887766 56799999999999999999999999999999999999997 345676654431
Q ss_pred ccccCCccccccccceeEEEeeccC--CcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhc
Q 047109 235 FLHSMDSSVVESSMQGVLGFKRYVP--ASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEI 312 (808)
Q Consensus 235 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~ 312 (808)
. ... ...... .+|++....+.+ ..+..++|.++|+++++.. ++.++.++||++.++++|+++++..
T Consensus 228 ~-~~~-~~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------~~~~~~~~yda~~~~~~al~~~~~~- 295 (334)
T cd06342 228 P-EFI-KIAGDA-AEGTYATFPGGPLEKMPAGKAFVARYKAKFGDP--------PGAYAPYAYDAANVLAEAIKKAGST- 295 (334)
T ss_pred H-HHH-HHhhHh-hCCcEEEecCCCCCCChHHHHHHHHHHHHhCCC--------CchhHHHHHHHHHHHHHHHHHhCCC-
Confidence 1 110 111123 566666655443 4688999999999887543 3557899999999999999999766
Q ss_pred CChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEe
Q 047109 313 SNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNV 352 (808)
Q Consensus 313 ~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~ 352 (808)
++..+.++|++.+|+|++|++.| ++|++... .++|+||
T Consensus 296 -~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~-~~~~~~~ 334 (334)
T cd06342 296 -DPAKVADALRKVDFDGVTGKISFDAKGDLKGA-AVTVYQV 334 (334)
T ss_pred -CHHHHHHHHHhCCCCCcceeeEECCCCCcccC-cEEEEeC
Confidence 89999999999999999999999 99999888 9999886
No 38
>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=4.3e-36 Score=316.67 Aligned_cols=301 Identities=16% Similarity=0.191 Sum_probs=261.2
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|++|+. |.....|+++|+++||+++|+.+++|++++.|+++||..+++++++|+.+++|.+|+||. +|..
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 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGVLGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAA-CSGV 79 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccc-cchh
Confidence 699999999976 888999999999999999999889999999999999999999999999888999999999 9999
Q ss_pred HHHH-HHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcH
Q 047109 80 AHIL-AEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNII 153 (808)
Q Consensus 80 ~~~~-~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~ 153 (808)
+.++ ++++.+.++|+|+++++++. +++ ++||+.|++. .++.++++++.+++|+++++++.+++||. ...
T Consensus 80 ~~a~~~~~~~~~~vp~i~~~~~~~~-l~~~~~~~~~fr~~~~~~---~~~~~l~~~~~~~~~~~vail~~~~~~g~-~~~ 154 (312)
T cd06346 80 TIAALTSVAVPNGVVMISPSSTSPT-LTTLDDNGLFFRTAPSDA---LQGQALAQLAAERGYKSVATTYINNDYGV-GLA 154 (312)
T ss_pred hHhhhhhhhccCCcEEEecCCCCcc-ceecCCCceEEEecCCcH---HHHHHHHHHHHHcCCCeEEEEEccCchhh-HHH
Confidence 9999 89999999999999998888 775 8999999999 99999999999999999999999999999 999
Q ss_pred HHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccc
Q 047109 154 PYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTM 233 (808)
Q Consensus 154 ~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 233 (808)
+.+++.+++.|++|+..+.++. +..|+.+++++++++++|+|++.+.+.++..+++++++.|+ +..|+.++...
T Consensus 155 ~~~~~~~~~~G~~vv~~~~~~~---~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~---~~~~~~~~~~~ 228 (312)
T cd06346 155 DAFTKAFEALGGTVTNVVAHEE---GKSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGL---FDKFLLTDGMK 228 (312)
T ss_pred HHHHHHHHHcCCEEEEEEeeCC---CCCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCC---CCceEeecccc
Confidence 9999999999999998888876 56799999999999999999999999999999999999998 33466665533
Q ss_pred cccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcC
Q 047109 234 NFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEIS 313 (808)
Q Consensus 234 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~ 313 (808)
.. .......... .+|+++..+... .+..++|.++|+++|+.. ++.+++.+||+++++++|
T Consensus 229 ~~-~~~~~~~~~~-~~g~~~~~~~~~-~~~~~~f~~~~~~~~g~~--------p~~~~~~~Yd~~~~l~~A--------- 288 (312)
T cd06346 229 SD-SFLPADGGYI-LAGSYGTSPGAG-GPGLEAFTSAYKAAYGES--------PSAFADQSYDAAALLALA--------- 288 (312)
T ss_pred Ch-HHHHhhhHHH-hCCcEEccCCCC-chhHHHHHHHHHHHhCCC--------CCccchhhHHHHHHHHHH---------
Confidence 21 1111111223 567776554433 478999999999998654 456788999999999988
Q ss_pred ChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEE
Q 047109 314 NETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIV 350 (808)
Q Consensus 314 ~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~ 350 (808)
|.|++|++.| ++|++.. .|+-+
T Consensus 289 -------------~~g~~g~~~f~~~g~~~~--~~~~~ 311 (312)
T cd06346 289 -------------YQGASGVVDFDENGDVAG--SYDEW 311 (312)
T ss_pred -------------hCCCccceeeCCCCCccc--ceeee
Confidence 8999999999 9999877 66644
No 39
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=100.00 E-value=2.9e-35 Score=312.38 Aligned_cols=333 Identities=13% Similarity=0.211 Sum_probs=253.7
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
+||+||+.+... ....-++.+|++++|+++|..+..+.++.+|+.+||.+|++++|+|+++ +|.|||||. +|.++.+
T Consensus 1 ~IG~if~~~~~~-~~~af~~ala~~~iN~~gg~~~~~i~~v~~dd~~d~~~a~~~~c~Li~~-gV~AI~G~~-~s~~~~a 77 (363)
T cd06381 1 HIGAIFSESALE-DDEVFAVAVIDLNINEQILQTEKITLSISFIDLNNHFDAVQEACDLMNQ-GILALVTST-GCASAIA 77 (363)
T ss_pred CeeeeccCCcch-HHHHHHHHHHHhhccccccCCccceeeeEeecCCChHHHHHHHHHHHhc-CcEEEEecC-ChhHHHH
Confidence 699999987542 2334455555667787777656778889999999999999999999998 999999999 9999999
Q ss_pred HHHhcCCCCccEEeccCCC---Ccc-------ccc--ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCcccc
Q 047109 83 LAEIGSKAKIPVISLYATL---PSS-------LTS--YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSD 150 (808)
Q Consensus 83 ~~~~~~~~~iP~is~~~~~---~~~-------ls~--~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~ 150 (808)
++++|+..+||+|++.++. |.. ... +.|++.|+ . .++.++++++++++|++|+++|++++ |.
T Consensus 78 v~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~-~---~~~~ai~~lv~~~~wkkvavly~~d~-g~- 151 (363)
T cd06381 78 LQSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPP-V---RLNDVMLRLVTEWRWQKFVYFYDNDY-DI- 151 (363)
T ss_pred HHHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEecc-H---HHHHHHHHHHHhCCCeEEEEEEECCc-hH-
Confidence 9999999999999976432 110 111 66777777 5 77899999999999999999998876 44
Q ss_pred CcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhc-------CCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 047109 151 NIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLK-------SSETKVFVVHMSHALASHLFLNAKKLGMMSKG 223 (808)
Q Consensus 151 ~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~-------~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~ 223 (808)
...+.+.+.+++.|+.+... .... . ....+...++.++ ..+.++||+.|+++.+..++++|.++||+..+
T Consensus 152 ~~l~~~~~~~~~~g~~v~~~-~~~~-~-~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~ 228 (363)
T cd06381 152 RGLQEFLDQLSRQGIDVLLQ-KVDL-N-ISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKD 228 (363)
T ss_pred HHHHHHHHHHHhcCceEEEE-eccc-c-cchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCc
Confidence 46688888899999876643 2222 1 1223344433332 44566889999999999999999999999999
Q ss_pred eEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHH----HHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHH
Q 047109 224 YSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLR----NFTLKWKREMYLNNQNAEVSELDVHGILAYDTVW 299 (808)
Q Consensus 224 ~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~----~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~ 299 (808)
|+||+.+.+....... ...... ..|+++++..++..+..+ +|.+.|++.+... |+ ....+...++++||||+
T Consensus 229 ~~wi~~~~l~~~~~~l-~~~~~~-~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~al~yDaV~ 304 (363)
T cd06381 229 SHWFLINEEISDTEID-ELVRYA-HGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPK-DG-YLQMLEISNLYIYDSVL 304 (363)
T ss_pred eEEEEeccccccchhh-HHHhhc-CccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCC-CC-CCCChhHHHHHHHHHHH
Confidence 9999988877532211 122333 789999999987766666 4555665433222 22 11246778999999999
Q ss_pred HHHHHHHHHhhhcCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecCc-----EEEEEEEeCCCCC
Q 047109 300 ALAKASEKLKTEISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKT-----VKIVGFWTPTTRI 369 (808)
Q Consensus 300 ~~a~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~-----~~~vg~~~~~~~~ 369 (808)
++ .++|++++|+|+||+|.| ++|.|..+ .++|+++..+| .+.+|.|++..++
T Consensus 305 ~~-----------------~~~~~~~~~~GLTG~i~F~~~g~r~~~-~l~i~~~~~~~~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 305 LL-----------------LETIKKGPITGLTGKLEFNEGGDNSNV-QFEILGTGYSETLGKDGRWLATWNPSKGL 362 (363)
T ss_pred HH-----------------HHHHHhcCccCcceeEEeCCCCCcccc-EEEEEEeccCCccccceEEeeeccCCCCC
Confidence 88 677889999999999999 99999999 99999999544 7889999987764
No 40
>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=8.4e-36 Score=321.34 Aligned_cols=327 Identities=26% Similarity=0.388 Sum_probs=266.3
Q ss_pred HHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEe
Q 047109 18 SNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVIS 96 (808)
Q Consensus 18 ~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is 96 (808)
...|+++|+++||+++++++ ++|++.+.|+++++..+...+...+.+++|.|||||. |+..+.+++.+++.++||+|+
T Consensus 2 ~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviGp~-~~~~~~~~~~~~~~~~ip~is 80 (348)
T PF01094_consen 2 VLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIGPS-CSSSAEAVASLASEWNIPQIS 80 (348)
T ss_dssp HHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEETS-SHHHHHHHHHHHHHTT-EEEE
T ss_pred HHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCCcccccchhhhccCCCcEEEECCC-cccccchhheeecccccceee
Confidence 57899999999999999887 9999999999866666666666666656999999999 999999999999999999999
Q ss_pred ccCCCCccccc------ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCC-cEEEE
Q 047109 97 LYATLPSSLTS------YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDND-IDIAR 169 (808)
Q Consensus 97 ~~~~~~~~ls~------~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g-~~i~~ 169 (808)
++++++. +++ +++|+.|++. .+++++++++++|+|++|++||+++++|. +..+.+.+.+++.+ .++..
T Consensus 81 ~~~~~~~-ls~~~~~~~~~~r~~p~~~---~~~~a~~~~l~~~~w~~v~vv~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 155 (348)
T PF01094_consen 81 PGSTSPS-LSDRKTRYPTFFRTVPSDS---SQARALVDLLKHFGWTRVSVVYSDDDYGN-SLADSFQDLLRERGGICVAF 155 (348)
T ss_dssp SSGGSGG-GGSTTTTTTTEEESSB-HH---HHHHHHHHHHHHTTSSEEEEEEESSHHHH-HHHHHHHHHHHHHTTCEEEE
T ss_pred ccccccc-cccchhhccccccccccHH---HHHHHHHHhhhcCCCceeeeecccccccc-ccchhhhhhhcccccceecc
Confidence 9999888 865 8999999999 99999999999999999999999999988 89999999999964 55544
Q ss_pred EEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccc
Q 047109 170 RITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQ 249 (808)
Q Consensus 170 ~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~ 249 (808)
....+....+..++...+.+ .+.++++|++++...+++.++++|.++||...+|+||.++.+.............. ..
T Consensus 156 ~~~~~~~~~~~~~~~~~l~~-~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~-~~ 233 (348)
T PF01094_consen 156 ISVVISSDSDAEELLKKLKE-IKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQNNEDFREA-FQ 233 (348)
T ss_dssp EEEEETTTSHHHHHHHHHHH-HTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTSTHCHHHCC-HT
T ss_pred cccccccccchhhhhhhhhh-ccccceeeeeecccccccccccchhhhhccccceeEEeeccccccccccccccccc-cc
Confidence 12222201223344444444 44999999999999999999999999999999999999998765422222334444 78
Q ss_pred eeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhh----------cCChHHHH
Q 047109 250 GVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTE----------ISNETCYY 319 (808)
Q Consensus 250 g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~----------~~~~~~l~ 319 (808)
+++++....+..+.+++|.+.|++.............+..+++++||||+++++|++++.++ ..+|..+.
T Consensus 234 ~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~~~~~~~~g~~l~ 313 (348)
T PF01094_consen 234 GVLGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTNGRNPWQNGSQLL 313 (348)
T ss_dssp TEEEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTSSSGTSTTHHHHH
T ss_pred ceeeeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCCCCccccccHHHHH
Confidence 99999998888899999999998764321111112346788999999999999999999764 11467899
Q ss_pred HHHHcCccccceeEEEe-e-CCcccCCccEEEEEee
Q 047109 320 KQILNSRFTGLSGDFQL-I-NGKLTSSRAFEIVNVI 353 (808)
Q Consensus 320 ~~l~~~~~~g~tG~v~f-~-~g~~~~~~~~~i~~~~ 353 (808)
++|+++.|.|++|++.| + +|++... .|+|+++|
T Consensus 314 ~~l~~~~f~G~tG~v~f~~~~G~~~~~-~~~i~~~~ 348 (348)
T PF01094_consen 314 KYLRNVSFEGLTGRVSFDSNDGDRTNY-DYDILNMQ 348 (348)
T ss_dssp HHHHTEEEEETTEEEEEETTTSBEESE-EEEEEEE-
T ss_pred HHHhheeeeCCCCCEEEeCCCCCcCCC-EEEEEECC
Confidence 99999999999999999 7 8999887 99999986
No 41
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.3e-35 Score=318.68 Aligned_cols=324 Identities=15% Similarity=0.190 Sum_probs=274.1
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCC----cceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCC
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTH----YKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEM 75 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~----l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~ 75 (808)
|||+++|+||+. |.....|+++|+++||++||+ .+++|+++++|++++|..+++++++|+++++|.+||||.
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~la~~~iN~~ggi~~g~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG~~- 79 (345)
T cd06338 1 RIGASLSLTGPLAGGGQLTQRGYELWVEDVNAAGGIKGGGKGYPVELIYYDDQSNPARAARAYERLITQDKVDFLLGPY- 79 (345)
T ss_pred CeeEEEeCCCccccccHHHHHHHHHHHHHHHhcCCcccCCCCceEEEEEecCCCCHHHHHHHHHHHHhhcCccEEecCC-
Confidence 699999999976 888899999999999998775 569999999999999999999999999887999999999
Q ss_pred ChhHHHHHHHhcCCCCccEEeccCCCCcccc-c---ceeeeccCCchhhHHHHHHHHHHHhcC--CcEEEEEEecCCccc
Q 047109 76 TPTGAHILAEIGSKAKIPVISLYATLPSSLT-S---YSIQIDQDDEASQSQAKGIADLIRVFK--WKHVILIYEDNTWGS 149 (808)
Q Consensus 76 ~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls-~---~~~r~~p~~~~~~~~~~a~~~ll~~~~--w~~v~ii~~d~~~g~ 149 (808)
++..+.++.++++..+||+|+++++++. ++ + ++||+.|++. .++.++++++++++ |+++++++.+++||.
T Consensus 80 ~s~~~~a~~~~~~~~~vp~i~~~~~~~~-~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~ 155 (345)
T cd06338 80 SSGLTLAAAPVAEKYGVPMVAGSGASDS-IFAQGFKYVFGTLPPAS---QYAKSLLEMLVALDPRPKKVAILYADDPFSQ 155 (345)
T ss_pred cchhHHHHHHHHHHhCCcEEecCCCCch-HhhcCCceEEEecCchH---HHHHHHHHHHHhcCCCCceEEEEecCCcccH
Confidence 9999999999999999999999988887 66 3 9999999999 99999999999887 999999999999999
Q ss_pred cCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 047109 150 DNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVT 229 (808)
Q Consensus 150 ~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 229 (808)
...+.+.+.+++.|++|+....++. +..|+.+++++|++.++|+|++.+...++..+++++++.|+.. ..++ .+
T Consensus 156 -~~~~~~~~~~~~~g~~v~~~~~~~~---~~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~-~~ 229 (345)
T cd06338 156 -DVAEGAREKAEAAGLEVVYDETYPP---GTADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNP-KALY-MT 229 (345)
T ss_pred -HHHHHHHHHHHHcCCEEEEEeccCC---CccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC-CEEE-Ee
Confidence 8999999999999999998777765 5579999999999999999999999999999999999999843 2222 22
Q ss_pred CccccccccCCccccccccceeEEEeeccCC-------cHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHH
Q 047109 230 ASTMNFLHSMDSSVVESSMQGVLGFKRYVPA-------SKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALA 302 (808)
Q Consensus 230 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a 302 (808)
...... ... ...... ..|+++...+.+. .+..++|.++|+++|+.. ++.++..+||++.+++
T Consensus 230 ~~~~~~-~~~-~~~g~~-~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------p~~~~~~~y~a~~~~~ 298 (345)
T cd06338 230 VGPAFP-AFV-KALGAD-AEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYGKA--------PDYHAAGAYAAGQVLQ 298 (345)
T ss_pred cCCCcH-HHH-HHHhhh-hCceeecceeccCcccccccCccHHHHHHHHHHHhCCC--------CCcccHHHHHHHHHHH
Confidence 222110 000 011122 4566665444332 367899999999988754 3446788999999999
Q ss_pred HHHHHHhhhcCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEe
Q 047109 303 KASEKLKTEISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNV 352 (808)
Q Consensus 303 ~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~ 352 (808)
+|++++++. ++..+.++|++++|+|++|++.| ++|++.. .+.+++|
T Consensus 299 ~a~~~ag~~--~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~--~~~~~~~ 345 (345)
T cd06338 299 EAVERAGSL--DPAAVRDALASNDFDTFYGPIKFDETGQNNH--PMTVVQW 345 (345)
T ss_pred HHHHHhCCC--CHHHHHHHHHhCCCcccccCeeECCCCCcCC--CceeeeC
Confidence 999999887 89999999999999999999999 9999877 6666654
No 42
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.9e-35 Score=316.78 Aligned_cols=317 Identities=17% Similarity=0.226 Sum_probs=270.3
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|+||+. |.....|+++|++++|+++|+.+++|++++.|++++|..+++++++|+.+++|.+||||. +|..
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 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGILGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGY-SSEV 79 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCc-chHH
Confidence 699999999975 999999999999999999998889999999999999999999999999888999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccc---c-----ceeeeccCCchhhHHHHHHHHHHHh-----cCCcEEEEEEecCC
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLT---S-----YSIQIDQDDEASQSQAKGIADLIRV-----FKWKHVILIYEDNT 146 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls---~-----~~~r~~p~~~~~~~~~~a~~~ll~~-----~~w~~v~ii~~d~~ 146 (808)
+.+++++++.++||+|+++++++. ++ + ++||+.|++. .++.++++++.+ ++|++|+++++++.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~-~t~~~~~~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~ 155 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASPE-ITTADDYETYKYVFRAGPTNS---SYAQSVADALKETLVDKHGFKTAAIVAEDAA 155 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCCc-ccccccccCCceEEecCCCcH---HHHHHHHHHHHHhhcccCCCceEEEEecCch
Confidence 999999999999999999888777 65 1 9999999999 899999998875 89999999999999
Q ss_pred ccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 047109 147 WGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSW 226 (808)
Q Consensus 147 ~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~ 226 (808)
||. ...+.+++.+++.|++|+....++. +..++.+++.+|+++++|+|++.+...++..+++++.+.|+.. .+
T Consensus 156 ~g~-~~~~~~~~~~~~~G~~vv~~~~~~~---~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~ 228 (344)
T cd06345 156 WGK-GIDAGIKALLPEAGLEVVSVERFSP---DTTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPI---PT 228 (344)
T ss_pred hhh-HHHHHHHHHHHHcCCeEEEEEecCC---CCCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCC---ce
Confidence 999 9999999999999999998777766 5678999999999999999999999999999999999999732 23
Q ss_pred EEeCccccccccCCccccccccceeEEEeecc----CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHH
Q 047109 227 IVTASTMNFLHSMDSSVVESSMQGVLGFKRYV----PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALA 302 (808)
Q Consensus 227 i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~----~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a 302 (808)
+..+.+....... ...... .++.++...+. ..++..++|.++|++.++.. ++.+++.+||++.+++
T Consensus 229 ~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~--------p~~~~~~~yda~~~l~ 298 (344)
T cd06345 229 IGISVEGNSPAFW-KATNGA-GNYVITAESGAPGVEAITDKTVPFTEAYEAKFGGP--------PNYMGASTYDSIYILA 298 (344)
T ss_pred EEecCCcCCHHHH-Hhhchh-cceEEeecccccCccCCCHHHHHHHHHHHHHhCCC--------CcccchHHHHHHHHHH
Confidence 3333222110110 111122 44554433322 35678899999999888653 5667889999999999
Q ss_pred HHHHHHhhhcCChHHHHHHHHcCccccceeEEEe-eCCcccC
Q 047109 303 KASEKLKTEISNETCYYKQILNSRFTGLSGDFQL-INGKLTS 343 (808)
Q Consensus 303 ~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~ 343 (808)
+|++++++. ++..+.++|++.+|+|++|++.| ++|++..
T Consensus 299 ~A~~~ag~~--~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~ 338 (344)
T cd06345 299 EAIERAGST--DGDALVEALEKTDFVGTAGRIQFYGDDSAFA 338 (344)
T ss_pred HHHHHhcCC--CHHHHHHHHHhCCCcCCceeEEECCCCCcCc
Confidence 999999887 88999999999999999999999 9999886
No 43
>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=5.6e-35 Score=312.60 Aligned_cols=335 Identities=13% Similarity=0.078 Sum_probs=276.7
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|+||+. |....+|+++|+++||+.||+++++|++++.|++++|.++++++++|+++++|.+|+|+. +|+.
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 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVLGRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCW-TSAS 79 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEecc-chhh
Confidence 699999999986 888999999999999999999999999999999999999999999999988999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHHHHHHHHHHh-cCCcEEEEEEecCCccccCcHHHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQAKGIADLIRV-FKWKHVILIYEDNTWGSDNIIPYLF 157 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll~~-~~w~~v~ii~~d~~~g~~~~~~~~~ 157 (808)
+.++.+++.+.++|++++.+.... ..+ ++||+.+.+. .++..+++++.. .+++++++++.|++||. +..+.++
T Consensus 80 ~~a~~~~~~~~~~~~i~~~~~~~~-~~~~~~f~~~~~~~---~~~~~~~~~~~~~~g~k~vaii~~d~~~g~-~~~~~~~ 154 (348)
T cd06355 80 RKAVLPVFERHNGLLFYPVQYEGL-EQSPNVFYTGAAPN---QQIIPAVDWLMSNKGGKRFYLVGSDYVYPR-TANKILK 154 (348)
T ss_pred HHHHHHHHhccCCceecCCCccCC-CCCCCEEEeCCChH---HhHHHHHHHHHhccCCCeEEEECCcchHHH-HHHHHHH
Confidence 999999999999999987654333 233 8999999988 888888888764 57999999999999999 9999999
Q ss_pred HhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccc
Q 047109 158 DSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLH 237 (808)
Q Consensus 158 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~ 237 (808)
+.+++.|++++....++. +..|+.+++.+++++++|+|++...+.++..+++++++.|+..+...++........+.
T Consensus 155 ~~~~~~G~~vv~~~~~~~---~~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~ 231 (348)
T cd06355 155 AQLESLGGEVVGEEYLPL---GHTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELR 231 (348)
T ss_pred HHHHHcCCeEEeeEEecC---ChhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHh
Confidence 999999999999888876 67899999999999999999999999999999999999998543344554332211111
Q ss_pred cCCccccccccceeEEEeec--cCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCCh
Q 047109 238 SMDSSVVESSMQGVLGFKRY--VPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISNE 315 (808)
Q Consensus 238 ~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~~ 315 (808)
.. .... ..|+++...+ ..+.+..++|.++|++.|+... .+...++.+||+++++++|++++++. ++
T Consensus 232 ~~---g~~~-~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~------~~~~~a~~~Y~a~~~~~~Al~~ag~~--~~ 299 (348)
T cd06355 232 GI---GPEN-LAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDR------VTNDPMEAAYIGVYLWKQAVEKAGSF--DV 299 (348)
T ss_pred hc---ChHh-hcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCC------CCCcHHHHHHHHHHHHHHHHHHhCCC--CH
Confidence 11 1122 4565554332 3356788999999999886542 13445788999999999999999987 89
Q ss_pred HHHHHHHHcCccccceeEEEe-e-CCcccCCccEEEEEeec-CcEEEE
Q 047109 316 TCYYKQILNSRFTGLSGDFQL-I-NGKLTSSRAFEIVNVIG-KTVKIV 360 (808)
Q Consensus 316 ~~l~~~l~~~~~~g~tG~v~f-~-~g~~~~~~~~~i~~~~~-~~~~~v 360 (808)
++|.++|++.+|+++.|++.| + +|+... .+.+.+++. +.++.|
T Consensus 300 ~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~--~~~i~~~~~~g~~~~v 345 (348)
T cd06355 300 DKVRAALPGQSFDAPEGPVTVDPANHHLWK--PVRIGRIQADGQFEIV 345 (348)
T ss_pred HHHHHHhccCcccCCCcceEeecCCCeeee--eeEEEEEcCCCcEEEE
Confidence 999999999999999999999 5 566555 777888864 335443
No 44
>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=9.3e-35 Score=310.96 Aligned_cols=338 Identities=10% Similarity=0.100 Sum_probs=275.6
Q ss_pred eEEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 2 VHVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 2 i~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
||||++.|+||+. |...++|+++|+++||++||+++++|++++.|++++|..+++++++|+++++|.+|||+. +|+
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 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGILGRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGY-SSA 79 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCCCceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCC-chH
Confidence 7999999999986 888999999999999999999999999999999999999999999999988999999999 999
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHHHHHHHHHHh-cCCcEEEEEEecCCccccCcHHHH
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQAKGIADLIRV-FKWKHVILIYEDNTWGSDNIIPYL 156 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll~~-~~w~~v~ii~~d~~~g~~~~~~~~ 156 (808)
.+.++.+++.+.++|+|........ ..+ ++||+.|++. .++.++++++.. .+ ++++++++|++||+ ...+.+
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~~~~~-~~~~~~Fr~~~~~~---~~~~~~~~~~~~~~g-~~va~l~~d~~~g~-~~~~~~ 153 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQYEGG-VCDEYTFAVGATAR---QQLGTVVPYMVEEYG-KKIYTIAADYNFGQ-LSADWV 153 (374)
T ss_pred HHHHHHHHHHhcCceEEcCcccccc-cCCCCEEEcCCChH---HHHHHHHHHHHHcCC-CeEEEEcCCcHHHH-HHHHHH
Confidence 9999999999999999975432232 333 9999999999 999999998865 45 78999999999999 999999
Q ss_pred HHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccccc
Q 047109 157 FDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFL 236 (808)
Q Consensus 157 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 236 (808)
++.+++.|++++..+.++. +..|+.+++.+++++++|+|++...+.+...+++|++++|+..+ .+.........
T Consensus 154 ~~~~~~~G~~vv~~~~~~~---g~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~ 227 (374)
T TIGR03669 154 RVIAKENGAEVVGEEFIPL---SVSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGY 227 (374)
T ss_pred HHHHHHcCCeEEeEEecCC---CcchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhh
Confidence 9999999999998888876 67899999999999999999999888899999999999998322 22221111100
Q ss_pred ccCCccccccccceeEEEeecc--CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCC
Q 047109 237 HSMDSSVVESSMQGVLGFKRYV--PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISN 314 (808)
Q Consensus 237 ~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~ 314 (808)
..... .... ..|+++...+. .+.+..++|.++|+++|+..+ .++.+++.+||+++++++|++++++. +
T Consensus 228 ~~~~~-~~~~-~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~p------~~~~~a~~~Yda~~~l~~Ai~~AGs~--d 297 (374)
T TIGR03669 228 EHKRF-EPPA-LKDVYAGVNYMEEIDTPENEAFVERFYAKFPDAP------YINQEAENNYFSVYMYKQAVEEAGTT--D 297 (374)
T ss_pred hhhhc-Cchh-hCCcEEeeeccccCCCHHHHHHHHHHHHHcCCCC------CCChHHHHHHHHHHHHHHHHHHhCCC--C
Confidence 00000 1112 44555544433 246889999999999986431 13456788999999999999999987 8
Q ss_pred hHHHHHHHHc-CccccceeEEEe-eC-CcccCCccEEEEEeecCc-EEEEEEEe
Q 047109 315 ETCYYKQILN-SRFTGLSGDFQL-IN-GKLTSSRAFEIVNVIGKT-VKIVGFWT 364 (808)
Q Consensus 315 ~~~l~~~l~~-~~~~g~tG~v~f-~~-g~~~~~~~~~i~~~~~~~-~~~vg~~~ 364 (808)
++++.++|++ ..++|+.|++.| ++ ++... .+.|.+++.++ +..+..|.
T Consensus 298 ~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~--~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 298 QDAVRDVLESGVEMDAPEGKVCIDGATHHMSH--TMRLARADADHNITFVKEQE 349 (374)
T ss_pred HHHHHHHHHcCCeEECCCccEEEcCCCCeeee--eeEEEEEcCCCCEEEEEecC
Confidence 9999999997 579999999999 54 55555 77788888555 66666666
No 45
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.4e-34 Score=310.19 Aligned_cols=322 Identities=18% Similarity=0.262 Sum_probs=267.2
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|+||+. |.....|+++|+++||+++|+++++|++++.|++++|..+++++++|+.+++|.+|+||. ++..
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 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVNGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPT-LSQQ 79 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcCCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCC-CcHH
Confidence 699999999986 889999999999999999999999999999999999999999999999888999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc---ceeeeccCCchhhHHH-HHHHHHHHhc-CCcEEEEEEecCC-ccccCcH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS---YSIQIDQDDEASQSQA-KGIADLIRVF-KWKHVILIYEDNT-WGSDNII 153 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~---~~~r~~p~~~~~~~~~-~a~~~ll~~~-~w~~v~ii~~d~~-~g~~~~~ 153 (808)
+.++.++++..+||+|+++++++. +.+ ++||+.|++. .+. .++..+++++ +|++++++|++++ ||. ...
T Consensus 80 ~~a~~~~~~~~~ip~i~~~~~~~~-~~~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~-~~~ 154 (344)
T cd06348 80 AFAADPIAERAGVPVVGPSNTAKG-IPEIGPYVFRVSAPEA---VVAPAAIAAALKLNPGIKRVAVFYAQDDAFSV-SET 154 (344)
T ss_pred HHhhhHHHHhCCCCEEeccCCCCC-cCCCCCeEEEccCcHH---HHHHHHHHHHHHHhcCCeEEEEEEeCCchHHH-HHH
Confidence 999999999999999999887776 654 8999987765 444 4455667777 9999999997654 999 999
Q ss_pred HHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccc
Q 047109 154 PYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTM 233 (808)
Q Consensus 154 ~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 233 (808)
+.+++.+++.|++++....++. +..|+.+++.+++++++|+|++.+.+.++..+++++++.|+.. .++.++.+.
T Consensus 155 ~~~~~~~~~~g~~v~~~~~~~~---~~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~ 228 (344)
T cd06348 155 EIFQKALRDQGLNLVTVQTFQT---GDTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNG---LIVGGNGFN 228 (344)
T ss_pred HHHHHHHHHcCCEEEEEEeeCC---CCCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC---ceecccccc
Confidence 9999999999999998888876 5679999999999999999999999999999999999999832 345444332
Q ss_pred cccccCCccccccccceeEEEeecc--CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhh
Q 047109 234 NFLHSMDSSVVESSMQGVLGFKRYV--PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTE 311 (808)
Q Consensus 234 ~~~~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~ 311 (808)
.. ... ....+. .+|++....+. .+.+..++|.++|+++++.. ++.++..+||+++++++|+++++.+
T Consensus 229 ~~-~~~-~~~g~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~--------p~~~~~~~yda~~~~~~A~~~a~~~ 297 (344)
T cd06348 229 TP-NVF-PVCQAA-CDGVLVAQAYSPENDTPVNRDFVEAYKKKYGKA--------PPQFSAQAFDAVQVVAEALKRLNQK 297 (344)
T ss_pred CH-HHH-HhhhHh-hcCeEEEeeccCCCCCHHHHHHHHHHHHHHCCC--------ccHHHHHHHHHHHHHHHHHHHhcCC
Confidence 11 111 112233 56776655543 34577899999999888643 4567889999999999999999764
Q ss_pred --cCC------hHHHHHHHHcCccccceeEEEe-eCCcccCCccEE
Q 047109 312 --ISN------ETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFE 348 (808)
Q Consensus 312 --~~~------~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~ 348 (808)
.++ +..|.++|++.+|+|++|++.| ++|++... .|.
T Consensus 298 ~~~~~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~-~~~ 342 (344)
T cd06348 298 QKLAELPLPELRTALNAALLSGQYDTPLGEISFTPDGEVLQK-AFY 342 (344)
T ss_pred CccccchhhhHHHHHHHHHhccCCccceeeeEECCCCCcccC-cee
Confidence 111 5688899999999999999999 99998864 554
No 46
>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=2.4e-34 Score=309.35 Aligned_cols=303 Identities=29% Similarity=0.392 Sum_probs=260.1
Q ss_pred EEEEEEecCCc----------c---hhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhc----
Q 047109 3 HVGVILDMRSW----------A---GKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQN---- 64 (808)
Q Consensus 3 ~IG~i~~~~~~----------~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~---- 64 (808)
.||++||.++. . |.....++.+|+++||+++++++ ++|++++.|++|+|.+|++++++++.+
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 48999999873 2 67788899999999999988887 999999999999999999999999987
Q ss_pred ---------CCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHH
Q 047109 65 ---------VDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLI 130 (808)
Q Consensus 65 ---------~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll 130 (808)
++|.+||||. +|..+.+++++++.++||+|+++++++. +++ ++||+.|++. .++.++++++
T Consensus 81 ~~~~~~~~~~~v~aiiG~~-~S~~~~a~~~~~~~~~vp~is~~~~~~~-ls~~~~~~~~fr~~p~~~---~~~~a~~~~~ 155 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPG-SSSVSMAVAELLGLFKIPQISYGATSPL-LSDKLQFPSFFRTVPSDT---SQALAIVALL 155 (348)
T ss_pred CCCCcCCCCCceEEEECCC-ccHHHHHHHHHHhcCcCceecccCCChh-hccccccCCeeEecCCcH---HHHHHHHHHH
Confidence 7999999999 9999999999999999999999999988 864 8999999999 9999999999
Q ss_pred HhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHH
Q 047109 131 RVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHL 210 (808)
Q Consensus 131 ~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~ 210 (808)
++++|+++++++++++||. ...+.+.+.+++.|++|+..+.++. .....++..++++++++++|+|++++...++..+
T Consensus 156 ~~~~~~~v~~l~~~~~~g~-~~~~~~~~~~~~~gi~v~~~~~~~~-~~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~ 233 (348)
T cd06350 156 KHFGWTWVGLVYSDDDYGR-SGLSDLEEELEKNGICIAFVEAIPP-SSTEEDIKRILKKLKSSTARVIVVFGDEDDALRL 233 (348)
T ss_pred HHCCCeEEEEEEecchhHH-HHHHHHHHHHHHCCCcEEEEEEccC-CCcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHH
Confidence 9999999999999999999 9999999999999999999888876 3236799999999999999999999999999999
Q ss_pred HHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchh
Q 047109 211 FLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVH 290 (808)
Q Consensus 211 l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~ 290 (808)
+++++++|+ .+..|++++.|....... ...... .+|+++...+.+.....++|.+.+++ +
T Consensus 234 ~~~a~~~g~--~~~~~i~~~~~~~~~~~~-~~~~~~-~~g~~~~~~~~~~~~~~~~f~~~~~~----------------~ 293 (348)
T cd06350 234 FCEAYKLGM--TGKYWIISTDWDTSTCLL-LFTLDA-FQGVLGFSGHAPRSGEIPGFKDFLRK----------------Y 293 (348)
T ss_pred HHHHHHhCC--CCeEEEEEccccCccccc-cCCcce-eeeEEEEEEEeecCCcCCChHHHHHH----------------H
Confidence 999999998 345566666665431111 122233 67888877776544445556665554 4
Q ss_pred hhhHhhHHHHHHHHHHHHhhhcCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeec----CcEEEEEEEeC
Q 047109 291 GILAYDTVWALAKASEKLKTEISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIG----KTVKIVGFWTP 365 (808)
Q Consensus 291 ~~~~ydav~~~a~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~----~~~~~vg~~~~ 365 (808)
++++|||+++ .+.| ++|++.. .+.+.+++. .++++||.|++
T Consensus 294 ~~~~YDav~~--------------------------------~v~f~~~gd~~~--~~~i~~~~~~~~~~~~~~vg~~~~ 339 (348)
T cd06350 294 AYNVYDAVYA--------------------------------EVKFDENGDRLA--SYDIINWQIFPGGGGFVKVGFWDP 339 (348)
T ss_pred HHHHHhheeE--------------------------------EEEecCCCCccc--ceeEEEEEEcCCcEEEEEEEEEcC
Confidence 7889999996 7999 9999999 899999986 45999999997
Q ss_pred C
Q 047109 366 T 366 (808)
Q Consensus 366 ~ 366 (808)
.
T Consensus 340 ~ 340 (348)
T cd06350 340 Q 340 (348)
T ss_pred C
Confidence 4
No 47
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=4.5e-34 Score=306.14 Aligned_cols=334 Identities=19% Similarity=0.193 Sum_probs=275.6
Q ss_pred CeEEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCCh
Q 047109 1 EVHVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTP 77 (808)
Q Consensus 1 ~i~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s 77 (808)
+|+||++.|+||+. |.+...|+++|+++||+.+|+++++|++++.|+.+||..+.+.+.+|+.+++|.+|||+. +|
T Consensus 10 ~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~-~S 88 (366)
T COG0683 10 TIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGILGRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPT-TS 88 (366)
T ss_pred ceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcCCceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEec-cC
Confidence 49999999999986 999999999999999999999997799999999999999999999999988999999999 99
Q ss_pred hHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHH-hcCCcEEEEEEecCCccccC
Q 047109 78 TGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIR-VFKWKHVILIYEDNTWGSDN 151 (808)
Q Consensus 78 ~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~-~~~w~~v~ii~~d~~~g~~~ 151 (808)
.++.++.+++++.++|+|++++++|. +.. ++||+.|++. .++.++++++. ..+.++++++++++.||+ +
T Consensus 89 ~~~~a~~~v~~~~~i~~i~p~st~~~-~~~~~~~~~vfr~~~~~~---~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~-~ 163 (366)
T COG0683 89 GVALAASPVAEEAGVPLISPSATAPQ-LTGRGLKPNVFRTGPTDN---QQAAAAADYLVKKGGKKRVAIIGDDYAYGE-G 163 (366)
T ss_pred cccccchhhHhhcCceEEeecCCCCc-ccccccccceEEecCChH---HHHHHHHHHHHHhcCCcEEEEEeCCCCcch-h
Confidence 99999999999999999999999998 775 4999999999 99999999885 566669999999999999 9
Q ss_pred cHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 047109 152 IIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTAS 231 (808)
Q Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 231 (808)
..+.+++.+++.|.+++..+.+.. ...++..++.+++++++|+|++.+..++...+++++++.|+.. ...++....
T Consensus 164 ~~~~~~~~l~~~G~~~~~~~~~~~---~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~-~~~~~~~~~ 239 (366)
T COG0683 164 LADAFKAALKALGGEVVVEEVYAP---GDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKA-KLIGGDGAG 239 (366)
T ss_pred HHHHHHHHHHhCCCeEEEEEeeCC---CCCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCC-ccccccccC
Confidence 999999999999998666556554 3445999999999999999999999999999999999999832 223332222
Q ss_pred cccccccCCccccccccceeEEEeec-cCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHh-
Q 047109 232 TMNFLHSMDSSVVESSMQGVLGFKRY-VPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLK- 309 (808)
Q Consensus 232 ~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~- 309 (808)
........ ..... ....+..... ....|..+.|.++|++.++... .++.++..+||++++++.|+++++
T Consensus 240 ~~~~~~~~-~~~~~--~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~------~~~~~~~~~y~a~~~~~~ai~~a~~ 310 (366)
T COG0683 240 TAEFEEIA-GAGGA--GAGLLATAYSTPDDSPANKKFVEAYKAKYGDPA------APSYFAAAAYDAVKLLAKAIEKAGK 310 (366)
T ss_pred chhhhhhc-ccCcc--ccEEEEecccccccCcchHHHHHHHHHHhCCCC------CcccchHHHHHHHHHHHHHHHHHhc
Confidence 21111111 11111 1122222222 2345677889999999988221 245578999999999999999999
Q ss_pred hhcCChHHHHHHHHcCc-cccceeEEEe-eCCcccCCccEEEEEeecCc
Q 047109 310 TEISNETCYYKQILNSR-FTGLSGDFQL-INGKLTSSRAFEIVNVIGKT 356 (808)
Q Consensus 310 ~~~~~~~~l~~~l~~~~-~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~ 356 (808)
+. +++++.++|++.. +.+.+|++.| ++|++... .+.|++++..+
T Consensus 311 ~~--d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~-~~~i~~~~~~~ 356 (366)
T COG0683 311 SS--DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSK-PVYVGQVQKGG 356 (366)
T ss_pred CC--CHHHHHHHHhhCCCCccCCcceeECCCCCcCCC-ceEEEEEEecC
Confidence 55 7888999999887 6889999999 88888887 89999998543
No 48
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=100.00 E-value=1.3e-33 Score=303.07 Aligned_cols=329 Identities=12% Similarity=0.061 Sum_probs=269.4
Q ss_pred eEEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 2 VHVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 2 i~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
|+||++.|+||+. |.....|+++|+++||+.||+++++|++++.|++++|.+|++++++|+++++|.+|+|+. +|.
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 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVLGKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCW-TSA 79 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCC-cHH
Confidence 7999999999976 888899999999999999999999999999999999999999999999888999999999 999
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHHHHHHHHHHh-cCCcEEEEEEecCCccccCcHHHH
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQAKGIADLIRV-FKWKHVILIYEDNTWGSDNIIPYL 156 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll~~-~~w~~v~ii~~d~~~g~~~~~~~~ 156 (808)
.+.++.+++...++|++.+...... ..+ ++||+.+++. .++.++++++.. .|.+++++++.|++||. ...+.+
T Consensus 80 ~~~a~~~~~~~~~~~~i~~~~~~~~-~~~~~~F~~~~~~~---~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~-~~~~~~ 154 (359)
T TIGR03407 80 SRKAVLPVFEENNGLLFYPVQYEGE-ECSPNIFYTGAAPN---QQIIPAVDYLLSKKGAKRFFLLGSDYVFPR-TANKII 154 (359)
T ss_pred HHHHHHHHHhccCCceEeCCcccCc-ccCCCEEEcCCChH---HHHHHHHHHHHhccCCceEEEecCccHHHH-HHHHHH
Confidence 9999999999999999987543322 223 8999999999 999999998865 59999999999999999 888999
Q ss_pred HHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccccc
Q 047109 157 FDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFL 236 (808)
Q Consensus 157 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 236 (808)
++.+++.|++++....++. +..|+.+++++|+++++|+|++.....++..+++++++.|+..+...++.........
T Consensus 155 ~~~~~~~G~~vv~~~~~~~---~~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~ 231 (359)
T TIGR03407 155 KAYLKSLGGTVVGEDYTPL---GHTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEI 231 (359)
T ss_pred HHHHHHcCCEEEeeEEecC---ChHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHH
Confidence 9999999999998877766 6789999999999999999998888888889999999999843333344433221111
Q ss_pred ccCCccccccccceeEEEee--ccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCC
Q 047109 237 HSMDSSVVESSMQGVLGFKR--YVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISN 314 (808)
Q Consensus 237 ~~~~~~~~~~~~~g~~~~~~--~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~ 314 (808)
... .... ..|+.+... ...+.+..++|.++|++.++...+ +...++.+||++.++++|++++++. +
T Consensus 232 ~~~---g~~~-~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~------~~~~~~~~y~a~~~~~~A~~~ag~~--~ 299 (359)
T TIGR03407 232 RGI---GPEN-LVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDRV------TNDPMEAAYLGVYLWKAAVEKAGSF--D 299 (359)
T ss_pred hhc---ChHh-hCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCCC------CCcHHHHHHHHHHHHHHHHHHhCCC--C
Confidence 111 1122 456554322 234567889999999988764321 2334667899999999999999987 8
Q ss_pred hHHHHHHHHcCccccceeEEEe-e-CCcccCCccEEEEEee
Q 047109 315 ETCYYKQILNSRFTGLSGDFQL-I-NGKLTSSRAFEIVNVI 353 (808)
Q Consensus 315 ~~~l~~~l~~~~~~g~tG~v~f-~-~g~~~~~~~~~i~~~~ 353 (808)
+..+.++|++++|+++.|+++| + +|+... .+.+.+++
T Consensus 300 ~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~--~~~~~~~~ 338 (359)
T TIGR03407 300 VDAVRDAAIGIEFDAPEGKVKVDGKNHHLTK--TVRIGEIR 338 (359)
T ss_pred HHHHHHHhcCCcccCCCccEEEeCCCCeeee--eeEEEEEc
Confidence 9999999999999999999999 5 666555 66666665
No 49
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=6.8e-34 Score=302.95 Aligned_cols=316 Identities=14% Similarity=0.116 Sum_probs=268.0
Q ss_pred EEEEEEecCCcc--hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 3 HVGVILDMRSWA--GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~~~--g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
+||++.|++|+. |....+|+++|+++||+.+|+++++|++++.|++++|..+++++++|+.+++|.+|+|+. +|..+
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 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGINGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHY-SSDAT 79 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCCCCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCC-CcHHH
Confidence 599999999875 888999999999999999999889999999999999999999999999988999999999 99999
Q ss_pred HHHHHhcCCCCccEEeccCCCCccccc---ceeeeccCCchhhHHHHHHHHHHHhcC-CcEEEEEEecCC-ccccCcHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTS---YSIQIDQDDEASQSQAKGIADLIRVFK-WKHVILIYEDNT-WGSDNIIPY 155 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~---~~~r~~p~~~~~~~~~~a~~~ll~~~~-w~~v~ii~~d~~-~g~~~~~~~ 155 (808)
.++.++++..++|+|+++++++. +++ ++||+.|++. .+++++++++++.+ |++++++++++. ||. ...+.
T Consensus 80 ~a~~~~~~~~~ip~i~~~a~~~~-lt~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~-~~~~~ 154 (332)
T cd06344 80 LAALDIYQKAKLVLISPTSTSVK-LSNPGPYFFRTVPSNA---VAARALAKYLKKKNKIKKVAIFYNSTSPYSQ-SLKQE 154 (332)
T ss_pred HHHHHHHhhcCceEEccCcCchh-hcCCCCcEEEeCCCcH---HHHHHHHHHHHhhcCCCeEEEEeCCCchHhH-HHHHH
Confidence 99999999999999999888887 765 9999999999 99999999998876 999999998876 999 99999
Q ss_pred HHHhhhc-CCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 047109 156 LFDSLHD-NDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN 234 (808)
Q Consensus 156 ~~~~~~~-~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 234 (808)
+.+.+++ .|++++....++. ++.++..++.++++.++++|++.+.......+++++++.+. ...++.++.+..
T Consensus 155 ~~~~~~~~~g~~v~~~~~~~~---~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~ 228 (332)
T cd06344 155 FTSALLERGGGIVVTPCDLSS---PDFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG---RLTLLGGDSLYT 228 (332)
T ss_pred HHHHHHHhcCCeeeeeccCCC---CCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---CceEEecccccC
Confidence 9999999 5888876544433 45578889999999999999999999888899999998774 334555544332
Q ss_pred ccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCC
Q 047109 235 FLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISN 314 (808)
Q Consensus 235 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~ 314 (808)
. +... ..... .+|+++..++.+..+..++|.+.|++.++.. ++.+++.+||+++++++|++++++. +
T Consensus 229 ~-~~~~-~~~~~-~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------~~~~a~~~Yda~~~l~~A~~~ag~~--~ 295 (332)
T cd06344 229 P-DTLL-DGGKD-LEGLVLAVPWHPLASPNSPFAKLAQQLWGGD--------VSWRTATAYDATKALIAALSQGPTR--E 295 (332)
T ss_pred H-HHHH-hchhh-hcCeEEEEecccccccchHHHHHHHHHhcCC--------chHHHHhHHHHHHHHHHHHHhCCCh--h
Confidence 1 1111 11223 6677777777666677899999999988753 5667999999999999999999876 6
Q ss_pred hHHHH-HHHHcCccccceeEEEe-eCCcccC
Q 047109 315 ETCYY-KQILNSRFTGLSGDFQL-INGKLTS 343 (808)
Q Consensus 315 ~~~l~-~~l~~~~~~g~tG~v~f-~~g~~~~ 343 (808)
+..+. ..+++..|+|+.|++.| ++|++..
T Consensus 296 ~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~ 326 (332)
T cd06344 296 GVQQVELSLRNFSVQGATGKIKFLPSGDRNG 326 (332)
T ss_pred hhhhhhhhcccccccCCCceeEeCCCCcccC
Confidence 66666 67888889999999999 9999876
No 50
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=100.00 E-value=1.1e-33 Score=301.64 Aligned_cols=320 Identities=13% Similarity=0.115 Sum_probs=268.6
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||+++|++|+. |.....|+++|+++||+.+|+++++|++++.|+++||..+++++++|+.+++|.+|+|+. +|..
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 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGILGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCY-TSAS 79 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecc-cHHH
Confidence 699999999985 888999999999999999999899999999999999999999999999888999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFD 158 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 158 (808)
+.++.+++++.++|+|++++.... ..+ ++||+.|++. .++.++++++...+|+++++++.|+.||. ...+.+++
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~-~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~v~il~~d~~~g~-~~~~~~~~ 154 (333)
T cd06331 80 RKAVLPVVERGRGLLFYPTQYEGG-ECSPNVFYTGATPN---QQLLPLIPYLMEKYGKRFYLIGSDYVWPR-ESNRIARA 154 (333)
T ss_pred HHHHHHHHHhcCceEEeCCCCCCC-cCCCCeEEccCChH---HhHHHHHHHHHHhcCCeEEEECCCchhHH-HHHHHHHH
Confidence 999999999999999998764443 333 8999999998 88999999886666999999999999999 99999999
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccccccc
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHS 238 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~ 238 (808)
.+++.|.+++....++. +..|+.+++.++++.++|+|++.+...++..+++++++.|+..... ++.+...... ..
T Consensus 155 ~~~~~G~~vv~~~~~~~---~~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~-~~~~~~~~~~-~~ 229 (333)
T cd06331 155 LLEELGGEVVGEEYLPL---GTSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRI-PILSLTLDEN-EL 229 (333)
T ss_pred HHHHcCCEEEEEEEecC---CcccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCC-eeEEcccchh-hh
Confidence 99999999998888876 5689999999999999999999999999999999999999843333 3333322211 11
Q ss_pred CCccccccccceeEEEeecc--CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCChH
Q 047109 239 MDSSVVESSMQGVLGFKRYV--PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISNET 316 (808)
Q Consensus 239 ~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~~~ 316 (808)
. ...... ..|+++..++. .+.+..++|.++|+++++... .++.+++.+||+++++++|++++++. ++.
T Consensus 230 ~-~~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~yda~~~~~~A~~~ag~~--~~~ 299 (333)
T cd06331 230 A-AIGAEA-AEGHYSAASYFQSLDTPENKAFVARYRARYGDDA------VINSPAEAAYEAVYLWAAAVEKAGST--DPE 299 (333)
T ss_pred h-ccChhh-hCCcEeechhhhhcCChhHHHHHHHHHHHcCCCc------CCCchhHHHHHHHHHHHHHHHHcCCC--CHH
Confidence 1 111122 56766665443 346778999999998876431 24567899999999999999999886 899
Q ss_pred HHHHHHHcCccccceeEEEe-eCCcccC
Q 047109 317 CYYKQILNSRFTGLSGDFQL-INGKLTS 343 (808)
Q Consensus 317 ~l~~~l~~~~~~g~tG~v~f-~~g~~~~ 343 (808)
.|.++|++++|+|++|.+.| +++.+..
T Consensus 300 ~l~~al~~~~~~~~~G~i~f~~~~~~~~ 327 (333)
T cd06331 300 AVRAALEGVSFDAPQGPVRIDPDNHHTW 327 (333)
T ss_pred HHHHHhhcCcccCCCCceEecCCCCccc
Confidence 99999999999999999999 6555543
No 51
>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=5.2e-34 Score=305.43 Aligned_cols=318 Identities=16% Similarity=0.220 Sum_probs=269.3
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCC---CcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCC
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNT---HYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMT 76 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~---~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~ 76 (808)
|||++.|++|+. |.+...|+++|+++||+.+| +.+++|+++++|++++|..+++++++|+.+++|.+|+||. +
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~-~ 79 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAY-Q 79 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEeccc-c
Confidence 699999999975 88899999999999999996 4569999999999999999999999999988999999999 9
Q ss_pred hhHHHHHHHhcCCCCccEEeccCCCCccccc----ceeeeccCCchhhHHHHHHHHHHHhc------CCcEEEEEEecCC
Q 047109 77 PTGAHILAEIGSKAKIPVISLYATLPSSLTS----YSIQIDQDDEASQSQAKGIADLIRVF------KWKHVILIYEDNT 146 (808)
Q Consensus 77 s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~----~~~r~~p~~~~~~~~~~a~~~ll~~~------~w~~v~ii~~d~~ 146 (808)
|..+.++++++++++||+|+++++++. +++ ++||+.|++. .++.++++++.++ +|++++++++++.
T Consensus 80 s~~~~a~~~~~~~~~ip~i~~~~~~~~-l~~~~~~~~fr~~p~~~---~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~ 155 (347)
T cd06340 80 SAVTLAASQVAERYGVPFVVDGAVSDS-ITERGFKYTFRITPHDG---MFTRDMFDFLKDLNEKTGKPLKTVALVHEDTE 155 (347)
T ss_pred hHhHHHHHHHHHHhCCCEEeccccchH-HhhcCCceEEecCCChH---HHHHHHHHHHHHhhHhcCCCCceEEEEecCch
Confidence 999999999999999999999888887 764 7999999999 9999999999876 4699999999999
Q ss_pred ccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 047109 147 WGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSW 226 (808)
Q Consensus 147 ~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~ 226 (808)
||. ...+.+++.+++.|++|+..+.++. +..|+.+++.+++++++|+|++.+...++..+++++++.|+.. ..++
T Consensus 156 ~g~-~~~~~~~~~~~~~G~~vv~~~~~~~---~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~ 230 (347)
T cd06340 156 FGT-SVAEAIKKFAKERGFEIVEDISYPA---NARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEP-KAVY 230 (347)
T ss_pred HhH-HHHHHHHHHHHHcCCEEEEeeccCC---CCcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCC-cEEE
Confidence 999 9999999999999999998888876 4679999999999999999999999999999999999999832 2222
Q ss_pred EEeCccccccccCCccccccccceeEEEeeccCC-cHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHH
Q 047109 227 IVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPA-SKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKAS 305 (808)
Q Consensus 227 i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al 305 (808)
...+..... ... ...... .+|+++..++.++ .+..++|.++|++.|+.. ++.++..+||+++++++|+
T Consensus 231 ~~~~~~~~~-~~~-~~~g~~-~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~~~--------~~~~~~~~Y~a~~~l~~A~ 299 (347)
T cd06340 231 SVGGGAEDP-SFV-KALGKD-AEGILTRNEWSDPKDPMAKDLNKRFKARFGVD--------LSGNSARAYTAVLVIADAL 299 (347)
T ss_pred ecCCCcCcH-HHH-HHhhHh-hheEEeccccCCCCChHHHHHHHHHHHHhCCC--------CChHHHHHHHHHHHHHHHH
Confidence 222211111 000 111223 6677776655443 688999999999988653 4567899999999999999
Q ss_pred HHHhhhcCChHHHH--HHHHcCccc---cceeEEEe-eCCcccC
Q 047109 306 EKLKTEISNETCYY--KQILNSRFT---GLSGDFQL-INGKLTS 343 (808)
Q Consensus 306 ~~~~~~~~~~~~l~--~~l~~~~~~---g~tG~v~f-~~g~~~~ 343 (808)
+++++. ++..+. .+|++..+. +++|++.| ++|+..+
T Consensus 300 ~~ag~~--~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~ 341 (347)
T cd06340 300 ERAGSA--DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTN 341 (347)
T ss_pred HHhcCC--CHHHHHHHHHhccCCccccccCCCCeeECCCCCccc
Confidence 999987 888899 488888765 46899999 9999887
No 52
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.8e-33 Score=301.04 Aligned_cols=316 Identities=18% Similarity=0.247 Sum_probs=270.3
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||+++|++|+. |.....|+++|+++||+++|+.+++|++++.|++++|.++++.+++++++++|.+||||. ++..
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~-~s~~ 79 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGVLGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPV-TSGA 79 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCC-ccHh
Confidence 699999999976 788999999999999999998889999999999999999999999999888999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc---ceeeeccCCchhhHHHHHHHHHH-HhcCCcEEEEEEecC-CccccCcHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS---YSIQIDQDDEASQSQAKGIADLI-RVFKWKHVILIYEDN-TWGSDNIIP 154 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~---~~~r~~p~~~~~~~~~~a~~~ll-~~~~w~~v~ii~~d~-~~g~~~~~~ 154 (808)
+.+++++++..+||+|+++++.+. +++ ++||+.|++. .++.++++++ ++++|+++++|+.++ +|+. ...+
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~-~~~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~-~~~~ 154 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPK-VTQGKDYVFRVCFIDP---FQGTVMAKFATENLKAKKAAVLYDNSSDYSK-GLAK 154 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCC-cccCCCeEEEeeCCcH---HHHHHHHHHHHHhcCCcEEEEEEeCCCchhH-HHHH
Confidence 999999999999999999988877 776 8999999988 8899999987 678999999999886 8998 8889
Q ss_pred HHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 047109 155 YLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN 234 (808)
Q Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 234 (808)
.+++.+++.|++++....++. +..++.+.++++++.++++|++.+...+...+++++++.|+ ...|+.++.|..
T Consensus 155 ~~~~~~~~~g~~v~~~~~~~~---~~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~---~~~i~~~~~~~~ 228 (334)
T cd06347 155 AFKEAFKKLGGEIVAEETFNA---GDTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGI---KVPILGGDGWDS 228 (334)
T ss_pred HHHHHHHHcCCEEEEEEEecC---CCCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCC---CCcEEecccccC
Confidence 999999999999998877766 45689999999999999999999999999999999999997 345777666653
Q ss_pred ccccCCccccccccceeEEEeeccC--CcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhc
Q 047109 235 FLHSMDSSVVESSMQGVLGFKRYVP--ASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEI 312 (808)
Q Consensus 235 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~ 312 (808)
... . ...... ..|+.....+.+ ..+..++|.++|++.++.. +..++..+||++.++++|+++++..
T Consensus 229 ~~~-~-~~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------~~~~~~~~yda~~~~~~Al~~ag~~- 296 (334)
T cd06347 229 PKL-E-EAGGAA-AEGVYFTTHFSADDPTPKAKKFVKAYKAKYGKE--------PDAFAALGYDAYYLLADAIERAGST- 296 (334)
T ss_pred HHH-H-HHHHHH-hCCcEEecccCCCCCCHHHHHHHHHHHHHHCCC--------cchhHHHHHHHHHHHHHHHHHhCCC-
Confidence 211 0 111122 556655555443 3578899999998877632 5667889999999999999999876
Q ss_pred CChHHHHHHHHcC-ccccceeEEEe-eCCcccC
Q 047109 313 SNETCYYKQILNS-RFTGLSGDFQL-INGKLTS 343 (808)
Q Consensus 313 ~~~~~l~~~l~~~-~~~g~tG~v~f-~~g~~~~ 343 (808)
++..+.+.|++. +|+|++|++.| .+|+...
T Consensus 297 -~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~ 328 (334)
T cd06347 297 -DPEAIRDALAKTKDFDGVTGKITIDENGNPVK 328 (334)
T ss_pred -CHHHHHHHHHhCCCcccceeeeEECCCCCcCC
Confidence 888999998765 79999999999 8898877
No 53
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=6.5e-33 Score=296.80 Aligned_cols=327 Identities=15% Similarity=0.195 Sum_probs=271.7
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|+||+. |.+...|+++|++++|+++|+.+++|+++++|++++|..+++.+.+|+.+++|.+|+|+. +|+.
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 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGVGGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDF-SSGV 79 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCcCCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCC-ccHh
Confidence 699999999986 899999999999999999999889999999999999999999999999998999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc---ceeeeccCCchhhHHHHHHHHHH-HhcCCcEEEEEEecCCccccCcHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS---YSIQIDQDDEASQSQAKGIADLI-RVFKWKHVILIYEDNTWGSDNIIPY 155 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~---~~~r~~p~~~~~~~~~~a~~~ll-~~~~w~~v~ii~~d~~~g~~~~~~~ 155 (808)
+.++.+++...++|+|+++++.+. +++ ++||+.|++. .++.++++++ ++.+|+++++++.+++||. ...+.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~-~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~~v~ii~~~~~~g~-~~~~~ 154 (340)
T cd06349 80 SMAASPIYQRAGLVQLSPTNSHPD-FTKGGDFIFRNSTSQA---IEAPLLADYAVKDLGFKKVAILSVNTDWGR-TSADI 154 (340)
T ss_pred HHHhHHHHHhCCCeEEecCCCCCc-cccCCCeEEEccCCcH---HHHHHHHHHHHHHcCCcEEEEEecCChHhH-HHHHH
Confidence 999999999999999999887777 765 9999999998 8999999986 6789999999999999999 99999
Q ss_pred HHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccc
Q 047109 156 LFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNF 235 (808)
Q Consensus 156 ~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~ 235 (808)
+++.+++.|++|+....++. +..|+.+++.+++++++|+|++.+.+.+...+++++++.|+.. .++........
T Consensus 155 ~~~~~~~~g~~v~~~~~~~~---~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~ 228 (340)
T cd06349 155 FVKAAEKLGGQVVAHEEYVP---GEKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDI---PVVASSSVYSP 228 (340)
T ss_pred HHHHHHHcCCEEEEEEEeCC---CCCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCC---cEEccCCcCCH
Confidence 99999999999998777766 5679999999999999999999999999999999999999832 24443332211
Q ss_pred cccCCccccccccceeEEEeeccC--CcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcC
Q 047109 236 LHSMDSSVVESSMQGVLGFKRYVP--ASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEIS 313 (808)
Q Consensus 236 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~ 313 (808)
... ...... ..|++....+.+ +.+..++|.++|+++|+.. ++.++..+||++.++++|+++++..
T Consensus 229 -~~~-~~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------p~~~~~~~y~~~~~~~~a~~~ag~~-- 295 (340)
T cd06349 229 -KFI-ELGGDA-VEGVYTPTAFFPGDPRPEVQSFVSAYEAKYGAQ--------PDAFAAQAYDAVGILAAAVRRAGTD-- 295 (340)
T ss_pred -HHH-HHhHHH-hCCcEEecccCCCCCCHHHHHHHHHHHHHHCCC--------cchhhhhHHHHHHHHHHHHHHhCCC--
Confidence 100 011122 567666554433 4578899999998887643 4567899999999999999999875
Q ss_pred ChHHHHHH-HHcCccccceeEEEe-eC-CcccCCccEEEEEeecCc
Q 047109 314 NETCYYKQ-ILNSRFTGLSGDFQL-IN-GKLTSSRAFEIVNVIGKT 356 (808)
Q Consensus 314 ~~~~l~~~-l~~~~~~g~tG~v~f-~~-g~~~~~~~~~i~~~~~~~ 356 (808)
....+... +.+..+.+++|++.| .+ |+... .+.++.+++++
T Consensus 296 ~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~--~~~~~~~~~g~ 339 (340)
T cd06349 296 RRAARDGFAKAEDVYSGVTGSTKFDPNTRRVIK--RFVPLVVRNGK 339 (340)
T ss_pred CHHHHHHHHHhccCcccceEeEEECCCCCCccC--ceEEEEEeCCc
Confidence 44444333 245568899999999 65 76666 78888776543
No 54
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=2.9e-33 Score=299.21 Aligned_cols=314 Identities=17% Similarity=0.191 Sum_probs=266.9
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||++.|++|+. |...+.|+++|+++||+.+|+++++|++++.|++++|.++++.+++|+++ +|.+||||. +|..
T Consensus 1 ~IG~l~p~sG~~a~~G~~~~~g~~~a~~~iN~~GGi~G~~i~l~~~D~~~~p~~a~~~a~~lv~~-~v~aiiG~~-~s~~ 78 (342)
T cd06329 1 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVDGRPIELVEEDNKGSPQEALRKAQKAIDD-GVRLVVQGN-SSSV 78 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCChHHHHHHHHHHHHh-CCeEEEccc-chHH
Confidence 699999999975 88899999999999999999999999999999999999999999999988 999999999 9999
Q ss_pred HHHH-------HHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcC-CcEEEEEEecCC
Q 047109 80 AHIL-------AEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFK-WKHVILIYEDNT 146 (808)
Q Consensus 80 ~~~~-------~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~-w~~v~ii~~d~~ 146 (808)
+.++ .+++..+++|+|+++++++. +++ ++||+.|++. .++.++++++.+.+ |+++++++.|+.
T Consensus 79 ~~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~-~~~~~~~~~~fr~~~~~~---~~~~~l~~~~~~~~~~k~v~i~~~~~~ 154 (342)
T cd06329 79 ALALTEAVRKHNQRNPGKEVLYLNYASVAPA-LTGEKCSFWHFRTDANTD---MKMEALASYIKKQPDGKKVYLINQDYS 154 (342)
T ss_pred HHHhhhhhhhhhhhhccCCeEEEecCCCCch-hhhccCcceEEEecCChH---HHHHHHHHHHHhcccCceEEEEeCChH
Confidence 9998 78888999999999887777 653 8999999999 99999999998775 999999999999
Q ss_pred ccccCcHHHHHHhhhc--CCcEEEEEEecCCCCCCh-HHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 047109 147 WGSDNIIPYLFDSLHD--NDIDIARRITISMSSNTD-DQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKG 223 (808)
Q Consensus 147 ~g~~~~~~~~~~~~~~--~g~~i~~~~~~~~~~~~~-~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~ 223 (808)
||. +..+.+.+.+++ .|++|+....++. +. .|+.+++.++++.++|+|++...+.++..+++++++.|+.
T Consensus 155 ~g~-~~~~~~~~~~~~~~~G~~vv~~~~~~~---~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~--- 227 (342)
T cd06329 155 WGQ-DVAAAFKAMLAAKRPDIQIVGEDLHPL---GKVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLK--- 227 (342)
T ss_pred HHH-HHHHHHHHHHHhhcCCcEEeceeccCC---CCCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCC---
Confidence 999 999999999999 9999998777766 55 7999999999999999999999888999999999999983
Q ss_pred eEEEEeCccccccccCCccccccccceeEEEeecc--CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHH
Q 047109 224 YSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYV--PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWAL 301 (808)
Q Consensus 224 ~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~ 301 (808)
..++........+. ...... ..|.+....+. .+.+..++|.++|++.++.. ++.++..+||++.++
T Consensus 228 ~~~~~~~~~~~~~~---~~~g~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------~~~~~~~~y~~~~~~ 295 (342)
T cd06329 228 LPFYTPYLDQPGNP---AALGEA-GLGLVVAVAYWHPNDTPANRAFVEAFKAKYGRV--------PDYYEGQAYNGIQML 295 (342)
T ss_pred ceEEeccccchhHH---Hhhccc-ccceEEeeeccCCCCCHHHHHHHHHHHHHhCCC--------CCchHHHHHHHHHHH
Confidence 23444433222111 111122 45655554443 23678899999999888642 455688999999999
Q ss_pred HHHHHHHhhhcCChHHHHHHHHcCccccceeEEEe--eCCcccC
Q 047109 302 AKASEKLKTEISNETCYYKQILNSRFTGLSGDFQL--INGKLTS 343 (808)
Q Consensus 302 a~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~f--~~g~~~~ 343 (808)
++|++++++. ++..+.++|++++|+|..|++.| .+++...
T Consensus 296 ~~a~~~ag~~--~~~~v~~al~~~~~~~~~g~~~~~~~~~~~~~ 337 (342)
T cd06329 296 ADAIEKAGST--DPEAVAKALEGMEVDTPVGPVTMRASDHQAQQ 337 (342)
T ss_pred HHHHHHhCCC--CHHHHHHHHhCCccccCCCCeEEcccCcchhc
Confidence 9999999886 89999999999999999999999 4565554
No 55
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=7.4e-33 Score=299.11 Aligned_cols=335 Identities=13% Similarity=0.173 Sum_probs=275.7
Q ss_pred CeEEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCCh
Q 047109 1 EVHVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTP 77 (808)
Q Consensus 1 ~i~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s 77 (808)
+|+||+++|++|+. |.....++++|++++|+.+|+++++|++++.|+++++..+++.+.+|+.+++|.+|||+. +|
T Consensus 6 ~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~-~s 84 (362)
T cd06343 6 EIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGINGRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGL-GT 84 (362)
T ss_pred eEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcCCeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecC-Cc
Confidence 69999999999986 888999999999999999999999999999999999999999999999888999999999 99
Q ss_pred hHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHH-HhcCCcEEEEEEecCCccccC
Q 047109 78 TGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLI-RVFKWKHVILIYEDNTWGSDN 151 (808)
Q Consensus 78 ~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll-~~~~w~~v~ii~~d~~~g~~~ 151 (808)
..+.++.+++...+||+|++.++++. +++ ++||+.|++. .++.++++++ ++++|++++++++++.||. +
T Consensus 85 ~~~~~~~~~~~~~~ip~i~~~~~~~~-~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~-~ 159 (362)
T cd06343 85 PTNLAVQKYLNEKKVPQLFPASGASK-WNDPKPFPWTFGWQPSYQ---DEARIYAKYLVEEKPNAKIAVLYQNDDFGK-D 159 (362)
T ss_pred HHHHHhHHHHHhcCCceEecccccHh-hhCCCCCCceEecCCChH---HHHHHHHHHHHHhCCCceEEEEEeccHHHH-H
Confidence 99999999999999999998877766 653 8999999999 9999999965 6789999999999999999 9
Q ss_pred cHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 047109 152 IIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTAS 231 (808)
Q Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 231 (808)
..+.+++.+++.|++++..+.++. +..|+.+++++++++++|+|++.+...++..+++++++.|+. . .++..+.
T Consensus 160 ~~~~~~~~~~~~G~~vv~~~~~~~---~~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~--~-~~~~~~~ 233 (362)
T cd06343 160 YLKGLKDGLGDAGLEIVAETSYEV---TEPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWK--P-TFLLSSV 233 (362)
T ss_pred HHHHHHHHHHHcCCeEEEEeeecC---CCccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCC--c-eEEEEec
Confidence 999999999999999998888876 567999999999999999999999999999999999999984 2 2555544
Q ss_pred cccccccCCccccccccceeEEEeecc-------CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHH
Q 047109 232 TMNFLHSMDSSVVESSMQGVLGFKRYV-------PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKA 304 (808)
Q Consensus 232 ~~~~~~~~~~~~~~~~~~g~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~A 304 (808)
+.............. ..|+++...+. ...+..++|.+.+++.++... .++.++..+||++.++++|
T Consensus 234 ~~~~~~~~~~~~~~~-~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~y~a~~~~~~a 306 (362)
T cd06343 234 SASVASVLKPAGLEA-AEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGD------PPDTYAVYGYAAAETLVKV 306 (362)
T ss_pred ccccHHHHHHhhhHh-hCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCC------CCchhhhHHHHHHHHHHHH
Confidence 332111011111222 55666544332 245778999999988876431 1456788999999999999
Q ss_pred HHHHhhhcCChHHHHHHHHcCcc---cc-ceeEEEe-eC-CcccCCccEEEEEeecCcE
Q 047109 305 SEKLKTEISNETCYYKQILNSRF---TG-LSGDFQL-IN-GKLTSSRAFEIVNVIGKTV 357 (808)
Q Consensus 305 l~~~~~~~~~~~~l~~~l~~~~~---~g-~tG~v~f-~~-g~~~~~~~~~i~~~~~~~~ 357 (808)
+++++..+ +++.+.++|+++++ .+ ..|++.| .+ +.... .+.|.++++++|
T Consensus 307 ~~~ag~~~-~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~~~~~g~~ 362 (362)
T cd06343 307 LKQAGDDL-TRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIE--QMQLMRFEGGRW 362 (362)
T ss_pred HHHhCCCC-CHHHHHHHHHhCCCCCccccCccceecCccccccce--eEEEEEEecCcC
Confidence 99997532 78999999999886 33 3457999 44 44444 788888876543
No 56
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=100.00 E-value=2.5e-32 Score=293.34 Aligned_cols=339 Identities=13% Similarity=0.117 Sum_probs=273.3
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|+||+. |...+.|+++|+++||+.||+++++|++++.|++++|..+++++++|+++++|.+|+|+. +|..
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 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVLGRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCY-TSSS 79 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCc-cHHH
Confidence 699999999975 999999999999999999999999999999999999999999999999988999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHh
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDS 159 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~ 159 (808)
+.++.+++...++|++++++......++++|++.++.. ..+.++++++...+-+++++++.|+.||+ +..+.+.+.
T Consensus 80 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~v~~i~~d~~~g~-~~~~~~~~~ 155 (360)
T cd06357 80 RKAVLPVVERHDALLWYPTLYEGFEYSPNVIYTGAAPN---QNSVPLADYLLRHYGKRVFLVGSNYIYPY-ESNRIMRDL 155 (360)
T ss_pred HHHHHHHHHhcCceEEeCCCccCCcccCCEEEeCCCcH---HHHHHHHHHHHhcCCcEEEEECCCCcchH-HHHHHHHHH
Confidence 99999999999999998765432202226777777777 77888999887655589999999999999 999999999
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccC
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSM 239 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 239 (808)
+++.|++++....++. ..+..|+.+++.+++++++|+|++.+...++..++++++++|+... ...+.+...... ..
T Consensus 156 ~~~~G~~vv~~~~~~~-~~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~~~-~~- 231 (360)
T cd06357 156 LEQRGGEVLGERYLPL-GASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPA-RMPIASLTTSEA-EV- 231 (360)
T ss_pred HHHcCCEEEEEEEecC-CCchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCcc-CceeEEeeccHH-HH-
Confidence 9999999988665665 3347899999999999999999999999999999999999998433 233333322110 11
Q ss_pred CccccccccceeEEEeecc--CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCChHH
Q 047109 240 DSSVVESSMQGVLGFKRYV--PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISNETC 317 (808)
Q Consensus 240 ~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~~~~ 317 (808)
.....++ .+|+++...+. .+.|..++|.++|+++|+... .++.+++.+||++.++++|++++++. ++..
T Consensus 232 ~~~~g~~-~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~------~~~~~~~~~yda~~~l~~Al~~ag~~--~~~~ 302 (360)
T cd06357 232 AAMGAEA-AAGHITAAPYFSSIDTPANRAFVARYRARFGEDA------PVSACAEAAYFQVHLFARALQRAGSD--DPED 302 (360)
T ss_pred hhcchHh-hCCcEEecccccccCChhHHHHHHHHHHHcCCCC------CCCcHHHHHHHHHHHHHHHHHHcCCC--CHHH
Confidence 0111233 66777665442 356789999999999887531 13557889999999999999999987 8999
Q ss_pred HHHHHHcCccccceeEEEe-eCCc-ccCCccEEEEEe-ecCcEEEEE
Q 047109 318 YYKQILNSRFTGLSGDFQL-INGK-LTSSRAFEIVNV-IGKTVKIVG 361 (808)
Q Consensus 318 l~~~l~~~~~~g~tG~v~f-~~g~-~~~~~~~~i~~~-~~~~~~~vg 361 (808)
+.++|++.+|+++.|.+.| ..++ ... ...+.++ ++++|+.+.
T Consensus 303 v~~aL~~~~~~~~~g~~~f~~~~~~~~~--~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 303 VLAALLGFSFDAPQGPVRIDPDNNHTYL--WPRIARVNADGQFDIVR 347 (360)
T ss_pred HHHHhccCcccCCCcceEEeCCCCeeee--eeEEEEEcCCCCEEEEE
Confidence 9999999999999999999 5543 434 5566666 444566654
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=3.5e-33 Score=297.90 Aligned_cols=315 Identities=17% Similarity=0.160 Sum_probs=268.5
Q ss_pred EEEEEEecCCcc----hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 3 HVGVILDMRSWA----GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 3 ~IG~i~~~~~~~----g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
+||++.|++|+. |.....|+++|+++|| +|+++++|++++.|++++|.++++++.+|+++++|.+|||+. +|.
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--GGVLGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGP-NSA 77 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc--CCccCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCc-cHH
Confidence 699999999976 7888999999999999 888889999999999999999999999999888999999999 999
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcH
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNII 153 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~ 153 (808)
.+.++.+++++.+||+|+++++++. +++ ++||+.|++. .++.++++++...+++++++++.++.||. ...
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~-~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~v~~i~~~~~~g~-~~~ 152 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDD-LTGKDCSPYTFHWAYDTY---MLANGTAPALVKAGGKKWFFLTADYAFGH-SLE 152 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccc-cccCCCCCceEEccCChH---HHHHHHHHHHHHhcCCeEEEEecchHHhH-HHH
Confidence 9999999999999999999988877 764 8999999999 99999999887777999999999999999 999
Q ss_pred HHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccc
Q 047109 154 PYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTM 233 (808)
Q Consensus 154 ~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 233 (808)
+.+++.+++.|++++....++. +.+|+.+++.++++.++|+|++.+...++..+++++++.|+. ....++....+.
T Consensus 153 ~~~~~~~~~~G~~vv~~~~~~~---~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~~~~~~~~ 228 (334)
T cd06327 153 RDARKVVKANGGKVVGSVRHPL---GTSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLT-KGQKLAGLLLFL 228 (334)
T ss_pred HHHHHHHHhcCCEEcCcccCCC---CCccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCc-cCCcEEEecccH
Confidence 9999999999999998877766 567999999999999999999999999999999999999984 233333332222
Q ss_pred cccccCCccccccccceeEEEeecc--CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhh
Q 047109 234 NFLHSMDSSVVESSMQGVLGFKRYV--PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTE 311 (808)
Q Consensus 234 ~~~~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~ 311 (808)
.... ...... .+|++....+. .+.+..++|.++|++.++.. ++.++..+||+++++++|++++++.
T Consensus 229 ~~~~---~~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~--------p~~~~~~~Y~~~~~~~~A~~~ag~~ 296 (334)
T cd06327 229 TDVH---SLGLDA-AQGLYLTTAWYWDLPNDETRAFVKRFQAKYGKM--------PSMVQAGAYSAVLHYLKAVEAAGTD 296 (334)
T ss_pred HHHH---hhchhh-hcCeEEeeeccccCCCHHHHHHHHHHHHHHCcC--------CCcHHHHHHHHHHHHHHHHHHHCCC
Confidence 1111 111122 56766655543 33678999999999988653 4557889999999999999999987
Q ss_pred cCChHHHHHHHHcCc-cccceeEEEe-e-CCcccC
Q 047109 312 ISNETCYYKQILNSR-FTGLSGDFQL-I-NGKLTS 343 (808)
Q Consensus 312 ~~~~~~l~~~l~~~~-~~g~tG~v~f-~-~g~~~~ 343 (808)
++.++.++|++++ ++++.|+++| . +|+...
T Consensus 297 --~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~~ 329 (334)
T cd06327 297 --DADKVVAKMKETPIYDLFAGNGYIRACDHQMVH 329 (334)
T ss_pred --ChHHHHHhccccceeccCCCCceeeccccchhc
Confidence 8888999999975 6888999999 5 787665
No 58
>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=1.6e-32 Score=292.60 Aligned_cols=321 Identities=12% Similarity=0.157 Sum_probs=265.3
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||+++|++|+. |.....|+++|++++| +++.+++|+++++|++++|.++++++.+|+.+++|.+|+|+. +|..
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--GKLGGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVV-FSNV 77 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhC--CccCCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccC-CcHH
Confidence 699999999976 8889999999999998 677779999999999999999999999999888999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIP 154 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~ 154 (808)
+.++.+++...+||+|+++++.+. +.+ ++||+.|++. .+..++++++...+|++++++++|+.||. ...+
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~-~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~g~~~vail~~~~~~g~-~~~~ 152 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQ-LAGKQCSPYFFSTSWQND---QVHEAMGKYAQDKGYKRVFLIAPNYQAGK-DALA 152 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccc-cccccCCCcEEEeeCChH---hhHHHHHHHHHHhCCCeEEEEecCchhhH-HHHH
Confidence 999999999999999999776665 542 8999999999 99999999998899999999999999999 8888
Q ss_pred HHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 047109 155 YLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN 234 (808)
Q Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 234 (808)
.+++.++ .+++....++. +..|+.+++.+++++++|+|++......+..+++++++.|+. +...++.+.....
T Consensus 153 ~~~~~~~---~~v~~~~~~~~---~~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~-~~~~~~~~~~~~~ 225 (333)
T cd06359 153 GFKRTFK---GEVVGEVYTKL---GQLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLK-KDIPLYSPGFSDE 225 (333)
T ss_pred HHHHHhC---ceeeeeecCCC---CCcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCcc-cCCeeeccCcccC
Confidence 8888774 35555554444 567999999999999999999988888899999999999973 2344554443332
Q ss_pred ccccCCccccccccceeEEEeeccC--CcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhc
Q 047109 235 FLHSMDSSVVESSMQGVLGFKRYVP--ASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEI 312 (808)
Q Consensus 235 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~ 312 (808)
. +.. ...... .+|++....+.+ +++..++|.++|+++++.. ++.++..+||++.++++|+++++...
T Consensus 226 ~-~~~-~~~g~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------~~~~~~~~yda~~~~~~A~~~ag~~~ 294 (333)
T cd06359 226 E-DTL-PAVGDA-ALGLYNTAQWAPDLDNPANKKFVADFEKKYGRL--------PTLYAAQAYDAAQLLDSAVRKVGGNL 294 (333)
T ss_pred H-HHH-Hhcchh-hcCeeeccccCCCCCCHHHHHHHHHHHHHhCCC--------CcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 1 111 111123 567776555544 4688999999999888642 56678999999999999999998642
Q ss_pred CChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEE
Q 047109 313 SNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVN 351 (808)
Q Consensus 313 ~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~ 351 (808)
.++..+.++|+++.|+|++|++.| .+|+... .+.+++
T Consensus 295 ~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~~--~~~~~~ 332 (333)
T cd06359 295 SDKDALRAALRAADFKSVRGAFRFGTNHFPIQ--DFYLRE 332 (333)
T ss_pred CCHHHHHHHHhcCccccCccceEECCCCCcce--eEEEEe
Confidence 368899999999999999999999 8888777 666654
No 59
>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=1.7e-32 Score=291.76 Aligned_cols=320 Identities=10% Similarity=0.081 Sum_probs=264.0
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||++.|+||+. |.....|+++|+++||+.+|+++++|++++.|++++|..+++++++|+.+++|.+|||+. +|..
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 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGILGREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGI-SSAS 79 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCCCceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCc-chHH
Confidence 699999999987 999999999999999999999999999999999999999999999999888999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFD 158 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 158 (808)
+.++.+++++.++|+|++.+.... .++ ++||+.+++. .++.++++++...+-+++++|+.|++||. +..+.+++
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~-~~~~~~F~~~~~~~---~~~~~~~~~~~~~~~~~vail~~d~~~g~-~~~~~~~~ 154 (334)
T cd06356 80 REAIRPIMDRTKQLYFYTTQYEGG-VCDRNTFCTGATPA---QQFSTLVPYMMEKYGKKVYTIAADYNFGQ-ISAEWVRK 154 (334)
T ss_pred HHHHHHHHHhcCceEEeCCCccCC-cccCCEEEeCCCcH---HHHHHHHHHHHHccCCeEEEECCCchhhH-HHHHHHHH
Confidence 999999999999999987554443 444 9999999999 99999999887654488999999999999 99999999
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccccccc
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHS 238 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~ 238 (808)
.+++.|++++....++. +..|+.++++++++.++|+|++.....+...+++++++.|+ . ....+...........
T Consensus 155 ~~~~~G~~vv~~~~~~~---~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~-~-~~~~~~~~~~~~~~~~ 229 (334)
T cd06356 155 IVEENGGEVVGEEFIPL---DVSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL-G-NIPMASSTLGAQGYEH 229 (334)
T ss_pred HHHHcCCEEEeeeecCC---CchhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC-c-cCceeeeecccchhHH
Confidence 99999999998888876 67899999999999999999999888899999999999998 2 2222222111111000
Q ss_pred CCccccccccceeEEEeeccC--CcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCChH
Q 047109 239 MDSSVVESSMQGVLGFKRYVP--ASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISNET 316 (808)
Q Consensus 239 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~~~ 316 (808)
. ...... .+|+++...+.+ ..+..++|.++|+++++..+ .++..++.+||++.++++|++++++. ++.
T Consensus 230 ~-~~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p------~~~~~~~~~y~a~~~~~~A~~~ag~~--~~~ 299 (334)
T cd06356 230 K-RLKPPA-LKDMYATANYIEELDTPANKAFVERFRAKFPDAP------YINEEAENNYEAIYLYKEAVEKAGTT--DRD 299 (334)
T ss_pred h-ccCchh-cCCeEEecchhhhcCCHHHHHHHHHHHHHcCCCC------CCCchhHHHHHHHHHHHHHHHHHCCC--CHH
Confidence 0 001122 566666554432 35778999999999886531 12456899999999999999999986 899
Q ss_pred HHHHHHHc-CccccceeEEEe-e-CCcccC
Q 047109 317 CYYKQILN-SRFTGLSGDFQL-I-NGKLTS 343 (808)
Q Consensus 317 ~l~~~l~~-~~~~g~tG~v~f-~-~g~~~~ 343 (808)
.|.++|++ ..++|+.|++.| . +|+...
T Consensus 300 ~v~~aL~~~~~~~~~~g~~~~~~~~h~~~~ 329 (334)
T cd06356 300 AVIEALESGLVCDGPEGKVCIDGKTHHTSH 329 (334)
T ss_pred HHHHHHHhCCceeCCCceEEEecCCCceee
Confidence 99999997 578999999999 4 555554
No 60
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=100.00 E-value=1.3e-32 Score=295.65 Aligned_cols=331 Identities=20% Similarity=0.275 Sum_probs=275.3
Q ss_pred CeEEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCCh
Q 047109 1 EVHVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTP 77 (808)
Q Consensus 1 ~i~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s 77 (808)
||+||++.|++|+. |.....|+++|++++|+.+|+++++|+++++|+++++..+.+++.+++++++|.+|+|+. ++
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 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGINGRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPL-SS 79 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEETTEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESS-SH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcCCccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecC-Cc
Confidence 79999999999987 888999999999999999999999999999999999999999999999977999999999 99
Q ss_pred hHHHHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHHHHHHHHH-HhcCCcEEEEEEecCCccccCcHHH
Q 047109 78 TGAHILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQAKGIADLI-RVFKWKHVILIYEDNTWGSDNIIPY 155 (808)
Q Consensus 78 ~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll-~~~~w~~v~ii~~d~~~g~~~~~~~ 155 (808)
..+.++.+.+...++|+|++++..+. ... ++||+.|++. .++.++++++ ++++.+++++++.++.+|. ...+.
T Consensus 80 ~~~~~~~~~~~~~~ip~i~~~~~~~~-~~~~~~f~~~~~~~---~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~-~~~~~ 154 (343)
T PF13458_consen 80 AQAEAVAPIAEEAGIPYISPSASSPS-PDSPNVFRLSPSDS---QQAAALAEYLAKKLGAKKVAIVYPDDPYGR-SLAEA 154 (343)
T ss_dssp HHHHHHHHHHHHHT-EEEESSGGGGT-TTHTTEEESS--HH---HHHHHHHHHHHHTTTTSEEEEEEESSHHHH-HHHHH
T ss_pred HHHHHHHHHHHhcCcEEEEeeccCCC-CCCCcEEEEecccc---HHHHHHHHHHHHHcCCcEEEEEecCchhhh-HHHHH
Confidence 99999999999999999997654433 223 9999999999 9999999986 5689999999999999999 99999
Q ss_pred HHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc-ccc
Q 047109 156 LFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTAS-TMN 234 (808)
Q Consensus 156 ~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~-~~~ 234 (808)
+.+.+++.|++++....++. +..|+..+++++++.++|+|++.+...+...+++++.+.|+..+. +++.... +..
T Consensus 155 ~~~~~~~~G~~vv~~~~~~~---~~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 230 (343)
T PF13458_consen 155 FRKALEAAGGKVVGEIRYPP---GDTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPR-IPLFGTSLDDA 230 (343)
T ss_dssp HHHHHHHTTCEEEEEEEE-T---TSSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCT-EEEEEGGGSSH
T ss_pred HHHHHhhcCceeccceeccc---ccccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhcccccc-ceeeccccCcH
Confidence 99999999999988777776 557999999999999999999999999999999999999974322 4444333 222
Q ss_pred ccccCCccccccccceeEEEeeccC--CcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhc
Q 047109 235 FLHSMDSSVVESSMQGVLGFKRYVP--ASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEI 312 (808)
Q Consensus 235 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~ 312 (808)
.+.. ..... ..|+++...+.+ ..+..++|.++|++.++... .++.++..+||++.+++.|++++++.
T Consensus 231 ~l~~---~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~yda~~~~~~al~~~g~~- 299 (343)
T PF13458_consen 231 SLQQ---LGGDA-LEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEP------PPSLYAAQGYDAARLLAQALERAGSL- 299 (343)
T ss_dssp HHHH---HHGGG-GTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTG------GTCHHHHHHHHHHHHHHHHHHHHTSH-
T ss_pred HHHH---hhhhh-ccCceeecccCCCCCCHHHHHHHHHHHHHcCCCC------CCchhHHHHHHHHHHHHHHHHHhCCC-
Confidence 1111 11122 667777666544 46789999999999997641 15678999999999999999999875
Q ss_pred CChHHHHHHHHcCccccceeEEEe--eCCcccCCccEEEEEeecC
Q 047109 313 SNETCYYKQILNSRFTGLSGDFQL--INGKLTSSRAFEIVNVIGK 355 (808)
Q Consensus 313 ~~~~~l~~~l~~~~~~g~tG~v~f--~~g~~~~~~~~~i~~~~~~ 355 (808)
++..+.++|++.+|+|+.|++.| .+|.... .+.|++++.+
T Consensus 300 -~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~--~~~i~~v~~~ 341 (343)
T PF13458_consen 300 -DREAVREALESLKYDGLFGPISFDPPDHQANK--PVYIVQVKSD 341 (343)
T ss_dssp -HHHHHHHHHHTSEEEETTEEEEEETTTSBEEE--EEEEEEEETT
T ss_pred -CHHHHHHHHHhCCCcccccceEEeCCCCcccc--CeEEEEEecC
Confidence 89999999999999999999998 5666655 8999999843
No 61
>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=7.3e-32 Score=287.43 Aligned_cols=315 Identities=13% Similarity=0.138 Sum_probs=261.8
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|+||+. |.....|+++|+++||+.+|+++++|++++.|++++|..+++++.+|+.+++|.+|||+. +|..
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 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGILGREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWH-TSAV 79 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcCCcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecC-cHHH
Confidence 699999999985 888999999999999999999899999999999999999999999999988999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHHHHHHHHH-HhcCCcEEEEEEecCCccccCcHHHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQAKGIADLI-RVFKWKHVILIYEDNTWGSDNIIPYLF 157 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll-~~~~w~~v~ii~~d~~~g~~~~~~~~~ 157 (808)
+.++.++++ .+||+|++++.... ... ++||+.+++. .++.++++.+ +..+|++++++++++.||+ ...+.++
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~~-~~~~~~f~~~~~~~---~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~-~~~~~~~ 153 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEGG-ECNPGVFLTGETPE---QQLAPAIPWLAEEKGARRWYLIGNDYVWPR-GSLAAAK 153 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCCC-CCCCCEEEcCCCcH---HHHHHHHHHHHHhcCCCeEEEEeccchhhH-HHHHHHH
Confidence 999999999 99999998654433 333 9999999988 8887777766 5679999999999999999 8999999
Q ss_pred HhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE-eCcccccc
Q 047109 158 DSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV-TASTMNFL 236 (808)
Q Consensus 158 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~-~~~~~~~~ 236 (808)
+.+++.|++|+....++. +..|+.+++.++++.++|+|++.....+...+++++++.|+..+ ++. +..+....
T Consensus 154 ~~~~~~G~~v~~~~~~~~---~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~ 227 (333)
T cd06358 154 RYIAELGGEVVGEEYVPL---GTTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENM 227 (333)
T ss_pred HHHHHcCCEEeeeeeecC---ChHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHH
Confidence 999999999998877776 67899999999999999999999988888999999999998432 222 22222110
Q ss_pred ccCCccccccccceeEEEeecc--CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCC
Q 047109 237 HSMDSSVVESSMQGVLGFKRYV--PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISN 314 (808)
Q Consensus 237 ~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~ 314 (808)
.. ...... .+|++....+. ...+..++|.++|+++|+...+ .++.++..+||++.++++|++++++. +
T Consensus 228 ~~--~~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~-----~~~~~~~~~yda~~~~~~A~~~ag~~--~ 297 (333)
T cd06358 228 LL--ASGAEA-AEGLYSSSGYFASLQTPANAAFLARYRARFGDDAP-----PLNSLSESCYEAVHALAAAAERAGSL--D 297 (333)
T ss_pred HH--hcChHh-hCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCC-----CCChHHHHHHHHHHHHHHHHHHhCCC--C
Confidence 00 011122 45665554432 3568899999999998875421 24567889999999999999999876 8
Q ss_pred hHHHHHHHHcCccccceeEEEe-eCCc
Q 047109 315 ETCYYKQILNSRFTGLSGDFQL-INGK 340 (808)
Q Consensus 315 ~~~l~~~l~~~~~~g~tG~v~f-~~g~ 340 (808)
+.+|.++|++.+|+|++|.+.| +++.
T Consensus 298 ~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 298 PEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred HHHHHHHhccCeeeCCCcceEEccccc
Confidence 9999999999999999999999 7654
No 62
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.4e-32 Score=292.64 Aligned_cols=317 Identities=15% Similarity=0.150 Sum_probs=266.5
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCc--c--eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCC
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHY--K--TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEM 75 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l--~--~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~ 75 (808)
+||++.|++|+. |.+...|+++|++++|+.+|++ + ++|++++.|++++|..+.+.+++|+.+++|.+|+|+.
T Consensus 1 ~IG~l~plsG~~a~~g~~~~~g~~lA~~~iN~~GGi~~~G~~~~iel~~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~- 79 (347)
T cd06336 1 KIGFSGPLSGPAAAWGLPGLRGVQLAAEEINAAGGIKVGGKKYKVEIVSYDDKYDPAEAAANARRLVQQDGVKFILGPI- 79 (347)
T ss_pred CcceeccCcCcccccChhhHHHHHHHHHHHHhcCCcccCCceeeEEEEEecCCCCHHHHHHHHHHHHhhcCceEEEeCC-
Confidence 699999999976 8889999999999999999987 5 5899999999999999999999999888999999999
Q ss_pred ChhHHHHHHHhcCCCCccEEeccCCCCccccc----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccC
Q 047109 76 TPTGAHILAEIGSKAKIPVISLYATLPSSLTS----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDN 151 (808)
Q Consensus 76 ~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~ 151 (808)
++..+.. .+++.+.++|+|++.++++. ++. ++||+.|++. .++.++++++++.+|+++++++.|+.||+ .
T Consensus 80 ~s~~~~~-~~~~~~~~ip~i~~~~~~~~-~~~~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~~v~il~~d~~~g~-~ 153 (347)
T cd06336 80 GGGITAA-QQITERNKVLLLTAYSSDLS-IDTAGNPLTFRVPPIYN---VYGVPFLAYAKKPGGKKVALLGPNDAYGQ-P 153 (347)
T ss_pred CCchhhh-hhhhhhcCceEEeccCCccc-ccccCCceEEEecCCch---hHHHHHHHHHhhcCCceEEEEccCCchhH-H
Confidence 9998888 99999999999999998888 763 8999999999 99999999988899999999999999999 9
Q ss_pred cHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH-HHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 152 IIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA-LASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
..+.+++.+++.|++++....++. +..|+.+++.+++++++|+|++.+... ++..++++++++|+.. ...++...
T Consensus 154 ~~~~~~~~l~~~G~~vv~~~~~~~---~~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~ 229 (347)
T cd06336 154 WVAAYKAAWEAAGGKVVSEEPYDP---GTTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKG-GFLSCTGD 229 (347)
T ss_pred HHHHHHHHHHHcCCEEeeecccCC---CCcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCc-cEEeccCC
Confidence 999999999999999998877776 567999999999999999999999988 9999999999999843 22222222
Q ss_pred ccccccccCCccccccccceeEEEeeccC----CcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHH
Q 047109 231 STMNFLHSMDSSVVESSMQGVLGFKRYVP----ASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASE 306 (808)
Q Consensus 231 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~ 306 (808)
....... ...... ..|++...+... .+|..++|.++|++.++.. ++.++..+||++.++++|++
T Consensus 230 ~~~~~~~---~~~~~~-~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------p~~~~~~~y~~~~~~~~Al~ 297 (347)
T cd06336 230 KYDELLV---ATGADF-MEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYGEP--------PNSEAAVSYDAVYILKAAME 297 (347)
T ss_pred CchHHHH---HhcHHh-hCceEEEeecccccccCCHHHHHHHHHHHHHHCCC--------CcHHHHHHHHHHHHHHHHHH
Confidence 1111111 111223 567777665433 4678999999999988653 45678899999999999999
Q ss_pred HHhhhcCChHHHHHHHHc--------CccccceeEEEe-eCCcccCC
Q 047109 307 KLKTEISNETCYYKQILN--------SRFTGLSGDFQL-INGKLTSS 344 (808)
Q Consensus 307 ~~~~~~~~~~~l~~~l~~--------~~~~g~tG~v~f-~~g~~~~~ 344 (808)
++++. ++..+.+++.. ..|.++.|.+.| ++|+.+.+
T Consensus 298 ~ag~~--~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 342 (347)
T cd06336 298 AAGSV--DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGP 342 (347)
T ss_pred hcCCC--CcHHHHHHHhhccCCCcCccccccccccccccCCCccccC
Confidence 99876 55555555432 568889999999 99998873
No 63
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=100.00 E-value=2.7e-32 Score=292.97 Aligned_cols=317 Identities=18% Similarity=0.166 Sum_probs=263.5
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||++.|++|+. |.....|+++|+++||+++++.+++|++++.|+++++..+++++++|+.+++|.+|||+. ++..
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 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGIGGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLI-SSGV 79 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCcCCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEccc-chHH
Confidence 699999999986 888999999999999999998889999999999999999999999999988999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCccccCc
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTWGSDNI 152 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~g~~~~ 152 (808)
+.++.++++..+||+|++.++++. +.+ ++||+.|++. .++.+++++++++ +|+++++++.+++||. ..
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~-~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~-~~ 154 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPR-LTEEPDNPYVFRTRNSTI---MDAVAGALYAAKLDKKAKTWATINPDYAYGQ-DA 154 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcc-cccCCCCCceEEecCChH---HHHHHHHHHHHHhCcCccEEEEECCchHHHH-HH
Confidence 999999999999999999887776 543 9999999999 9999999999876 4999999999999999 99
Q ss_pred HHHHHHhhhcCC--cEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 153 IPYLFDSLHDND--IDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 153 ~~~~~~~~~~~g--~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
.+.+++.+++.| +.++.....+. ..+|+..++.++++.++|+|++.+.+.+...+++++++.|+.. +..|+.+.
T Consensus 155 ~~~~~~~~~~~g~~~~~v~~~~~~~---~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~ 230 (346)
T cd06330 155 WADFKAALKRLRPDVEVVSEQWPKL---GAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTL 230 (346)
T ss_pred HHHHHHHHHHhCCCCeecccccCCC---CCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeec
Confidence 999999999985 55554443333 5679999999999999999999999999999999999999843 56777766
Q ss_pred ccccccccCCccccccccceeEEEee--ccC--CcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHH
Q 047109 231 STMNFLHSMDSSVVESSMQGVLGFKR--YVP--ASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASE 306 (808)
Q Consensus 231 ~~~~~~~~~~~~~~~~~~~g~~~~~~--~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~ 306 (808)
.....+.. ..... ..|++.... +.. ..+..++|.++|+++++.. ++.++..+||++.++++|++
T Consensus 231 ~~~~~~~~---~~~~~-~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~--------p~~~~~~~y~a~~~l~~a~~ 298 (346)
T cd06330 231 TGAPELAP---LGDEM-PEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYGDY--------PTYGAYGAYQAVMALAAAVE 298 (346)
T ss_pred cchhhhhh---hhccc-CCceEEeccccCCCCCCChHHHHHHHHHHHHHCCC--------CChHHHHHHHHHHHHHHHHH
Confidence 54332111 11122 445543321 222 4678999999999888632 45568899999999999999
Q ss_pred HHhhhcCCh----HHHHHHHHcCccccceeEEEe-e-CCcccC
Q 047109 307 KLKTEISNE----TCYYKQILNSRFTGLSGDFQL-I-NGKLTS 343 (808)
Q Consensus 307 ~~~~~~~~~----~~l~~~l~~~~~~g~tG~v~f-~-~g~~~~ 343 (808)
++++. ++ ..+.++|+++++.|+.|++.| + +++...
T Consensus 299 ~a~~~--~~~~~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~~ 339 (346)
T cd06330 299 KAGAT--DGGAPPEQIAAALEGLSFETPGGPITMRAADHQATQ 339 (346)
T ss_pred HhcCC--CCCCcHHHHHHHHcCCCccCCCCceeeecCCCcccc
Confidence 99875 33 359999999999999999999 5 555444
No 64
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=9.5e-32 Score=286.00 Aligned_cols=315 Identities=14% Similarity=0.110 Sum_probs=259.5
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHH-hcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFY-ALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN-~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
|||++.|++|+. |.....|+++|+++|| +.+|+.+++|++++.|++++|..+++++.+|+.+++|.+|+|+. +|.
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 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQVDGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGST-SSG 79 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCcCCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccC-CcH
Confidence 699999999986 8899999999999995 55778889999999999999999999999999999999999999 999
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcH
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNII 153 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~ 153 (808)
.+.++.+++++.++|+|+++++++. ++. ++||+.+++. .++..+++.+... ++++++++.|+.||. +..
T Consensus 80 ~~~a~~~~~~~~~ip~i~~~~~~~~-l~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~-~~~v~~i~~~~~~g~-~~~ 153 (333)
T cd06328 80 VALAVLPVAEENKKILIVEPAAADS-ITGKNWNRYTFRTGRNSS---QDAIAAAAALGKP-GKKIATLAQDYAFGR-DGV 153 (333)
T ss_pred HHHHHHHHHHHhCCcEEecCCCCch-hhccCCCCcEEEecCChH---HHHHHHHHHHHhc-CCeEEEEecCccccH-HHH
Confidence 9999999999999999998888777 764 8999998888 8888888877665 899999999999999 999
Q ss_pred HHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH-HHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 047109 154 PYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA-LASHLFLNAKKLGMMSKGYSWIVTAST 232 (808)
Q Consensus 154 ~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~l~~a~~~gl~~~~~~~i~~~~~ 232 (808)
+.+++.+++.|++++....++. +..|+.+++.+++++++|+|++...+. ++..+++++.+.|+. .. .......
T Consensus 154 ~~~~~~~~~~G~~vv~~~~~~~---~~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~--~~-~~~~~~~ 227 (333)
T cd06328 154 AAFKAALEKLGAAIVTEEYAPT---DTTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYG--IE-ITLAGDI 227 (333)
T ss_pred HHHHHHHHhCCCEEeeeeeCCC---CCcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCC--Ce-EEecccc
Confidence 9999999999999998877766 667999999999999999998876555 677778888887763 12 2222221
Q ss_pred ccccccCCccccccccceeEEEeecc-CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhh
Q 047109 233 MNFLHSMDSSVVESSMQGVLGFKRYV-PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTE 311 (808)
Q Consensus 233 ~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~ 311 (808)
...... ...... ..+......+. +.+|..+.|.++|+++|+.. ++.+++..||++.++++|++++++.
T Consensus 228 ~~~~~~--~~~~~~-~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~--------p~~~~~~~y~a~~~l~~Ai~~ag~~ 296 (333)
T cd06328 228 LANLTM--YKAGPG-MSGASYYYHYFLPKNPVNDWLVEEHKARFGSP--------PDLFTAGGMSAAIAVVEALEETGDT 296 (333)
T ss_pred cCcccc--cccccc-ccceeeeecCCCCCCHHHHHHHHHHHHHhCCC--------cchhhHHHHHHHHHHHHHHHHhCCC
Confidence 111110 111122 44544444433 56788899999999888643 4667899999999999999999865
Q ss_pred cCChHHHHHHHHcCccccceeEEEe--eCCcccC
Q 047109 312 ISNETCYYKQILNSRFTGLSGDFQL--INGKLTS 343 (808)
Q Consensus 312 ~~~~~~l~~~l~~~~~~g~tG~v~f--~~g~~~~ 343 (808)
++.++.++|++.+|+++.|++.| .+|+...
T Consensus 297 --~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~ 328 (333)
T cd06328 297 --DTEALIAAMEGMSFETPKGTMTFRKEDHQALQ 328 (333)
T ss_pred --CHHHHHHHHhCCeeecCCCceEECcccchhhh
Confidence 89999999999999999999999 4565554
No 65
>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=1.1e-31 Score=284.39 Aligned_cols=279 Identities=17% Similarity=0.276 Sum_probs=222.6
Q ss_pred CCCCHHHHHHHHHHhhhcCCeEEEE-ecCCChh--HHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCch
Q 047109 47 SKGDPLHALTTVLNLMQNVDLQAII-CTEMTPT--GAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEA 118 (808)
Q Consensus 47 ~~~~~~~a~~~a~~li~~~~v~aii-G~~~~s~--~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~ 118 (808)
...||.+.+.++|+++.+.+|.|+| ||. ++. .+..++.++++++||+|+++++++..+++ +|+|+.|++.
T Consensus 43 ~~~d~~~~~~~vC~ll~~~~V~aiIfgp~-~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~- 120 (362)
T cd06378 43 NETDPKSILTQLCDLLSTTKVHGVVFEDD-TDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIE- 120 (362)
T ss_pred CCCCHHHHHHHHHHHhcccceEEEEecCC-CCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHH-
Confidence 4489999999999999887799766 999 776 45677888888999999998666531444 8999999999
Q ss_pred hhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCC-ChHHHHHHHHHhcCCCCeE
Q 047109 119 SQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSN-TDDQVIEKLSMLKSSETKV 197 (808)
Q Consensus 119 ~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~-~~~~~~~~l~~l~~~~~~v 197 (808)
.+++++++++++|+|++|++||++++.+. .+.+.+++.+...++|+.....++. .. ...+....++++++.++++
T Consensus 121 --~q~~Ai~~Ii~~f~W~~v~iV~~~~~g~~-~~~~~l~~~~~~~~~~~~i~~~~~~-~~~~~~~~~~~l~~lk~~~arV 196 (362)
T cd06378 121 --QQAAVMLKIMEEYDWHAFSVVTSRFPGYD-DFVSAVRTTVDNSFVGWELQSVLTL-DMSDDDGDARTQRQLKKLESQV 196 (362)
T ss_pred --HHHHHHHHHHHHCCCeEEEEEEEcCCCHH-HHHHHHHHHHhhcccceeEEEEEee-ccCCCcchHHHHHHHHhcCCCE
Confidence 99999999999999999999999987666 6777788777776666654433333 21 2234778888999999999
Q ss_pred EEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhc
Q 047109 198 FVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYL 277 (808)
Q Consensus 198 iil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~ 277 (808)
||++|+.+.+..++++|.++||++++|+||+++......+. ..+ . +..|++++.. ++|+.
T Consensus 197 iVl~~s~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~-~~~--~-~~~G~i~v~~------------~~w~~---- 256 (362)
T cd06378 197 ILLYCSKEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDL-GPS--E-FPVGLISVSY------------DGWRY---- 256 (362)
T ss_pred EEEECCHHHHHHHHHHHHHcCCcCCCeEEEecccccCCCcc-ccc--c-CCcceEeecc------------ccccc----
Confidence 99999999999999999999999999999999986654221 111 1 1456666542 12211
Q ss_pred cCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhh-----------h-------cCChHHHHHHHHcCccccceeEEEe-eC
Q 047109 278 NNQNAEVSELDVHGILAYDTVWALAKASEKLKT-----------E-------ISNETCYYKQILNSRFTGLSGDFQL-IN 338 (808)
Q Consensus 278 ~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~-----------~-------~~~~~~l~~~l~~~~~~g~tG~v~f-~~ 338 (808)
...+..||||+++|+|++.+.. | +..|..|.++|++++|+|. ++.| ++
T Consensus 257 -----------~~~a~~~DaV~vva~Al~~l~~~~~~~~~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~~ 323 (362)
T cd06378 257 -----------SLRARVRDGVAIIATGASAMLRQHGFIPEAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTED 323 (362)
T ss_pred -----------cHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECCC
Confidence 1256789999999999997642 1 2257899999999999996 9999 99
Q ss_pred CcccCCccEEEEEeec-CcEEEEEEEeC
Q 047109 339 GKLTSSRAFEIVNVIG-KTVKIVGFWTP 365 (808)
Q Consensus 339 g~~~~~~~~~i~~~~~-~~~~~vg~~~~ 365 (808)
|++.++ .|+|++++. .||++||.|+.
T Consensus 324 G~r~~~-~ldIinl~~~~g~~kVG~W~~ 350 (362)
T cd06378 324 GYLVNP-KLVVISLNKERVWEEVGKWEN 350 (362)
T ss_pred CeEccc-eEEEEEecCCCCceEEEEEcC
Confidence 999998 999999996 58999999994
No 66
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=100.00 E-value=3.3e-31 Score=283.62 Aligned_cols=323 Identities=13% Similarity=0.152 Sum_probs=272.3
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|++|+. |.....|+++|++++| +++.+++|++++.|++++|..+++++.+|+.+++|.+|||+. ++..
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--GKLGGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPV-HSGE 77 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhC--CCcCCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccC-ccHh
Confidence 699999999976 6889999999999986 456679999999999999999999999999877999999999 9988
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIP 154 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~ 154 (808)
+.++.+.+.+.+||+|+++++++. +++ ++||+.|++. .++..+++++...+|+++++++.++.||+ +..+
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~-~~~~~~~~~~f~~~~~~~---~~~~~~~~~l~~~~~~~v~~l~~~~~~g~-~~~~ 152 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADD-LTGRLCAPNFFRTSFSNA---QWAAPMGKYAADDGYKKVVTVAWDYAFGY-EVVE 152 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCcc-ccccCCCCcEEEEeCchH---HHHHHHHHHHHHcCCCeEEEEeccchhhH-HHHH
Confidence 889999999999999999888777 753 7999999999 99999999999889999999999999999 8899
Q ss_pred HHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 047109 155 YLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN 234 (808)
Q Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 234 (808)
.+++.+++.|++++....++. +..|+.++++++++.++|+|++.....++..+++++++.|+.. +..++.++.+..
T Consensus 153 ~~~~~~~~~G~~v~~~~~~~~---~~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~ 228 (336)
T cd06360 153 GFKEAFTEAGGKIVKELWVPF---GTSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTD 228 (336)
T ss_pred HHHHHHHHcCCEEEEEEecCC---CCcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccC
Confidence 999999999999988777665 5679999999999999999999999999999999999999842 345555544332
Q ss_pred ccccCCccccccccceeEEEeeccC--CcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhc
Q 047109 235 FLHSMDSSVVESSMQGVLGFKRYVP--ASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEI 312 (808)
Q Consensus 235 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~ 312 (808)
.. .. ...... ..|++...++.+ +.+..++|.++|++.++.. ++.++..+||+++++++|++++++..
T Consensus 229 ~~-~~-~~~g~~-~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~~~--------~~~~~~~~yda~~~~~~A~~~a~~~~ 297 (336)
T cd06360 229 GT-TL-GAAGEA-AEGVITALHYADTLDNPANQAFVKAYRAAYPDT--------PSVYAVQGYDAGQALILALEAVGGDL 297 (336)
T ss_pred HH-HH-HhhHhh-hcCceeccccCCCCCCHHHHHHHHHHHHHhCCC--------ccHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 11 11 111233 567666555433 4688999999999988653 56789999999999999999998642
Q ss_pred CChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEE
Q 047109 313 SNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIV 350 (808)
Q Consensus 313 ~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~ 350 (808)
.++..+.++|++.+|+|..|++.| ++|++.. ...+.
T Consensus 298 ~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~--~~~~~ 334 (336)
T cd06360 298 SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQ--DNYLR 334 (336)
T ss_pred CCHHHHHHHHhcCCccCCCcceEECCCCCccc--ceEEE
Confidence 367889999999999999999999 8899887 44443
No 67
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.4e-31 Score=283.64 Aligned_cols=315 Identities=18% Similarity=0.217 Sum_probs=256.9
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|++|+. |....+|+++|++++|+++|+.+++|++++.|++++|..+.+++.+|+.+++|.+|+|+. ++..
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 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVLGRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGL-HTPV 79 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCC-CCHH
Confidence 699999999976 888999999999999999999999999999999999999999999999988999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc------ceeeeccCCchhhHHHHHHHHHH-HhcCCcEEEEEEecCCccccCc
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS------YSIQIDQDDEASQSQAKGIADLI-RVFKWKHVILIYEDNTWGSDNI 152 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~------~~~r~~p~~~~~~~~~~a~~~ll-~~~~w~~v~ii~~d~~~g~~~~ 152 (808)
+.++..+++..+||+|++.++.+. +++ ++||+.|++. .++.++++++ ++.+|++|+++|++++||. ..
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~-l~~~~~~~~~~Fr~~~~~~---~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~-~~ 154 (347)
T cd06335 80 ALANLEFIQQNKIPLIGPWAAGTP-ITRNGAPPNYIFRVSADDS---IQAPFLVDEAVKRGGFKKVALLLDNTGWGR-SN 154 (347)
T ss_pred HHhhhHHHHhcCCcEEecCCCCcc-cccCCCCCCCEEEeccChH---HHHHHHHHHHHHhcCCCeEEEEeccCchhh-hH
Confidence 999999999999999998877665 542 8999999999 9999999987 5567999999999999999 99
Q ss_pred HHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 047109 153 IPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTAST 232 (808)
Q Consensus 153 ~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~ 232 (808)
.+.+++.+++.|++++....++. +..|+.+.+++|+++++++|++.+...++..+++++++.|+.. .++.....
T Consensus 155 ~~~~~~~~~~~G~~v~~~~~~~~---~~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~ 228 (347)
T cd06335 155 RKDLTAALAARGLKPVAVEWFNW---GDKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKV---PIISHWGL 228 (347)
T ss_pred HHHHHHHHHHcCCeeEEEeeecC---CCccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCC---cEecccCC
Confidence 99999999999999998888876 5679999999999999999999999999999999999999832 12222111
Q ss_pred ccccccCCccccccccceeEEEeecc---CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHh
Q 047109 233 MNFLHSMDSSVVESSMQGVLGFKRYV---PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLK 309 (808)
Q Consensus 233 ~~~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~ 309 (808)
. ..+... ..... ..|++....+. +..+..++|.++|+++++..... ...++.+++.+||+++++++|+++++
T Consensus 229 ~-~~~~~~-~~g~~-~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~aYd~~~~l~~A~~~ag 303 (347)
T cd06335 229 S-GGNFIE-GAGPA-ANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA--DIPAPVGAAHAYDAVHLLAAAIKQAG 303 (347)
T ss_pred c-Cchhhh-ccchh-hcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc--ccCcchhHHHHHHHHHHHHHHHHHhc
Confidence 1 111111 11122 45555443322 25688999999999998754210 00134456789999999999999998
Q ss_pred hhcCChHHHHHHHHcC--ccccceeE--EEe
Q 047109 310 TEISNETCYYKQILNS--RFTGLSGD--FQL 336 (808)
Q Consensus 310 ~~~~~~~~l~~~l~~~--~~~g~tG~--v~f 336 (808)
.. .++.+.++|++. .+.|+.|. +.|
T Consensus 304 ~~--~~~~v~~al~~~~~~~~G~~~~~~~~~ 332 (347)
T cd06335 304 ST--DGRAIKRALENLKKPVEGLVKTYDKPF 332 (347)
T ss_pred CC--CHHHHHHHHHhccCCceeeecccCCCC
Confidence 76 668899999876 46677775 456
No 68
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=3.6e-30 Score=267.36 Aligned_cols=314 Identities=14% Similarity=0.140 Sum_probs=233.7
Q ss_pred CeEEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEec-CCCCHHHHHHHHHHhh-hcCCeEEEEec-CCC
Q 047109 1 EVHVGVILDMRSWAGKISNSCISMAISDFYALNTHYK-TRLVLHSRD-SKGDPLHALTTVLNLM-QNVDLQAIICT-EMT 76 (808)
Q Consensus 1 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d-~~~~~~~a~~~a~~li-~~~~v~aiiG~-~~~ 76 (808)
.|+||+||+.. + +.+.|+++|++.+|.+..+++ .+|+..+.. ...|+.++.+.+|+++ ++ ||.||+|+ . +
T Consensus 18 ~i~iG~if~~~-~---~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~-GV~AIfg~p~-s 91 (382)
T cd06377 18 TVRLGALLVRA-P---APRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQ-GVSALLAFPQ-T 91 (382)
T ss_pred ceeeeEEecCC-c---hHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhC-CeEEEEecCC-C
Confidence 37999999977 3 579999999999999886666 788888776 3489999999999995 76 99999995 7 7
Q ss_pred hhHHHHHHHhcCCCCccEEeccCCCCccc-cc--cee--eeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccC
Q 047109 77 PTGAHILAEIGSKAKIPVISLYATLPSSL-TS--YSI--QIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDN 151 (808)
Q Consensus 77 s~~~~~~~~~~~~~~iP~is~~~~~~~~l-s~--~~~--r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~ 151 (808)
+.++..+..+|+.++||+|+++..++. . ++ +.+ ++.|+.+ +++.|+++++++|+|++|++||++++... .
T Consensus 92 ~~~~~~v~sic~~l~IP~I~~~~~~~~-~~~~~~~~l~L~l~P~~~---~l~~a~~~ll~~~~W~~f~~iy~~~~gl~-~ 166 (382)
T cd06377 92 RPELVQLDFVSAALEIPVVSIVRREFP-RGSQNPFHLQMSWASPLS---TLLDVLLSVLQRNGWEDVSLVLCRERDPT-G 166 (382)
T ss_pred HHHHHHHHHHhcCCCCCEEEecCCccc-ccCCCceeEEEEecCCHH---HHHHHHHHHHHHCCCcEEEEEEecCcCHH-H
Confidence 788899999999999999999664423 2 32 434 5699999 99999999999999999999998886433 2
Q ss_pred cHHHHHHhhhcCC--cEEEEEEecCCCCCChHHH-HHHHHHhcCCC-CeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEE
Q 047109 152 IIPYLFDSLHDND--IDIARRITISMSSNTDDQV-IEKLSMLKSSE-TKVFVVHMSHALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 152 ~~~~~~~~~~~~g--~~i~~~~~~~~~~~~~~~~-~~~l~~l~~~~-~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
++.+.+.....+ ..+... ..+.+..+..++ ++.|+.++++. +++|++.|+.+.+..+++++.+ +|+||
T Consensus 167 -lq~l~~~~~~~~~~~~i~v~-~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~------~y~wI 238 (382)
T cd06377 167 -LLLLWTNHARFHLGSVLNLS-RNDPSTADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP------GPHWI 238 (382)
T ss_pred -HHHHHHHhcccccCceEEEE-eccCccCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc------ceEEE
Confidence 333333333222 223222 222101133455 99999999999 9999999999999999977655 49999
Q ss_pred EeCccccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHH
Q 047109 228 VTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEK 307 (808)
Q Consensus 228 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~ 307 (808)
+++... ++.....+. ..|+++..... ....+++.||||.++|+|++.
T Consensus 239 v~~~~~--le~~~~~g~---nigLl~~~~~~----------------------------~~~l~ali~DAV~lvA~a~~~ 285 (382)
T cd06377 239 LGDPLP--PEALRTEGL---PPGLLAHGETT----------------------------QPPLEAYVQDALELVARAVGS 285 (382)
T ss_pred EcCCcC--hhhccCCCC---CceEEEEeecc----------------------------cccHHHHHHHHHHHHHHHHHH
Confidence 988321 111111121 23333211000 012388999999999999997
Q ss_pred Hh-------------hh--------cCChHHHHHHHHcCccccceeEEEeeCCcc--cCCccEEEEEee--cCc---EEE
Q 047109 308 LK-------------TE--------ISNETCYYKQILNSRFTGLSGDFQLINGKL--TSSRAFEIVNVI--GKT---VKI 359 (808)
Q Consensus 308 ~~-------------~~--------~~~~~~l~~~l~~~~~~g~tG~v~f~~g~~--~~~~~~~i~~~~--~~~---~~~ 359 (808)
+. +| ++.|..|.++|++++++|.||+|.|+.|.| ..+ .++|++++ ..| |++
T Consensus 286 l~~~~~~~~l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~~g~R~~~~~-~l~I~~L~~~~~G~~~W~k 364 (382)
T cd06377 286 ATLVQPELALIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVTGSSQVHSSR-HFKVWSLRRDPVGQPTWTT 364 (382)
T ss_pred hhhcccccccCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEccCeeecccc-eEEEEEeccccCCCccceE
Confidence 62 11 226788999999999999999999966888 677 99999999 555 699
Q ss_pred EEEEeCCC
Q 047109 360 VGFWTPTT 367 (808)
Q Consensus 360 vg~~~~~~ 367 (808)
||+|++..
T Consensus 365 VG~W~~~~ 372 (382)
T cd06377 365 VGSWQGGR 372 (382)
T ss_pred EEEecCCC
Confidence 99999863
No 69
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=100.00 E-value=4.8e-31 Score=266.77 Aligned_cols=321 Identities=13% Similarity=0.097 Sum_probs=233.6
Q ss_pred eEEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 2 VHVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 2 i~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
||||+|++++|.. +.....|.++|++|||++||++|++|+.+++|.++|+..-.+.|.+|+.+++|.+|+|+. +|.
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvlG~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~-TSa 79 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVLGRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCY-TSA 79 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBTTB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE---SHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcCCeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecc-hhh
Confidence 7999999999987 778899999999999999999999999999999999999999999999988999999999 999
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHH-HhcCCcEEEEEEecCCccccCcHHHHH
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLI-RVFKWKHVILIYEDNTWGSDNIIPYLF 157 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll-~~~~w~~v~ii~~d~~~g~~~~~~~~~ 157 (808)
+..++.++.++++-++..+..-.-.+.|++++-+.+... ++...+++++ .++|-+++.+|.+|+.|++ +....++
T Consensus 80 sRKaVlPvvE~~~~LL~Yp~~YEG~E~S~nviYtGa~PN---Q~~~pl~~~~~~~~G~~r~~lvGSdYv~pr-e~Nri~r 155 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYPTQYEGFECSPNVIYTGAAPN---QQLLPLIDYLLENFGAKRFYLVGSDYVYPR-ESNRIIR 155 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE-S--------TTEEE-S--GG---GTHHHHHHHHHHHS--SEEEEEEESSHHHH-HHHHHHH
T ss_pred hHHHHHHHHHhcCceEEeccccccccCCCceEEcCCCch---hhHHHHHHHHHhccCCceEEEecCCccchH-HHHHHHH
Confidence 999999999999999887654322212237787877666 7777777765 7889999999999999999 9999999
Q ss_pred HhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc-cc
Q 047109 158 DSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN-FL 236 (808)
Q Consensus 158 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~-~~ 236 (808)
+.+++.|+.++....+|. +.+|+..++.+|++.+||+|+-...++....|+++.++.|+.. ..+-|.+..... ..
T Consensus 156 ~~l~~~GgevvgE~Y~pl---g~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~-~~~Pi~S~~~~E~E~ 231 (363)
T PF13433_consen 156 DLLEARGGEVVGERYLPL---GATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDP-ERIPIASLSTSEAEL 231 (363)
T ss_dssp HHHHHTT-EEEEEEEE-S----HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SS-S---EEESS--HHHH
T ss_pred HHHHHcCCEEEEEEEecC---CchhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCc-ccCeEEEEecCHHHH
Confidence 999999999999999988 7899999999999999999999999999999999999999854 345555554332 11
Q ss_pred ccCCccccccccceeEEEeecc--CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCC
Q 047109 237 HSMDSSVVESSMQGVLGFKRYV--PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISN 314 (808)
Q Consensus 237 ~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~ 314 (808)
..+ +.+. ..|.++...+. .++|.+++|+++|++.|+... .++.....+|.+|+++|+|++++++. +
T Consensus 232 ~~~---g~~~-~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~------v~s~~~eaaY~~v~l~a~Av~~ags~--d 299 (363)
T PF13433_consen 232 AAM---GAEA-AAGHYTSAPYFQSIDTPENQAFVARFRARYGDDR------VTSDPMEAAYFQVHLWAQAVEKAGSD--D 299 (363)
T ss_dssp TTS----HHH-HTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----------HHHHHHHHHHHHHHHHHHHHTS----
T ss_pred hhc---Chhh-cCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCC------CCCcHHHHHHHHHHHHHHHHHHhCCC--C
Confidence 222 1222 67777776654 467999999999999987642 14555677999999999999999998 9
Q ss_pred hHHHHHHHHcCccccceeEEEe-e-CCcccC
Q 047109 315 ETCYYKQILNSRFTGLSGDFQL-I-NGKLTS 343 (808)
Q Consensus 315 ~~~l~~~l~~~~~~g~tG~v~f-~-~g~~~~ 343 (808)
..++.++|.+..|+.+.|.+++ . |+....
T Consensus 300 ~~~vr~al~g~~~~aP~G~v~id~~n~H~~l 330 (363)
T PF13433_consen 300 PEAVREALAGQSFDAPQGRVRIDPDNHHTWL 330 (363)
T ss_dssp HHHHHHHHTT--EEETTEEEEE-TTTSBEEB
T ss_pred HHHHHHHhcCCeecCCCcceEEcCCCCeecc
Confidence 9999999999999999999999 4 555444
No 70
>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=2e-31 Score=284.32 Aligned_cols=320 Identities=11% Similarity=0.047 Sum_probs=258.0
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|++|+. |.....|+++|+++||+.||+++++|++++.|++++|..+++++.+|+.+++|.+|+ +. +|..
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 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGINGVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GW-STGI 78 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcCCeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cC-cHHH
Confidence 699999999976 888999999999999999999999999999999999999999999999988888865 57 8888
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcC-----CcEEEEEEecCCccc
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFK-----WKHVILIYEDNTWGS 149 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~-----w~~v~ii~~d~~~g~ 149 (808)
+.++.+++.+.+||+|+++++++. +++ ++||+.|++. .++.++++++...+ .+++++++.|+.||.
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~-~~~~~~~~~~Fr~~~~~~---~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~ 154 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATL-ADDGAVFPYNFPVGPTYS---DQARALVQYIAEQEGGKLKGKKIALVYHDSPFGK 154 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhh-ccCCCCCCeeeeCCCCHH---HHHHHHHHHHHHhcccCCCCCeEEEEeCCCccch
Confidence 999999999999999999877776 652 8999999999 99999999987654 799999999999999
Q ss_pred cCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 047109 150 DNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVT 229 (808)
Q Consensus 150 ~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 229 (808)
...+.+++.+++.|++++..+.++. +..|+.+++.++++.++|+|++.+...++..++++++++|+ . ..++.+
T Consensus 155 -~~~~~~~~~~~~~G~~vv~~~~~~~---~~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~--~-~~~~~~ 227 (351)
T cd06334 155 -EPIEALKALAEKLGFEVVLEPVPPP---GPNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGL--D-DKFIGN 227 (351)
T ss_pred -hhHHHHHHHHHHcCCeeeeeccCCC---CcccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCC--C-ceEEEe
Confidence 9999999999999999998877776 56799999999999999999999999999999999999998 2 234444
Q ss_pred CccccccccCCccccccccceeEEEeecc--CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHH
Q 047109 230 ASTMNFLHSMDSSVVESSMQGVLGFKRYV--PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEK 307 (808)
Q Consensus 230 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~ 307 (808)
+.... .... ...... ..|+++..++. .++|..++|.+.|+++++.. |. ....++.++..+||+++++++|+++
T Consensus 228 ~~~~~-~~~~-~~~g~~-~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~-~~-~~~~~~~~~~~gy~a~~~l~~Al~~ 302 (351)
T cd06334 228 WWSGD-EEDV-KPAGDA-AKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGS-GN-DKEIGSVYYNRGVVNAMIMVEAIRR 302 (351)
T ss_pred eccCc-HHHH-HHhhhh-hcCcEEeecccCCCCchHHHHHHHHHHHccCCC-CC-cccccccHHHHHHHHHHHHHHHHHH
Confidence 33221 1111 111123 56666655443 36788999999999888642 11 0112356789999999999999999
Q ss_pred HhhhcC----Ch-H------HHHHHHHcCccccceeEEEe--eCCc
Q 047109 308 LKTEIS----NE-T------CYYKQILNSRFTGLSGDFQL--INGK 340 (808)
Q Consensus 308 ~~~~~~----~~-~------~l~~~l~~~~~~g~tG~v~f--~~g~ 340 (808)
+++... .. . .-.+.+++....|+.|++.| +||.
T Consensus 303 ag~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~~ 348 (351)
T cd06334 303 AQEKGGETTIAGEEQLENLKLDAARLEELGAEGLGPPVSVSCDDHR 348 (351)
T ss_pred HHHhcCCCCCcHHHHHHhhhhhhhhhhhcCcccccCCceeccccCC
Confidence 998721 11 1 11234555667889999999 4543
No 71
>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=9.9e-31 Score=279.23 Aligned_cols=312 Identities=23% Similarity=0.379 Sum_probs=252.2
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecC-CCCHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDS-KGDPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~-~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
+||++++.+. ...+.|+++|++++|.++++++ ..+.+.+.+. .++|..+++++|+++.+++|.|||||. ++..+
T Consensus 1 ~iG~i~~~~~---~~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~l~~~~~v~ai~G~~-~s~~~ 76 (328)
T cd06351 1 NIGAIFDRDA---RKEELAFRAAIDALNTENLNALPTKLSVEVVEVNTNDPFSLLRAVCDLLVSQGVAAIFGPT-SSESA 76 (328)
T ss_pred CeeeecCCCc---HHHHHHHHHHHHHhccCccccCCeeEEEEEEEeCCCChHHHHHHHHHHHhccCcEEEECCC-CHHHH
Confidence 5899999876 4678999999999999998875 5555555554 489999999999999666999999999 99999
Q ss_pred HHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPY 155 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~ 155 (808)
.+++.+++.++||+|+++++.+. +++ +++|+.|++. .+++++++++.+++|++++++|+++++.. ..+.
T Consensus 77 ~~v~~~~~~~~iP~is~~~~~~~-~~~~~~~~~~~~~~p~~~---~~~~a~~~~l~~~~w~~v~iiy~~~~~~~--~l~~ 150 (328)
T cd06351 77 SAVQSICDALEIPHISISGGSEG-LSDKEESSTTLQLYPSLE---DLADALLDLLEYYNWTKFAIIYDSDEGLS--RLQE 150 (328)
T ss_pred HHHHHHhccCCCCeEEeecCccc-ccccccccceEEecCCHH---HHHHHHHHHHHHcCCcEEEEEEeCchHHH--HHHH
Confidence 99999999999999999988887 763 9999999999 99999999999999999999999888554 3344
Q ss_pred HHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCC-eEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 047109 156 LFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSET-KVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN 234 (808)
Q Consensus 156 ~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~-~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 234 (808)
+.+.....+..+... .+.. +..++...++++++.++ ++|++++..+++..++++|.++||++++|+||+++....
T Consensus 151 ~~~~~~~~~~~v~~~-~~~~---~~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~ 226 (328)
T cd06351 151 LLDESGIKGIQVTVR-RLDL---DDDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLS 226 (328)
T ss_pred HHHhhcccCceEEEE-EecC---CchhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCcc
Confidence 444444445455443 3443 33379999999999888 666655555999999999999999999999999998765
Q ss_pred ccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCC
Q 047109 235 FLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISN 314 (808)
Q Consensus 235 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~ 314 (808)
..+.. ..... ..|++++....+..+..++|..+|.. ..+......+...++.+||++.++
T Consensus 227 ~~d~~--~~~~~-~~~i~g~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~d~~~~~------------- 286 (328)
T cd06351 227 DIDLE--PFQYG-PANITGFRLVDPDSPDVSQFLQRWLE----ESPGVNLRAPIYDAALLYDAVLLL------------- 286 (328)
T ss_pred ccchh--hhccC-CcceEEEEEeCCCchHHHHHHHhhhh----ccCCCCcCccchhhHhhhcEEEEE-------------
Confidence 43321 22233 77999999999999999999999932 222222233556688888887754
Q ss_pred hHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEee-cCcEEEEEEEeC
Q 047109 315 ETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVI-GKTVKIVGFWTP 365 (808)
Q Consensus 315 ~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~-~~~~~~vg~~~~ 365 (808)
||.+.| ++|.|..+ .++|++++ ..+|++||.|++
T Consensus 287 ----------------tg~i~f~~~g~r~~~-~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 287 ----------------TGTVSFDEDGVRSNF-TLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred ----------------EeeEEECCCCcccce-EEEEEEecCCCCceEEEEecC
Confidence 999999 99999999 99999999 889999999994
No 72
>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=99.98 E-value=3e-31 Score=282.22 Aligned_cols=310 Identities=16% Similarity=0.193 Sum_probs=228.5
Q ss_pred cCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecC-------CCCHHHHHHHHHHhhhcCCe--EEEEecCCChhHH
Q 047109 10 MRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDS-------KGDPLHALTTVLNLMQNVDL--QAIICTEMTPTGA 80 (808)
Q Consensus 10 ~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~-------~~~~~~a~~~a~~li~~~~v--~aiiG~~~~s~~~ 80 (808)
++...|...+.|+++|++++|++. +.+|...+.+. +.|...+.+++|+++++ ++ .|||||. ++..+
T Consensus 6 ~~~~~~~~~~~A~~~Av~~~N~~~---~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~-gv~~~AIiGp~-ss~~a 80 (368)
T cd06383 6 MTEDDNDVYKQIIDDALSYINRNI---GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADS-AIVPHLVLDTT-TCGDA 80 (368)
T ss_pred ecccchHHHHHHHHHHHHHHhcCC---CCceEEEEecccccccccCCcHHHHHHHHHHHHHc-cCCcEEEECCC-cchhH
Confidence 344567889999999999999886 34455545544 35666777779999987 77 8999999 99999
Q ss_pred HHHHHhcCCCCccEEeccCCCCccccc--ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTS--YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFD 158 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~--~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 158 (808)
..++.+|+.++||+|+++.+... ... +++|+.|++. .+++|+++++++|+|++|++||++++... ...+.+.+
T Consensus 81 ~~V~si~~~~~IP~Is~s~~~~~-~~~~p~~ir~~Ps~~---~~~~Ai~dlI~~f~W~~v~iIYddd~gl~-~~l~~~l~ 155 (368)
T cd06383 81 SEIKSVTGALGIPTFSASYGQEG-DLEQPYLIQLMPPAD---DIVEAIRDIVSYYNITNAAILYDDDFVMD-HKYKSLLQ 155 (368)
T ss_pred HHHHHHHhccCCCEEEccCCCcC-cccCceEEEEeCChH---HHHHHHHHHHHHCCCcEEEEEEEcCchhh-HHHHHHHH
Confidence 99999999999999998654222 112 9999999999 99999999999999999999997776432 23333333
Q ss_pred -hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC-HHHHHHHHHHHHHcCCCCCCeEEEEeCcccccc
Q 047109 159 -SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS-HALASHLFLNAKKLGMMSKGYSWIVTASTMNFL 236 (808)
Q Consensus 159 -~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 236 (808)
.....++++. +. ...++...+++|++++.+.||+.|. ++.+..++++|.++||++.+|+||+++......
T Consensus 156 ~~~~~~~~~v~-----~~---~~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~ 227 (368)
T cd06383 156 NWPTRHVITII-----NS---IIDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIY 227 (368)
T ss_pred hHHhcCCEEEE-----ec---cchhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhh
Confidence 3334455543 11 2246889999999888855555555 599999999999999999999999999866543
Q ss_pred ccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhh------
Q 047109 237 HSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKT------ 310 (808)
Q Consensus 237 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~------ 310 (808)
+... .... ..++++++.........+++.++|.+ ...++.....+...++++||||+++++|++++..
T Consensus 228 dl~~--~~~~-~~Nitgfrl~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~ 301 (368)
T cd06383 228 DDLS--CQLR-NASIFVTRPMMDYQSSVRGALLRTDE---PTLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDG 301 (368)
T ss_pred hhhh--hccc-cCcEEEeeccccchhhhccceeeccC---CccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCC
Confidence 3211 1111 45889999865555555777766521 1111111123456799999999999999996421
Q ss_pred hc------CCh-----------HHHHHHHHcCccccceeEEEe-eCCcccC
Q 047109 311 EI------SNE-----------TCYYKQILNSRFTGLSGDFQL-INGKLTS 343 (808)
Q Consensus 311 ~~------~~~-----------~~l~~~l~~~~~~g~tG~v~f-~~g~~~~ 343 (808)
+. ..| ..+.++|+.++|+|+||+|.| ++|.|..
T Consensus 302 ~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~ 352 (368)
T cd06383 302 STGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVST 352 (368)
T ss_pred CcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeee
Confidence 11 122 288899999999999999999 9998886
No 73
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=99.97 E-value=6.5e-30 Score=273.41 Aligned_cols=320 Identities=12% Similarity=0.159 Sum_probs=263.8
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||+++|++|+. |....+|+++|++++| +++.++++++++.|+++++..+.+.+.+|+.+++|.+|||+. ++..
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~--~~i~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~-~s~~ 77 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLG--GKLGGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPV-FSNV 77 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhC--CCcCCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCC-ccHH
Confidence 699999999986 7789999999999997 566679999999999999999999999999877999999999 8888
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIP 154 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~ 154 (808)
+.++...+...++|+|+++++.+. +++ ++||+.|++. .++..+++++...+|+++++++.++.+|. +..+
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~-~~~~~~~~~~f~~~~~~~---~~~~~~~~~l~~~g~~~v~il~~~~~~~~-~~~~ 152 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSD-LAGKLCSPNFFRTSWQND---QVHEAMGKYAADKGYKKVVIIAPDYAAGK-DAVA 152 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCcc-ccccCCCCcEEEeeCChH---HhHHHHHHHHHHhCCceEEEEecCcchhH-HHHH
Confidence 888889999999999999887666 553 8999999999 99999999999999999999999999998 8889
Q ss_pred HHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 047109 155 YLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN 234 (808)
Q Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 234 (808)
.+.+.++ ..++....++. +..|+.+++++++++++|+|++......+..++++++++|+. +...++.++.+..
T Consensus 153 ~~~~~~~---~~~~~~~~~~~---~~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~-~~~~~~~~~~~~~ 225 (333)
T cd06332 153 GFKRTFK---GEVVEEVYTPL---GQLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLK-KKIPLYGPGFLTD 225 (333)
T ss_pred HHHHhhc---EEEeeEEecCC---CCcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCcc-cCCceeccCCCCC
Confidence 9998887 35555555554 456889999999999999999998888999999999999983 2455665554432
Q ss_pred ccccCCccccccccceeEEEeeccC--CcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhc
Q 047109 235 FLHSMDSSVVESSMQGVLGFKRYVP--ASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEI 312 (808)
Q Consensus 235 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~ 312 (808)
. ... ...... ..|++...++.+ +.+..++|.++|+++++.. +..++..+||++.+++.|+++++...
T Consensus 226 ~-~~~-~~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------~~~~~~~~yda~~~~~~a~~~ag~~~ 294 (333)
T cd06332 226 Q-DTL-PAQGDA-AVGVLTALHWAPDLDNPANKRFVAAYKAAYGRV--------PSVYAAQGYDAAQLLDAALRAVGGDL 294 (333)
T ss_pred H-HHH-Hhhchh-hcCeeeeeccCCCCCCHHHHHHHHHHHHHhCCC--------CcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 2 110 112223 567776655543 4578899999999888643 46678899999999999999998643
Q ss_pred CChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEE
Q 047109 313 SNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIV 350 (808)
Q Consensus 313 ~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~ 350 (808)
.++..+.++|++++|+|++|++.| .+|+... .+.+.
T Consensus 295 ~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~--~~~~~ 331 (333)
T cd06332 295 SDKDALRAALRAADFDSPRGPFKFNPNHNPIQ--DFYLR 331 (333)
T ss_pred CCHHHHHHHHhcCceecCccceeECCCCCccc--ceeEE
Confidence 356789999999999999999999 8898877 55554
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=99.97 E-value=8.1e-30 Score=273.77 Aligned_cols=325 Identities=11% Similarity=0.092 Sum_probs=253.8
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcc--eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCCh
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYK--TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTP 77 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~--~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s 77 (808)
|||++.|+||+. |.....++++|+++||..+++.+ ++|++++.|++++|.+|++++++|+++++|.+|||+. +|
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 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVVGGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGG-TP 79 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeECCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecC-Cc
Confidence 699999999986 88888999999999996554555 6899999999999999999999999988999999999 99
Q ss_pred hHHHHHHHhcCCCCccEEeccCCCCc-------c-cc-c-ceeeeccCCchhhHHHHHHHHHHHhcC-CcEEEEEEecCC
Q 047109 78 TGAHILAEIGSKAKIPVISLYATLPS-------S-LT-S-YSIQIDQDDEASQSQAKGIADLIRVFK-WKHVILIYEDNT 146 (808)
Q Consensus 78 ~~~~~~~~~~~~~~iP~is~~~~~~~-------~-ls-~-~~~r~~p~~~~~~~~~~a~~~ll~~~~-w~~v~ii~~d~~ 146 (808)
..+.++++++.+.+||+|++.++.+. . .. . ++||+.+++. .+..+++++++..+ ++++++++.++.
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~k~v~ii~~~~~ 156 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAE---DVVATYVGMWKQLETNKKVGILYPNDP 156 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHH---HHHHHHHHHHHhCCCCceEEEEeecCc
Confidence 99999999999999999997543211 0 11 2 7889988888 88888888888777 999999999999
Q ss_pred ccccCcHHHHH---HhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 047109 147 WGSDNIIPYLF---DSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKG 223 (808)
Q Consensus 147 ~g~~~~~~~~~---~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~ 223 (808)
||. ...+.+. +.+++.|++++..+.++. +..|+.+++++|+++++|+|++.+.+.++..++++++++|+..
T Consensus 157 ~g~-~~~~~~~~~~~~~~~~G~~vv~~~~~~~---~~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~-- 230 (357)
T cd06337 157 DGN-AFADPVIGLPAALADAGYKLVDPGRFEP---GTDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKP-- 230 (357)
T ss_pred hhH-HHHHhhhcccHHHHhCCcEEecccccCC---CCCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCC--
Confidence 998 7766655 566779999998888776 6679999999999999999999999999999999999999832
Q ss_pred eEEEEeCcc--ccccccCCccccccccceeEEEeeccCC--------cHHHHHHHHHHHHHhhccCCCCCCCCcchhhhh
Q 047109 224 YSWIVTAST--MNFLHSMDSSVVESSMQGVLGFKRYVPA--------SKQLRNFTLKWKREMYLNNQNAEVSELDVHGIL 293 (808)
Q Consensus 224 ~~~i~~~~~--~~~~~~~~~~~~~~~~~g~~~~~~~~~~--------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 293 (808)
.+...+... ........ .. .+|++....+.+. ++..++|.++|++.++.. +.....+
T Consensus 231 ~~~~~~~~~~~~~~~~~~g----~~-~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g~~--------~~~~~~~ 297 (357)
T cd06337 231 KIVTIAKALLFPEDVEALG----DR-GDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATGRQ--------WTQPLGY 297 (357)
T ss_pred CeEEEeccccCHHHHHHhh----hh-hcCccccceeccCCCcccccCCccHHHHHHHHHHHhCCC--------ccCcchH
Confidence 222212221 11111111 11 3444443222221 345889999999988754 2234577
Q ss_pred HhhHHHHHHHHHHHHhhhcCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEeecC
Q 047109 294 AYDTVWALAKASEKLKTEISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGK 355 (808)
Q Consensus 294 ~ydav~~~a~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~ 355 (808)
+||++.++++|++++++. .++..|.++|++.+++++.|++.| ++ ... ...|..++++
T Consensus 298 ~~~~~~~l~~Ai~~Ags~-~d~~~v~~aL~~~~~~~~~G~~~f~~~--~~~--~~~~~~~~~~ 355 (357)
T cd06337 298 AHALFEVGVKALVRADDP-DDPAAVADAIATLKLDTVVGPVDFGNS--PIK--NVAKTPLVGG 355 (357)
T ss_pred HHHHHHHHHHHHHHcCCC-CCHHHHHHHHHcCCcccceeeeecCCC--CCc--cccccccccC
Confidence 999999999999999863 167899999999999999999999 65 333 5666666554
No 75
>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=2.2e-28 Score=261.82 Aligned_cols=317 Identities=10% Similarity=0.082 Sum_probs=254.6
Q ss_pred eEEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 2 VHVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 2 i~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
|+||++.|+||+. |.....|+++|+++||+.+|+.+++|+++..|+++||..+.+.+++++++++|.+|||+. ++.
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 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGVNGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYV-GTP 79 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCcCCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCC-Cch
Confidence 7999999999987 888999999999999999999889999999999999999999999999866999999998 888
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCcccc---c-ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHH
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSLT---S-YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIP 154 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~ls---~-~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~ 154 (808)
.+.++..++...++|+|+++++++. ++ . ++||+.+++. ..+..+++++...||+++++++.++.++. ...+
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~-~~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~g~~~v~~l~~~~~~~~-~~~~ 154 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASS-LRDPPDRNVFNVRASYA---DEIAAIVRHLVTLGLKRIAVFYQDDAFGK-DGLA 154 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHH-hcCCCCCceEEeCCChH---HHHHHHHHHHHHhCCceEEEEEecCcchH-HHHH
Confidence 7788889999999999998766655 54 2 8899999999 99999999999999999999999888998 8999
Q ss_pred HHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 047109 155 YLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN 234 (808)
Q Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 234 (808)
.+++.+++.|++++....++. +..++..++.+++++++|+|++..+...+..+++++++.|+.. ..... .....
T Consensus 155 ~~~~~~~~~G~~~~~~~~~~~---~~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~-~~~~~--~~~~~ 228 (336)
T cd06326 155 GVEKALAARGLKPVATASYER---NTADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGA-QFYNL--SFVGA 228 (336)
T ss_pred HHHHHHHHcCCCeEEEEeecC---CcccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCC-cEEEE--eccCH
Confidence 999999999999877666655 4568999999999889999999998888999999999999832 22222 21111
Q ss_pred ccccCCccccccccceeEEEe--e--ccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhh
Q 047109 235 FLHSMDSSVVESSMQGVLGFK--R--YVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKT 310 (808)
Q Consensus 235 ~~~~~~~~~~~~~~~g~~~~~--~--~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~ 310 (808)
. .. ....... .+|++... + .....|..++|.+.|++.++.. .++.++..+||++.++++|+++++.
T Consensus 229 ~-~~-~~~~g~~-~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~-------~~~~~~~~~y~~~~~~~~a~~~~g~ 298 (336)
T cd06326 229 D-AL-ARLLGEY-ARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPGA-------PPSYVSLEGYIAAKVLVEALRRAGP 298 (336)
T ss_pred H-HH-HHHhhhh-hcceEEEEEecCccccCCHHHHHHHHHHHhhCCCC-------CCCeeeehhHHHHHHHHHHHHHcCC
Confidence 0 00 0111122 45555322 1 2233678889999988877542 1455678899999999999999986
Q ss_pred hcCChHHHHHHHHcCcc-ccceeEEEe--eCCcc
Q 047109 311 EISNETCYYKQILNSRF-TGLSGDFQL--INGKL 341 (808)
Q Consensus 311 ~~~~~~~l~~~l~~~~~-~g~tG~v~f--~~g~~ 341 (808)
.. ++.++.++|++++. .+..+.+.| +||+.
T Consensus 299 ~~-~~~~v~~al~~~~~~~~~g~~~~~~~~~h~~ 331 (336)
T cd06326 299 DP-TRESLLAALEAMGKFDLGGFRLDFSPGNHQG 331 (336)
T ss_pred CC-CHHHHHHHHHhcCCCCCCCeEEecCcccccc
Confidence 32 78899999999875 455557999 55543
No 76
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=99.96 E-value=3.7e-28 Score=258.20 Aligned_cols=302 Identities=12% Similarity=0.098 Sum_probs=243.8
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|++|+. |.....|+++|++++| ++++++++.|+++ |..+++.+.+|+++ +|.+||||. +|..
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in------G~~i~l~~~D~~~-~~~a~~~~~~li~~-~V~~iiG~~-~s~~ 71 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN------GASIELRVYDTAG-AAGAAAAARQAVAE-GADIIVGPL-LKEN 71 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc------CCCceEEEEeCCC-cccHHHHHHHHHHc-CCCEEEccC-CHHH
Confidence 699999999984 8889999999999999 5789999999999 99999999999986 999999999 9999
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFD 158 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~ 158 (808)
+.++++++...+||+|+++++.+. ..+ ++||+.+++. .++.++++++...|+++++++++++.||. ...+.|.+
T Consensus 72 ~~a~~~~~~~~~ip~i~~~~~~~~-~~~~~~f~~~~~~~---~~~~~~~~~~~~~g~k~vaii~~~~~~g~-~~~~~f~~ 146 (336)
T cd06339 72 VAALAAAAAELGVPVLALNNDESV-AAGPNLFYFGLSPE---DEARRAAEYARSQGKRRPLVLAPDGAYGQ-RVADAFRQ 146 (336)
T ss_pred HHHHHhhhccCCCCEEEccCCccc-cCCCCEEEecCChH---HHHHHHHHHHHhcCccceEEEecCChHHH-HHHHHHHH
Confidence 999989999999999998765544 324 8999999999 99999999998889999999999999999 99999999
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC---------------------CCeEEEEEcCHH-HHHHHHHHHHH
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS---------------------ETKVFVVHMSHA-LASHLFLNAKK 216 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~---------------------~~~viil~~~~~-~~~~~l~~a~~ 216 (808)
.+++.|++|+..+.++. +..|+.+++++|++. ++|+|++.+.+. ++..+.++++.
T Consensus 147 ~~~~~G~~vv~~~~~~~---~~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~ 223 (336)
T cd06339 147 AWQQLGGTVVAIESYDP---SPTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLF 223 (336)
T ss_pred HHHHcCCceeeeEecCC---CHHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhh
Confidence 99999999998888876 778999999999988 999999988886 67777777776
Q ss_pred cCCCCCCeEEEEeCccccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCc-chhhhhHh
Q 047109 217 LGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSEL-DVHGILAY 295 (808)
Q Consensus 217 ~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~~~~~y 295 (808)
.+....+..+++++.+.... .... .... .+|++...... ....+|.+.|++.|+.. + ..+++.+|
T Consensus 224 ~~~~~~~~~~~g~~~~~~~~-~~~~-~g~~-~~g~~~~~~~~---~~~~~f~~~y~~~~~~~--------p~~~~~a~~Y 289 (336)
T cd06339 224 YYGVPGDVPLYGTSRWYSGT-PAPL-RDPD-LNGAWFADPPW---LLDANFELRYRAAYGWP--------PLSRLAALGY 289 (336)
T ss_pred hccCcCCCCEEEeccccCCC-CCcc-cCcc-cCCcEEeCCCc---ccCcchhhhHHHHhcCC--------CCchHHHHHH
Confidence 65311245577777665421 1111 1122 55655443321 12237888898888653 4 66899999
Q ss_pred hHHHHHHHHHHHHhhhcCChHHHHHHHH-cCccccceeEEEe-eCCcccC
Q 047109 296 DTVWALAKASEKLKTEISNETCYYKQIL-NSRFTGLSGDFQL-INGKLTS 343 (808)
Q Consensus 296 dav~~~a~Al~~~~~~~~~~~~l~~~l~-~~~~~g~tG~v~f-~~g~~~~ 343 (808)
|++.+++.++++++.+ . ++. ...|+|++|+++| ++|+...
T Consensus 290 Da~~l~~~~~~~~~~~--~------al~~~~~~~g~~G~~~f~~~g~~~~ 331 (336)
T cd06339 290 DAYALAAALAQLGQGD--A------ALTPGAGFSGVTGVLRLDPDGVIER 331 (336)
T ss_pred hHHHHHHHHHHccccc--c------ccCCCCccccCcceEEECCCCeEEe
Confidence 9999999888877543 2 343 3469999999999 8888765
No 77
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=99.95 E-value=5.6e-27 Score=247.07 Aligned_cols=299 Identities=12% Similarity=0.110 Sum_probs=232.5
Q ss_pred hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccE
Q 047109 15 GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPV 94 (808)
Q Consensus 15 g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~ 94 (808)
+.+...|+++|+++||+.||+++++|+++..|. ++|..+++++++|+++ +|.+|+|+. +|+++.++.+++.+.++|+
T Consensus 10 ~~~~~~ga~lAveeiNaaGGv~G~~ielv~~D~-~~p~~a~~~a~~Li~~-~V~~vvG~~-~S~~~~Av~~~a~~~~vp~ 86 (347)
T TIGR03863 10 EDRGLDGARLAIEDNNTTGRFLGQTFTLDEVAV-RTPEDLVAALKALLAQ-GVRFFVLDL-PAAALLALADAAKAKGALL 86 (347)
T ss_pred cchHHHHHHHHHHHHHhhCCcCCceEEEEEccC-CCHHHHHHHHHHHHHC-CCCEEEecC-ChHHHHHHHHHHHhCCcEE
Confidence 456789999999999999999999999999975 7899999999999965 899999999 9999999999999999999
Q ss_pred EeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEE
Q 047109 95 ISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIAR 169 (808)
Q Consensus 95 is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~ 169 (808)
|+++++++. ++. ++||+.|++. .++.++++++...+.+++++|+.|++||. ...+.+++.+++.|++|+.
T Consensus 87 i~~~a~~~~-lt~~~c~~~~Fr~~~~~~---~~~~ala~~~~~~g~kkvaii~~~~~~g~-~~~~~~~~~~~~~G~~vv~ 161 (347)
T TIGR03863 87 FNAGAPDDA-LRGADCRANLLHTLPSRA---MLADALAQYLAAKRWRRILLIQGPLPADA-LYADAFRRSAKRFGAKIVA 161 (347)
T ss_pred EeCCCCChH-HhCCCCCCCEEEecCChH---hHHHHHHHHHHHcCCCEEEEEeCCCcccH-HHHHHHHHHHHHCCCEEEE
Confidence 999998888 864 8999999999 99999999997779999999999999999 9999999999999999999
Q ss_pred EEecCCCCCC--hHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccCCccccccc
Q 047109 170 RITISMSSNT--DDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESS 247 (808)
Q Consensus 170 ~~~~~~~~~~--~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~ 247 (808)
.+.++. ..+ .+++.......+.+++|+|++.....+....+... .+. ....+.
T Consensus 162 ~~~~~~-~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~--~~~---~~~~~g------------------- 216 (347)
T TIGR03863 162 ERPFTF-SGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYA--TWL---PRPVAG------------------- 216 (347)
T ss_pred eEEecc-CCchhhhhcccCceeecCCCCCEEEEecchhhHhhhcccc--ccc---cccccc-------------------
Confidence 888765 221 23444323334458999999976554432211100 000 000000
Q ss_pred cceeEEEee-ccCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcCChHHHHHHHHcCc
Q 047109 248 MQGVLGFKR-YVPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEISNETCYYKQILNSR 326 (808)
Q Consensus 248 ~~g~~~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~~~~~l~~~l~~~~ 326 (808)
..|+..... ...+.+..++|.++|+++|+.. +...++.+||++++++.|++++++. ++.++.++|++.+
T Consensus 217 ~~G~~~~~~~~~~~~~~~~~f~~~f~~~~g~~--------p~~~~a~aY~av~~~a~Ai~~AGs~--d~~aV~~aL~~~~ 286 (347)
T TIGR03863 217 SAGLVPTAWHRAWERWGATQLQSRFEKLAGRP--------MTELDYAAWLAVRAVGEAVTRTRSA--DPATLRDYLLSDE 286 (347)
T ss_pred ccCccccccCCcccchhHHHHHHHHHHHhCCC--------CChHHHHHHHHHHHHHHHHHHhcCC--CHHHHHHHHcCCC
Confidence 112221111 1223467889999999988654 4556888999999999999999998 9999999999987
Q ss_pred c--cccee-EEEe--eCCcccCCccEEEEEeecCcEEEE
Q 047109 327 F--TGLSG-DFQL--INGKLTSSRAFEIVNVIGKTVKIV 360 (808)
Q Consensus 327 ~--~g~tG-~v~f--~~g~~~~~~~~~i~~~~~~~~~~v 360 (808)
+ .+..| +++| .||+... ...+.+. ++.+.+
T Consensus 287 ~~~~~~~g~~~~~R~~Dhq~~~--~~~~~~~--~~~~~~ 321 (347)
T TIGR03863 287 FELAGFKGRPLSFRPWDGQLRQ--PVLLVHP--RAVVSV 321 (347)
T ss_pred ceecccCCCcceeeCCCccccc--ceEeccc--ceeEee
Confidence 7 46777 5999 4888887 5555444 344443
No 78
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.95 E-value=3.3e-26 Score=245.20 Aligned_cols=309 Identities=13% Similarity=0.079 Sum_probs=247.9
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||+++|++|+. |....+|+++|++++|+.||+.++++++++.|++++|.++.+++.+|+++++|.+|||+. ++..
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 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGIAGRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGS-SGAG 79 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCcCCceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecc-cccc
Confidence 699999999865 889999999999999999999889999999999999999999999999888999999999 8877
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccc-c-ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC-ccccCcHHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLT-S-YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT-WGSDNIIPYL 156 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls-~-~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~-~g~~~~~~~~ 156 (808)
+.++ +++...++|+|+++++++. +. . +.|++.+++. .++..+++++...+.+++++++.++. ||. ...+.+
T Consensus 80 ~~~~-~~~~~~~ip~v~~~~~~~~-~~~~~~~~~~~~~~~---~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~-~~~~~~ 153 (341)
T cd06341 80 GSAL-PYLAGAGIPVIGGAGTSAW-ELTSPNSFPFSGGTP---ASLTTWGDFAKDQGGTRAVALVTALSAAVS-AAAALL 153 (341)
T ss_pred hhHH-HHHhhcCCceecCCCCCch-hhcCCCeEEecCCCc---chhHHHHHHHHHcCCcEEEEEEeCCcHHHH-HHHHHH
Confidence 7666 8888999999999887777 66 3 7888988888 88999999998888999999987765 898 899999
Q ss_pred HHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccccc
Q 047109 157 FDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFL 236 (808)
Q Consensus 157 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 236 (808)
++.++++|+.++....++. +..|+...+.++++.++|+|++..+...+..+++++++.|+..+ ..+.........
T Consensus 154 ~~~~~~~G~~v~~~~~~~~---~~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~--~~~~~~~~~~~~ 228 (341)
T cd06341 154 ARSLAAAGVSVAGIVVITA---TAPDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPK--VVLSGTCYDPAL 228 (341)
T ss_pred HHHHHHcCCccccccccCC---CCCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCC--EEEecCCCCHHH
Confidence 9999999999887666554 45689999999999999999999998899999999999998433 222222221111
Q ss_pred ccCCccccccccceeEEEeeccC---CcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhhhcC
Q 047109 237 HSMDSSVVESSMQGVLGFKRYVP---ASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKTEIS 313 (808)
Q Consensus 237 ~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~~~~ 313 (808)
. ....+. .+|++....+.+ ..|..++|.+.+++...... ..++.++..+||+++++++|+++++...
T Consensus 229 ~---~~~g~~-~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~-----~~~~~~~~~~yda~~~~~~a~~~ag~~~- 298 (341)
T cd06341 229 L---AAPGPA-LAGVYIAVFYRPFESGTPAVALYLAAMARYAPQLD-----PPEQGFALIGYIAADLFLRGLSGAGGCP- 298 (341)
T ss_pred H---HhcCcc-cCceEEEeeeccccCCCHHHHHHHHHHHHhCCCCC-----CCcchHHHHHHHHHHHHHHHHHhcCCCC-
Confidence 1 112233 677776655443 56788888876654332210 1256789999999999999999998742
Q ss_pred ChHH-HHHHHHcCccccceeE
Q 047109 314 NETC-YYKQILNSRFTGLSGD 333 (808)
Q Consensus 314 ~~~~-l~~~l~~~~~~g~tG~ 333 (808)
++.+ +.++|++++.....|.
T Consensus 299 ~~~~~v~~al~~~~~~~~~g~ 319 (341)
T cd06341 299 TRASQFLRALRAVTDYDAGGL 319 (341)
T ss_pred ChHHHHHHHhhcCCCCCCCCc
Confidence 5677 9999999876554444
No 79
>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=5.4e-26 Score=239.11 Aligned_cols=221 Identities=29% Similarity=0.406 Sum_probs=202.6
Q ss_pred EEEEEEecCC--c---chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhc----CCeEEEEec
Q 047109 3 HVGVILDMRS--W---AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQN----VDLQAIICT 73 (808)
Q Consensus 3 ~IG~i~~~~~--~---~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~----~~v~aiiG~ 73 (808)
+||+++|.++ . .+.....++..|++++|+. +.++++++.+.|+++++..+...+.++++. +++.+||||
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~--~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG~ 78 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINND--LPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIGP 78 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhcc--CCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEECC
Confidence 4899999986 2 2777888999999999987 444999999999999999999999999986 699999999
Q ss_pred CCChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCcc
Q 047109 74 EMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWG 148 (808)
Q Consensus 74 ~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g 148 (808)
. ++..+.+++.+++.++||+|+++++++. +++ +++|+.|++. .+++++++++++++|++++++|++++++
T Consensus 79 ~-~s~~~~~v~~~~~~~~iP~is~~~~~~~-~~~~~~~~~~~~~~p~~~---~~~~a~~~~l~~~~w~~v~~v~~~~~~~ 153 (298)
T cd06269 79 S-SSSSAEAVASLLGALHIPQISYSATSPL-LSDKEQFPSFLRTVPSDS---SQAQAIVDLLKHFGWTWVGLVYSDDDYG 153 (298)
T ss_pred C-CchHHHHHHHHhccCCCcEEecccCchh-hcChhhCCCeEecCCCcH---HHHHHHHHHHHHCCCeEEEEEEecchhh
Confidence 9 9999999999999999999999998888 874 9999999999 9999999999999999999999999999
Q ss_pred ccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 149 SDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 149 ~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
. ...+.+.+.+++.|+++.....++. ...++...+++++++++++|++++.++++..+++++.++|+. .+++||+
T Consensus 154 ~-~~~~~~~~~~~~~~~~v~~~~~~~~---~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~ 228 (298)
T cd06269 154 R-RLLELLEEELEKNGICVAFVESIPD---GSEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWII 228 (298)
T ss_pred H-HHHHHHHHHHHHCCeeEEEEEEcCC---CHHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEE
Confidence 9 9999999999999999998887765 457999999999999999999999999999999999999998 8899999
Q ss_pred eCccccc
Q 047109 229 TASTMNF 235 (808)
Q Consensus 229 ~~~~~~~ 235 (808)
++.|...
T Consensus 229 ~~~~~~~ 235 (298)
T cd06269 229 TDLWLTS 235 (298)
T ss_pred EChhhcc
Confidence 9998753
No 80
>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=99.95 E-value=6.9e-27 Score=248.51 Aligned_cols=349 Identities=19% Similarity=0.255 Sum_probs=276.0
Q ss_pred eEEEEEEecCC-----cchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCC
Q 047109 2 VHVGVILDMRS-----WAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEM 75 (808)
Q Consensus 2 i~IG~i~~~~~-----~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~ 75 (808)
.++++++|+.. +-|+.+.-|+++|++++|+.+.++| ++|.++..|++|++..+..+..+++-.......+-+.
T Consensus 42 ~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~mll~G- 120 (865)
T KOG1055|consen 42 RRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLMLLGG- 120 (865)
T ss_pred ceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchheeccC-
Confidence 45677777642 2278899999999999999999999 9999999999999999999999998764444444344
Q ss_pred ChhHHHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCcccc
Q 047109 76 TPTGAHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSD 150 (808)
Q Consensus 76 ~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~ 150 (808)
|++.+..++.-+..++.-+++|++++|. |++ +|||+.|++. ......+.++++|+|++++.++++.+--.
T Consensus 121 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 121 CSSVTTLIAEAAKMWNLIVLSYGASSPA-LSNRKRFPTFFRTHPSAN---AHNPTRIKLLKKFGWKRVATLQQTEEVFS- 195 (865)
T ss_pred CCCcchHHHhhccccceeeecccCCCcc-ccchhhcchhhhcCCccc---cCCcceeeechhcCcceeeeeeeehhhhc-
Confidence 8888999999999999999999999999 998 9999999999 88889999999999999999998876544
Q ss_pred CcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 151 NIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 151 ~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
.-.+.+...+.+.++.++..+.+.. |....+.++++..+|+|+-..+-..|+.++++++..+|-+..|+|+...
T Consensus 196 ~~~~dl~~~~~~~~ieiv~~qsf~~------dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~g 269 (865)
T KOG1055|consen 196 STLNDLEARLKEAGIEIVFRQSFSS------DPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLIG 269 (865)
T ss_pred chHHHHHHhhhccccEEEEeecccc------CHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEEE
Confidence 6788899999999999998877544 5566788899999999999999999999999999999999999999866
Q ss_pred ccccccc-----c---CCccccccccceeEEEeec--cCCc------HHHHHHHHHHHHHhhccCCCCCCCCcchhhhhH
Q 047109 231 STMNFLH-----S---MDSSVVESSMQGVLGFKRY--VPAS------KQLRNFTLKWKREMYLNNQNAEVSELDVHGILA 294 (808)
Q Consensus 231 ~~~~~~~-----~---~~~~~~~~~~~g~~~~~~~--~~~~------~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ 294 (808)
....... . .-.++..+ ++|.+++... +... -...+|...+.++.+...+.. .......++
T Consensus 270 ~y~d~w~ev~~~~~~ctveem~~A-~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~~---~~~~~~~~a 345 (865)
T KOG1055|consen 270 WYADNWWEITHPSENCTVEEMTEA-AEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEET---GGFQEAPLA 345 (865)
T ss_pred eeccchhhccCchhhhhHHHHHHH-HhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccccc---cCcccCchH
Confidence 5332111 1 11234455 6676665432 2211 124455555544433221111 123457789
Q ss_pred hhHHHHHHHHHHHHhhhc----------C-----ChHHHHHHHHcCccccceeEEEeeCCcccCCccEEEEEeecCcEEE
Q 047109 295 YDTVWALAKASEKLKTEI----------S-----NETCYYKQILNSRFTGLSGDFQLINGKLTSSRAFEIVNVIGKTVKI 359 (808)
Q Consensus 295 ydav~~~a~Al~~~~~~~----------~-----~~~~l~~~l~~~~~~g~tG~v~f~~g~~~~~~~~~i~~~~~~~~~~ 359 (808)
||+++++|+|++++...+ . -.+.|.++|.+++|+|++|.|.|.+|+|.. ...|-|++++.+++
T Consensus 346 yd~Iwa~ala~n~t~e~l~~~~~~l~~f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~geR~a--~t~ieQ~qdg~y~k 423 (865)
T KOG1055|consen 346 YDAIWALALALNKTMEGLGRSHVRLEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSNGERMA--LTLIEQFQDGKYKK 423 (865)
T ss_pred HHHHHHHHHHHHHHHhcCCccceeccccchhhhHHHHHHHHHhhcccccccccceEecchhhHH--HHHHHHHhCCceEe
Confidence 999999999999986541 1 356799999999999999999995599998 88899999999999
Q ss_pred EEEEeCCCC
Q 047109 360 VGFWTPTTR 368 (808)
Q Consensus 360 vg~~~~~~~ 368 (808)
+|.|+....
T Consensus 424 ~g~Yds~~D 432 (865)
T KOG1055|consen 424 IGYYDSTKD 432 (865)
T ss_pred ecccccccc
Confidence 999997665
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=99.94 E-value=2.5e-25 Score=235.21 Aligned_cols=277 Identities=19% Similarity=0.216 Sum_probs=223.6
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||+++|+||+. |.....|+++|+++||+ +|+.++++++++.|+++++..+.+.+.+++.+++|.+|||+. ++..
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-GGIGGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPS-TTPA 78 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCcCCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCC-CCHH
Confidence 699999999976 88899999999999999 888889999999999999999999999999877999999998 8887
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc---ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS---YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYL 156 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~---~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~ 156 (808)
+.++..++...++|+|+++++.+. ++. ++||+.|++. ..+..+++++...||+++++++.++.+|. ...+.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~-~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~g~~~vail~~~~~~~~-~~~~~~ 153 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAI-VEPKRKWVFKTPQNDR---LMAEAILADMKKRGVKTVAFIGFSDAYGE-SGLKEL 153 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccc-cCCCCCcEEEcCCCcH---HHHHHHHHHHHHcCCCEEEEEecCcHHHH-HHHHHH
Confidence 888888999999999998876654 433 8899999999 99999999999999999999999888998 888999
Q ss_pred HHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccccc
Q 047109 157 FDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMNFL 236 (808)
Q Consensus 157 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~~~ 236 (808)
.+.+++.|++++....++. +..++...+.++++.++|+|++..+...+..+++++++.|+. ...+ .++.....
T Consensus 154 ~~~~~~~G~~v~~~~~~~~---~~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~--~p~~-~~~~~~~~- 226 (312)
T cd06333 154 KALAPKYGIEVVADERYGR---TDTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYK--GPIY-QTHGVASP- 226 (312)
T ss_pred HHHHHHcCCEEEEEEeeCC---CCcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCC--CCEE-eecCcCcH-
Confidence 9999999999987666654 445788889999888899999998888888899999999973 3333 33322211
Q ss_pred ccCCccccccccceeEEEee------c----cCCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHH
Q 047109 237 HSMDSSVVESSMQGVLGFKR------Y----VPASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALA 302 (808)
Q Consensus 237 ~~~~~~~~~~~~~g~~~~~~------~----~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a 302 (808)
+.. ...... .+|++.... . .+..+..++|.++|++.|+... +..+++.+||++.+++
T Consensus 227 ~~~-~~~g~~-~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~~~-------~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 227 DFL-RLAGKA-AEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGAGS-------VSTFGGHAYDALLLLA 293 (312)
T ss_pred HHH-HHhhHh-hcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCCCC-------CCchhHHHHHHHHHHH
Confidence 110 111122 455544321 1 1224678999999998886531 4557899999999998
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=99.94 E-value=2.9e-25 Score=233.65 Aligned_cols=277 Identities=24% Similarity=0.339 Sum_probs=227.5
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||+++|++|+. |.....|+++|++++|+++++.++++++++.|+++++..+.+.+.+++++++|.+|||+. ++..
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~-~~~~ 79 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGIPGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPV-SSGV 79 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCCCCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCC-CcHH
Confidence 699999999853 888999999999999999987779999999999999999999999999887999999999 9888
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-----ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-----YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIP 154 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-----~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~ 154 (808)
+.++..++...+||+|++.+..+. +++ +++++.|++. .++..+++++.+++|+++++++.++.++. ...+
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~-~~~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~v~iv~~~~~~~~-~~~~ 154 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPG-LTDKKGYPYLFRTGPSDE---QQAEALADYIKEYNWKKVAILYDDDSYGR-GLLE 154 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcc-cccccCCCCEEEecCCcH---HHHHHHHHHHHHcCCcEEEEEecCchHHH-HHHH
Confidence 888999999999999999887776 652 8999999999 99999999999999999999999988888 8899
Q ss_pred HHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 047109 155 YLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN 234 (808)
Q Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 234 (808)
.+++.+++.|+++.....++. +.+++...++++++.++++|++++++..+..+++++++.|+. +++.|+..+.+..
T Consensus 155 ~~~~~~~~~g~~i~~~~~~~~---~~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~ 230 (299)
T cd04509 155 AFKAAFKKKGGTVVGEEYYPL---GTTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLS 230 (299)
T ss_pred HHHHHHHHcCCEEEEEecCCC---CCccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccC
Confidence 999999999999887655554 346788899999888899999999889999999999999997 7899999887654
Q ss_pred ccccCCccccccccceeEEEeeccCCc--HHHHHHH---HHHHHHhhccCCCCCCCCcchhhhhHhhHHHH
Q 047109 235 FLHSMDSSVVESSMQGVLGFKRYVPAS--KQLRNFT---LKWKREMYLNNQNAEVSELDVHGILAYDTVWA 300 (808)
Q Consensus 235 ~~~~~~~~~~~~~~~g~~~~~~~~~~~--~~~~~f~---~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~ 300 (808)
.... ...... ..|.++.....+.. +..+.|. ..++..++. .++.+++++||++++
T Consensus 231 ~~~~--~~~~~~-~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~yda~~~ 290 (299)
T cd04509 231 DVLL--EAGGEA-AEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYED--------QPDYFAALAYDAVLL 290 (299)
T ss_pred HHHH--HHhHHh-hcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhCC--------CCChhhhhhcceeee
Confidence 3211 112233 56777766554432 3334443 233332221 256789999999886
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=99.91 E-value=7.4e-23 Score=215.17 Aligned_cols=276 Identities=22% Similarity=0.276 Sum_probs=227.6
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||+++|++|+. |.....|++.|++++|+.+|+.++++++++.|+++++..+.+.+++++++ +|.+|||+. ++..
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~d~~~~~~~~~~~~~~l~~~-~v~~iig~~-~~~~ 78 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVEDTQGDPEAAAAAARELVDD-GVDAVIGPL-SSGV 78 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCCHHHHHHHHHHHHhC-CceEEEcCC-cchh
Confidence 699999999743 88899999999999999998888999999999999999999999999987 999999999 8888
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccc---c-ceeeeccCCchhhHHHHHHHHHHHhcC-CcEEEEEEecCCccccCcHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLT---S-YSIQIDQDDEASQSQAKGIADLIRVFK-WKHVILIYEDNTWGSDNIIP 154 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls---~-~~~r~~p~~~~~~~~~~a~~~ll~~~~-w~~v~ii~~d~~~g~~~~~~ 154 (808)
+..+...+...+||+|++.+..+. +. . ++|++.|++. .++.++++++...+ |+++++++.++.++. ...+
T Consensus 79 ~~~~~~~~~~~~ip~i~~~~~~~~-~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~-~~~~ 153 (298)
T cd06268 79 ALAAAPVAEEAGVPLISPGATSPA-LTGKGNPYVFRTAPSDA---QQAAALADYLAEKGKVKKVAIIYDDYAYGR-GLAA 153 (298)
T ss_pred HHhhHHHHHhCCCcEEccCCCCcc-cccCCCceEEEcccCcH---HHHHHHHHHHHHhcCCCEEEEEEcCCchhH-HHHH
Confidence 888899999999999999888776 64 2 8999999999 99999999998887 999999999988998 8999
Q ss_pred HHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 047109 155 YLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN 234 (808)
Q Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 234 (808)
.+.+.+++.|++++....++. +..++...++++++.++++|++.+++..+..+++++.+.|+ +..|+..+.+..
T Consensus 154 ~~~~~~~~~g~~i~~~~~~~~---~~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~ 227 (298)
T cd06268 154 AFREALKKLGGEVVAEETYPP---GATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---KVPIVGGDGAAA 227 (298)
T ss_pred HHHHHHHHcCCEEEEEeccCC---CCccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---CCcEEecCccCC
Confidence 999999999999887666554 34678889999998889999999888899999999999997 566777776653
Q ss_pred ccccCCccccccccceeEEEeeccCC--cHHHHHHH-HHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHH
Q 047109 235 FLHSMDSSVVESSMQGVLGFKRYVPA--SKQLRNFT-LKWKREMYLNNQNAEVSELDVHGILAYDTVWALA 302 (808)
Q Consensus 235 ~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a 302 (808)
.... ...... ..|+++...+.+. .+....|. +.|++.++.. ++.++..+||++.+++
T Consensus 228 ~~~~--~~~~~~-~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 228 PALL--ELAGDA-AEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYGRP--------PDSYAAAAYDAVRLLA 287 (298)
T ss_pred HHHH--HhhhHh-hCCcEEeccCCCCCCChhhhHHHHHHHHHHhCCC--------cccchHHHHHHHHHHc
Confidence 2111 111222 5666666555432 33444554 6677666543 5667999999999887
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=99.91 E-value=1.2e-21 Score=197.62 Aligned_cols=321 Identities=12% Similarity=0.062 Sum_probs=236.0
Q ss_pred hhhHHHHHHHHHHHHHhcCCCcceEEEE----------EEecC-C-CCHHHHHHHHHHhhhc-CCeEEEEecCCChhHHH
Q 047109 15 GKISNSCISMAISDFYALNTHYKTRLVL----------HSRDS-K-GDPLHALTTVLNLMQN-VDLQAIICTEMTPTGAH 81 (808)
Q Consensus 15 g~~~~~a~~~Av~~iN~~~~~l~~~l~~----------~~~d~-~-~~~~~a~~~a~~li~~-~~v~aiiG~~~~s~~~~ 81 (808)
-..++.|++.|++.+++....-|.++.+ +..+. | ++.=+++++..+|+.. ..-++++||. |..++.
T Consensus 17 ~~~v~~av~~a~~~~~~~~~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~-CtYat~ 95 (380)
T cd06369 17 LKFVKEAVEEAIEIVAERLAEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPS-CTYATF 95 (380)
T ss_pred HHHHHHHHHHHHHHHHhhhhccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCc-cceehh
Confidence 3457789999999887754333344444 44443 3 3344677777777665 4578999999 999999
Q ss_pred HHHHhcCCCCccEEeccCCCCccccc--ceeeeccCCchhhHHHHHHHHHH------HhcCCcEEEEEEecCCccc--cC
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTS--YSIQIDQDDEASQSQAKGIADLI------RVFKWKHVILIYEDNTWGS--DN 151 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~--~~~r~~p~~~~~~~~~~a~~~ll------~~~~w~~v~ii~~d~~~g~--~~ 151 (808)
+++.+...+++|+||-++-+.. ... ++.|+.|+.. ..+..+.++- ++++|+++. ||.+++-.+ .-
T Consensus 96 ~~~~~~~~~~~P~ISaGsfgls-cd~k~~LTR~~ppar---K~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~ 170 (380)
T cd06369 96 QMVDDEFNLSLPIISAGSFGLS-CDYKENLTRLLPPAR---KISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFW 170 (380)
T ss_pred hhhhhhhcCCCceEeccccccC-CCchhhhhhcCchHH---HHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceee
Confidence 9999999999999998876544 444 8999999999 9999999998 489998666 887764322 12
Q ss_pred cHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 047109 152 IIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTAS 231 (808)
Q Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 231 (808)
...++....+.-+..+.+.+... +.+++..++++.+ ..+||||+|+++++.+.++.+ ++..++|++|..+.
T Consensus 171 ~i~al~a~~~~f~~~~~~~~~l~----~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDl 241 (380)
T cd06369 171 YINALEAGVAYFSSALKFKELLR----TEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDL 241 (380)
T ss_pred EhHhhhhhhhhhhhcccceeeec----CchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEec
Confidence 34555555555455555443322 4468999998877 567999999999999999986 44457999999998
Q ss_pred cccccccCCccccccccceeEEEeeccCCcHHHHHHHHHHHHHhhccCCCCCCCCcc-hhhhhHhhHHHHHHHHHHHHhh
Q 047109 232 TMNFLHSMDSSVVESSMQGVLGFKRYVPASKQLRNFTLKWKREMYLNNQNAEVSELD-VHGILAYDTVWALAKASEKLKT 310 (808)
Q Consensus 232 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~-~~~~~~ydav~~~a~Al~~~~~ 310 (808)
...... .+.....+ ++.++.++...++.+.+++. .+.+. .+. .+++..||||+++|+||++...
T Consensus 242 F~~sy~-~d~~a~~a-mqsVLvIT~~~p~~~~~~~~-----------~~fn~--~l~~~~aa~fyDaVLLYa~AL~EtL~ 306 (380)
T cd06369 242 FNDVYY-ENTTSPPY-MRNVLVLTLPPRNSTNNSSF-----------TTDNS--LLKDDYVAAYHDGVLLFGHVLKKFLE 306 (380)
T ss_pred ccchhc-cCcchHHH-HhceEEEecCCCCCcccccC-----------CCCCc--chHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 764332 12233444 78899988877765444331 11111 122 7899999999999999999976
Q ss_pred h-c-CChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEee--cCcEEEEEEEeCCC
Q 047109 311 E-I-SNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVI--GKTVKIVGFWTPTT 367 (808)
Q Consensus 311 ~-~-~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~--~~~~~~vg~~~~~~ 367 (808)
. - .++..+.+.++|.+|+|++|+|.+ ++|||.. +|.++.+. .+++++||.|+...
T Consensus 307 ~G~~~~~~~I~~~m~NrTF~GitG~V~IDeNGDRd~--dfsLl~ms~~tg~y~vV~~y~t~~ 366 (380)
T cd06369 307 SQEGVQTFSFINEFRNISFEGAGGPYTLDEYGDRDV--NFTLLYTSTDTSKYKVLFEFDTST 366 (380)
T ss_pred hCCCCCcHHHHHHHhCcceecCCCceEeCCCCCccC--ceEEEEeeCCCCCeEEEEEEECCC
Confidence 5 0 133789999999999999999999 9999999 99999886 35699999999744
No 85
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.87 E-value=1.5e-20 Score=195.10 Aligned_cols=224 Identities=17% Similarity=0.245 Sum_probs=185.5
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHH----HCCC-ceeEEEEecCCCCCCCCCCHHHHHH
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAID----SLTF-EVPYEFIPFEDPNGRMPGSYNDLID 486 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~----~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 486 (808)
.+++|+||+.. .++||.+.+. + +++.||++|+++.|++ ++|. .+++++++. +|..++.
T Consensus 38 ~~g~L~Vg~~~-~~pP~~f~~~----~---g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~---------~~~~~i~ 100 (302)
T PRK10797 38 KNGVIVVGHRE-SSVPFSYYDN----Q---QKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPI---------TSQNRIP 100 (302)
T ss_pred hCCeEEEEEcC-CCCCcceECC----C---CCEeeecHHHHHHHHHHHHHhhCCCCceEEEEEc---------ChHhHHH
Confidence 67899999987 7999998521 2 6799999998777665 6764 367888887 7888999
Q ss_pred HHHcCcccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeeccc
Q 047109 487 QVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPI 566 (808)
Q Consensus 487 ~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~ 566 (808)
.|.+|++|++++++++|++|.+.++||.||+..+..+++++.+...
T Consensus 101 ~L~~G~~Di~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~~i~---------------------------------- 146 (302)
T PRK10797 101 LLQNGTFDFECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGGDIK---------------------------------- 146 (302)
T ss_pred HHHCCCccEEecCCccCcchhhcceecccEeeccEEEEEECCCCCC----------------------------------
Confidence 9999999999989999999999999999999999999998763211
Q ss_pred CCCCCCCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecC
Q 047109 567 NDEFQGSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLG 646 (808)
Q Consensus 567 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~ 646 (808)
+++++ .++++++..|
T Consensus 147 --------------------------------------------------------------sl~dL---~Gk~V~v~~g 161 (302)
T PRK10797 147 --------------------------------------------------------------DFADL---KGKAVVVTSG 161 (302)
T ss_pred --------------------------------------------------------------ChHHc---CCCEEEEeCC
Confidence 34444 8999999999
Q ss_pred CcHHHhhhccC---CCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhc-C-CCceEEeccccccccceEE
Q 047109 647 SFVPGALSNLN---FKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAK-Y-STDYTMIAPNYTTTSGFGF 721 (808)
Q Consensus 647 s~~~~~l~~~~---~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~-~-~~~l~~~~~~~~~~~~~~~ 721 (808)
+....++++.. .+..++..+++.++.+++|..|+ +|+++.+...+.+...+ . .+.++++++.+. ..++++
T Consensus 162 s~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~Gr----vDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~-~~~~~~ 236 (302)
T PRK10797 162 TTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLESGR----AVAFMMDDALLAGERAKAKKPDNWEIVGKPQS-QEAYGC 236 (302)
T ss_pred CcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHcCC----ceEEEccHHHHHHHHHcCCCCcceEECCccCC-cCceeE
Confidence 99988875432 22356788899999999999998 99999998776654433 2 335788887777 888999
Q ss_pred EEeCCCC-ChHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 722 VFQKGSP-LVHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 722 ~~~k~sp-~~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
+++|+++ +++.+|.+|.+++++|.++++.+||+..
T Consensus 237 a~~k~~~~L~~~in~~L~~l~~~G~l~~i~~kw~~~ 272 (302)
T PRK10797 237 MLRKDDPQFKKLMDDTIAQAQTSGEAEKWFDKWFKN 272 (302)
T ss_pred EEeCCCHHHHHHHHHHHHHHHhCchHHHHHHHHcCC
Confidence 9999988 9999999999999999999999999986
No 86
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.86 E-value=3.3e-20 Score=188.57 Aligned_cols=220 Identities=20% Similarity=0.378 Sum_probs=185.6
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
..++|+|++.. +++||.+. + + +++.|+++|+++.+++++|.++++ .+. +|.+++..|.+|
T Consensus 23 ~~~~l~v~~~~-~~~P~~~~--~---~---g~~~G~~vdl~~~ia~~lg~~~~~--~~~---------~~~~~~~~l~~G 82 (247)
T PRK09495 23 ADKKLVVATDT-AFVPFEFK--Q---G---DKYVGFDIDLWAAIAKELKLDYTL--KPM---------DFSGIIPALQTK 82 (247)
T ss_pred cCCeEEEEeCC-CCCCeeec--C---C---CceEEEeHHHHHHHHHHhCCceEE--EeC---------CHHHHHHHHhCC
Confidence 45789999875 68999873 1 2 678999999999999999975555 444 699999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCC-ccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNN-NMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEF 570 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~-~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~ 570 (808)
++|+++++++.|++|.+.++||.||+...+.+++++.... .
T Consensus 83 ~vDi~~~~~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~~~~~-------------------------------------- 124 (247)
T PRK09495 83 NVDLALAGITITDERKKAIDFSDGYYKSGLLVMVKANNNDIK-------------------------------------- 124 (247)
T ss_pred CcCEEEecCccCHHHHhhccccchheecceEEEEECCCCCCC--------------------------------------
Confidence 9999888889999999999999999999999999865431 1
Q ss_pred CCCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHH
Q 047109 571 QGSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVP 650 (808)
Q Consensus 571 ~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~ 650 (808)
+.+++ .+++|++..|+...
T Consensus 125 ----------------------------------------------------------~~~dL---~g~~I~v~~g~~~~ 143 (247)
T PRK09495 125 ----------------------------------------------------------SVKDL---DGKVVAVKSGTGSV 143 (247)
T ss_pred ----------------------------------------------------------ChHHh---CCCEEEEecCchHH
Confidence 34444 88999999999888
Q ss_pred HhhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC-CCceEEeccccccccceEEEEeCCCCC
Q 047109 651 GALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY-STDYTMIAPNYTTTSGFGFVFQKGSPL 729 (808)
Q Consensus 651 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~k~sp~ 729 (808)
.++++. .+..+++.+++..+++++|.+|+ +|+++.+...+.++.++. ...+..++.... ..+++++++|++.+
T Consensus 144 ~~l~~~-~~~~~i~~~~~~~~~~~~L~~gr----vDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~a~~~~~~l 217 (247)
T PRK09495 144 DYAKAN-IKTKDLRQFPNIDNAYLELGTGR----ADAVLHDTPNILYFIKTAGNGQFKAVGDSLE-AQQYGIAFPKGSEL 217 (247)
T ss_pred HHHHhc-CCCCceEEcCCHHHHHHHHHcCc----eeEEEeChHHHHHHHHhCCCCceEEecCccc-ccceEEEEcCcHHH
Confidence 888653 44557778889999999999998 999999998888887765 346777776666 78899999999999
Q ss_pred hHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 730 VHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 730 ~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
.+.+|++|.+++++|.++++.+||+..
T Consensus 218 ~~~~n~al~~~~~~g~~~~i~~k~~~~ 244 (247)
T PRK09495 218 REKVNGALKTLKENGTYAEIYKKWFGT 244 (247)
T ss_pred HHHHHHHHHHHHHCCcHHHHHHHHcCC
Confidence 999999999999999999999999976
No 87
>PRK11260 cystine transporter subunit; Provisional
Probab=99.84 E-value=2.1e-19 Score=184.66 Aligned_cols=223 Identities=22% Similarity=0.377 Sum_probs=186.4
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
.+++|+|++.. .++||.+.+ .+ +++.|+.+|+++.+++++|.++++ ++. +|.+++.+|.+|
T Consensus 39 ~~~~l~v~~~~-~~~P~~~~~----~~---g~~~G~~~dl~~~i~~~lg~~~e~--~~~---------~~~~~~~~l~~G 99 (266)
T PRK11260 39 ERGTLLVGLEG-TYPPFSFQG----ED---GKLTGFEVEFAEALAKHLGVKASL--KPT---------KWDGMLASLDSK 99 (266)
T ss_pred cCCeEEEEeCC-CcCCceEEC----CC---CCEEEehHHHHHHHHHHHCCeEEE--EeC---------CHHHHHHHHhcC
Confidence 67899999875 689998642 22 678999999999999999986555 444 689999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQ 571 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 571 (808)
++|+++++++.+++|.+.+.||.|+...+..+++++.+...+
T Consensus 100 ~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~~~~-------------------------------------- 141 (266)
T PRK11260 100 RIDVVINQVTISDERKKKYDFSTPYTVSGIQALVKKGNEGTI-------------------------------------- 141 (266)
T ss_pred CCCEEEeccccCHHHHhccccCCceeecceEEEEEcCCcCCC--------------------------------------
Confidence 999998888899999999999999999999999987532110
Q ss_pred CCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHH
Q 047109 572 GSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPG 651 (808)
Q Consensus 572 ~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~ 651 (808)
-+.+++ +++++|+..|+.+..
T Consensus 142 --------------------------------------------------------~~~~dL---~g~~Igv~~G~~~~~ 162 (266)
T PRK11260 142 --------------------------------------------------------KTAADL---KGKKVGVGLGTNYEQ 162 (266)
T ss_pred --------------------------------------------------------CCHHHc---CCCEEEEecCCcHHH
Confidence 023333 789999999999988
Q ss_pred hhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEeccccccccceEEEEeCCCC-Ch
Q 047109 652 ALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAPNYTTTSGFGFVFQKGSP-LV 730 (808)
Q Consensus 652 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~k~sp-~~ 730 (808)
++++ ..+..++..+++..+++++|.+|+ +|+++.+...+.++.++....+.+.+..+. ..+++++++|+++ +.
T Consensus 163 ~l~~-~~~~~~i~~~~~~~~~l~~L~~Gr----vD~~i~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~v~~~~~~l~ 236 (266)
T PRK11260 163 WLRQ-NVQGVDVRTYDDDPTKYQDLRVGR----IDAILVDRLAALDLVKKTNDTLAVAGEAFS-RQESGVALRKGNPDLL 236 (266)
T ss_pred HHHH-hCCCCceEecCCHHHHHHHHHcCC----CCEEEechHHHHHHHHhCCCcceecCCccc-cCceEEEEeCCCHHHH
Confidence 8865 455567788999999999999988 999999998888887766434666666777 8899999999988 99
Q ss_pred HHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 731 HDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 731 ~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
+.+|++|.+++++|.++++.+||+..
T Consensus 237 ~~ln~~l~~~~~~g~~~~i~~k~~~~ 262 (266)
T PRK11260 237 KAVNQAIAEMQKDGTLKALSEKWFGA 262 (266)
T ss_pred HHHHHHHHHHHhCCcHHHHHHHhcCC
Confidence 99999999999999999999999976
No 88
>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=99.83 E-value=6.1e-20 Score=184.29 Aligned_cols=221 Identities=24% Similarity=0.343 Sum_probs=180.8
Q ss_pred EEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccE
Q 047109 416 LRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDA 495 (808)
Q Consensus 416 l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di 495 (808)
||||+.. .++||.+.+.+ +...|+++|+++++++++|++++++.. +|++++..|.+|++|+
T Consensus 1 l~V~~~~-~~~P~~~~~~~-------~~~~G~~~dl~~~i~~~~g~~~~~~~~-----------~~~~~~~~l~~g~~D~ 61 (225)
T PF00497_consen 1 LRVGVDE-DYPPFSYIDED-------GEPSGIDVDLLRAIAKRLGIKIEFVPM-----------PWSRLLEMLENGKADI 61 (225)
T ss_dssp EEEEEES-EBTTTBEEETT-------SEEESHHHHHHHHHHHHHTCEEEEEEE-----------EGGGHHHHHHTTSSSE
T ss_pred CEEEEcC-CCCCeEEECCC-------CCEEEEhHHHHHHHHhhcccccceeec-----------cccccccccccccccc
Confidence 6899965 79999986542 789999999999999999996666554 5899999999999999
Q ss_pred EEeceeeeccccceeeccccceeccEEEEEecCCC-C-ccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCC
Q 047109 496 VVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRN-N-NMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQGS 573 (808)
Q Consensus 496 ~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~-~-~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~ 573 (808)
++++++.|++|.+.++||.||+....++++++.+. . .
T Consensus 62 ~~~~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~~~~----------------------------------------- 100 (225)
T PF00497_consen 62 IIGGLSITPERAKKFDFSDPYYSSPYVLVVRKGDAPPIK----------------------------------------- 100 (225)
T ss_dssp EESSEB-BHHHHTTEEEESESEEEEEEEEEETTSTCSTS-----------------------------------------
T ss_pred ccccccccccccccccccccccchhheeeeccccccccc-----------------------------------------
Confidence 99899999999999999999999999999997521 1 1
Q ss_pred CCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHHhh
Q 047109 574 PAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPGAL 653 (808)
Q Consensus 574 ~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~~l 653 (808)
+++++.++++.++++..|+....++
T Consensus 101 -------------------------------------------------------~~~~~~dl~~~~i~~~~g~~~~~~l 125 (225)
T PF00497_consen 101 -------------------------------------------------------TIKSLDDLKGKRIGVVRGSSYADYL 125 (225)
T ss_dssp -------------------------------------------------------SHSSGGGGTTSEEEEETTSHHHHHH
T ss_pred -------------------------------------------------------cccchhhhcCcccccccchhHHHHh
Confidence 2232222278899999999988888
Q ss_pred hccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC-CCceEEeccccccccceEEEEeCCCC-ChH
Q 047109 654 SNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY-STDYTMIAPNYTTTSGFGFVFQKGSP-LVH 731 (808)
Q Consensus 654 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~k~sp-~~~ 731 (808)
.+......+++.+.+.++++++|.+|+ +|+++.+...+.+++++. ............ ..+++++++++.+ +.+
T Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~l~~g~----~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~ 200 (225)
T PF00497_consen 126 KQQYPSNINIVEVDSPEEALEALLSGR----IDAFIVDESTAEYLLKRHPLENIVVIPPPIS-PSPVYFAVRKKNPELLE 200 (225)
T ss_dssp HHHTHHTSEEEEESSHHHHHHHHHTTS----SSEEEEEHHHHHHHHHHTTTCEEEEEEEEEE-EEEEEEEEETTTHHHHH
T ss_pred hhhccchhhhcccccHHHHHHHHhcCC----eeeeeccchhhhhhhhhcccccccccccccc-cceeEEeecccccHHHH
Confidence 663222456778999999999999988 999999999999998877 323333345555 7788888888766 999
Q ss_pred HHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 732 DISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 732 ~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
.||++|.+++++|.++++.+||+++
T Consensus 201 ~~n~~i~~l~~~G~~~~i~~ky~g~ 225 (225)
T PF00497_consen 201 IFNKAIRELKQSGEIQKILKKYLGD 225 (225)
T ss_dssp HHHHHHHHHHHTTHHHHHHHHHHSS
T ss_pred HHHHHHHHHHhCcHHHHHHHHHcCC
Confidence 9999999999999999999999863
No 89
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.83 E-value=5.4e-19 Score=179.85 Aligned_cols=218 Identities=17% Similarity=0.292 Sum_probs=177.6
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHH-CCCceeEEEEecCCCCCCCCCCHHHHHHHHHc
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDS-LTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYF 490 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 490 (808)
.+++|+||+.. +++||.+.+. .+ +++.|+++|++++++++ +|..+++++.+. +|......|.+
T Consensus 36 ~~g~l~vg~~~-~~pP~~~~~~---~~---g~~~G~~vdl~~~ia~~llg~~~~~~~~~~---------~~~~~~~~l~~ 99 (259)
T PRK11917 36 SKGQLIVGVKN-DVPHYALLDQ---AT---GEIKGFEIDVAKLLAKSILGDDKKIKLVAV---------NAKTRGPLLDN 99 (259)
T ss_pred hCCEEEEEECC-CCCCceeeeC---CC---CceeEeeHHHHHHHHHHhcCCCccEEEEEc---------ChhhHHHHHHC
Confidence 77999999986 7999997532 12 78999999999999999 486667777765 56777899999
Q ss_pred CcccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCC
Q 047109 491 QKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEF 570 (808)
Q Consensus 491 g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~ 570 (808)
|++|++++++++|++|.+.++||.||+.++..+++++.+...
T Consensus 100 g~~D~~~~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~~~~-------------------------------------- 141 (259)
T PRK11917 100 GSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKNYK-------------------------------------- 141 (259)
T ss_pred CCccEEEecccCChhhhheeeeccCceeeceEEEEECCCCCC--------------------------------------
Confidence 999999999999999999999999999999999998764321
Q ss_pred CCCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHH
Q 047109 571 QGSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVP 650 (808)
Q Consensus 571 ~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~ 650 (808)
+++++ +++++|+..|+...
T Consensus 142 ----------------------------------------------------------s~~dL---~g~~V~v~~gs~~~ 160 (259)
T PRK11917 142 ----------------------------------------------------------SLADM---KGANIGVAQAATTK 160 (259)
T ss_pred ----------------------------------------------------------CHHHh---CCCeEEEecCCcHH
Confidence 35555 89999999999887
Q ss_pred HhhhccC---CCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEeccccccccceEEEEeCCC
Q 047109 651 GALSNLN---FKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAPNYTTTSGFGFVFQKGS 727 (808)
Q Consensus 651 ~~l~~~~---~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~k~s 727 (808)
..+.+.. ....++..+++..+.+++|.+|+ +|+++.+...+..+.++ ...++++.+. ..+++++++|++
T Consensus 161 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~Gr----vDa~~~d~~~~~~~~~~---~~~~~~~~~~-~~~~~~a~~k~~ 232 (259)
T PRK11917 161 KAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKR----VDAFSVDKSILLGYVDD---KSEILPDSFE-PQSYGIVTKKDD 232 (259)
T ss_pred HHHHHhhHhcCCceeEEecCCHHHHHHHHHcCC----CcEEEecHHHHHHhhhc---CCeecCCcCC-CCceEEEEeCCC
Confidence 7664321 11235567889999999999888 99999998876665543 2355667777 888999999998
Q ss_pred C-ChHHHHHHHHhhhhcCchHHHHHHhc
Q 047109 728 P-LVHDISRAIAKLREEGTLRKIEIEWF 754 (808)
Q Consensus 728 p-~~~~~~~~i~~l~e~G~~~~~~~~~~ 754 (808)
+ +.+.+|++|.+++. .++++.+||-
T Consensus 233 ~~l~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 233 PAFAKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHhC
Confidence 8 99999999999975 7999999984
No 90
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.82 E-value=1.3e-18 Score=178.17 Aligned_cols=224 Identities=18% Similarity=0.284 Sum_probs=176.0
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
..++++|++.. .|+||.+.+. + +++.|+++||++++++++|.++++ ++. +|+.++.++..|
T Consensus 24 ~~~~l~v~~~~-~~pPf~~~~~----~---g~~~G~~vdl~~~ia~~lg~~~~~--~~~---------~~~~~~~~l~~g 84 (260)
T PRK15010 24 LPETVRIGTDT-TYAPFSSKDA----K---GDFVGFDIDLGNEMCKRMQVKCTW--VAS---------DFDALIPSLKAK 84 (260)
T ss_pred cCCeEEEEecC-CcCCceeECC----C---CCEEeeeHHHHHHHHHHhCCceEE--EeC---------CHHHHHHHHHCC
Confidence 45789999875 5899998532 2 778999999999999999986554 444 799999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQ 571 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 571 (808)
++|++++++..|++|.+.++||.||+....++++++.....
T Consensus 85 ~~Di~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~~--------------------------------------- 125 (260)
T PRK15010 85 KIDAIISSLSITDKRQQEIAFSDKLYAADSRLIAAKGSPIQ--------------------------------------- 125 (260)
T ss_pred CCCEEEecCcCCHHHHhhcccccceEeccEEEEEECCCCCC---------------------------------------
Confidence 99999888999999999999999999999999998764310
Q ss_pred CCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHH
Q 047109 572 GSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPG 651 (808)
Q Consensus 572 ~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~ 651 (808)
.+++++ ++++||+..|+....
T Consensus 126 --------------------------------------------------------~~~~dl---~g~~Igv~~gs~~~~ 146 (260)
T PRK15010 126 --------------------------------------------------------PTLDSL---KGKHVGVLQGSTQEA 146 (260)
T ss_pred --------------------------------------------------------CChhHc---CCCEEEEecCchHHH
Confidence 023344 789999999999877
Q ss_pred hhhccC-CCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHH-HHhcC-CCceEEecccccc----ccceEEEEe
Q 047109 652 ALSNLN-FKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKA-FLAKY-STDYTMIAPNYTT----TSGFGFVFQ 724 (808)
Q Consensus 652 ~l~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~-~~~~~-~~~l~~~~~~~~~----~~~~~~~~~ 724 (808)
++.+.. ....++..+++.++++++|.+|+ +|+++.+...+.+ +.++. .+++...+..+.. ..+++++++
T Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~gr----iDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~ 222 (260)
T PRK15010 147 YANETWRSKGVDVVAYANQDLVYSDLAAGR----LDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVGLR 222 (260)
T ss_pred HHHHhcccCCceEEecCCHHHHHHHHHcCC----ccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEEEe
Confidence 774321 12235667888899999999998 9999999877764 33432 3355555432210 234679999
Q ss_pred CCCC-ChHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 725 KGSP-LVHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 725 k~sp-~~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
++.+ +++.+|++|.+++++|.++++.+||+..
T Consensus 223 ~~~~~L~~~ln~~l~~l~~~G~~~~i~~ky~~~ 255 (260)
T PRK15010 223 KDDAELTAAFNKALGELRQDGTYDKMAKKYFDF 255 (260)
T ss_pred CCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcCC
Confidence 9877 9999999999999999999999999974
No 91
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.81 E-value=1.4e-18 Score=176.31 Aligned_cols=218 Identities=21% Similarity=0.371 Sum_probs=176.5
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
..++|+|++.. .++||.+.+. + +++.|+++|+++++++++|.++++ +.. +|+.++..+.+|
T Consensus 19 ~~~~l~v~~~~-~~~P~~~~~~----~---g~~~G~~~dl~~~i~~~lg~~~~~--~~~---------~~~~~~~~l~~g 79 (243)
T PRK15007 19 AAETIRFATEA-SYPPFESIDA----N---NQIVGFDVDLAQALCKEIDATCTF--SNQ---------AFDSLIPSLKFR 79 (243)
T ss_pred cCCcEEEEeCC-CCCCceeeCC----C---CCEEeeeHHHHHHHHHHhCCcEEE--EeC---------CHHHHhHHHhCC
Confidence 46789999875 6899997532 2 789999999999999999986555 443 799999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQ 571 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 571 (808)
++|+++++++.+++|.+.++||.||+..+..++.+.... +
T Consensus 80 ~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~v~~~~~~-~--------------------------------------- 119 (243)
T PRK15007 80 RVEAVMAGMDITPEREKQVLFTTPYYDNSALFVGQQGKY-T--------------------------------------- 119 (243)
T ss_pred CcCEEEEcCccCHHHhcccceecCccccceEEEEeCCCC-C---------------------------------------
Confidence 999988788889999999999999999888777664321 1
Q ss_pred CCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHH
Q 047109 572 GSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPG 651 (808)
Q Consensus 572 ~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~ 651 (808)
+++++ ++.++|+..|+....
T Consensus 120 ---------------------------------------------------------~~~dL---~g~~Igv~~g~~~~~ 139 (243)
T PRK15007 120 ---------------------------------------------------------SVDQL---KGKKVGVQNGTTHQK 139 (243)
T ss_pred ---------------------------------------------------------CHHHh---CCCeEEEecCcHHHH
Confidence 34444 789999999999888
Q ss_pred hhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEeccc-----cccccceEEEEeCC
Q 047109 652 ALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAPN-----YTTTSGFGFVFQKG 726 (808)
Q Consensus 652 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~~~~~~k~ 726 (808)
++.+. .+..+++.+.+.++.+++|.+|+ +|+++.+...+.++..+.. .+..++.. +. ..+++++++++
T Consensus 140 ~l~~~-~~~~~~~~~~~~~~~~~~L~~gr----vDa~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~~ 212 (243)
T PRK15007 140 FIMDK-HPEITTVPYDSYQNAKLDLQNGR----IDAVFGDTAVVTEWLKDNP-KLAAVGDKVTDKDYF-GTGLGIAVRQG 212 (243)
T ss_pred HHHHh-CCCCeEEEcCCHHHHHHHHHcCC----CCEEEeCHHHHHHHHhcCC-CceeecCcccccccC-CcceEEEEeCC
Confidence 88653 44556677889999999998888 9999999888877776654 44444322 22 34578999998
Q ss_pred CC-ChHHHHHHHHhhhhcCchHHHHHHhcC
Q 047109 727 SP-LVHDISRAIAKLREEGTLRKIEIEWFN 755 (808)
Q Consensus 727 sp-~~~~~~~~i~~l~e~G~~~~~~~~~~~ 755 (808)
++ +++.+|++|.+++++|.++.+.+||+.
T Consensus 213 ~~~l~~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 213 NTELQQKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred CHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 76 999999999999999999999999985
No 92
>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=1.4e-18 Score=179.30 Aligned_cols=228 Identities=19% Similarity=0.171 Sum_probs=178.9
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
..++|+|++. +++||.+.+. + +++.|+++||++++++++|.+. +++... +|++++..+.+|
T Consensus 31 ~~~~l~v~~~--~~pP~~~~~~----~---g~~~G~~~dl~~~i~~~lg~~~-~~~~~~---------~w~~~~~~l~~G 91 (275)
T TIGR02995 31 EQGFARIAIA--NEPPFTYVGA----D---GKVSGAAPDVARAIFKRLGIAD-VNASIT---------EYGALIPGLQAG 91 (275)
T ss_pred hCCcEEEEcc--CCCCceeECC----C---CceecchHHHHHHHHHHhCCCc-eeeccC---------CHHHHHHHHHCC
Confidence 6789999986 7899998532 2 6789999999999999999751 233333 799999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQ 571 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 571 (808)
++|+++.+++.|++|...++||.||+.....+++++.+...+
T Consensus 92 ~~Di~~~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~~~i-------------------------------------- 133 (275)
T TIGR02995 92 RFDAIAAGLFIKPERCKQVAFTQPILCDAEALLVKKGNPKGL-------------------------------------- 133 (275)
T ss_pred CcCEEeecccCCHHHHhccccccceeecceeEEEECCCCCCC--------------------------------------
Confidence 999988888999999999999999999999999987643210
Q ss_pred CCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHH
Q 047109 572 GSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPG 651 (808)
Q Consensus 572 ~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~ 651 (808)
-+++++....+.+||+..|+...+
T Consensus 134 --------------------------------------------------------~~~~dl~~~~g~~Igv~~g~~~~~ 157 (275)
T TIGR02995 134 --------------------------------------------------------KSYKDIAKNPDAKIAAPGGGTEEK 157 (275)
T ss_pred --------------------------------------------------------CCHHHhccCCCceEEEeCCcHHHH
Confidence 023333112378999999999998
Q ss_pred hhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC-CCceEEecccc-cc-ccceEEEEeCCCC
Q 047109 652 ALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY-STDYTMIAPNY-TT-TSGFGFVFQKGSP 728 (808)
Q Consensus 652 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~-~~-~~~~~~~~~k~sp 728 (808)
++++...+..++..+++.++++++|.+|+ +|+++.+...+.+++++. ..++..+...- .. ...++++++++++
T Consensus 158 ~l~~~~~~~~~i~~~~~~~~~i~~L~~gr----vDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 (275)
T TIGR02995 158 LAREAGVKREQIIVVPDGQSGLKMVQDGR----ADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAFRPEDK 233 (275)
T ss_pred HHHHcCCChhhEEEeCCHHHHHHHHHcCC----CCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEECCCCH
Confidence 88775555557778899999999999999 999999999888887754 22444433211 10 1234788888876
Q ss_pred -ChHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 729 -LVHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 729 -~~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
+.+.||++|.+++++|.++++.+||--.
T Consensus 234 ~l~~~~n~~l~~~~~sG~~~~i~~ky~~~ 262 (275)
T TIGR02995 234 ELRDAFNVELAKLKESGEFAKIIAPYGFS 262 (275)
T ss_pred HHHHHHHHHHHHHHhChHHHHHHHHhCCC
Confidence 9999999999999999999999999443
No 93
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.80 E-value=3.7e-18 Score=174.28 Aligned_cols=219 Identities=26% Similarity=0.440 Sum_probs=179.3
Q ss_pred CCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCc
Q 047109 413 INKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQK 492 (808)
Q Consensus 413 ~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~ 492 (808)
.++|+|++.. .++||.+.++ + ++..|+++|+++.+++.+|.++ ++++. +|.+++.++.+|+
T Consensus 23 ~~~l~v~~~~-~~~P~~~~~~----~---g~~~G~~~dl~~~i~~~lg~~~--~~~~~---------~~~~~~~~l~~G~ 83 (250)
T TIGR01096 23 EGSVRIGTET-GYPPFESKDA----N---GKLVGFDVDLAKALCKRMKAKC--KFVEQ---------NFDGLIPSLKAKK 83 (250)
T ss_pred CCeEEEEECC-CCCCceEECC----C---CCEEeehHHHHHHHHHHhCCeE--EEEeC---------CHHHHHHHHhCCC
Confidence 3899999865 7899987532 2 6789999999999999999754 45555 7999999999999
Q ss_pred ccEEEeceeeeccccceeeccccceeccEEEEEecCCCC-ccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCC
Q 047109 493 FDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNN-NMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQ 571 (808)
Q Consensus 493 ~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~-~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 571 (808)
+|++++++..+++|.+.+.||.|++..+..+++++.+.. .
T Consensus 84 ~D~~~~~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~~~--------------------------------------- 124 (250)
T TIGR01096 84 VDAIMATMSITPKRQKQIDFSDPYYATGQGFVVKKGSDLAK--------------------------------------- 124 (250)
T ss_pred cCEEEecCccCHHHhhccccccchhcCCeEEEEECCCCcCC---------------------------------------
Confidence 999987788899999999999999999999999876431 1
Q ss_pred CCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHH
Q 047109 572 GSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPG 651 (808)
Q Consensus 572 ~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~ 651 (808)
+.+++ .++++++..|+....
T Consensus 125 ---------------------------------------------------------~~~dl---~g~~i~~~~g~~~~~ 144 (250)
T TIGR01096 125 ---------------------------------------------------------TLEDL---DGKTVGVQSGTTHEQ 144 (250)
T ss_pred ---------------------------------------------------------ChHHc---CCCEEEEecCchHHH
Confidence 23444 788999999999888
Q ss_pred hhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCC--CceEEeccccccc-----cceEEEEe
Q 047109 652 ALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYS--TDYTMIAPNYTTT-----SGFGFVFQ 724 (808)
Q Consensus 652 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~-----~~~~~~~~ 724 (808)
++.+......++..+.+.++++++|.+|+ +|+++.+...+.++.++.. +++.+++..+. . ..++++++
T Consensus 145 ~l~~~~~~~~~~~~~~s~~~~~~~L~~g~----vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~~~~~~~~ 219 (250)
T TIGR01096 145 YLKDYFKPGVDIVEYDSYDNANMDLKAGR----IDAVFTDASVLAEGFLKPPNGKDFKFVGPSVT-DEKYFGDGYGIGLR 219 (250)
T ss_pred HHHHhccCCcEEEEcCCHHHHHHHHHcCC----CCEEEeCHHHHHHHHHhCCCCCceEEeccccc-cccccCCceEEEEe
Confidence 88653221446677889999999998888 9999999998888877653 24666655433 2 24889999
Q ss_pred CCCC-ChHHHHHHHHhhhhcCchHHHHHHhc
Q 047109 725 KGSP-LVHDISRAIAKLREEGTLRKIEIEWF 754 (808)
Q Consensus 725 k~sp-~~~~~~~~i~~l~e~G~~~~~~~~~~ 754 (808)
|+++ +...+|++|.+++++|.++.+.+||+
T Consensus 220 ~~~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 220 KGDTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred CCCHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 9987 99999999999999999999999996
No 94
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.78 E-value=1.2e-17 Score=170.99 Aligned_cols=223 Identities=20% Similarity=0.281 Sum_probs=174.7
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
...+|++++.. .++||.+.++ + +++.|+++|+++++++++|.++++ ... +|++++.++.+|
T Consensus 24 ~~~~l~v~~~~-~~~P~~~~~~----~---g~~~G~~vdi~~~ia~~lg~~i~~--~~~---------pw~~~~~~l~~g 84 (259)
T PRK15437 24 IPQNIRIGTDP-TYAPFESKNS----Q---GELVGFDIDLAKELCKRINTQCTF--VEN---------PLDALIPSLKAK 84 (259)
T ss_pred cCCeEEEEeCC-CCCCcceeCC----C---CCEEeeeHHHHHHHHHHcCCceEE--EeC---------CHHHHHHHHHCC
Confidence 35789999874 5899987532 2 788999999999999999986555 444 699999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQ 571 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 571 (808)
++|+++++++.|++|...++||.||...+..+++++..+..
T Consensus 85 ~~D~~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~~--------------------------------------- 125 (259)
T PRK15437 85 KIDAIMSSLSITEKRQQEIAFTDKLYAADSRLVVAKNSDIQ--------------------------------------- 125 (259)
T ss_pred CCCEEEecCCCCHHHhhhccccchhhcCceEEEEECCCCCC---------------------------------------
Confidence 99999888999999999999999999999999998764320
Q ss_pred CCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHH
Q 047109 572 GSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPG 651 (808)
Q Consensus 572 ~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~ 651 (808)
.++.++ ++.+||+..|+..+.
T Consensus 126 --------------------------------------------------------~~~~dl---~g~~Igv~~g~~~~~ 146 (259)
T PRK15437 126 --------------------------------------------------------PTVESL---KGKRVGVLQGTTQET 146 (259)
T ss_pred --------------------------------------------------------CChHHh---CCCEEEEecCcHHHH
Confidence 023444 789999999999877
Q ss_pred hhhccCC-CcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHH-HHhcC-CCceEEec-----cccccccceEEEE
Q 047109 652 ALSNLNF-KDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKA-FLAKY-STDYTMIA-----PNYTTTSGFGFVF 723 (808)
Q Consensus 652 ~l~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~-~~~~~-~~~l~~~~-----~~~~~~~~~~~~~ 723 (808)
++.+... ...++..+++.++.+++|.+|| +|+++.+...+.+ +.++. ...+...+ +.+. ..++++++
T Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~i~~L~~gr----vD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~~~ia~ 221 (259)
T PRK15437 147 FGNEHWAPKGIEIVSYQGQDNIYSDLTAGR----IDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLF-GVGTGMGL 221 (259)
T ss_pred HHHhhccccCceEEecCCHHHHHHHHHcCC----ccEEEechHHHHHHHHhCCCCCceEEecCcccccccc-CcceEEEE
Confidence 7754322 1245677888899999998888 9999999877654 33332 22343322 2233 34577889
Q ss_pred eCCCC-ChHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 724 QKGSP-LVHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 724 ~k~sp-~~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
+++.+ +++.+|++|.+++++|.++++.+||+..
T Consensus 222 ~~~~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~~ 255 (259)
T PRK15437 222 RKEDNELREALNKAFAEMRADGTYEKLAKKYFDF 255 (259)
T ss_pred eCCCHHHHHHHHHHHHHHHHCCcHHHHHHHhcCC
Confidence 88876 9999999999999999999999999975
No 95
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.75 E-value=3.2e-17 Score=181.43 Aligned_cols=220 Identities=16% Similarity=0.213 Sum_probs=174.0
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
++++|+|++.. +|+.+...+ +...|+++||++++++++|.+++++..+ +|+.++..|.+|
T Consensus 41 ~~g~LrVg~~~---~P~~~~~~~-------~~~~G~~~DLl~~ia~~LGv~~e~v~~~----------~~~~ll~aL~~G 100 (482)
T PRK10859 41 ERGELRVGTIN---SPLTYYIGN-------DGPTGFEYELAKRFADYLGVKLEIKVRD----------NISQLFDALDKG 100 (482)
T ss_pred hCCEEEEEEec---CCCeeEecC-------CCcccHHHHHHHHHHHHhCCcEEEEecC----------CHHHHHHHHhCC
Confidence 67899999973 344443222 3348999999999999999876665322 799999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCC-ccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNN-NMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEF 570 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~-~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~ 570 (808)
++|++++++++|++|.+.++||.||+....++++++.... .
T Consensus 101 ~iDi~~~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~~~i~-------------------------------------- 142 (482)
T PRK10859 101 KADLAAAGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQPRPR-------------------------------------- 142 (482)
T ss_pred CCCEEeccCcCChhhhccCcccCCceeeeEEEEEeCCCCCCC--------------------------------------
Confidence 9999888999999999999999999999999999876421 1
Q ss_pred CCCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHH
Q 047109 571 QGSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVP 650 (808)
Q Consensus 571 ~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~ 650 (808)
+++++ ++++|++..|+...
T Consensus 143 ----------------------------------------------------------~l~dL---~Gk~I~V~~gS~~~ 161 (482)
T PRK10859 143 ----------------------------------------------------------SLGDL---KGGTLTVAAGSSHV 161 (482)
T ss_pred ----------------------------------------------------------CHHHh---CCCeEEEECCCcHH
Confidence 34555 89999999999988
Q ss_pred HhhhccC--CCcccc--cccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEeccccccccceEEEEeCC
Q 047109 651 GALSNLN--FKDSRL--KKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAPNYTTTSGFGFVFQKG 726 (808)
Q Consensus 651 ~~l~~~~--~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~k~ 726 (808)
..+++.. .+..++ ..+.+.++++++|.+|+ +|+++.+...+........ ++.+...... ..+++++++|+
T Consensus 162 ~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~G~----iDa~v~d~~~~~~~~~~~p-~l~v~~~l~~-~~~~~~av~k~ 235 (482)
T PRK10859 162 ETLQELKKKYPELSWEESDDKDSEELLEQVAEGK----IDYTIADSVEISLNQRYHP-ELAVAFDLTD-EQPVAWALPPS 235 (482)
T ss_pred HHHHHHHHhCCCceEEecCCCCHHHHHHHHHCCC----CCEEEECcHHHHHHHHhCC-CceeeeecCC-CceeEEEEeCC
Confidence 8775422 233222 34678899999998888 9999999877665433333 5666555545 77899999994
Q ss_pred -CC-ChHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 727 -SP-LVHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 727 -sp-~~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
++ |.+.+|++|.+++++|.++++.+||+..
T Consensus 236 ~~~~L~~~ln~~L~~i~~~G~l~~L~~kyfg~ 267 (482)
T PRK10859 236 GDDSLYAALLDFFNQIKEDGTLARLEEKYFGH 267 (482)
T ss_pred CCHHHHHHHHHHHHHhhcCCHHHHHHHHHhhh
Confidence 56 9999999999999999999999999986
No 96
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.69 E-value=5e-16 Score=157.12 Aligned_cols=211 Identities=17% Similarity=0.194 Sum_probs=153.3
Q ss_pred eEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHH---HHHHcC
Q 047109 415 KLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLI---DQVYFQ 491 (808)
Q Consensus 415 ~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---~~l~~g 491 (808)
+|+||+.. .|+||.+. + + .||++||+++|++++|.++++ ++. +|++++ ..|.+|
T Consensus 1 ~l~vg~~~-~~pPf~~~--~-------~--~Gfdvdl~~~ia~~lg~~~~~--~~~---------~~~~~~~~~~~L~~g 57 (246)
T TIGR03870 1 TLRVCAAT-KEAPYSTK--D-------G--SGFENKIAAALAAAMGRKVVF--VWL---------AKPAIYLVRDGLDKK 57 (246)
T ss_pred CeEEEeCC-CCCCCccC--C-------C--CcchHHHHHHHHHHhCCCeEE--EEe---------ccchhhHHHHHHhcC
Confidence 47899987 79999983 1 2 599999999999999986555 454 677766 689999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQ 571 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 571 (808)
++|+++ +++++++| +.||.||+.++.++++++.+....
T Consensus 58 ~~Dii~-~~~~t~~r---~~fS~PY~~~~~~~v~~k~~~~~~-------------------------------------- 95 (246)
T TIGR03870 58 LCDVVL-GLDTGDPR---VLTTKPYYRSSYVFLTRKDRNLDI-------------------------------------- 95 (246)
T ss_pred CccEEE-eCCCChHH---HhcccCcEEeeeEEEEeCCCCCCC--------------------------------------
Confidence 999987 58888777 679999999999999998743100
Q ss_pred CCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCC-ceeeecCCcHH
Q 047109 572 GSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRD-NIGSQLGSFVP 650 (808)
Q Consensus 572 ~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~-~i~~~~~s~~~ 650 (808)
-+.++. .++++ ++|+..|+..+
T Consensus 96 --------------------------------------------------------~~~~d~-~L~g~~~vgv~~gs~~~ 118 (246)
T TIGR03870 96 --------------------------------------------------------KSWNDP-RLKKVSKIGVIFGSPAE 118 (246)
T ss_pred --------------------------------------------------------CCccch-hhccCceEEEecCChHH
Confidence 011110 12787 99999999999
Q ss_pred HhhhccCCC------cccccccC---------CHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEE--ecccc
Q 047109 651 GALSNLNFK------DSRLKKYN---------SAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTM--IAPNY 713 (808)
Q Consensus 651 ~~l~~~~~~------~~~~~~~~---------~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~--~~~~~ 713 (808)
.++++.... ..++..++ +..+++++|.+|+ +|+++.+...+.++..+..+.+.+ +++..
T Consensus 119 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Gr----vDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 194 (246)
T TIGR03870 119 TMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVATGK----ADLAVAFAPEVARYVKASPEPLRMTVIPDDA 194 (246)
T ss_pred HHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHcCC----CCEEEeeHHhHHHHHHhCCCCceEEeccccc
Confidence 988753210 11122222 3578899999998 999999877777776653223332 22211
Q ss_pred -------c-cccceEEEEeCCCC-ChHHHHHHHHhhhhcCchHHHHHHh
Q 047109 714 -------T-TTSGFGFVFQKGSP-LVHDISRAIAKLREEGTLRKIEIEW 753 (808)
Q Consensus 714 -------~-~~~~~~~~~~k~sp-~~~~~~~~i~~l~e~G~~~~~~~~~ 753 (808)
. ...+++++++|+++ |++.+|++|.+++ |.+++|..+|
T Consensus 195 ~~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 195 TRSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred cccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 0 01246899999998 9999999999999 4899999988
No 97
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.68 E-value=1.6e-15 Score=189.65 Aligned_cols=219 Identities=12% Similarity=0.188 Sum_probs=178.8
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
++++++|++.. .|+||.+.++ + +++.|+++|+++.|++++|.+ +++++. ..|..+...|.+|
T Consensus 300 ~~~~l~v~~~~-~~pP~~~~d~----~---g~~~G~~~Dll~~i~~~~g~~--~~~v~~--------~~~~~~~~~l~~g 361 (1197)
T PRK09959 300 QHPDLKVLENP-YSPPYSMTDE----N---GSVRGVMGDILNIITLQTGLN--FSPITV--------SHNIHAGTQLNPG 361 (1197)
T ss_pred HCCceEEEcCC-CCCCeeEECC----C---CcEeeehHHHHHHHHHHHCCe--EEEEec--------CCHHHHHHHHHCC
Confidence 67899999886 7999999642 2 789999999999999999974 555554 2678888999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQ 571 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 571 (808)
++|++. ++..|++|.+.++||.||+....++++++....
T Consensus 362 ~~D~i~-~~~~t~~r~~~~~fs~py~~~~~~~v~~~~~~~---------------------------------------- 400 (1197)
T PRK09959 362 GWDIIP-GAIYSEDRENNVLFAEAFITTPYVFVMQKAPDS---------------------------------------- 400 (1197)
T ss_pred CceEee-cccCCccccccceeccccccCCEEEEEecCCCC----------------------------------------
Confidence 999875 456899999999999999999999998765321
Q ss_pred CCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHH
Q 047109 572 GSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPG 651 (808)
Q Consensus 572 ~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~ 651 (808)
...+ .+++++|+..|+....
T Consensus 401 ----------------------------------------------------------~~~~--~~g~~vav~~g~~~~~ 420 (1197)
T PRK09959 401 ----------------------------------------------------------EQTL--KKGMKVAIPYYYELHS 420 (1197)
T ss_pred ----------------------------------------------------------cccc--ccCCEEEEeCCcchHH
Confidence 0011 1588999999998888
Q ss_pred hhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC-CCce-EEeccccccccceEEEEeCCCC-
Q 047109 652 ALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY-STDY-TMIAPNYTTTSGFGFVFQKGSP- 728 (808)
Q Consensus 652 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~l-~~~~~~~~~~~~~~~~~~k~sp- 728 (808)
++++ ..+..+++.|++..+++++|.+|+ +|+++.+...+.|++++. ...+ ......+. ..+++++++|+.|
T Consensus 421 ~~~~-~~p~~~~~~~~~~~~~l~av~~G~----~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~av~k~~~~ 494 (1197)
T PRK09959 421 QLKE-MYPEVEWIKVDNASAAFHKVKEGE----LDALVATQLNSRYMIDHYYPNELYHFLIPGVP-NASLSFAFPRGEPE 494 (1197)
T ss_pred HHHH-HCCCcEEEEcCCHHHHHHHHHcCC----CCEEehhhHHHHHHHHhcccccceeeecCCCC-chheEEeeCCCCHH
Confidence 8865 356678899999999999998888 999999999999988875 2233 33344455 6789999999998
Q ss_pred ChHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 729 LVHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 729 ~~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
|.+.+|++|..+.++ .+..+.+||+..
T Consensus 495 L~~~lnk~l~~i~~~-~~~~i~~kW~~~ 521 (1197)
T PRK09959 495 LKDIINKALNAIPPS-EVLRLTEKWIKM 521 (1197)
T ss_pred HHHHHHHHHHhCCHH-HHHHHHhhcccC
Confidence 999999999999999 788999999975
No 98
>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=99.66 E-value=2.1e-15 Score=154.99 Aligned_cols=232 Identities=12% Similarity=0.152 Sum_probs=164.9
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHC-CCceeEEEEecCCCCCCCCCCHHHHHHHHHc
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSL-TFEVPYEFIPFEDPNGRMPGSYNDLIDQVYF 490 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 490 (808)
..++|++++. .||||.+.+. + +...|+..++++.+++++ +++++ +... +|++++..+ +
T Consensus 16 ~~~~l~~~~~--~~pPf~~~~~----~---~~~~G~~~~i~~~i~~~~~~~~~~--~~~~---------pw~r~l~~l-~ 74 (268)
T TIGR02285 16 AKEAITWIVN--DFPPFFIFSG----P---SKGRGVFDVILQEIRRALPQYEHR--FVRV---------SFARSLKEL-Q 74 (268)
T ss_pred ccceeEEEec--ccCCeeEeCC----C---CCCCChHHHHHHHHHHHcCCCcee--EEEC---------CHHHHHHHH-h
Confidence 4578999887 7999998522 2 566899999999999998 76444 4444 799999999 7
Q ss_pred CcccEEEeceeeeccccceeecccccee-ccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCC
Q 047109 491 QKFDAVVGETTITANRSLYVDFTLPYTD-MGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDE 569 (808)
Q Consensus 491 g~~Di~~~~~~~t~~r~~~~dfs~p~~~-~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~ 569 (808)
|+.|+++.++++|++|.+.++||.||+. ...++++++.+...+..+-. .
T Consensus 75 ~~~d~~~~~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~~~~~~d-----------------------------~- 124 (268)
T TIGR02285 75 GKGGVCTVNLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAGVRDEQD-----------------------------G- 124 (268)
T ss_pred cCCCeEEeeccCCcchhhceeecCCccccCCceEEEccchhhhccccCC-----------------------------C-
Confidence 7777777789999999999999999975 57888887753211000000 0
Q ss_pred CCCCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcH
Q 047109 570 FQGSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFV 649 (808)
Q Consensus 570 ~~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~ 649 (808)
-..+..+..+.++++|+..|+.+
T Consensus 125 ---------------------------------------------------------~~~~~~l~~l~g~~vgv~~g~~~ 147 (268)
T TIGR02285 125 ---------------------------------------------------------DVDLKKLLASKKKRLGVIASRSY 147 (268)
T ss_pred ---------------------------------------------------------CccHHHHhcCCCeEEEEecceec
Confidence 00011111236788999987765
Q ss_pred H----HhhhccCCCc-ccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC---CCceEEecccc--ccccce
Q 047109 650 P----GALSNLNFKD-SRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY---STDYTMIAPNY--TTTSGF 719 (808)
Q Consensus 650 ~----~~l~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~l~~~~~~~--~~~~~~ 719 (808)
. .++++..... .++..+.+..+++++|.+|| +|+++.+...+.+++++. ...+...+... . ..++
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~Gr----vD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 222 (268)
T TIGR02285 148 GQQIDDILSDSGYQHNTRIIGNAAMGNLFKMLEKGR----VNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPA-HISV 222 (268)
T ss_pred cHHHHHHHHhCCcccceeeeccchHHHHHHHHHcCC----ccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCcc-ceEE
Confidence 3 3444322211 23455677788999999999 999999999888887642 22344443221 2 3457
Q ss_pred EEEEeCCC--C-ChHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 720 GFVFQKGS--P-LVHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 720 ~~~~~k~s--p-~~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
+++++|++ + +.+.||++|.+|+++|.++++.+||+..
T Consensus 223 ~i~~~k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~~~~ 262 (268)
T TIGR02285 223 WVACPKTEWGRKVIADIDQALSELNVDPKYYKYFDRWLSP 262 (268)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhCCH
Confidence 89999974 3 9999999999999999999999999975
No 99
>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=99.65 E-value=6e-15 Score=148.55 Aligned_cols=213 Identities=15% Similarity=0.150 Sum_probs=157.9
Q ss_pred eEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCccc
Q 047109 415 KLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFD 494 (808)
Q Consensus 415 ~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D 494 (808)
.|||++.. .|+||.+ ++..|+++||++.+++++|.+++++..+. .|..++..+.+|++|
T Consensus 1 ~l~v~~~~-~~~P~~~-----------~~~~G~~~el~~~i~~~~g~~i~~~~~~~---------~~~~~~~~l~~g~~D 59 (232)
T TIGR03871 1 ALRVCADP-NNLPFSN-----------EKGEGFENKIAQLLADDLGLPLEYTWFPQ---------RRGFVRNTLNAGRCD 59 (232)
T ss_pred CeEEEeCC-CCCCccC-----------CCCCchHHHHHHHHHHHcCCceEEEecCc---------chhhHHHHHhcCCcc
Confidence 47888876 6899986 23369999999999999999877766554 345467789999999
Q ss_pred EEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCC
Q 047109 495 AVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQGSP 574 (808)
Q Consensus 495 i~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 574 (808)
++++ +++|.+.++||.||...+.++++++.+...+.
T Consensus 60 i~~~----~~~r~~~~~fs~py~~~~~~lv~~~~~~~~~~---------------------------------------- 95 (232)
T TIGR03871 60 VVIG----VPAGYEMVLTTRPYYRSTYVFVTRKDSLLDVK---------------------------------------- 95 (232)
T ss_pred EEEe----ccCccccccccCCcEeeeEEEEEeCCCccccc----------------------------------------
Confidence 9865 47788889999999999999999877422100
Q ss_pred CcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHHhhh
Q 047109 575 AHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPGALS 654 (808)
Q Consensus 575 ~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~~l~ 654 (808)
++++. ...+++||+..|+....++.
T Consensus 96 ------------------------------------------------------~~~d~-~l~g~~V~v~~g~~~~~~l~ 120 (232)
T TIGR03871 96 ------------------------------------------------------SLDDP-RLKKLRIGVFAGTPPAHWLA 120 (232)
T ss_pred ------------------------------------------------------chhhh-hhcCCeEEEEcCChHHHHHH
Confidence 22220 02788999999999988886
Q ss_pred ccCCCccccc---------ccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEeccc------cccccce
Q 047109 655 NLNFKDSRLK---------KYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAPN------YTTTSGF 719 (808)
Q Consensus 655 ~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~------~~~~~~~ 719 (808)
+.+.. .++. ...+..+++.+|..|+ +|+++.+...+.++.++....+.+.... .. ..++
T Consensus 121 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~G~----~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 194 (232)
T TIGR03871 121 RHGLV-ENVVGYSLFGDYRPESPPGRMVEDLAAGE----IDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPF-DYRI 194 (232)
T ss_pred hcCcc-cccccccccccccccCCHHHHHHHHHcCC----cCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCc-cceE
Confidence 54431 1222 1346789999998888 9999999888888777542244443321 12 4467
Q ss_pred EEEEeCCCC-ChHHHHHHHHhhhhcCchHHHHHHhcC
Q 047109 720 GFVFQKGSP-LVHDISRAIAKLREEGTLRKIEIEWFN 755 (808)
Q Consensus 720 ~~~~~k~sp-~~~~~~~~i~~l~e~G~~~~~~~~~~~ 755 (808)
+++++|+++ +.+.+|++|.++++ .++++.+||--
T Consensus 195 ~~~~~~~~~~l~~~~n~~l~~~~~--~~~~i~~kyg~ 229 (232)
T TIGR03871 195 AMGVRKGDKAWKDELNAVLDRRQA--EIDAILREYGV 229 (232)
T ss_pred EEEEecCCHHHHHHHHHHHHHHHH--HHHHHHHHcCC
Confidence 889999877 99999999999864 68999999953
No 100
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.65 E-value=8.4e-15 Score=151.93 Aligned_cols=227 Identities=26% Similarity=0.408 Sum_probs=179.7
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
..+.++|++.....+||.+.+... +++.|+++|+++.+++.++....+++.+. .|++++..|..|
T Consensus 32 ~~~~~~v~~~~~~~~p~~~~~~~~------~~~~G~dvdl~~~ia~~l~~~~~~~~~~~---------~~~~~~~~l~~g 96 (275)
T COG0834 32 ARGKLRVGTEATYAPPFEFLDAKG------GKLVGFDVDLAKAIAKRLGGDKKVEFVPV---------AWDGLIPALKAG 96 (275)
T ss_pred hcCeEEEEecCCCCCCcccccCCC------CeEEeeeHHHHHHHHHHhCCcceeEEecc---------chhhhhHHHhcC
Confidence 457888888864556888743221 38999999999999999887543555554 799999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQ 571 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 571 (808)
++|+.+.++++|++|.+.++||.||+..+..+++++.+...
T Consensus 97 ~~D~~~~~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~~~--------------------------------------- 137 (275)
T COG0834 97 KVDIIIAGMTITPERKKKVDFSDPYYYSGQVLLVKKDSDIG--------------------------------------- 137 (275)
T ss_pred CcCEEEeccccCHHHhccccccccccccCeEEEEECCCCcC---------------------------------------
Confidence 99999999999999999999999999999999998775421
Q ss_pred CCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCc--H
Q 047109 572 GSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSF--V 649 (808)
Q Consensus 572 ~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~--~ 649 (808)
+-+.+++ .++++++..|++ .
T Consensus 138 -------------------------------------------------------~~~~~DL---~gk~v~v~~gt~~~~ 159 (275)
T COG0834 138 -------------------------------------------------------IKSLEDL---KGKKVGVQLGTTDEA 159 (275)
T ss_pred -------------------------------------------------------cCCHHHh---CCCEEEEEcCcchhH
Confidence 0134555 889999999999 4
Q ss_pred HHhhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHH--HhcCCCceEEeccccccc-cceEEEEeCC
Q 047109 650 PGALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAF--LAKYSTDYTMIAPNYTTT-SGFGFVFQKG 726 (808)
Q Consensus 650 ~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~-~~~~~~~~k~ 726 (808)
...... ..+...+..|++..+.+.++.+|+ +|+++.+...+.+. ..+............. . .+++++++|+
T Consensus 160 ~~~~~~-~~~~~~~~~~~~~~~~~~al~~Gr----~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 233 (275)
T COG0834 160 EEKAKK-PGPNAKIVAYDSNAEALLALKNGR----ADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGL-SVEYLGIALRKG 233 (275)
T ss_pred HHHHhh-ccCCceEEeeCCHHHHHHHHHcCC----ccEEEcchHhhhhhhhhhcCCCCceeeeccCC-CcceeEEEeccC
Confidence 444433 333467788999999999999998 99999999988884 3333212333344444 4 6899999999
Q ss_pred --CCChHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 727 --SPLVHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 727 --sp~~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
..+++.+|.+|.+++++|.+.++.++|+..
T Consensus 234 ~~~~l~~~in~~l~~l~~~G~~~~i~~kw~~~ 265 (275)
T COG0834 234 DDPELLEAVNKALKELKADGTLQKISDKWFGP 265 (275)
T ss_pred CcHHHHHHHHHHHHHHHhCccHHHHHHHhcCc
Confidence 469999999999999999999999999985
No 101
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.63 E-value=5e-15 Score=185.17 Aligned_cols=223 Identities=13% Similarity=0.147 Sum_probs=180.4
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
++++|+||+.. +++|+.+.. + .+ +++.|+++|+++.|++++|.+ +++++. .+|++++.+|.+|
T Consensus 54 ~~~~l~vgv~~-~~~p~~~~~-~--~~---g~~~G~~~D~l~~ia~~lG~~--~e~v~~--------~~~~~~l~~l~~g 116 (1197)
T PRK09959 54 SKKNLVIAVHK-SQTATLLHT-D--SQ---QRVRGINADYLNLLKRALNIK--LTLREY--------ADHQKAMDALEEG 116 (1197)
T ss_pred hCCeEEEEecC-CCCCCceee-c--CC---CccceecHHHHHHHHHhcCCc--eEEEeC--------CCHHHHHHHHHcC
Confidence 67899999987 454543321 1 12 789999999999999999975 555553 2799999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQ 571 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 571 (808)
++|++.+.++.+++|.+.++||.||+....++++++.....
T Consensus 117 ~iDl~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~~~~--------------------------------------- 157 (1197)
T PRK09959 117 EVDIVLSHLVASPPLNDDIAATKPLIITFPALVTTLHDSMR--------------------------------------- 157 (1197)
T ss_pred CCcEecCccccccccccchhcCCCccCCCceEEEeCCCCCC---------------------------------------
Confidence 99998888899999999999999999999999998764321
Q ss_pred CCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHH
Q 047109 572 GSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPG 651 (808)
Q Consensus 572 ~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~ 651 (808)
+..++ .+++++++.|+....
T Consensus 158 ---------------------------------------------------------~~~~l---~~~~i~~~~g~~~~~ 177 (1197)
T PRK09959 158 ---------------------------------------------------------PLTSS---KPVNIARVANYPPDE 177 (1197)
T ss_pred ---------------------------------------------------------Ccccc---cCeEEEEeCCCCCHH
Confidence 22233 688899999999888
Q ss_pred hhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC-CCceEEeccccccccceEEEEeCCCC-C
Q 047109 652 ALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY-STDYTMIAPNYTTTSGFGFVFQKGSP-L 729 (808)
Q Consensus 652 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~k~sp-~ 729 (808)
++++ .++..+++.|++..++++++..|+ +|+++.+...+.++++++ ..++.+++..........++++|++| +
T Consensus 178 ~~~~-~~p~~~i~~~~s~~~al~av~~G~----~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L 252 (1197)
T PRK09959 178 VIHQ-SFPKATIISFTNLYQALASVSAGQ----NDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFLTRKESVIL 252 (1197)
T ss_pred HHHH-hCCCCEEEeCCCHHHHHHHHHcCC----CCEEEccHHHHHHHHhcccccceEEEeeccCCCCceeEEEcCCcHHH
Confidence 8876 567788999999999999998888 999999999999988865 33566554322214456788899988 9
Q ss_pred hHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 730 VHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 730 ~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
.+.+|++|..+.++|.. .+.+||+..
T Consensus 253 ~~~lnkal~~i~~~~~~-~i~~kW~~~ 278 (1197)
T PRK09959 253 NEVLNRFVDALTNEVRY-EVSQNWLDT 278 (1197)
T ss_pred HHHHHHHHHhCCHHHHH-HHHHhccCC
Confidence 99999999999999987 899999975
No 102
>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=99.57 E-value=2.1e-13 Score=135.59 Aligned_cols=215 Identities=26% Similarity=0.416 Sum_probs=171.7
Q ss_pred EEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccE
Q 047109 416 LRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDA 495 (808)
Q Consensus 416 l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di 495 (808)
|+|++.. .++||.+.+ .+ ++..|+..++++.+++++|. ++++.+. .|.+++..|.+|++|+
T Consensus 1 l~i~~~~-~~~p~~~~~----~~---g~~~G~~~~~~~~~~~~~g~--~~~~~~~---------~~~~~~~~l~~g~~D~ 61 (218)
T cd00134 1 LTVGTAG-TYPPFSFRD----AN---GELTGFDVDLAKAIAKELGV--KVKFVEV---------DWDGLITALKSGKVDL 61 (218)
T ss_pred CEEecCC-CCCCeeEEC----CC---CCEEeeeHHHHHHHHHHhCC--eEEEEeC---------CHHHHHHHHhcCCcCE
Confidence 4677766 688888742 22 78999999999999999996 5555554 5899999999999999
Q ss_pred EEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCCC
Q 047109 496 VVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQGSPA 575 (808)
Q Consensus 496 ~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 575 (808)
++.....+.+|...+.|+.|+.....++++++..+..
T Consensus 62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------------------------- 98 (218)
T cd00134 62 IAAGMTITPERAKQVDFSDPYYKSGQVILVKKGSPIK------------------------------------------- 98 (218)
T ss_pred EeecCcCCHHHHhhccCcccceeccEEEEEECCCCCC-------------------------------------------
Confidence 9887767888988999999999999999998775421
Q ss_pred cchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHHhhhc
Q 047109 576 HQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPGALSN 655 (808)
Q Consensus 576 ~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~~l~~ 655 (808)
+++++ .++++++..++....++.+
T Consensus 99 -----------------------------------------------------~~~dl---~g~~i~~~~~~~~~~~~~~ 122 (218)
T cd00134 99 -----------------------------------------------------SVKDL---KGKKVAVQKGSTAEKYLKK 122 (218)
T ss_pred -----------------------------------------------------ChHHh---CCCEEEEEcCchHHHHHHH
Confidence 34444 7899999988888877765
Q ss_pred cCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEeccc--cccccceEEEEeCCCC-ChHH
Q 047109 656 LNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAPN--YTTTSGFGFVFQKGSP-LVHD 732 (808)
Q Consensus 656 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~k~sp-~~~~ 732 (808)
.. ....+..+.+.++.++++.+|+ +|+++.+.....+..++...++.++... .. +..+++...+.++ +.+.
T Consensus 123 ~~-~~~~~~~~~~~~~~~~~l~~g~----~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~~~l~~~ 196 (218)
T cd00134 123 AL-PEAKVVSYDDNAEALAALENGR----ADAVIVDEIALAALLKKHPPELKIVGPSIDLE-PLGFGVAVGKDNKELLDA 196 (218)
T ss_pred hC-CcccEEEeCCHHHHHHHHHcCC----ccEEEeccHHHHHHHHhcCCCcEEeccccCCC-ccceEEEEcCCCHHHHHH
Confidence 32 2345677888999999999988 9999999988888776652267766553 33 5556676666665 9999
Q ss_pred HHHHHHhhhhcCchHHHHHHhc
Q 047109 733 ISRAIAKLREEGTLRKIEIEWF 754 (808)
Q Consensus 733 ~~~~i~~l~e~G~~~~~~~~~~ 754 (808)
++++|..++++|.++.+.+||+
T Consensus 197 ~~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 197 VNKALKELRADGELKKISKKWF 218 (218)
T ss_pred HHHHHHHHHhCccHHHHHHhhC
Confidence 9999999999999999999996
No 103
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.57 E-value=1.6e-13 Score=136.24 Aligned_cols=216 Identities=27% Similarity=0.478 Sum_probs=175.3
Q ss_pred eEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCccc
Q 047109 415 KLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFD 494 (808)
Q Consensus 415 ~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D 494 (808)
+|+|++.. .++||.... .+ +...|+.+|+++.+.+++|.+ +++.+. +|..++..+.+|++|
T Consensus 1 ~l~v~~~~-~~~p~~~~~----~~---g~~~G~~~~~~~~~~~~~g~~--~~~~~~---------~~~~~~~~l~~g~~D 61 (219)
T smart00062 1 TLRVGTNG-DYPPFSFAD----ED---GELTGFDVDLAKAIAKELGLK--VEFVEV---------SFDNLLTALKSGKID 61 (219)
T ss_pred CEEEEecC-CCCCcEEEC----CC---CCcccchHHHHHHHHHHhCCe--EEEEec---------cHHHHHHHHHCCccc
Confidence 47888864 788988742 22 678999999999999999964 455554 689999999999999
Q ss_pred EEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCC
Q 047109 495 AVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQGSP 574 (808)
Q Consensus 495 i~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 574 (808)
+++++...+.+|...+.++.|+.....++++++..+..
T Consensus 62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------------------------ 99 (219)
T smart00062 62 VVAAGMTITPERAKQVDFSDPYYKSGQVILVRKDSPIK------------------------------------------ 99 (219)
T ss_pred EEeccccCCHHHHhheeeccceeeceeEEEEecCCCCC------------------------------------------
Confidence 99987776788888899999999999999998764321
Q ss_pred CcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHHhhh
Q 047109 575 AHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPGALS 654 (808)
Q Consensus 575 ~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~~l~ 654 (808)
+.+++ .++++++..++....++.
T Consensus 100 ------------------------------------------------------~~~dL---~g~~i~~~~g~~~~~~~~ 122 (219)
T smart00062 100 ------------------------------------------------------SLEDL---KGKKVAVVAGTTGEELLK 122 (219)
T ss_pred ------------------------------------------------------ChHHh---CCCEEEEecCccHHHHHH
Confidence 45555 789999999988888886
Q ss_pred ccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC-CCceEEeccccccc-cceEEEEeCCCC-ChH
Q 047109 655 NLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY-STDYTMIAPNYTTT-SGFGFVFQKGSP-LVH 731 (808)
Q Consensus 655 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~-~~~~~~~~k~sp-~~~ 731 (808)
.. .+..++..+.+..+.++++.+|+ +++++.......+...+. ...+.++..... . .+++++++|+++ +.+
T Consensus 123 ~~-~~~~~~~~~~~~~~~~~~l~~g~----~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 196 (219)
T smart00062 123 KL-YPEAKIVSYDSQAEALAALKAGR----ADAAVADAPALAALVKQHGLPELKIVGDPLD-TPEGYAFAVRKGDPELLD 196 (219)
T ss_pred Hh-CCCceEEEcCCHHHHHHHhhcCc----ccEEEeccHHHHHHHHhcCCCceeeccCCCC-CCcceEEEEECCCHHHHH
Confidence 54 33446777888899999998888 999999998887776654 236777666554 4 889999999987 999
Q ss_pred HHHHHHHhhhhcCchHHHHHHhc
Q 047109 732 DISRAIAKLREEGTLRKIEIEWF 754 (808)
Q Consensus 732 ~~~~~i~~l~e~G~~~~~~~~~~ 754 (808)
.++++|.++.++|.++++.++|+
T Consensus 197 ~~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 197 KINKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred HHHHHHHHHHhCchHHHHHhccC
Confidence 99999999999999999999985
No 104
>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=99.55 E-value=4.9e-13 Score=137.63 Aligned_cols=215 Identities=25% Similarity=0.369 Sum_probs=173.0
Q ss_pred EEEEEEecC--CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 3 HVGVILDMR--SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
+||+++|.+ .+.+.....|++.|++++ +..+++.+.|+++++....+.+.+++.+ ++.+|||+. ++...
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~-------g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~-~~~~~ 71 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI-------GRGLEVILADSQSDPERALEALRDLIQQ-GVDGIIGPP-SSSSA 71 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh-------CCceEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEecC-CCHHH
Confidence 699999998 344777788888888887 3478888999999998899999999877 899999998 87776
Q ss_pred HHHHHhcCCCCccEEeccCCCCccccc--ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecC-CccccCcHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTS--YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDN-TWGSDNIIPYLF 157 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~--~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~-~~g~~~~~~~~~ 157 (808)
..+...+...++|+|++....+. ... +++++.|++. ..++.+++++.+.+|+++++++.+. ..+. ...+.++
T Consensus 72 ~~~~~~~~~~~ip~v~~~~~~~~-~~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~-~~~~~~~ 146 (269)
T cd01391 72 LAVVELAAAAGIPVVSLDATAPD-LTGYPYVFRVGPDNE---QAGEAAAEYLAEKGWKRVALIYGDDGAYGR-ERLEGFK 146 (269)
T ss_pred HHHHHHHHHcCCcEEEecCCCCc-cCCCceEEEEcCCcH---HHHHHHHHHHHHhCCceEEEEecCCcchhh-HHHHHHH
Confidence 65778888899999999877655 423 7889999999 9999999999999999999999877 5666 7789999
Q ss_pred HhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC-CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 047109 158 DSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS-ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTMN 234 (808)
Q Consensus 158 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~-~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~~ 234 (808)
+.+++.|+++......+. . ...++....+.+++. ++++|+++++ ..+..+++++.+.|+..+++.|+..+.+..
T Consensus 147 ~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~~ 221 (269)
T cd01391 147 AALKKAGIEVVAIEYGDL-D-TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSPA 221 (269)
T ss_pred HHHHhcCcEEEeccccCC-C-ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEecccccc
Confidence 999999977765433333 1 224677777777766 6888888777 889999999999998645677777776553
No 105
>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=99.54 E-value=1.1e-15 Score=141.80 Aligned_cols=93 Identities=31% Similarity=0.514 Sum_probs=69.5
Q ss_pred chhHHHHHHHHHHHHHhhheeeecccCCCCCC-------CCCcchhhHHHHHHHHhhhcC-ccccccchhhHHHHHHHHH
Q 047109 541 KPNLWLTTAALFVLTGFVVWIIERPINDEFQG-------SPAHQFGMIFWYSFSTLVFSQ-REKLLSNWSKFVVIVWVFV 612 (808)
Q Consensus 541 ~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~-~~~p~s~s~Ril~~~w~~~ 612 (808)
++.+|++++++++++++++|++++..+.+++. +...++.+++|++++.+++|+ ...|++.++|++.++|+++
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 57899999999999999999999987776655 122467899999999999766 6689999999999999999
Q ss_pred HHHHHHHhhhhhheeeeehhh
Q 047109 613 VLILTSSYTATLTSMLTVQQI 633 (808)
Q Consensus 613 ~lil~~~Y~a~L~s~lt~~~~ 633 (808)
+++++++|+|+|+|+||.++.
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~ 101 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKY 101 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHH
T ss_pred HHHHHHHHHHHHHHHhcccCc
Confidence 999999999999999999987
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=99.37 E-value=1.1e-11 Score=137.38 Aligned_cols=303 Identities=15% Similarity=0.178 Sum_probs=164.4
Q ss_pred eEEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 2 VHVGVILDMRSWA---GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 2 i~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
=+|++++|+||+. |..++.|+..|. +... +.+..+.++|+..++.. ....+.+.+ |+.+||||. .-.
T Consensus 220 ~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~~---~~~~~l~~~Dt~~~~~~--~~~~~a~~~-ga~~ViGPL-~k~ 289 (536)
T PF04348_consen 220 QRIAVLLPLSGRLARAGQAIRDGFLAAY---YADA---DSRPELRFYDTNADSAD--ALYQQAVAD-GADFVIGPL-LKS 289 (536)
T ss_dssp --EEEEE--SSTTHHHHHHHHHHHHHHH------T---T--S-EEEEETTTS-HH--HHHHHHHHT-T--EEE----SHH
T ss_pred cCEEEEeCCCCchhHHHHHHHHHHHHhh---cccc---cCCCceEEecCCCCCHH--HHHHHHHHc-CCCEEEcCC-CHH
Confidence 3799999999987 888999999998 1111 13567788898766333 334455555 999999999 877
Q ss_pred HHHHHHHhcCC--CCccEEeccCCCCccccc---ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcH
Q 047109 79 GAHILAEIGSK--AKIPVISLYATLPSSLTS---YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNII 153 (808)
Q Consensus 79 ~~~~~~~~~~~--~~iP~is~~~~~~~~ls~---~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~ 153 (808)
....++..-.. -.||+++....+.. -+. +.|.+.|.++ ++.+++.+..-|+++..||++++++|. ...
T Consensus 290 ~V~~l~~~~~~~~~~vp~LaLN~~~~~-~~~~~l~~f~LspEdE-----A~q~A~~a~~~g~~~alvl~p~~~~g~-R~~ 362 (536)
T PF04348_consen 290 NVEALAQLPQLQAQPVPVLALNQPDNS-QAPPNLYQFGLSPEDE-----ARQAAQKAFQDGYRRALVLAPQNAWGQ-RMA 362 (536)
T ss_dssp HHHHHHH-GG-GGTT-EEEES---TT-----TTEEE----HHHH-----HHHHHHHHHHTT--S-EEEEESSHHHH-HHH
T ss_pred HHHHHHhcCcccccCCceeeccCCCcc-cCccceEEEeCCcHHH-----HHHHHHHHHhcCCCCEEEEcCCChHHH-HHH
Confidence 77776655432 48999998665543 222 6677777655 999999999999999999999999999 999
Q ss_pred HHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccc
Q 047109 154 PYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTM 233 (808)
Q Consensus 154 ~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 233 (808)
+.|.+.+.+.|+.+.....+.. ..++...++.-.+.+.|.|++.+.+.+++.+--...-. . ..+...+.++...
T Consensus 363 ~aF~~~W~~~gg~~~~~~~~~~----~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~-~-a~~lPvyatS~~~ 436 (536)
T PF04348_consen 363 EAFNQQWQALGGQVAEVSYYGS----PADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH-F-AGDLPVYATSRSY 436 (536)
T ss_dssp HHHHHHHHHHHSS--EEEEESS----TTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT--T--TT-EEEE-GGG-
T ss_pred HHHHHHHHHcCCCceeeEecCC----HHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc-c-CCCCCEEEecccc
Confidence 9999999999888766555543 35888888765567899999999999988876655443 2 2233333333332
Q ss_pred cccccCCccccccccceeEEEeecc---CCcHHHHHHHHHHHHHhhccCCCCCCCCcchhhhhHhhHHHHHHHHHHHHhh
Q 047109 234 NFLHSMDSSVVESSMQGVLGFKRYV---PASKQLRNFTLKWKREMYLNNQNAEVSELDVHGILAYDTVWALAKASEKLKT 310 (808)
Q Consensus 234 ~~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ydav~~~a~Al~~~~~ 310 (808)
... .+...... +.|+....... ...+..+.+.+.|.... ......-+.+|||..+.. -+.++
T Consensus 437 ~g~--~~~~~~~d-L~gv~f~d~Pwll~~~~~~~~~~~~~~~~~~---------~~~~RL~AlG~DA~~L~~-~l~~l-- 501 (536)
T PF04348_consen 437 SGS--PNPSQDRD-LNGVRFSDMPWLLDPNSPLRQQLAALWPNAS---------NSLQRLYALGIDAYRLAP-RLPQL-- 501 (536)
T ss_dssp -HH--T-HHHHHH-TTT-EEEE-GGGG---SHHHHHHH-HHTTT----------HHHHHHHHHHHHHHHHHH-THHHH--
T ss_pred CCC--CCcchhhh-hcCCEEeccccccCCCchHHHHHHhhccCCc---------cHHHHHHHHHHHHHHHHH-HHHHH--
Confidence 211 11222233 66776665432 22333333433332110 012334667777755332 22222
Q ss_pred hcCChHHHHHHHHcCccccceeEEEe-eCCcccCCccEEEEEee
Q 047109 311 EISNETCYYKQILNSRFTGLSGDFQL-INGKLTSSRAFEIVNVI 353 (808)
Q Consensus 311 ~~~~~~~l~~~l~~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~ 353 (808)
+...+..+.|.||.+++ ++|.... .....+++
T Consensus 502 ---------~~~~~~~~~G~TG~L~~~~~g~i~R--~l~wa~f~ 534 (536)
T PF04348_consen 502 ---------RQFPGYRLDGLTGQLSLDEDGRIER--QLSWAQFR 534 (536)
T ss_dssp ---------HHSTT--EEETTEEEEE-TT-BEEE--E-EEEEEE
T ss_pred ---------hhCCCCcccCCceeEEECCCCeEEE--eecceeec
Confidence 22334578999999999 8887666 66665554
No 107
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.33 E-value=2.1e-11 Score=120.54 Aligned_cols=221 Identities=14% Similarity=0.145 Sum_probs=171.6
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
..++|||++..+ |-++.. .+ +...|+++++.+++|+.||.++++ .+.. +.+.++.+|.+|
T Consensus 21 ~rGvLrV~tins---p~sy~~----~~---~~p~G~eYelak~Fa~yLgV~Lki--~~~~--------n~dqLf~aL~ng 80 (473)
T COG4623 21 ARGVLRVSTINS---PLSYFE----DK---GGPTGLEYELAKAFADYLGVKLKI--IPAD--------NIDQLFDALDNG 80 (473)
T ss_pred hcCeEEEEeecC---ccceec----cC---CCccchhHHHHHHHHHHhCCeEEE--EecC--------CHHHHHHHHhCC
Confidence 678999999863 344321 11 566799999999999999975544 4431 468999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQ 571 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 571 (808)
++|++.+++....+|.+.+...+.|++.+..++.++.+.-
T Consensus 81 ~~DL~Aagl~~~~~~l~~~~~gP~y~svs~qlVyRkG~~R---------------------------------------- 120 (473)
T COG4623 81 NADLAAAGLLYNSERLKNFQPGPTYYSVSQQLVYRKGQYR---------------------------------------- 120 (473)
T ss_pred CcceecccccCChhHhcccCCCCceecccHHHHhhcCCCC----------------------------------------
Confidence 9999999999999999999999999999999999887431
Q ss_pred CCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHH
Q 047109 572 GSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPG 651 (808)
Q Consensus 572 ~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~ 651 (808)
|+ ++.++ +++.+.+..|+....
T Consensus 121 -------------------------p~------------------------------~l~~L---~g~~i~v~~gs~~~~ 142 (473)
T COG4623 121 -------------------------PR------------------------------SLGQL---KGRQITVAKGSAHVE 142 (473)
T ss_pred -------------------------CC------------------------------CHHHc---cCceeeccCCcHHHH
Confidence 00 34455 788899999998776
Q ss_pred hhhc---cCCCccccc--ccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEeccccccccceEEEEeCC
Q 047109 652 ALSN---LNFKDSRLK--KYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAPNYTTTSGFGFVFQKG 726 (808)
Q Consensus 652 ~l~~---~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~k~ 726 (808)
.++. ..+|.-..+ .-...++.++++..|+ ++..+.|+..+.....-+. +|.+.-..-. ..++++++|.+
T Consensus 143 ~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~~Gk----ldytiads~~is~~q~i~P-~laVafd~td-e~~v~Wy~~~~ 216 (473)
T COG4623 143 DLKLLKETKYPELIWKVDDKLGVEDLLEMVAEGK----LDYTIADSVEISLFQRVHP-ELAVAFDLTD-EQPVAWYLPRD 216 (473)
T ss_pred HHHHHHHhhcchhhhhhcccccHHHHHHHHhcCC----cceeeeccHHHHHHHHhCc-cceeeeeccc-ccCceeeccCC
Confidence 6632 233322211 1124678899998887 9999999987776555555 7888777777 88999999996
Q ss_pred CC--ChHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 727 SP--LVHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 727 sp--~~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
+- |...++.++..++|+|.++.+.+||++.
T Consensus 217 dd~tL~a~ll~F~~~~~e~g~larleeky~gH 248 (473)
T COG4623 217 DDSTLSAALLDFLNEAKEDGLLARLEEKYLGH 248 (473)
T ss_pred chHHHHHHHHHHHHHhhcchHHHHHHHHHhcc
Confidence 54 9999999999999999999999999965
No 108
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.11 E-value=5e-10 Score=101.73 Aligned_cols=110 Identities=30% Similarity=0.424 Sum_probs=95.9
Q ss_pred CceeeecCCcHHHhhhccCCCc----------ccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEE
Q 047109 639 DNIGSQLGSFVPGALSNLNFKD----------SRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTM 708 (808)
Q Consensus 639 ~~i~~~~~s~~~~~l~~~~~~~----------~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~ 708 (808)
.++|+..|++.+.++++..... .++..|++..+++.+|. +++ |+++.+...+.++.++.| ++.+
T Consensus 14 ~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~----~g~-da~v~d~~~~~~~~~~~~-~~~~ 87 (134)
T smart00079 14 IEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVR----VSN-YAFLMESTYLDYELSQNC-DLMT 87 (134)
T ss_pred ccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHH----cCC-CEEEeehHhHHHHHhCCC-CeEE
Confidence 7999999999999997643321 25677899999999994 455 899999999999888778 7888
Q ss_pred eccccccccceEEEEeCCCCChHHHHHHHHhhhhcCchHHHHHHhcC
Q 047109 709 IAPNYTTTSGFGFVFQKGSPLVHDISRAIAKLREEGTLRKIEIEWFN 755 (808)
Q Consensus 709 ~~~~~~~~~~~~~~~~k~sp~~~~~~~~i~~l~e~G~~~~~~~~~~~ 755 (808)
++..+. ..+++++++|+++|++.+|.+|.+++++|.++++.++|+.
T Consensus 88 ~~~~~~-~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 88 VGENFG-RKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred cCcccC-CCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 888888 8899999999999999999999999999999999999985
No 109
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=98.93 E-value=2.8e-10 Score=85.06 Aligned_cols=60 Identities=23% Similarity=0.440 Sum_probs=44.4
Q ss_pred ceEEEeeC---CCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCC--CCCCCHHHHHHHHHc
Q 047109 427 EFVHVVRD---PQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNG--RMPGSYNDLIDQVYF 490 (808)
Q Consensus 427 p~~~~~~~---~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~l~~ 490 (808)
||++..++ ..++ .+++|||+||+++||+.+||++++..++.+ .+| .+||+|+||+++|.+
T Consensus 1 Pfvm~~~~~~~~~g~---~~~eGyciDll~~la~~l~F~y~i~~~~Dg-~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 1 PFVMLKEDGENLTGN---DRYEGYCIDLLEELAEELNFTYEIYLVPDG-KYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp TTBEE-TTSSGSBGG---GGEESHHHHHHHHHHHHHT-EEEEEE-TTS---EEBETTSEBEHHHHHHHT
T ss_pred CeEEEecCCcccCCC---ccEEEEHHHHHHHHHHHcCCeEEEEECCCC-CCcCcCCCCcCcCHHHHhcC
Confidence 67776554 1244 899999999999999999998888877654 344 378999999999874
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=98.83 E-value=1.8e-07 Score=96.04 Aligned_cols=205 Identities=14% Similarity=0.125 Sum_probs=142.8
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
+||+++|.++ +.......|++.+.++. .+++.+.|+.+++....+.+.++++. ++.++|+.. ++....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~---------g~~l~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~-~~~~~~ 69 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA---------GYQVLLANSQNDAEKQLSALENLIAR-GVDGIIIAP-SDLTAP 69 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc---------CCeEEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEec-CCCcch
Confidence 5899999863 34556667777776662 24566778888888888888888877 899999866 554444
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 159 (808)
.....+...++|+|......+. .++++++.+.+. ..+..+++.+...+-++++++..+.. ++. ...+.|++.
T Consensus 70 ~~~~~l~~~~ip~v~~~~~~~~--~~~~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~~~~~~~~~ 143 (264)
T cd01537 70 TIVKLARKAGIPVVLVDRDIPD--GDRVPSVGSDNE---QAGYLAGEHLAEKGHRRIALLAGPLGSSTAR-ERVAGFKDA 143 (264)
T ss_pred hHHHHhhhcCCCEEEeccCCCC--CcccceEecCcH---HHHHHHHHHHHHhcCCcEEEEECCCCCCcHH-HHHHHHHHH
Confidence 4567778889999998765442 126677788888 88899999998888999999987654 444 557888888
Q ss_pred hhcCC-cEEEEEEecCCCCCChHHHHHHHHHhcCCC--CeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 160 LHDND-IDIARRITISMSSNTDDQVIEKLSMLKSSE--TKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 160 ~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
+++.| ..+..... . ..+..+....+.++.+.+ +++++.. +...+..+++++.+.|+..++.+-++
T Consensus 144 ~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~~~~~g~~i~~~i~i~ 211 (264)
T cd01537 144 LKEAGPIEIVLVQE--G-DWDAEKGYQAAEELLTAHPDPTAIFAA-NDDMALGALRALREAGLRVPDDISVI 211 (264)
T ss_pred HHHcCCcChhhhcc--C-CCCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCCCeEEE
Confidence 88887 43332222 2 224556667777776665 4554444 44567778999999997533444444
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=98.71 E-value=1.3e-06 Score=89.78 Aligned_cols=204 Identities=12% Similarity=0.135 Sum_probs=136.9
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCCh-hHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTP-TGA 80 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s-~~~ 80 (808)
+||++.|.. .+.......+++.|.++. .+.+.+.++..++......+.+++.. ++.+||+.. .+ ...
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~---------g~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgvi~~~-~~~~~~ 69 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL---------GVELIVLDAQNDVSKQIQQIEDLIAQ-GVDGIIISP-VDSAAL 69 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc---------CceEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeC-CCchhH
Confidence 689999975 344556777777777762 25566678777888888888888877 899998654 33 322
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCC--ccccCcHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNT--WGSDNIIPYL 156 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~--~g~~~~~~~~ 156 (808)
......+...++|+|......+. .+.+..+.+++. ..+..+++.+... |-+++++++.+.. ++. ...+.|
T Consensus 70 ~~~~~~l~~~~ip~V~~~~~~~~--~~~~~~v~~d~~---~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~-~r~~gf 143 (267)
T cd01536 70 TPALKKANAAGIPVVTVDSDIDG--GNRLAYVGTDNY---EAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQ-ERVKGF 143 (267)
T ss_pred HHHHHHHHHCCCcEEEecCCCCc--cceeEEEecCHH---HHHHHHHHHHHHHhCCCceEEEEEcccccchHH-HHHHHH
Confidence 33445556678999998764432 113455667767 7778888888766 8899999986653 555 677889
Q ss_pred HHhhhcCC-cEEEEEEecCCCCCChHHHHHHHHHhcCCCCeE-EEEEcCHHHHHHHHHHHHHcCCCCCCeEEE
Q 047109 157 FDSLHDND-IDIARRITISMSSNTDDQVIEKLSMLKSSETKV-FVVHMSHALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 157 ~~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
++.+++.+ .++....... ....+....+.++.+..+++ ++++++...+..+++++++.|+. .+...+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~-~~i~iv 212 (267)
T cd01536 144 RDALKEYPDIEIVAVQDGN---WDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK-GDVKIV 212 (267)
T ss_pred HHHHHhCCCcEEEEEecCC---CcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC-CCceEE
Confidence 99999884 6654332222 23445666777776544433 34444556778899999999974 344333
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=98.65 E-value=1.5e-06 Score=89.09 Aligned_cols=205 Identities=14% Similarity=0.086 Sum_probs=136.1
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
+||++.|.. .+.......+++.|.++. +++ +.+.+...++.+..+...++++. ++.+|+... .+..+.
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~-------g~~--~~~~~~~~~~~~~~~~~~~~~~~-~~d~iii~~-~~~~~~ 69 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA-------GYS--VLLCNSDEDPEKEREALELLLSR-RVDGIILAP-SRLDDE 69 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc-------CCE--EEEEcCCCCHHHHHHHHHHHHHc-CcCEEEEec-CCcchH
Confidence 489999984 444555666666666552 234 45567778888888888898877 899988766 555554
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 159 (808)
. ...+...+||+|......+. ..+....++.. ..++.+++.+...|.+++++++.+.. ++. .-.+.+++.
T Consensus 70 ~-~~~~~~~~ipvv~~~~~~~~---~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~r~~g~~~~ 141 (264)
T cd06267 70 L-LEELAALGIPVVLVDRPLDG---LGVDSVGIDNR---AGAYLAVEHLIELGHRRIAFIGGPPDLSTAR-ERLEGYREA 141 (264)
T ss_pred H-HHHHHHcCCCEEEecccccC---CCCCEEeeccH---HHHHHHHHHHHHCCCceEEEecCCCccchHH-HHHHHHHHH
Confidence 4 55677889999998765432 13445566667 77888888887779999999986654 444 556788888
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCC--CeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSE--TKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
+++.+..+........ ..+.++....+.++.++. +++|+. .+...+..+++++++.|+..++.+.++
T Consensus 142 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~~~~i~i~ 210 (264)
T cd06267 142 LEEAGIPLDEELIVEG-DFSEESGYEAARELLASGERPTAIFA-ANDLMAIGALRALRELGLRVPEDVSVV 210 (264)
T ss_pred HHHcCCCCCcceEEec-ccchhhHHHHHHHHHhcCCCCcEEEE-cCcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 8888753322212222 123345566666666554 566554 455667788999999997533444433
No 113
>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=98.63 E-value=2.4e-06 Score=88.65 Aligned_cols=197 Identities=12% Similarity=0.129 Sum_probs=135.1
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
|||++.|.+.+.-.....+++ +++++.+..+|.++++.+.|+.+++....+...+++++ ++.+||+.. ++.. ..
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~---~~~~~~g~~~g~~v~l~~~~~~~~~~~~~~~~~~l~~~-~vd~iI~~~-~~~~-~~ 74 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFK---DGLKEAGYKEGKNVKIDYQNAQGDQSNLPTIARKFVAD-KPDLIVAIA-TPAA-QA 74 (281)
T ss_pred CeEEecCCCCcchHHHHHHHH---HHHHHhCccCCceEEEEEecCCCCHHHHHHHHHHHHhc-CCCEEEEcC-cHHH-HH
Confidence 699999976654333444444 45566665667899999999999999999999998876 999999966 5432 22
Q ss_pred HHHhcCCCCccEEeccCCCCccccc--------ceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCC-ccccC
Q 047109 83 LAEIGSKAKIPVISLYATLPSSLTS--------YSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNT-WGSDN 151 (808)
Q Consensus 83 ~~~~~~~~~iP~is~~~~~~~~ls~--------~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~-~g~~~ 151 (808)
. .....++|+|..+...+. ... ....+...+. ..+..+++++... |.+++++++++.. ++. .
T Consensus 75 ~--~~~~~~iPvV~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~-~ 147 (281)
T cd06325 75 A--ANATKDIPIVFTAVTDPV-GAGLVKSLEKPGGNVTGVSDL---VPVETQLELLKKLLPDAKTVGVLYNPSEANSV-V 147 (281)
T ss_pred H--HHcCCCCCEEEEecCCcc-ccccccccccCCCceeCeecc---cchHHHHHHHHHHCCCCcEEEEEeCCCCccHH-H
Confidence 2 255679999998754442 110 1112233344 5567788888765 9999999986543 565 6
Q ss_pred cHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 152 IIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
..+.+++.+++.|+.+.... . . ...++...++++.+. +++|++.. ...+..+++++.+.|+
T Consensus 148 r~~g~~~~~~~~g~~~~~~~-~-~---~~~~~~~~~~~~~~~-~dai~~~~-d~~a~~~~~~~~~~~~ 208 (281)
T cd06325 148 QVKELKKAAAKLGIEVVEAT-V-S---SSNDVQQAAQSLAGK-VDAIYVPT-DNTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHHHHHHHhCCCEEEEEe-c-C---CHHHHHHHHHHhccc-CCEEEEcC-chhHHhHHHHHHHHHH
Confidence 67889999999998876532 1 2 345677777777643 57666544 4567788888888875
No 114
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.62 E-value=1.3e-06 Score=91.21 Aligned_cols=308 Identities=11% Similarity=0.111 Sum_probs=187.0
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 3 HVGVILDMRSWA---GKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 3 ~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
+|++++|++|.. |.....|+..|-. .+.-.+ -..++.++||...+..++- ..+..+|+..|+||. --.
T Consensus 259 kiALLLPLtG~~a~~a~~IqdGF~aA~~----~~~~~~~~~~~~~i~dT~~~~l~~i~---aqaqq~G~~~VVGPL-lK~ 330 (604)
T COG3107 259 KIALLLPLTGQAAVFARTIQDGFLAAKN----APATQTAQVAELKIYDTSAQPLDAIL---AQAQQDGADFVVGPL-LKP 330 (604)
T ss_pred heeEEeccCChhHHHHHHHHHHHHHhcc----CcccCCccccceeeccCCcccHHHHH---HHHHhcCCcEEeccc-cch
Confidence 799999999976 7788888888854 122223 2378888898776665544 444456999999999 777
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCccc-cc-ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHH
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSL-TS-YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYL 156 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~l-s~-~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~ 156 (808)
....+..--. ..||+++.-.++.... .+ ..|-+.|.|+ ++..++.+-.-|.+...++.+.+++|+ ...++|
T Consensus 331 nVe~L~~~~q-~~i~vLALN~~~n~r~~~~~cyfaLSPEDE-----a~~AA~~l~~qG~R~plvlvPr~~lG~-Rv~~AF 403 (604)
T COG3107 331 NVEALLASNQ-QPIPVLALNQPENSRNPAQLCYFALSPEDE-----ARDAANHLWDQGKRNPLVLVPRNDLGD-RVANAF 403 (604)
T ss_pred hHHHHHhCcC-CCCceeeecCCccccCcccceeeecChhHH-----HHHHHHHHHHccccCceEEecchHHHH-HHHHHH
Confidence 7666654433 6789888765443311 12 5677778776 899999999999999999999999999 999999
Q ss_pred HHhhhcCCcEEEEEEecCCCCCChHHHHHHHH-----------------------HhcCCC-CeEEEEEcCHHHHHHHHH
Q 047109 157 FDSLHDNDIDIARRITISMSSNTDDQVIEKLS-----------------------MLKSSE-TKVFVVHMSHALASHLFL 212 (808)
Q Consensus 157 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~-----------------------~l~~~~-~~viil~~~~~~~~~~l~ 212 (808)
.+.+++.|+..+..+.+.. ..++...++ -+.+.. .|.|++...+.+++.+=-
T Consensus 404 ~~~Wq~~gg~~v~~~~fg~----~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~IKP 479 (604)
T COG3107 404 NQEWQKLGGGTVLQQKFGS----TSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELALIKP 479 (604)
T ss_pred HHHHHHhcCCchhHhhcCc----HHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhHHhh
Confidence 9999998875444333211 111111111 112223 788999999988877755
Q ss_pred HHHHcCCCCCCeEEEEeCccccccccCCccccccccceeEEEe---eccCCcHHHHHHHHHHHHHhhccCCCCCCCCcch
Q 047109 213 NAKKLGMMSKGYSWIVTASTMNFLHSMDSSVVESSMQGVLGFK---RYVPASKQLRNFTLKWKREMYLNNQNAEVSELDV 289 (808)
Q Consensus 213 ~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~---~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 289 (808)
...-.+.. ....-+.++........ ++.... ++|+.... ...+..|.+++....|..
T Consensus 480 ~ia~~~~~-~~~p~yaSSr~~~gT~~--P~~~~~-m~GiqysdiP~l~~~~~p~~qq~a~~~p~---------------- 539 (604)
T COG3107 480 MIAMANGS-DSPPLYASSRSSQGTNG--PDFRLE-MEGIQYSDIPWLAQPNPPLMQQAAAAWPN---------------- 539 (604)
T ss_pred HHHhhcCC-CCcceeeeccccccCCC--ccHHHh-ccCccccCCchhcCCCchHHHHHHHhcCC----------------
Confidence 55444432 22222233322212111 122222 45543321 223455667766666542
Q ss_pred hhhhHhhHHHHHHHHHHHHhhhcCChHHHHHHHH---cCccccceeEEEe-eCCcccCCccEEEEEeecCcEEEE
Q 047109 290 HGILAYDTVWALAKASEKLKTEISNETCYYKQIL---NSRFTGLSGDFQL-INGKLTSSRAFEIVNVIGKTVKIV 360 (808)
Q Consensus 290 ~~~~~ydav~~~a~Al~~~~~~~~~~~~l~~~l~---~~~~~g~tG~v~f-~~g~~~~~~~~~i~~~~~~~~~~v 360 (808)
-|..++++|.+++.-.= ..-...|+ +-..+|.||..+. +++.... ...-.+++.+..++|
T Consensus 540 ----~~sl~RLyAmGvDAwrL-----an~f~elrqV~G~~i~G~TG~Lsad~~c~I~R--~l~Waqy~~G~vvP~ 603 (604)
T COG3107 540 ----DYSLARLYAMGVDAWRL-----ANHFSELRQVPGYQIDGLTGTLSADPDCVIER--KLSWAQYQQGQVVPV 603 (604)
T ss_pred ----chHHHHHHHhcchHHHH-----HHHhHHhhcCCCcccccccceeecCCCceEee--cchHHHhcCCCeeeC
Confidence 12233444443332100 00112233 3357899999999 8777666 566556665555544
No 115
>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=98.58 E-value=7.1e-07 Score=91.11 Aligned_cols=199 Identities=16% Similarity=0.094 Sum_probs=134.2
Q ss_pred CCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCc
Q 047109 413 INKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQK 492 (808)
Q Consensus 413 ~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~ 492 (808)
.++|+||+.. .++|+. +.+...++.+.+++++|.+++++ .. ++|+.++..+.+|+
T Consensus 31 ~~~l~vg~~~-~~~~~~--------------~~~~~~~l~~~l~~~~g~~v~~~--~~--------~~~~~~~~~l~~g~ 85 (254)
T TIGR01098 31 PKELNFGILP-GENASN--------------LTRRWEPLADYLEKKLGIKVQLF--VA--------TDYSAVIEAMRFGR 85 (254)
T ss_pred CCceEEEECC-CCCHHH--------------HHHHHHHHHHHHHHHhCCcEEEE--eC--------CCHHHHHHHHHcCC
Confidence 4689999875 343332 22446789999999999865553 32 26899999999999
Q ss_pred ccEEEeceeeec---cccceeeccccceec------cEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeee
Q 047109 493 FDAVVGETTITA---NRSLYVDFTLPYTDM------GIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIE 563 (808)
Q Consensus 493 ~Di~~~~~~~t~---~r~~~~dfs~p~~~~------~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~ 563 (808)
+|+++.+..... +|....+|+.|+... ...+++++.....
T Consensus 86 ~Di~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~~i~------------------------------- 134 (254)
T TIGR01098 86 VDIAWFGPSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADSPIK------------------------------- 134 (254)
T ss_pred ccEEEECcHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCCCCC-------------------------------
Confidence 999986553332 455667788776543 2467777654321
Q ss_pred cccCCCCCCCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceee
Q 047109 564 RPINDEFQGSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGS 643 (808)
Q Consensus 564 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~ 643 (808)
+++++ +++++++
T Consensus 135 -----------------------------------------------------------------~~~dL---~gk~I~~ 146 (254)
T TIGR01098 135 -----------------------------------------------------------------SLKDL---KGKTFAF 146 (254)
T ss_pred -----------------------------------------------------------------ChHHh---cCCEEEe
Confidence 34455 7899998
Q ss_pred ec-CCcH-----HHhhhcc-CCC----cccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCC---CceEEe
Q 047109 644 QL-GSFV-----PGALSNL-NFK----DSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYS---TDYTMI 709 (808)
Q Consensus 644 ~~-~s~~-----~~~l~~~-~~~----~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~l~~~ 709 (808)
.. ++.. ..++.+. +.. ..++....+..+.++++.+|+ +|+.+.+......+..+.. .+++++
T Consensus 147 ~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~G~----~Da~~~~~~~~~~~~~~~~~~~~~~~~~ 222 (254)
T TIGR01098 147 GDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVANGK----VDAATNNSSAIGRLKKRGPSDMKKVRVI 222 (254)
T ss_pred eCCCCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHcCC----CCeEEecHHHHHHHHHhCccchhheEEE
Confidence 64 3321 1233322 211 124444455778899998888 9999999888877665542 367888
Q ss_pred ccccccccceEEEEeCC-CC-ChHHHHHHHHhh
Q 047109 710 APNYTTTSGFGFVFQKG-SP-LVHDISRAIAKL 740 (808)
Q Consensus 710 ~~~~~~~~~~~~~~~k~-sp-~~~~~~~~i~~l 740 (808)
+.... ..+++++++|+ .+ +++.+|++|..+
T Consensus 223 ~~~~~-~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 223 WKSPL-IPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred EecCC-CCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 76655 66789999999 55 999999998764
No 116
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.56 E-value=3.6e-07 Score=94.08 Aligned_cols=164 Identities=18% Similarity=0.211 Sum_probs=128.7
Q ss_pred CHHHHHHHHHcCcccEEEeceeeeccccceeecccc--ceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHh
Q 047109 480 SYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLP--YTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGF 557 (808)
Q Consensus 480 ~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p--~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~ 557 (808)
+|.+++..|.+|++|+++++..++.+|.+.++|+.| |....+++++|+..+..
T Consensus 52 ~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~~i~------------------------- 106 (287)
T PRK00489 52 RPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDSDWQ------------------------- 106 (287)
T ss_pred CcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCCCCC-------------------------
Confidence 679999999999999999999989999888999887 67778888888764321
Q ss_pred hheeeecccCCCCCCCCCcchhhHHHHHHHHhhhcCccccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhcc
Q 047109 558 VVWIIERPINDEFQGSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLAS 637 (808)
Q Consensus 558 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~ 637 (808)
+++++ +
T Consensus 107 -----------------------------------------------------------------------sl~DL---~ 112 (287)
T PRK00489 107 -----------------------------------------------------------------------GVEDL---A 112 (287)
T ss_pred -----------------------------------------------------------------------ChHHh---C
Confidence 34555 8
Q ss_pred CCceeeecCCcHHHhhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEecccccccc
Q 047109 638 RDNIGSQLGSFVPGALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAPNYTTTS 717 (808)
Q Consensus 638 ~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 717 (808)
++++++..+.....++.+.+. ..+++.+.+..+. .+..|+ .|+++........+.++ ++.++ +... ..
T Consensus 113 Gk~ia~~~~~~~~~~l~~~gi-~~~iv~~~gs~ea--a~~~G~----aDaivd~~~~~~~l~~~---~L~~v-~~~~-~~ 180 (287)
T PRK00489 113 GKRIATSYPNLTRRYLAEKGI-DAEVVELSGAVEV--APRLGL----ADAIVDVVSTGTTLRAN---GLKIV-EVIL-RS 180 (287)
T ss_pred CCEEEEcCcHHHHHHHHHcCC-ceEEEECCCchhh--hhcCCc----ccEEEeeHHHHHHHHHC---CCEEE-Eeee-ee
Confidence 999999888888888877555 3456666655554 555576 99998777766665553 56766 4555 67
Q ss_pred ceEEEEeC--CCC-ChHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 718 GFGFVFQK--GSP-LVHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 718 ~~~~~~~k--~sp-~~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
..+++.+| .+| ..+.++..+.++ +|.+..+..||+..
T Consensus 181 ~~~li~~k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~~ 220 (287)
T PRK00489 181 EAVLIARKGWLDPEKQEKIDQLLTRL--QGVLRARESKYLMM 220 (287)
T ss_pred eEEEEEcccccChhHHHHHHHHHHHH--HHHHHhhceEEEEE
Confidence 79999999 677 888999999999 49999999999976
No 117
>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=98.47 E-value=8.1e-06 Score=84.26 Aligned_cols=199 Identities=13% Similarity=0.095 Sum_probs=131.3
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH-H
Q 047109 3 HVGVILDMRSW-AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG-A 80 (808)
Q Consensus 3 ~IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~-~ 80 (808)
|||+++|.... .=.....+++.+.++. +.-++++++.+.|+..++....+...++++. ++.+||... .+.. .
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~----~~~g~~~~l~i~~~~~~~~~~~~~~~~~~~~-~vdgiIi~~-~~~~~~ 74 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKEL----KKAGLISEFIVTSADGDVAQQIADIRNLIAQ-GVDAIIINP-ASPTAL 74 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhh----hccCCeeEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEeC-CChhhh
Confidence 69999986432 2223444555554433 1223577888899999999888888888877 999999855 4332 2
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecC--CccccCcHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDN--TWGSDNIIPYL 156 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~--~~g~~~~~~~~ 156 (808)
......+...+||+|......+. ..+.++.+++. ..+..+++.+... +-++++++..+. ..+. .-.+.+
T Consensus 75 ~~~l~~~~~~~iPvv~~~~~~~~---~~~~~v~~d~~---~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~-~R~~g~ 147 (272)
T cd06300 75 NPVIEEACEAGIPVVSFDGTVTT---PCAYNVNEDQA---EFGKQGAEWLVKELGGKGNVLVVRGLAGHPVDE-DRYAGA 147 (272)
T ss_pred HHHHHHHHHCCCeEEEEecCCCC---CceeEecCCHH---HHHHHHHHHHHHHcCCCceEEEEECCCCCcchH-HHHHHH
Confidence 33334556689999998653221 14566777877 8888898888665 888999997432 2333 456788
Q ss_pred HHhhhcCC-cEEEEEEecCCCCCChHHHHHHHHHhcCCCC--eEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 157 FDSLHDND-IDIARRITISMSSNTDDQVIEKLSMLKSSET--KVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 157 ~~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~--~viil~~~~~~~~~~l~~a~~~gl 219 (808)
++.+++.+ +.+..... . ..+.++....+.++.++.+ ++|+.. +.. +..+++++++.|+
T Consensus 148 ~~a~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~l~~~~~~~~i~~~-~d~-A~g~~~al~~~g~ 208 (272)
T cd06300 148 KEVLKEYPGIKIVGEVY--G-DWDQAVAQKAVADFLASNPDVDGIWTQ-GGD-AVGAVQAFEQAGR 208 (272)
T ss_pred HHHHHHCCCcEEEeecC--C-CCCHHHHHHHHHHHHHhCCCcCEEEec-CCC-cHHHHHHHHHcCC
Confidence 88998887 77653222 1 2244556667777765544 443333 334 8899999999997
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=98.35 E-value=4.6e-05 Score=78.78 Aligned_cols=199 Identities=12% Similarity=0.117 Sum_probs=123.2
Q ss_pred EEEEEEec-CCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-ecCCChhHH
Q 047109 3 HVGVILDM-RSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAII-CTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aii-G~~~~s~~~ 80 (808)
|||++.|. +.+.=.....+++-|.++. ++++.+...++..++....+....+++. +|.+|| .|. .+...
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~-~~~~~ 71 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKL-------GVSVDIQAAPSEGDQQGQLSIAENMINK-GYKGLLFSPI-SDVNL 71 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHh-------CCeEEEEccCCCCCHHHHHHHHHHHHHh-CCCEEEECCC-ChHHh
Confidence 68999984 4433233445555555542 3566666666667777777777778776 888854 555 44433
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCc--cccCcHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTW--GSDNIIPYL 156 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~--g~~~~~~~~ 156 (808)
......+...+||+|......+. .....+.+++. ..++.+++.+... |.++++++...... .. .-.+.+
T Consensus 72 ~~~~~~~~~~~iPvV~~~~~~~~---~~~~~V~~d~~---~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~-~r~~g~ 144 (275)
T cd06320 72 VPAVERAKKKGIPVVNVNDKLIP---NATAFVGTDNK---ANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAE-QRTEGF 144 (275)
T ss_pred HHHHHHHHHCCCeEEEECCCCCC---ccceEEecCcH---HHHHHHHHHHHHHhCCCceEEEEeCCCCCccHH-HHHHHH
Confidence 34445566789999988653222 11223456666 6688888888655 88999999754322 22 345788
Q ss_pred HHhhhcC-CcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEE-EEcCHHHHHHHHHHHHHcCCC
Q 047109 157 FDSLHDN-DIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFV-VHMSHALASHLFLNAKKLGMM 220 (808)
Q Consensus 157 ~~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii-l~~~~~~~~~~l~~a~~~gl~ 220 (808)
.+.++++ |+.+....... ...++....+.++.++.+++-. ++.+...+..+++++++.|+.
T Consensus 145 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~ 207 (275)
T cd06320 145 TEAIKKASGIEVVASQPAD---WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ 207 (275)
T ss_pred HHHHhhCCCcEEEEecCCC---ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC
Confidence 9999998 88765432211 1333444556565544444333 344555677889999999973
No 119
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=98.33 E-value=2.8e-05 Score=79.90 Aligned_cols=201 Identities=11% Similarity=0.116 Sum_probs=123.9
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|... +.-.....+++-|.++. +++ +.+.++..++....+...+++.. ++.+||... .+....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~~-------g~~--~~~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~-~~~~~~ 69 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARAA-------GYS--LLLATTDYDAEREADAVETLLRQ-RVDGLILTV-ADAATS 69 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHHC-------CCE--EEEeeCCCCHHHHHHHHHHHHhc-CCCEEEEec-CCCCch
Confidence 4899998533 33233444555554442 233 34456667787777777787775 899998644 333223
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEec---CCccccCcHHHHHH
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYED---NTWGSDNIIPYLFD 158 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d---~~~g~~~~~~~~~~ 158 (808)
.....+...+||+|......+. .+.....++. ..+..+++.+...|.++++++..+ .+++. .-.+.|.+
T Consensus 70 ~~~~~~~~~~ipvV~~~~~~~~----~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~-~r~~gf~~ 141 (266)
T cd06282 70 PALDLLDAERVPYVLAYNDPQP----GRPSVSVDNR---AAARDVAQALAALGHRRIAMLAGRLAASDRAR-QRYAGYRA 141 (266)
T ss_pred HHHHHHhhCCCCEEEEeccCCC----CCCEEeeCcH---HHHHHHHHHHHHcCcccEEEeccccccCchHH-HHHHHHHH
Confidence 3456677789999887643222 1112345666 778888898888899999999743 23445 55788899
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHH-hcCC-CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSM-LKSS-ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSW 226 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~-l~~~-~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~ 226 (808)
.++++|+.+......+. +..+....+.+ +++. .+++|+. ++...+..+++++++.|+..++.+-
T Consensus 142 ~l~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di~ 207 (266)
T cd06282 142 AMRAAGLAPLPPVEIPF---NTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDLS 207 (266)
T ss_pred HHHHcCCCCCccccCCC---cHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceE
Confidence 99998876443222222 22333344444 3433 3555444 6677788999999999975443333
No 120
>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=98.15 E-value=0.00018 Score=74.31 Aligned_cols=201 Identities=14% Similarity=0.081 Sum_probs=119.9
Q ss_pred EEEEEEecC--CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhH
Q 047109 3 HVGVILDMR--SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~ 79 (808)
.||+++|.. .+.......+++.+.++. + +++.+.++..++....+....++.. ++.+||. +. .+..
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~-------g--~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~~-~~~~ 69 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED-------G--VEVIVLDANGDVARQAAQVEDLIAQ-KVDGIILWPT-DGQA 69 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc-------C--CEEEEEcCCcCHHHHHHHHHHHHHc-CCCEEEEecC-Cccc
Confidence 489999974 455667777888877772 2 3445567778888888877787776 8998865 44 4333
Q ss_pred HHHHHHhcCCCCccEEeccCCCCccccc-ceeee-ccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCccc-cCcHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTS-YSIQI-DQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTWGS-DNIIP 154 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~-~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~g~-~~~~~ 154 (808)
.......+...++|+|......+. -.. ++... .+.+. ..++.+++.+... |-++++++..+.++.. ..-.+
T Consensus 70 ~~~~l~~~~~~~iPvV~~~~~~~~-~~~~~v~~~v~~d~~---~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~ 145 (275)
T cd06317 70 YIPGLRKAKQAGIPVVITNSNISE-KGFEFIKSFTGPDDI---SQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQK 145 (275)
T ss_pred cHHHHHHHHHCCCcEEEeCCCCCC-CccchhhhhccccHH---HHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHH
Confidence 333445556789999987654322 111 22222 33444 5566666766443 6789999976443332 03357
Q ss_pred HHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhc-C--CCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 047109 155 YLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLK-S--SETKVFVVHMSHALASHLFLNAKKLGMM 220 (808)
Q Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~-~--~~~~viil~~~~~~~~~~l~~a~~~gl~ 220 (808)
.|++.++++|..+........ ....++....+.++. + ..+++|+ +++...+..+++++++.|+.
T Consensus 146 g~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ 212 (275)
T cd06317 146 GFEDELAEVCPGVEVLDTQPA-DWDREKAQVAMEALITKFGDDIDGVY-AGDDNMARGALNAAKEAGLA 212 (275)
T ss_pred HHHHHHHhhCCCCEEEeccCC-CCCHHHHHHHHHHHHHhCCCCccEEE-ECCCcHHHHHHHHHHhcCCc
Confidence 888899888643322222211 112223233344332 2 2356655 45555688899999999984
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=98.14 E-value=0.0002 Score=73.67 Aligned_cols=205 Identities=12% Similarity=0.085 Sum_probs=124.5
Q ss_pred EEEEEEec-CCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEE-EecCCChhHH
Q 047109 3 HVGVILDM-RSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAI-ICTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~ai-iG~~~~s~~~ 80 (808)
.||+++|. +.+.-.....+++.+.++. ++++ .+.++..++....+...++++. ++.+| +++. .+...
T Consensus 1 ~I~vv~~~~~~~~~~~~~~~i~~~~~~~-------g~~v--~~~~~~~~~~~~~~~~~~~~~~-~~dgii~~~~-~~~~~ 69 (268)
T cd06323 1 TIGLSVSTLNNPFFVTLKDGAQKEAKEL-------GYEL--TVLDAQNDAAKQLNDIEDLITR-GVDAIIINPT-DSDAV 69 (268)
T ss_pred CeeEecccccCHHHHHHHHHHHHHHHHc-------CceE--EecCCCCCHHHHHHHHHHHHHc-CCCEEEEcCC-ChHHH
Confidence 38999985 3344455666777776663 2333 4567777888777888887776 78884 4555 54433
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecC--CccccCcHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDN--TWGSDNIIPYL 156 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~--~~g~~~~~~~~ 156 (808)
......+...++|+|......+. . +.+-.+..++. ..+..+++.+... |-+++++++.+. ..+. .-.+.|
T Consensus 70 ~~~l~~l~~~~ipvv~~~~~~~~-~-~~~~~v~~d~~---~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~-~r~~g~ 143 (268)
T cd06323 70 VPAVKAANEAGIPVFTIDREANG-G-EVVSQIASDNV---AGGKMAAEYLVKLLGGKGKVVELQGIPGASAAR-ERGKGF 143 (268)
T ss_pred HHHHHHHHHCCCcEEEEccCCCC-C-ceEEEEccCcH---HHHHHHHHHHHHHhCCCceEEEEeCCCCCccHH-HHHHHH
Confidence 33334455679999998764322 1 12233455555 5677788888665 789999998643 2344 556888
Q ss_pred HHhhhcC-CcEEEEEEecCCCCCChHHHHHHHHHhcCCC--CeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 157 FDSLHDN-DIDIARRITISMSSNTDDQVIEKLSMLKSSE--TKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 157 ~~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
.+.++++ |..+........ +.++....+.++.+.. +++ +++.+...+..+++++.+.|+ ++...++.+
T Consensus 144 ~~~l~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~--~di~iig~d 214 (268)
T cd06323 144 HEVVDKYPGLKVVASQPADF---DRAKGLNVMENILQAHPDIKG-VFAQNDEMALGAIEALKAAGK--DDVKVVGFD 214 (268)
T ss_pred HHHHHhCCCcEEEecccCCC---CHHHHHHHHHHHHHHCCCcCE-EEEcCCchHHHHHHHHHHcCC--CCcEEEEeC
Confidence 8889884 777543221111 2233334444444333 344 444555566678999999997 444444433
No 122
>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=98.10 E-value=0.00017 Score=74.14 Aligned_cols=202 Identities=10% Similarity=0.093 Sum_probs=123.2
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||++.|... +.-.....+++-++++.| +.+ .+.++..++....+....+++. +|.++|--. +....
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~g-------~~~--~~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~-~~~~~- 68 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAHG-------YTL--LVASSGYDLDREYAQARKLLER-GVDGLALIG-LDHSP- 68 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHCC-------CEE--EEecCCCCHHHHHHHHHHHHhc-CCCEEEEeC-CCCCH-
Confidence 4899999643 333344455555555432 233 4467888888888888888876 777766422 21222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecC---CccccCcHHHHHH
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDN---TWGSDNIIPYLFD 158 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~---~~g~~~~~~~~~~ 158 (808)
.+...+...++|+|......+. . .+......+. ..+..+++.+...|.++++++.... .++. .-.+.|.+
T Consensus 69 ~~~~~l~~~~iPvv~~~~~~~~-~--~~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~-~r~~gf~~ 141 (268)
T cd06273 69 ALLDLLARRGVPYVATWNYSPD-S--PYPCVGFDNR---EAGRLAARHLIALGHRRIAMIFGPTQGNDRAR-ARRAGVRA 141 (268)
T ss_pred HHHHHHHhCCCCEEEEcCCCCC-C--CCCEEEeChH---HHHHHHHHHHHHCCCCeEEEEeccccCCccHH-HHHHHHHH
Confidence 2234556679999998654332 1 1123445666 7788888888777999999997432 2344 45788899
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeE
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMMSKGYS 225 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~ 225 (808)
.++++++.+.....+.. ....++....+.++.+ ..+++|+. ++...+..+++++++.|+..++.+
T Consensus 142 ~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~i 208 (268)
T cd06273 142 ALAEAGLELPELWQVEA-PYSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPEDL 208 (268)
T ss_pred HHHHcCCCCCHHHeeeC-CCcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCce
Confidence 99998865432212211 1122333444555543 34666554 666778889999999997544433
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=98.03 E-value=0.00053 Score=70.87 Aligned_cols=199 Identities=11% Similarity=0.074 Sum_probs=118.4
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-ecCCChhHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAII-CTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aii-G~~~~s~~~ 80 (808)
+||++.|... +.=.....+++.+.++. + +.+.+.++..++.+..+...++++. ++.+|| ++. .+...
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~-------g--~~~~~~~~~~~~~~~~~~i~~~~~~-~~dgiii~~~-~~~~~ 69 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL-------G--YDAVELSAENSAKKELENLRTAIDK-GVSGIIISPT-NSSAA 69 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc-------C--CeEEEecCCCCHHHHHHHHHHHHhc-CCCEEEEcCC-chhhh
Confidence 5899998533 22223334444444332 2 3334567778888888888888775 788875 665 55444
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc------CCcEEEEEEecC--CccccCc
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF------KWKHVILIYEDN--TWGSDNI 152 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~------~w~~v~ii~~d~--~~g~~~~ 152 (808)
......+...++|+|......+. -. ++..+.+++. ..+..+++++... |-++++++..+. ..+. .-
T Consensus 70 ~~~l~~~~~~~ipvV~~~~~~~~-~~-~~~~v~~d~~---~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~-~r 143 (277)
T cd06319 70 VTLLKLAAQAKIPVVIADIGAEG-GD-YVSYIKSDNY---EGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQ-KR 143 (277)
T ss_pred HHHHHHHHHCCCCEEEEecCCCC-Cc-eEEEEeeccH---HHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHH-HH
Confidence 45556677789999987643211 11 2334455555 5556666655433 678999997532 3344 56
Q ss_pred HHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeE-EEEEcCHHHHHHHHHHHHHcCCC
Q 047109 153 IPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKV-FVVHMSHALASHLFLNAKKLGMM 220 (808)
Q Consensus 153 ~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~~l~~a~~~gl~ 220 (808)
.+.|++.++++|..+.... ... ..+.++....++++.++.++. .|++.+...+..+++++++.|+.
T Consensus 144 ~~gf~~~l~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~ 210 (277)
T cd06319 144 TKGFKEAMKEAGCDLAGIR-QQK-DFSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT 210 (277)
T ss_pred HHHHHHHHHhcCCceEeec-cCC-CCCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC
Confidence 7889999999987754221 111 113233344555554444443 33344555577899999999984
No 124
>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=98.01 E-value=0.00032 Score=72.15 Aligned_cols=210 Identities=15% Similarity=0.141 Sum_probs=123.6
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|... +.......|++.++++. ++.+.+...|. +.......+.+.+..+++.+||... ......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~~~~~~--~~~~~~~~~~~~l~~~~vdgiii~~-~~~~~~ 70 (270)
T cd01545 1 LIGLLYDNPSPGYVSEIQLGALDACRDT-------GYQLVIEPCDS--GSPDLAERVRALLQRSRVDGVILTP-PLSDNP 70 (270)
T ss_pred CEEEEEcCCCcccHHHHHHHHHHHHHhC-------CCeEEEEeCCC--CchHHHHHHHHHHHHCCCCEEEEeC-CCCCcc
Confidence 3899998643 44666777877777643 24555554443 2223455666656555899999865 433233
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccc-cCcHHHHHHhh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGS-DNIIPYLFDSL 160 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~-~~~~~~~~~~~ 160 (808)
.....+...++|+|......+. . . ......+.. ..+..+++.+...|.++++++..+..+.. ..-.+.|.+.+
T Consensus 71 ~~~~~~~~~~ipvv~i~~~~~~-~-~-~~~V~~d~~---~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 144 (270)
T cd01545 71 ELLDLLDEAGVPYVRIAPGTPD-P-D-SPCVRIDDR---AAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDAL 144 (270)
T ss_pred HHHHHHHhcCCCEEEEecCCCC-C-C-CCeEEeccH---HHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHH
Confidence 4445666789999988654332 1 1 112334555 66788888887789999999986554322 02357788888
Q ss_pred hcCCcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 047109 161 HDNDIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMMSKG-YSWIVTA 230 (808)
Q Consensus 161 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~~~~-~~~i~~~ 230 (808)
++.|+.+........ .....+-...+.++.+ ..+++|+ +++...+..+++++++.|+..++ ...++-+
T Consensus 145 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~~i~vig~d 215 (270)
T cd01545 145 AEAGLPLDPELVAQG-DFTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPDDLSVVGFD 215 (270)
T ss_pred HHcCCCCChhhEEeC-CCChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 888876421001111 1121222233444432 3456655 55667788999999999975443 3344333
No 125
>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=0.00061 Score=70.27 Aligned_cols=208 Identities=15% Similarity=0.084 Sum_probs=123.2
Q ss_pred EEEEEEec-CCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDM-RSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
+||++.|. +.+.=.....+++-+.++. .+++.+.++..+...-.+....++++ ++.+||- +. .....
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~~---------g~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~-~~~~~ 69 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEKR---------GFDLKFADAQQKQENQISAIRSFIAQ-GVDVIILAPV-VETGW 69 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHhc---------CCEEEEeCCCCCHHHHHHHHHHHHHc-CCCEEEEcCC-ccccc
Confidence 48999994 4433223344444444442 23444566666777677777778776 7888764 43 33322
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccc--cceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCc--cccCcHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLT--SYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTW--GSDNIIP 154 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls--~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~--g~~~~~~ 154 (808)
......+...+||+|......+. .. +++.++.+.+. ..+..+++.+... +-++++++..+... .. .-.+
T Consensus 70 ~~~i~~~~~~~iPvV~~~~~~~~-~~~~~~~~~v~~d~~---~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~-~R~~ 144 (273)
T cd06309 70 DPVLKEAKAAGIPVILVDRGVDV-KDDSLYVTFIGSDFV---EEGRRAADWLAKATGGKGNIVELQGTVGSSVAI-DRKK 144 (273)
T ss_pred hHHHHHHHHCCCCEEEEecCcCC-ccCcceeeEecCChH---HHHHHHHHHHHHHcCCCceEEEEeCCCCCchHH-HHHH
Confidence 33334556779999998764322 11 15667778877 8888888888665 88899999754321 12 3357
Q ss_pred HHHHhhhcC-CcEEEEEEecCCCCCChHHHHHHHHHhcCC---CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 155 YLFDSLHDN-DIDIARRITISMSSNTDDQVIEKLSMLKSS---ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 155 ~~~~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
.|.+.++++ +..+........ +..+....+.++.++ .+++ |++.+...+..+++++.+.|+..++-+.|++-
T Consensus 145 Gf~~~l~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~a-I~~~~d~~a~g~~~a~~~~g~~ip~di~iig~ 220 (273)
T cd06309 145 GFAEVIKKYPNMKIVASQTGDF---TRAKGKEVMEALLKAHGDDIDA-VYAHNDEMALGAIQAIKAAGKKPGKDIKIVSI 220 (273)
T ss_pred HHHHHHHHCCCCEEeeccCCcc---cHHHHHHHHHHHHHhCCCCccE-EEECCcHHHHHHHHHHHHcCCCCCCCeEEEec
Confidence 788888887 455442211111 223333444444433 2444 34445566778999999999864444444443
No 126
>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=97.97 E-value=0.0012 Score=68.02 Aligned_cols=210 Identities=12% Similarity=0.060 Sum_probs=119.4
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH-H
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG-A 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~-~ 80 (808)
|||++.|.-. +.=.....+++-+.++ .++++.+...++..++....+...+++.. ++.+||-.. +... .
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~-------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgvii~~-~~~~~~ 71 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE-------LGVKVTFQGPASETDVAGQVNLLENAIAR-GPDAILLAP-TDAKAL 71 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH-------cCCEEEEecCccCCCHHHHHHHHHHHHHh-CCCEEEEcC-CChhhh
Confidence 6999998633 2212233344444333 23455544333456787777777777776 888888644 3332 2
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCccc-cCcHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTWGS-DNIIPYLF 157 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~g~-~~~~~~~~ 157 (808)
......+...++|+|......+. .. .+-.+.+.+. ..+..+++.+... |.++++++.....+.. ..-.+.|+
T Consensus 72 ~~~l~~~~~~~ipvV~~~~~~~~-~~-~~~~v~~d~~---~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~ 146 (273)
T cd06310 72 VPPLKEAKDAGIPVVLIDSGLNS-DI-AVSFVATDNV---AAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFL 146 (273)
T ss_pred HHHHHHHHHCCCCEEEecCCCCC-Cc-ceEEEeeChH---HHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHH
Confidence 33334445679999998653221 01 2222344544 5567777877665 8999999975433322 13457888
Q ss_pred HhhhcC-CcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeE-EEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 158 DSLHDN-DIDIARRITISMSSNTDDQVIEKLSMLKSSETKV-FVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 158 ~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
+++++. |+.+.... .. ..+..+-...+.++.++.+++ .|++.+...+..+++.+++.|+. ++...++.+
T Consensus 147 ~a~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 147 EGLKEYPGIEIVATQ--YS-DSDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred HHHHhCCCcEEEecc--cC-CcCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 889888 77654321 11 112233334555554333332 34455566788899999999984 344444433
No 127
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=97.95 E-value=0.00054 Score=69.96 Aligned_cols=199 Identities=13% Similarity=0.154 Sum_probs=132.2
Q ss_pred EEEEEecCCcc-hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-ecCCChhHHH
Q 047109 4 VGVILDMRSWA-GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAII-CTEMTPTGAH 81 (808)
Q Consensus 4 IG~i~~~~~~~-g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aii-G~~~~s~~~~ 81 (808)
||++.|..+.. -.....+++-|.++.+- .+.+. .|...|+.+-.+.+.++++. ++.+|| .|. .+....
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~-------~~~~~-~~~~~d~~~q~~~i~~~i~~-~~d~Iiv~~~-~~~~~~ 70 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGY-------EVEIV-FDAQNDPEEQIEQIEQAISQ-GVDGIIVSPV-DPDSLA 70 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTC-------EEEEE-EESTTTHHHHHHHHHHHHHT-TESEEEEESS-STTTTH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCC-------EEEEe-CCCCCCHHHHHHHHHHHHHh-cCCEEEecCC-CHHHHH
Confidence 78999987653 55678888888888764 44444 78889999999999999987 899888 566 555555
Q ss_pred HHHHhcCCCCccEEeccCC-CCcccccceeeeccCCchhhHHHHHHHHHHHhc-CC-cEEEEEEecCCccc-cCcHHHHH
Q 047109 82 ILAEIGSKAKIPVISLYAT-LPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF-KW-KHVILIYEDNTWGS-DNIIPYLF 157 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~-~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~-~w-~~v~ii~~d~~~g~-~~~~~~~~ 157 (808)
....-+...+||+|+.... .+. ........++.. ..+..+++.+... +- .+++++.....+.. ..-.+.+.
T Consensus 71 ~~l~~~~~~gIpvv~~d~~~~~~--~~~~~~v~~d~~---~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~ 145 (257)
T PF13407_consen 71 PFLEKAKAAGIPVVTVDSDEAPD--SPRAAYVGTDNY---EAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFR 145 (257)
T ss_dssp HHHHHHHHTTSEEEEESSTHHTT--STSSEEEEE-HH---HHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHH
T ss_pred HHHHHHhhcCceEEEEecccccc--ccceeeeeccHH---HHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHH
Confidence 5556677779999998765 111 114455566666 7788888887543 22 68887754443322 13467777
Q ss_pred Hhhhc-CCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 158 DSLHD-NDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 158 ~~~~~-~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
+.+++ .++++..... .. ..+.+.....+.++.+..+-..|++++...+..++++..+.|+
T Consensus 146 ~~l~~~~~~~~~~~~~-~~-~~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~ 206 (257)
T PF13407_consen 146 DALKEYPGVEIVDEYE-YT-DWDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGR 206 (257)
T ss_dssp HHHHHCTTEEEEEEEE-EC-TTSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTC
T ss_pred HHHhhcceeeeeeeee-cc-CCCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCC
Confidence 88888 4666655322 22 2244555555555544443344466777788889999999998
No 128
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.94 E-value=0.0008 Score=69.32 Aligned_cols=198 Identities=14% Similarity=0.099 Sum_probs=124.6
Q ss_pred EEEEEEecC-C-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCC-CHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMR-S-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKG-DPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~-~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~-~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
|||++.|.. . +.-.....+++.|.++.| +++. +.++.. ++....+...++++. ++.++|........
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g-------~~v~--~~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~~ 70 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLG-------VDVE--YRGPETFDVADMARLIEAAIAA-KPDGIVVTIPDPDA 70 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhC-------CEEE--EECCCCCCHHHHHHHHHHHHHh-CCCEEEEeCCChHH
Confidence 689999975 3 334456677777777632 3444 444444 787777777788876 89988874403222
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccc--cceeeeccCCchhhHHHHHHHHHHHh-cCCcEEEEEEecC--CccccCcHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLT--SYSIQIDQDDEASQSQAKGIADLIRV-FKWKHVILIYEDN--TWGSDNIIP 154 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls--~~~~r~~p~~~~~~~~~~a~~~ll~~-~~w~~v~ii~~d~--~~g~~~~~~ 154 (808)
.......+...++|+|......+. .. ..+..+..++. ..+..+++.+.+ .|-++++++..+. ..+. .-.+
T Consensus 71 ~~~~l~~~~~~~ipvV~~~~~~~~-~~~~~~~~~V~~d~~---~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~-~r~~ 145 (271)
T cd06312 71 LDPAIKRAVAAGIPVISFNAGDPK-YKELGALAYVGQDEY---AAGEAAGERLAELKGGKNVLCVIHEPGNVTLE-DRCA 145 (271)
T ss_pred hHHHHHHHHHCCCeEEEeCCCCCc-cccccceEEeccChH---HHHHHHHHHHHHhcCCCeEEEEecCCCCccHH-HHHH
Confidence 233334456679999998754322 21 14455667777 888889999888 8999999997533 2234 4568
Q ss_pred HHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 047109 155 YLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMM 220 (808)
Q Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~ 220 (808)
.+.+.++++++.+... .. ..+..+....++++.+. ++++ |++.+...+..+++.+++.|+.
T Consensus 146 g~~~~~~~~~~~~~~~---~~-~~~~~~~~~~~~~~l~~~~~~~a-I~~~~d~~a~g~~~al~~~g~~ 208 (271)
T cd06312 146 GFADGLGGAGITEEVI---ET-GADPTEVASRIAAYLRANPDVDA-VLTLGAPSAAPAAKALKQAGLK 208 (271)
T ss_pred HHHHHHHhcCceeeEe---ec-CCCHHHHHHHHHHHHHhCCCccE-EEEeCCccchHHHHHHHhcCCC
Confidence 8888888888754321 11 11333444455554333 3454 4444455677888999999974
No 129
>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=97.92 E-value=0.0013 Score=67.68 Aligned_cols=209 Identities=13% Similarity=0.103 Sum_probs=124.4
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-ecCCChhHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAII-CTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aii-G~~~~s~~~ 80 (808)
+||+++|... +.-.....+++-|.++. . .+.+++.++..++..-.+...++++. +|.++| .+. .+...
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~---~-----~~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~-~~~~~ 70 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL---G-----GVELQFEDAKNDVATQLSQVENFIAQ-GVDAIIVVPV-DTAAT 70 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc---C-----CcEEEEeCCCCCHHHHHHHHHHHHHc-CCCEEEEecC-chhhh
Confidence 6899998643 32333444555554441 1 34555667778888888888888776 888886 555 44433
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCC--ccccCcHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNT--WGSDNIIPYL 156 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~--~g~~~~~~~~ 156 (808)
..+...+...+||+|......+. ....+..+..++. ..+..+++.+... +-++++++..... ... .-.+.|
T Consensus 71 ~~~~~~l~~~~iPvv~~~~~~~~-~~~~~~~V~~d~~---~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~-~R~~gf 145 (272)
T cd06301 71 APIVKAANAAGIPLVYVNRRPEN-APKGVAYVGSDEV---VAGRLQAEYVADKLGGKGNVAILMGPLGQSAQI-DRTKGV 145 (272)
T ss_pred HHHHHHHHHCCCeEEEecCCCCC-CCCeeEEEecChH---HHHHHHHHHHHHHhCCCccEEEEECCCCCccHH-HHHHHH
Confidence 44445567789999998654322 1013344566666 7777788877554 4569999975432 222 345788
Q ss_pred HHhhhcCC-cEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 157 FDSLHDND-IDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 157 ~~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
.+.+++.| +.+... ... ..+.......+.++.+. .+++ +++.+...+..+++.+++.|+..++...++-+
T Consensus 146 ~~~l~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d 218 (272)
T cd06301 146 EEVLAKYPDIKVVEE--QTA-NWSRAEAMDLMENWLSSGGKIDA-VVANNDEMALGAIMALKAAGKSDKDVPVAGID 218 (272)
T ss_pred HHHHHHCCCcEEEec--CCC-CccHHHHHHHHHHHHHhCCCCCE-EEECCCchHHHHHHHHHHcCCCCCCcEEEeeC
Confidence 88998887 443321 111 11222223444444322 3454 45556667788999999999853244444444
No 130
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.87 E-value=0.0013 Score=67.79 Aligned_cols=209 Identities=12% Similarity=-0.020 Sum_probs=122.7
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
+||++.|.. .+.-.....+++-|.++.+ ++ +.+.++..++....+....++.. ++.+||....++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~g-------~~--~~~~~~~~~~~~~~~~l~~~~~~-~vdgii~~~~~~~~~~ 70 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEALG-------GD--LRVYDAGGDDAKQADQIDQAIAQ-KVDAIIIQHGRAEVLK 70 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHcC-------CE--EEEECCCCCHHHHHHHHHHHHHc-CCCEEEEecCChhhhH
Confidence 589999853 3333345556655555432 23 34467778888777777788876 8999987430333233
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHh--cCCcEEEEEEecCC-ccccCcHHHHHH
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRV--FKWKHVILIYEDNT-WGSDNIIPYLFD 158 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~--~~w~~v~ii~~d~~-~g~~~~~~~~~~ 158 (808)
.....+...+||+|......+. ..+..+.+++. ..++.+++.+.. .|.++++++...+. ... .-.+.+.+
T Consensus 71 ~~i~~~~~~~ipvV~~~~~~~~---~~~~~V~~d~~---~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~-~R~~g~~~ 143 (273)
T cd06305 71 PWVKRALDAGIPVVAFDVDSDN---PKVNNTTQDDY---SLARLSLDQLVKDLGGKGNVGYVNVAGFPPLD-RRYDVWQA 143 (273)
T ss_pred HHHHHHHHcCCCEEEecCCCCC---CccceeeechH---HHHHHHHHHHHHHhCCCCCEEEEEccCCchHH-HHHHHHHH
Confidence 3334456779999998754322 12234556666 778888887765 58899999975421 122 23457777
Q ss_pred hhhcCC-cEEEEEEecCCCCCChHHHHHHHHHhcCCCCeE---EEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 159 SLHDND-IDIARRITISMSSNTDDQVIEKLSMLKSSETKV---FVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 159 ~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v---iil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
.+++.+ +.+........ ..+.++....++++....+++ .|++.+...+..+++++++.|+. .+...++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~-~di~iig~d 217 (273)
T cd06305 144 VLKAYPGIKEVAELGDVS-NNTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRT-DEIKIYGVD 217 (273)
T ss_pred HHHHCCCcEEeccccccc-ccchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCC-CCceEEEec
Confidence 777777 55443211111 112233344555554334433 34444566778889999999974 234444444
No 131
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=97.83 E-value=0.0025 Score=66.53 Aligned_cols=206 Identities=12% Similarity=0.075 Sum_probs=120.6
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-ecCCChhHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAII-CTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aii-G~~~~s~~~ 80 (808)
+||+++|... +.=.....+++.+.++.+ +.+.+.++..++....+...+++.. ++.++| ++. .+...
T Consensus 28 ~I~vi~~~~~~~f~~~~~~~i~~~~~~~G---------~~~~~~~~~~d~~~~~~~~~~l~~~-~~dgiii~~~-~~~~~ 96 (295)
T PRK10653 28 TIALVVSTLNNPFFVSLKDGAQKEADKLG---------YNLVVLDSQNNPAKELANVQDLTVR-GTKILLINPT-DSDAV 96 (295)
T ss_pred eEEEEecCCCChHHHHHHHHHHHHHHHcC---------CeEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEcCC-ChHHH
Confidence 6899998533 333345566666666532 3334567777888777777777766 776444 555 44443
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHh-cCCc-EEEEEEecCC--ccccCcHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRV-FKWK-HVILIYEDNT--WGSDNIIPYL 156 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~-~~w~-~v~ii~~d~~--~g~~~~~~~~ 156 (808)
......+...++|+|......+. .+.+....+.+. ..++.+++.+.. .+.+ +++++..+.. ... .-.+.|
T Consensus 97 ~~~l~~~~~~~ipvV~~~~~~~~--~~~~~~V~~D~~---~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~-~R~~gf 170 (295)
T PRK10653 97 GNAVKMANQANIPVITLDRGATK--GEVVSHIASDNV---AGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAAR-ERGEGF 170 (295)
T ss_pred HHHHHHHHHCCCCEEEEccCCCC--CceeeEEccChH---HHHHHHHHHHHHHhCCCceEEEEEccCCCccHH-HHHHHH
Confidence 34445666789999998653221 112344556555 556778887754 3543 5666554322 223 456888
Q ss_pred HHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEE-EEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 157 FDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVF-VVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 157 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi-il~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
.+.+++.|..+.... .. ..+..+....+.++.++.++.- +++.+...+..+++++++.|+ .+...++.+
T Consensus 171 ~~al~~~g~~~~~~~--~~-~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~--~dv~vig~d 240 (295)
T PRK10653 171 KQAVAAHKFNVLASQ--PA-DFDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK--SDVMVVGFD 240 (295)
T ss_pred HHHHhhCCCEEEEec--CC-CCCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC--CceEEEEeC
Confidence 999999998764321 11 1133334445555654444333 444555567778999999997 344444433
No 132
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=97.82 E-value=0.004 Score=62.47 Aligned_cols=198 Identities=14% Similarity=0.155 Sum_probs=135.5
Q ss_pred CeEEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 1 EVHVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 1 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
.++||+....+.+.-.....|++-|+++.--. .+++......+|+..+.+.++++..+ +..+|++-. +..|
T Consensus 30 ~~~VaI~~~veHpaLd~~~~G~~~aLk~~G~~------n~~i~~~na~~~~~~a~~iarql~~~-~~dviv~i~--tp~A 100 (322)
T COG2984 30 QITVAITQFVEHPALDAAREGVKEALKDAGYK------NVKIDYQNAQGDLGTAAQIARQLVGD-KPDVIVAIA--TPAA 100 (322)
T ss_pred ceeEEEEEeecchhHHHHHHHHHHHHHhcCcc------CeEEEeecCCCChHHHHHHHHHhhcC-CCcEEEecC--CHHH
Confidence 36799999999886556667777776665332 67777888899999999999999987 667777654 3445
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccc--cc-----eeeeccCCchhhHHHHHHHHHHHh--cCCcEEEEEEecCC-cccc
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLT--SY-----SIQIDQDDEASQSQAKGIADLIRV--FKWKHVILIYEDNT-WGSD 150 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls--~~-----~~r~~p~~~~~~~~~~a~~~ll~~--~~w~~v~ii~~d~~-~g~~ 150 (808)
+++..-. .+||+|..+.++|.... .. --=+.-+|. .-...-.+++++ -+-++++++|..++ ...
T Consensus 101 q~~~s~~--~~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~---~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~- 174 (322)
T COG2984 101 QALVSAT--KTIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDL---LPVAQQIELIKALLPNAKSIGVLYNPGEANSV- 174 (322)
T ss_pred HHHHHhc--CCCCEEEEccCchhhccCCccccCCCCceeecCCc---chHHHHHHHHHHhCCCCeeEEEEeCCCCcccH-
Confidence 5544333 34999998887766211 11 112334555 434455566655 47899999998775 666
Q ss_pred CcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHH---HHHHHHHHHHcCC
Q 047109 151 NIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHAL---ASHLFLNAKKLGM 219 (808)
Q Consensus 151 ~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~---~~~~l~~a~~~gl 219 (808)
...+.+++.+++.|++++.. .++. ..|....++.+. .++|+|+..++... ...++..+.+.+.
T Consensus 175 ~l~eelk~~A~~~Gl~vve~-~v~~----~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 175 SLVEELKKEARKAGLEVVEA-AVTS----VNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHHCCCEEEEE-ecCc----ccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhCC
Confidence 78899999999999998753 3332 335666666665 67899999988754 3455666666653
No 133
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=97.75 E-value=0.00061 Score=70.82 Aligned_cols=114 Identities=15% Similarity=0.132 Sum_probs=71.0
Q ss_pred eehhhhhccCCceeee-cCCcHHH-----hh-hccCCCcc---cccccC-CHHHHHHHHhcCCCCCceEEEEechhhHHH
Q 047109 629 TVQQIKLASRDNIGSQ-LGSFVPG-----AL-SNLNFKDS---RLKKYN-SAEEFANALSKGSKNGGISAIIDEIPYIKA 697 (808)
Q Consensus 629 t~~~~~~~~~~~i~~~-~~s~~~~-----~l-~~~~~~~~---~~~~~~-~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~ 697 (808)
+++++ +++++++. .++.... .+ +..+.... +...+. +..+....|..|+ +|+.+.+......
T Consensus 129 sl~DL---~Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~G~----vDa~~~~~~~~~~ 201 (288)
T TIGR03431 129 SLEDL---KGKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVANGT----VDAATTNDENLDR 201 (288)
T ss_pred cHHHh---CCCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHcCC----CCeEeccHHHHHH
Confidence 45555 78999975 3443221 12 22222211 223444 5788899998888 9999998877766
Q ss_pred HHhcC-C---CceEEeccccccccceEEEEeCCC-C-ChHHHHHHHHhhhhcCchHHHH
Q 047109 698 FLAKY-S---TDYTMIAPNYTTTSGFGFVFQKGS-P-LVHDISRAIAKLREEGTLRKIE 750 (808)
Q Consensus 698 ~~~~~-~---~~l~~~~~~~~~~~~~~~~~~k~s-p-~~~~~~~~i~~l~e~G~~~~~~ 750 (808)
+.... . .++++....-. ....+++++++- + +.+.++++|..+.+++..+++.
T Consensus 202 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~~ 259 (288)
T TIGR03431 202 MIRKGQPDAMEDLRIIWKSPL-IPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACFEK 259 (288)
T ss_pred HHHcCCCCchhheEEEEEcCC-CCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHHHh
Confidence 66532 1 23454432111 233568889984 4 9999999999999997655443
No 134
>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=97.72 E-value=0.0027 Score=65.08 Aligned_cols=198 Identities=12% Similarity=0.058 Sum_probs=114.0
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRSW-AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||++.|.... .=.+...+++-|.++ . ++++ .+.|+..++....+....+++. +|.++|... ......
T Consensus 1 ~i~~v~~~~~~~~~~~~~~~i~~~~~~----~---g~~~--~~~~~~~~~~~~~~~~~~~~~~-~vdgiii~~-~~~~~~ 69 (267)
T cd06284 1 MILVLVPDIANPFFSEILKGIEDEARE----A---GYGV--LLGDTRSDPEREQEYLDLLRRK-QADGIILLD-GSLPPT 69 (267)
T ss_pred CEEEEECCCCCccHHHHHHHHHHHHHH----c---CCeE--EEecCCCChHHHHHHHHHHHHc-CCCEEEEec-CCCCHH
Confidence 38999987543 222234444444444 2 2344 4567777777666665555555 899888743 222222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecC--CccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDN--TWGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~ 159 (808)
.. ... ..++|+|......+. ..+..+..+.. ..++.+++.+...|.++++++..+. ..+. .-.+.|.+.
T Consensus 70 ~~-~~~-~~~ipvv~~~~~~~~---~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~-~r~~gf~~~ 140 (267)
T cd06284 70 AL-TAL-AKLPPIVQACEYIPG---LAVPSVSIDNV---AAARLAVDHLISLGHRRIALITGPRDNPLAR-DRLEGYRQA 140 (267)
T ss_pred HH-HHH-hcCCCEEEEecccCC---CCcceEEeccc---HHHHHHHHHHHHcCCceEEEEcCCccchhHH-HHHHHHHHH
Confidence 22 223 348999987532221 12233556666 7788888888778999999997642 3344 556888889
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSK 222 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~ 222 (808)
+++.|+.+........ ..+.+.....+.++.+. .+++|+. .+...+..+++++++.|+..+
T Consensus 141 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~g~~~al~~~g~~~p 203 (267)
T cd06284 141 LAEAGLPADEELIQEG-DFSLESGYAAARRLLALPDRPTAIFC-FSDEMAIGAISALKELGLRVP 203 (267)
T ss_pred HHHcCCCCCcceEEeC-CCChHHHHHHHHHHHhCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCc
Confidence 9888854321111111 11222333444444322 3555554 455567889999999997533
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=97.69 E-value=0.0022 Score=65.76 Aligned_cols=202 Identities=9% Similarity=0.069 Sum_probs=118.6
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|... +.=.....+++-+.++.| +++ .+.++..++..-.+...++++. ++.++|... +.....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~g-------~~~--~~~~~~~~~~~~~~~i~~~~~~-~vdgiii~~-~~~~~~ 69 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEAG-------YTV--FLANSGEDVERQEQLLSTMLEH-GVAGIILCP-AAGTSP 69 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHcC-------CeE--EEecCCCChHHHHHHHHHHHHc-CCCEEEEeC-CCCccH
Confidence 4899998643 333345666666666532 344 3445656776666666777765 899988765 433323
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 159 (808)
.....+...++|+|......+. . .+....++.. ..++.+++.+...|-++++++..+.. ... .-.+.|.+.
T Consensus 70 ~~~~~~~~~~ipvV~~~~~~~~--~-~~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~-~r~~gf~~~ 142 (268)
T cd06289 70 DLLKRLAESGIPVVLVAREVAG--A-PFDYVGPDNA---AGARLATEHLISLGHRRIAFIGGLEDSSTRR-ERLAGYRAA 142 (268)
T ss_pred HHHHHHHhcCCCEEEEeccCCC--C-CCCEEeecch---HHHHHHHHHHHHCCCCCEEEecCCccccchH-HHHHHHHHH
Confidence 3444566779999987543221 1 1123455666 66777888887778899999875433 233 456888888
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCe
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGY 224 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~ 224 (808)
+++.|..+.....+.. ..+.......++++.+. .+++|+ +.+...+..+++++++.|+..++.
T Consensus 143 l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~i~-~~~~~~a~~~~~al~~~g~~~p~d 207 (268)
T cd06289 143 LAEAGLPFDSELVVEG-PPSRQGGAEAVAQLLDLPPRPTAIV-CFNDLVAFGAMSGLRRAGLTPGRD 207 (268)
T ss_pred HHHcCCCCCchhEEec-CcchhhHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcc
Confidence 8888743221111111 11222233344444333 345544 445555778899999999754433
No 136
>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=97.68 E-value=0.0056 Score=63.10 Aligned_cols=204 Identities=12% Similarity=0.035 Sum_probs=116.6
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
.||++.|.. .+.=.....+++-+.++..... ..+.+.+.+...++....+....+++. ++.+||- |. .....
T Consensus 1 ~Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~----~g~~~~~~~~~~~~~~~~~~~~~l~~~-~vDgiii~~~-~~~~~ 74 (274)
T cd06311 1 TIGVSIPAADHGWTAGIVWHAQAAAKKLEAAY----PDVEFILVTASNDTEQQNAQQDLLINR-KIDALVILPF-ESAPL 74 (274)
T ss_pred CeeeeccCCCCcHHHHHHHHHHHHHHHhhhhC----CCeEEEEEcCCCCHHHHHHHHHHHHHc-CCCEEEEeCC-Cchhh
Confidence 478888743 3333445667777777665432 134556667666665555555556655 7777764 43 33322
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCccccCcHHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTWGSDNIIPYLFD 158 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~g~~~~~~~~~~ 158 (808)
......+...+||+|......+. -......+.+... ..+..+++++... +.++++++..........-.+.|.+
T Consensus 75 ~~~i~~~~~~gIpvV~~d~~~~~-~~~~~~~V~~d~~---~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~ 150 (274)
T cd06311 75 TQPVAKAKKAGIFVVVVDRGLSS-PGAQDLYVAGDNY---GMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDA 150 (274)
T ss_pred HHHHHHHHHCCCeEEEEcCCCCC-CcccceEEcCCcH---HHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHH
Confidence 22223345679999997653222 1111123456656 6677788877655 7889999975433111134578888
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMM 220 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~ 220 (808)
.+++.++++... ... ..+.......+.++.+. ..++|+ +.+...+..+++++++.|+.
T Consensus 151 ~l~~~~~~~~~~--~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~al~~~g~~ 210 (274)
T cd06311 151 AIAKYPIKILDR--QYA-NWNRDDAFSVMQDLLTKFPKIDAVW-AHDDDMAVGVLAAIKQAGRT 210 (274)
T ss_pred HHhhCCcEEEec--cCC-CCcHHHHHHHHHHHHHhCCCcCEEE-ECCCcHHHHHHHHHHHcCCC
Confidence 998888765532 211 11222333344443322 355543 34455677889999999973
No 137
>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=97.64 E-value=0.0077 Score=61.93 Aligned_cols=207 Identities=11% Similarity=0.023 Sum_probs=119.6
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-ecCCChhHH
Q 047109 3 HVGVILDMRSW-AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAII-CTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aii-G~~~~s~~~ 80 (808)
+||+++|.... .=.....+++-+.++.+ ..+.+.+.++..++..-.+....+++. ++.+|| .+. .....
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~i~~~~~~-~~dgiIi~~~-~~~~~ 71 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKLN-------PGVKVTVVSADYDLNKQVSQIDNFIAA-KVDLILLNAV-DSKGI 71 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHhC-------CCeEEEEccCCCCHHHHHHHHHHHHHh-CCCEEEEeCC-ChhHh
Confidence 58999986442 22234556666655542 234455566667776555666666665 777765 344 33322
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCC-ccccCcHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNT-WGSDNIIPYLF 157 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~-~g~~~~~~~~~ 157 (808)
......+...++|+|......+. ....+..++. ..++.+++.+... |.++++++..... ... .-.+.++
T Consensus 72 ~~~i~~~~~~~ipvv~~~~~~~~----~~~~V~~d~~---~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~~-~R~~g~~ 143 (271)
T cd06321 72 APAVKRAQAAGIVVVAVDVAAEG----ADATVTTDNV---QAGEISCQYLADRLGGKGNVAILNGPPVSAVL-DRVAGCK 143 (271)
T ss_pred HHHHHHHHHCCCeEEEecCCCCC----ccceeeechH---HHHHHHHHHHHHHhCCCceEEEEeCCCCchHH-HHHHHHH
Confidence 23223345578999998764332 1223556666 7778888888766 9999999975432 222 3457788
Q ss_pred HhhhcC-CcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 047109 158 DSLHDN-DIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTAS 231 (808)
Q Consensus 158 ~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 231 (808)
+.+++. ++++.... ... ..+.+.-...+.++.+. .+++ |++.+...+..+++++++.|+ .+...++.+.
T Consensus 144 ~~~~~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~al~~~g~--~di~v~g~d~ 215 (271)
T cd06321 144 AALAKYPGIKLLSDD-QNG-KGSRDGGLRVMQGLLTRFPKLDG-VFAINDPTAIGADLAAKQAGR--NDIKITSVDG 215 (271)
T ss_pred HHHHhCCCcEEEeee-cCC-CCChhhHHHHHHHHHHhCCCCCE-EEECCchhHHHHHHHHHHcCC--CCcEEEEecC
Confidence 888887 56532211 111 11212222334444322 3465 444556677788999999997 4555555443
No 138
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=97.64 E-value=0.0066 Score=62.38 Aligned_cols=209 Identities=17% Similarity=0.167 Sum_probs=119.9
Q ss_pred EEEEEEec-CCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDM-RSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
+||++.|. +.+.-.....+++-+.++. + ++++ .+.++..++..-.+....+++. ++.+||= +. .....
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~~---~---g~~~--~~~~~~~~~~~~~~~i~~~~~~-~vdgiii~~~-~~~~~ 70 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASNY---P---DVEL--IIADAADDNSKQVADIENFIRQ-GVDLLIISPN-EAAPL 70 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHhc---C---CcEE--EEEcCCCCHHHHHHHHHHHHHh-CCCEEEEecC-chhhc
Confidence 58999985 3333333444444443332 1 2344 4456666777667777777765 7777764 33 32221
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCccc-cCcHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTWGS-DNIIPYLF 157 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~g~-~~~~~~~~ 157 (808)
......+...++|+|......+. . +....+..++. ..+..+++.+... |-++++++........ ..-.+.+.
T Consensus 71 ~~~~~~~~~~~ipvV~~~~~~~~-~-~~~~~V~~d~~---~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~ 145 (270)
T cd06308 71 TPVVEEAYRAGIPVILLDRKILS-D-KYTAYIGADNY---EIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFK 145 (270)
T ss_pred hHHHHHHHHCCCCEEEeCCCCCC-c-cceEEeecCcH---HHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHH
Confidence 22233345679999998643221 1 13334566776 7788888888664 8899999975433221 13357888
Q ss_pred HhhhcC-CcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 047109 158 DSLHDN-DIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTAS 231 (808)
Q Consensus 158 ~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 231 (808)
+.++++ |+.+........ ...+....+.++.+ .++++ |++.+...+..+++++++.|+. .+...++-+.
T Consensus 146 ~~l~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~a-I~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d~ 217 (270)
T cd06308 146 EALSKYPKIKIVAQQDGDW---LKEKAEEKMEELLQANPDIDL-VYAHNDPMALGAYLAAKRAGRE-KEIKFIGIDG 217 (270)
T ss_pred HHHHHCCCCEEEEecCCCc---cHHHHHHHHHHHHHhCCCCcE-EEeCCcHHHHHHHHHHHHcCCC-CCcEEEEecC
Confidence 889888 877653211111 22222233344322 23564 4555677788899999999985 4444554444
No 139
>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=97.61 E-value=0.0046 Score=63.45 Aligned_cols=207 Identities=16% Similarity=0.104 Sum_probs=121.1
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
+||+++|... +.=.....+++-+.++. ++.+.+. .+..++..-.+....+++. ++.+||-.. +... .
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~-------g~~~~~~--~~~~~~~~~~~~i~~l~~~-~vdgiii~~-~~~~-~ 68 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY-------KYNIILS--NSDNDKEKELKVLNNLLAK-QVDGIIFMG-GKIS-E 68 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc-------CCeEEEE--eCCCCHHHHHHHHHHHHHh-cCCEEEEeC-CCCc-H
Confidence 4899998643 22223344544444432 2344433 3445666666666677764 888888432 2211 2
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC---ccccCcHHHHHH
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT---WGSDNIIPYLFD 158 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~---~g~~~~~~~~~~ 158 (808)
.+...+...++|+|......+. . .+....+++. ..+..+++.+...|-++++++..+.. .+. .-.+.|++
T Consensus 69 ~~~~~l~~~~ipvV~~~~~~~~-~--~~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~-~r~~gf~~ 141 (268)
T cd06298 69 EHREEFKRSPTPVVLAGSVDED-N--ELPSVNIDYK---KAAFEATELLIKNGHKKIAFISGPLEDSINGD-ERLAGYKE 141 (268)
T ss_pred HHHHHHhcCCCCEEEEccccCC-C--CCCEEEECcH---HHHHHHHHHHHHcCCceEEEEeCCcccccchh-HHHHHHHH
Confidence 2334455679999998654322 1 1223456666 77788888887789999999985433 344 56788899
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCC-CeEEEEEcCHHHHHHHHHHHHHcCCCCCCe-EEEEeC
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSE-TKVFVVHMSHALASHLFLNAKKLGMMSKGY-SWIVTA 230 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~~l~~a~~~gl~~~~~-~~i~~~ 230 (808)
.++++|..+........ ..+.......++++.++. +++|+. ++...+..+++++++.|+..++. .++.-+
T Consensus 142 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~vvg~d 213 (268)
T cd06298 142 ALSEANIEFDESLIFEG-DYTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDFEIIGFN 213 (268)
T ss_pred HHHHcCCCCCHHHeEeC-CCChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEeec
Confidence 99988865422111111 112223334555555444 566554 55666888999999999854443 344333
No 140
>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=97.61 E-value=0.0039 Score=63.94 Aligned_cols=204 Identities=15% Similarity=0.111 Sum_probs=115.8
Q ss_pred EEEEEecC-----CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 4 VGVILDMR-----SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 4 IG~i~~~~-----~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
||+++|.. .+.-.....+++.++++ . ++++.+...++ + ....+.+.+++..+++.+||... +..
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~---~----g~~~~~~~~~~--~-~~~~~~~~~~~~~~~vdgiii~~-~~~ 70 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE---H----GYDLVLLPVDP--D-EDPLEVYRRLVESGLVDGVIISR-TRP 70 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH---C----CceEEEecCCC--c-HHHHHHHHHHHHcCCCCEEEEec-CCC
Confidence 79999863 23333444455444433 2 34555554333 2 33445566777666799888654 332
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHH
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYL 156 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~ 156 (808)
....+ ..+...++|+|......+. . ..-...+++. ..+..+++.+...|.++++++..... .+. .-.+.|
T Consensus 71 ~~~~~-~~~~~~~ipvV~~~~~~~~--~-~~~~V~~d~~---~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~gf 142 (268)
T cd06271 71 DDPRV-ALLLERGFPFVTHGRTELG--D-PHPWVDFDNE---AAAYQAVRRLIALGHRRIALLNPPEDLTFAQ-HRRAGY 142 (268)
T ss_pred CChHH-HHHHhcCCCEEEECCcCCC--C-CCCeEeeCcH---HHHHHHHHHHHHcCCCcEEEecCccccchHH-HHHHHH
Confidence 22222 3445679999987643222 1 1122345666 66777888887789999999975432 223 446788
Q ss_pred HHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 157 FDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 157 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
.+.++++|..+.....+.. ..+.......++++.+. .+++|+. .+...+..+++++++.|+..++.+-++
T Consensus 143 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~vp~~i~ii 214 (268)
T cd06271 143 RRALAEAGLPLDPALIVSG-DMTEEGGYAAAAELLALPDRPTAIVC-SSELMALGVLAALAEAGLRPGRDVSVV 214 (268)
T ss_pred HHHHHHhCCCCCCceEEeC-CCChHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 8999988865422111111 11222333445454332 3555444 456677789999999998544444333
No 141
>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=97.57 E-value=0.014 Score=59.70 Aligned_cols=194 Identities=14% Similarity=0.101 Sum_probs=114.8
Q ss_pred EEEEEecCCc-chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHHH
Q 047109 4 VGVILDMRSW-AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGAH 81 (808)
Q Consensus 4 IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~~ 81 (808)
||++.|.... .=.....+++-+.++ . ++ ++.+.++..++....+...++++. ++.++|- +. .+....
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~----~---g~--~~~i~~~~~~~~~~~~~~~~~~~~-~vdgiii~~~-~~~~~~ 70 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKK----Q---KV--NLIVSIANQDLNKQLSDVEDFITK-KVDAIVLSPV-DSKGIR 70 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHh----c---CC--EEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEcCC-ChhhhH
Confidence 8999986543 122233444444432 1 23 444566667787777777788876 8888876 44 333223
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCC-ccccCcHHHHHH
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNT-WGSDNIIPYLFD 158 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~-~g~~~~~~~~~~ 158 (808)
.....+...+||+|......+. ...+....+... ..+..+++.+... |-+++++++..+. ... .-.+.|++
T Consensus 71 ~~~~~~~~~~ipvV~~~~~~~~--~~~~~~v~~d~~---~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~-~R~~gf~~ 144 (267)
T cd06322 71 AAIAKAKKAGIPVITVDIAAEG--VAVVSHVATDNY---AGGVLAGELAAKVLNGKGQVAIIDYPTVQSVV-DRVRGFKE 144 (267)
T ss_pred HHHHHHHHCCCCEEEEcccCCC--CceEEEEecChH---HHHHHHHHHHHHHhCCCceEEEEecCCCccHH-HHHHHHHH
Confidence 3334455679999998653221 112334566666 6677778877654 7889999975432 222 34678888
Q ss_pred hhhcC-CcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 159 SLHDN-DIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 159 ~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
.+++. |+.+... .. ....+.....+.++.+. .+++ |++++...+..+++++.+.|+
T Consensus 145 ~~~~~~~~~~~~~---~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 145 ALADYPNIKIVAV---QP-GITRAEALTAAQNILQANPDLDG-IFAFGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HHHhCCCcEEEEe---cC-CCChHHHHHHHHHHHHhCCCCCE-EEEcCCcHHHHHHHHHHHCCC
Confidence 99988 8876432 11 11222333334444322 3454 445556677889999999997
No 142
>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=0.0031 Score=64.83 Aligned_cols=203 Identities=9% Similarity=0.048 Sum_probs=117.1
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|.. .+.=.....+++-++++. ++. +.+.++..++....+....+++. +|.+||--. +.....
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~-------g~~--~~~~~~~~~~~~~~~~i~~l~~~-~vdgii~~~-~~~~~~ 69 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA-------GYS--LLIANSLNDPERELEILRSFEQR-RMDGIIIAP-GDERDP 69 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc-------CCE--EEEEeCCCChHHHHHHHHHHHHc-CCCEEEEec-CCCCcH
Confidence 489999853 333334555666555553 233 34456666777666666666655 888888643 322223
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCc--cccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTW--GSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~--g~~~~~~~~~~~ 159 (808)
.....+...++|+|......+. .+-....+.. ..++.+++.+...|.++++++...... +. .-.+.|.+.
T Consensus 70 ~~~~~~~~~~ipvV~i~~~~~~----~~~~V~~d~~---~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~-~R~~Gf~~~ 141 (269)
T cd06281 70 ELVDALASLDLPIVLLDRDMGG----GADAVLFDHA---AGMRQAVEYLISLGHRRIALVGGGSNTRPGR-ERLEGYKAA 141 (269)
T ss_pred HHHHHHHhCCCCEEEEecccCC----CCCEEEECcH---HHHHHHHHHHHHCCCcEEEEecCccccccHH-HHHHHHHHH
Confidence 3444556679999998654322 1222444554 555667777767799999999754322 22 335778889
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
++++|+.+........ .. .......+.++.+ ..+++|+ +.+...+..+++++.+.|+..++.+-+
T Consensus 142 ~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~dv~i 208 (269)
T cd06281 142 FAAAGLPPDPALVRLS-TP-AASGFDATRALLALPDRPTAII-AGGTQVLVGVLRALREAGLRIPRDLSV 208 (269)
T ss_pred HHHcCCCCCHHHeecC-cH-HHHHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCcceeE
Confidence 9888865421111111 11 2222334444432 3457665 456666778999999999854444433
No 143
>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=97.54 E-value=0.006 Score=62.62 Aligned_cols=206 Identities=10% Similarity=0.066 Sum_probs=117.8
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||++.|.. .+.-.....+++-|.++. ++++. +.++..++..-.+....+.+. ++.+||=.. ......
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~-~~~~~~ 69 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYRQ-------GYNLI--LCNTEGDPERQRSYLRMLAQK-RVDGLLVMC-SEYDQP 69 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHHc-------CCEEE--EEeCCCChHHHHHHHHHHHHc-CCCEEEEec-CCCChH
Confidence 489999864 333444555666665542 23443 445556676666666677665 777776432 222222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 159 (808)
....+....++|+|......+. . .+........ ..++.+++.+...|.++++++..... ... .-.+.|.+.
T Consensus 70 ~~~~l~~~~~ipvV~i~~~~~~--~-~~~~V~~d~~---~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~-~r~~gf~~~ 142 (269)
T cd06275 70 LLAMLERYRHIPMVVMDWGPED--D-FADKIQDNSE---EGGYLATRHLIELGHRRIGCITGPLEKAPAQ-QRLAGFRRA 142 (269)
T ss_pred HHHHHHhcCCCCEEEEecccCC--C-CCCeEeeCcH---HHHHHHHHHHHHCCCceEEEEeCCCCCccHH-HHHHHHHHH
Confidence 2233334568999987654221 1 1222445555 66777788888789999999975332 222 345778888
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
+++.|+.+........ ..+.......++++.+. .+++ |++++...+..+++.+++.|+..++-+-++
T Consensus 143 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~vv 211 (269)
T cd06275 143 MAEAGLPVNPGWIVEG-DFECEGGYEAMQRLLAQPKRPTA-VFCGNDLMAMGALCAAQEAGLRVPQDLSII 211 (269)
T ss_pred HHHcCCCCCHHHhccC-CCChHHHHHHHHHHHcCCCCCcE-EEECChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 9888876532111111 11222333445555433 3444 445566777789999999997544444443
No 144
>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=97.52 E-value=0.01 Score=60.77 Aligned_cols=204 Identities=13% Similarity=0.112 Sum_probs=116.0
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|.-. +.-.....+++-+.++. ++.+.+...+ ..++..-.+....+++. ++.++|--. +.....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~-------~~~~~~~~~~-~~~~~~~~~~~~~l~~~-~vdgiii~~-~~~~~~ 70 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA-------GYAVTLSMLA-EADEEALRAAVRRLLAQ-RVDGVIVNA-PLDDAD 70 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC-------CCeEEEEeCC-CCchHHHHHHHHHHHhc-CCCEEEEeC-CCCChH
Confidence 4899998533 32233455555555542 2455444222 22344455555556655 788887432 222222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccc-cCcHHHHHHhh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGS-DNIIPYLFDSL 160 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~-~~~~~~~~~~~ 160 (808)
.+... ...+||+|......+. .+........ ..++.+++.+...|-++++++..+..... ..-.+.|.+.+
T Consensus 71 ~~~~~-~~~~ipvv~~~~~~~~----~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l 142 (264)
T cd01574 71 AALAA-APADVPVVFVDGSPSP----RVSTVSVDQE---GGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAAL 142 (264)
T ss_pred HHHHH-HhcCCCEEEEeccCCC----CCCEEEeCcH---HHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHH
Confidence 33333 4578999998754222 2334566666 77888888888889999999975433211 13457788888
Q ss_pred hcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCC-CeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 161 HDNDIDIARRITISMSSNTDDQVIEKLSMLKSSE-TKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 161 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
++.|+.+... +.. ..+.+.....++++.++. +++ |++++...+..+++++++.|...++.+-|+
T Consensus 143 ~~~~~~~~~~--~~~-~~~~~~~~~~~~~~l~~~~~~a-i~~~~d~~a~g~~~~~~~~g~~ip~~i~ii 207 (264)
T cd01574 143 EAAGIAPPPV--LEG-DWSAESGYRAGRELLREGDPTA-VFAANDQMALGVLRALHELGLRVPDDVSVV 207 (264)
T ss_pred HHCCCCccee--eec-CCCHHHHHHHHHHHHhCCCCcE-EEEcCcHHHHHHHHHHHHcCCCCccceEEe
Confidence 8888765432 111 112233334454554333 555 444566778889999999997434433333
No 145
>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=97.50 E-value=0.0047 Score=63.39 Aligned_cols=203 Identities=12% Similarity=0.032 Sum_probs=118.6
Q ss_pred EEEEEEecC--CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 3 HVGVILDMR--SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
.||+++|.. .+.-.....+++-+.++. ++.+ .+.++..++..-.+....+.+. ++.+||-.. .....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~-------g~~~--~~~~~~~~~~~~~~~~~~l~~~-~~dgiii~~-~~~~~ 69 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH-------GYLL--LVVNTGGDDELEAEAVEALLDH-RVDGIIYAT-MYHRE 69 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC-------CCEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEec-CCCCh
Confidence 489999974 343444555666655542 2344 3345555565555555666655 888888754 32211
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFD 158 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~ 158 (808)
.. ......++|++......+. ..+..+.+++. ..++.+++.+...|.++++++..+.. ... .-.+.|.+
T Consensus 70 ~~--~~~~~~~ipvv~~~~~~~~---~~~~~v~~d~~---~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~-~R~~gf~~ 140 (269)
T cd06288 70 VT--LPPELLSVPTVLLNCYDAD---GALPSVVPDEE---QGGYDATRHLLAAGHRRIAFINGEPWMLAAK-DRLKGYRQ 140 (269)
T ss_pred hH--HHHHhcCCCEEEEecccCC---CCCCeEEEccH---HHHHHHHHHHHHcCCceEEEEeCCccchhHH-HHHHHHHH
Confidence 11 1223468999887643322 12334566777 77888888887779999999975543 222 44678888
Q ss_pred hhhcCCcEEEE--EEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 047109 159 SLHDNDIDIAR--RITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVT 229 (808)
Q Consensus 159 ~~~~~g~~i~~--~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 229 (808)
.+++.|+.+.. ...... +..+....++++.+. .+++| ++++...+..+++++++.|+..++-+.+++
T Consensus 141 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~vp~di~v~g 211 (269)
T cd06288 141 ALAEAGIPFDPDLVVHGDW---SADDGYEAAAALLDLDDRPTAI-FCGNDRMAMGAYQALLERGLRIPQDVSVVG 211 (269)
T ss_pred HHHHcCCCCCHHHeEeCCC---ChHHHHHHHHHHHhCCCCCCEE-EEeCcHHHHHHHHHHHHcCCCCcccceEEe
Confidence 89888864321 111111 222333445555433 35665 445666777899999999985444444443
No 146
>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=97.47 E-value=0.009 Score=61.23 Aligned_cols=204 Identities=13% Similarity=0.076 Sum_probs=115.5
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRSW-AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||++.|.... .-.....+++-+.++. ++++ .+.++..++..-.+...++++. ++.+||-.. .....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-------g~~~--~~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~-~~~~~- 68 (268)
T cd01575 1 LVAVLVPSLSNSVFADVLQGISDVLEAA-------GYQL--LLGNTGYSPEREEELLRTLLSR-RPAGLILTG-LEHTE- 68 (268)
T ss_pred CEEEEeCCCcchhHHHHHHHHHHHHHHc-------CCEE--EEecCCCCchhHHHHHHHHHHc-CCCEEEEeC-CCCCH-
Confidence 38999986432 2222334554444432 2344 3344555665555666666665 788887533 22222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 159 (808)
.....+...++|+|......+. ........+.. ..+..+++.+...|.++++++..+.. ... .-.+.|.+.
T Consensus 69 ~~~~~~~~~~ipvv~~~~~~~~---~~~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~r~~gf~~~ 141 (268)
T cd01575 69 RTRQLLRAAGIPVVEIMDLPPD---PIDMAVGFSHA---EAGRAMARHLLARGYRRIGFLGARMDDTRAQ-QRLEGFRAA 141 (268)
T ss_pred HHHHHHHhcCCCEEEEecCCCC---CCCCeEEeCcH---HHHHHHHHHHHHCCCCcEEEecCCCCcccHH-HHHHHHHHH
Confidence 2233445669999987542211 11223455556 77788888888889999999986543 223 345778888
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
+++.|........... ..........+.++.+. .+++|+ +++...+..+++.+.+.|...++.+-+
T Consensus 142 l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~di~v 209 (268)
T cd01575 142 LRAAGLDPPLVVTTPE-PSSFALGRELLAELLARWPDLDAVF-CSNDDLALGALFECQRRGISVPEDIAI 209 (268)
T ss_pred HHHcCCCCCceeEecc-CCCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHhCCCCCcceEE
Confidence 9888763222111111 11223334445554333 456544 455666778999999999754444433
No 147
>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=97.44 E-value=0.012 Score=60.36 Aligned_cols=201 Identities=11% Similarity=0.061 Sum_probs=115.8
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|... +.-.....|++-+.++.| +++.+ .++..++..-.+....+++. ++.+||--. +.....
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~g-------~~~~~--~~~~~~~~~~~~~i~~~~~~-~vdgii~~~-~~~~~~ 69 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKAG-------KHLII--TAGHHSAEKEREAIEFLLER-RCDALILHS-KALSDD 69 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHCC-------CEEEE--EeCCCchHHHHHHHHHHHHc-CCCEEEEec-CCCCHH
Confidence 4899999643 333344556555555432 34443 34445555555666667765 888888643 322222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccc-cCcHHHHHHhh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGS-DNIIPYLFDSL 160 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~-~~~~~~~~~~~ 160 (808)
.+ ..+...++|+|......+. .... .+..+.. ..++.+++.+...|.++++++..+..... ..-.+.|.+.+
T Consensus 70 ~~-~~~~~~~ipvV~~~~~~~~-~~~~--~v~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~ 142 (268)
T cd06270 70 EL-IELAAQVPPLVLINRHIPG-LADR--CIWLDNE---QGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDAL 142 (268)
T ss_pred HH-HHHhhCCCCEEEEeccCCC-CCCC--eEEECcH---HHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHH
Confidence 23 3345679999998654332 1111 2456666 77888888888889999999975432211 13357788888
Q ss_pred hcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 047109 161 HDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKG 223 (808)
Q Consensus 161 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~ 223 (808)
++.|..+........ ..+..+....++++.++ .+++|+ +++...+..+++.+++.|+..++
T Consensus 143 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~ 205 (268)
T cd06270 143 AEAGIALDESLIIEG-DFTEEGGYAAMQELLARGAPFTAVF-CANDEMAAGAISALREHGISVPQ 205 (268)
T ss_pred HHcCCCCCcceEEEC-CCCHHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCC
Confidence 888865421111111 11333444455555433 345444 45566678899999999975443
No 148
>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=97.43 E-value=0.021 Score=59.40 Aligned_cols=200 Identities=13% Similarity=0.112 Sum_probs=113.6
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
+||+++|.. .+.=.....+++-+.++.| +.+.+.++..++..-.+...++++. ++.+||- +. .+...
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~g---------~~~~~~~~~~~~~~~~~~i~~~~~~-~vdgiii~~~-~~~~~ 69 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKELG---------AEVIVQNANGDPAKQISQIENMIAK-GVDVLVIAPV-DGEAL 69 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHcC---------CEEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEecC-ChhhH
Confidence 489999853 3322334455555544422 2344566767787777777777766 8888774 33 33323
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc------CCcEEEEEEecCCccc-cCcH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF------KWKHVILIYEDNTWGS-DNII 153 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~------~w~~v~ii~~d~~~g~-~~~~ 153 (808)
......+...++|+|......+. . +....+..+.. ..++.+++.+... |-.+++++..+..... ..-.
T Consensus 70 ~~~l~~l~~~~ipvV~~~~~~~~-~-~~~~~v~~d~~---~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~ 144 (288)
T cd01538 70 ASAVEKAADAGIPVIAYDRLILN-S-NVDYYVSFDNE---KVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFF 144 (288)
T ss_pred HHHHHHHHHCCCCEEEECCCCCC-C-CcceEEEeChH---HHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHH
Confidence 33444455679999998765433 2 11112334444 5566677766554 8889999975443221 1345
Q ss_pred HHHHHhhhcCC----cEEEEEEecCCCCCChHHHHHHHHHhcCC---CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 047109 154 PYLFDSLHDND----IDIARRITISMSSNTDDQVIEKLSMLKSS---ETKVFVVHMSHALASHLFLNAKKLGMMS 221 (808)
Q Consensus 154 ~~~~~~~~~~g----~~i~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~l~~a~~~gl~~ 221 (808)
+.|.+.+++++ +.+... .... ..+...-...+.++.++ .+++ |++.+...+..+++++++.|+..
T Consensus 145 ~gf~~~l~~~~~~~~~~~~~~-~~~~-~~~~~~~~~~~~~~l~~~~~~~~~-I~~~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 145 NGAMSVLKPLIDSGKITIVGE-VATP-DWDPETAQKRMENALTANYNKVDG-VLAANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHHhccccCCeeEEec-cccC-CCCHHHHHHHHHHHHHhCCCCccE-EEeCCcHHHHHHHHHHHHcCCCC
Confidence 77888888887 544322 1111 11222223344444333 2344 34445667788999999999743
No 149
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.43 E-value=0.0098 Score=63.57 Aligned_cols=207 Identities=8% Similarity=0.023 Sum_probs=115.4
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
+||+++|... +.-.....+++-+.++.+ +++ .+.++..++..-.+....++.. ++.+||-.. ......
T Consensus 61 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~g-------~~~--~~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~-~~~~~~ 129 (341)
T PRK10703 61 SIGLLATSSEAPYFAEIIEAVEKNCYQKG-------YTL--ILCNAWNNLEKQRAYLSMLAQK-RVDGLLVMC-SEYPEP 129 (341)
T ss_pred eEEEEeCCCCCchHHHHHHHHHHHHHHCC-------CEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEec-CCCCHH
Confidence 6899998644 222234445554444322 233 3445556666655666666655 788877432 211222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecC--CccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDN--TWGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~ 159 (808)
.+..+.+..++|+|......+. .. ..-...+... ..+..+++.+...|-++++++..+. ..+. .-.+.|.+.
T Consensus 130 ~~~~l~~~~~iPvV~~d~~~~~-~~-~~~~v~~d~~---~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~-~R~~Gf~~~ 203 (341)
T PRK10703 130 LLAMLEEYRHIPMVVMDWGEAK-AD-FTDAIIDNAF---EGGYLAGRYLIERGHRDIGVIPGPLERNTGA-GRLAGFMKA 203 (341)
T ss_pred HHHHHHhcCCCCEEEEecccCC-cC-CCCeEEECcH---HHHHHHHHHHHHCCCCcEEEEeCCccccchH-HHHHHHHHH
Confidence 2333333269999987653322 11 1122344444 5567778887777999999996432 2223 446788889
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
+++.|+.+........ .....+....+.++.++ .+++|+ +++...+..+++++.+.|..-++-+.|+
T Consensus 204 l~~~gi~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~a~g~~~al~~~g~~ip~dv~vv 272 (341)
T PRK10703 204 MEEANIKVPEEWIVQG-DFEPESGYEAMQQILSQKHRPTAVF-CGGDIMAMGAICAADEMGLRVPQDISVI 272 (341)
T ss_pred HHHcCCCCChHHeEeC-CCCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 9998876543211111 11223334455554433 456555 4566667889999999997544444433
No 150
>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=97.41 E-value=0.013 Score=59.78 Aligned_cols=203 Identities=14% Similarity=0.110 Sum_probs=121.5
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|.- .+.-.....+++.+.++. ++++. +.++..++..-.+...++++. ++.++|... .....
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~i~~l~~~-~~dgii~~~-~~~~~- 68 (259)
T cd01542 1 LIGVIVPRLDSFSTSRTVKGILAALYEN-------GYQML--LMNTNFSIEKEIEALELLARQ-KVDGIILLA-TTITD- 68 (259)
T ss_pred CeEEEecCCccchHHHHHHHHHHHHHHC-------CCEEE--EEeCCCCHHHHHHHHHHHHhc-CCCEEEEeC-CCCCH-
Confidence 389999853 333335566666666543 23443 445556777777777777765 899988754 33222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEec-CC--ccccCcHHHHHH
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYED-NT--WGSDNIIPYLFD 158 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d-~~--~g~~~~~~~~~~ 158 (808)
.....+...++|+|......+. +..+.++.. ..+..+++.+...|.++++++... +. .+. .-.+.|++
T Consensus 69 ~~~~~~~~~~ipvv~~~~~~~~-----~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~~-~r~~gf~~ 139 (259)
T cd01542 69 EHREAIKKLNVPVVVVGQDYPG-----ISSVVYDDY---GAGYELGEYLAQQGHKNIAYLGVSESDIAVGI-LRKQGYLD 139 (259)
T ss_pred HHHHHHhcCCCCEEEEeccCCC-----CCEEEECcH---HHHHHHHHHHHHcCCCcEEEEcCCcccchhHH-HHHHHHHH
Confidence 3334455668999998653222 123455666 778888888887888999998643 22 223 44678888
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCC-CeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSE-TKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
.+++.|........-.. +.......+.++.+.. +++|+ +++...+..+++.+++.|+..++.+.+++-
T Consensus 140 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~i~-~~~d~~a~g~~~~l~~~g~~vp~di~v~g~ 208 (259)
T cd01542 140 ALKEHGICPPNIVETDF---SYESAYEAAQELLEPQPPDAIV-CATDTIALGAMKYLQELGRRIPEDISVAGF 208 (259)
T ss_pred HHHHcCCChHHeeeccC---chhhHHHHHHHHhcCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEec
Confidence 89888861111111111 2223334444444333 56544 444667889999999999865555555543
No 151
>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=97.39 E-value=0.013 Score=62.21 Aligned_cols=200 Identities=17% Similarity=0.142 Sum_probs=114.7
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|.- .+.-.....+++-+.++. ++++.+ .++..++..-.+....+.+. ++.+||--. .... .
T Consensus 61 ~Igvv~~~~~~~f~~~l~~~i~~~~~~~-------g~~~~i--~~~~~~~~~~~~~~~~l~~~-~vdGiIi~~-~~~~-~ 128 (329)
T TIGR01481 61 TVGVIIPDISNIYYAELARGIEDIATMY-------KYNIIL--SNSDEDPEKEVQVLNTLLSK-QVDGIIFMG-GTIT-E 128 (329)
T ss_pred EEEEEeCCCCchhHHHHHHHHHHHHHHc-------CCEEEE--EeCCCCHHHHHHHHHHHHhC-CCCEEEEeC-CCCC-h
Confidence 689999853 333223444554444332 234433 34444555555555556554 788877422 1111 1
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC---ccccCcHHHHHH
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT---WGSDNIIPYLFD 158 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~---~g~~~~~~~~~~ 158 (808)
.....+...++|+|......+. . .+....+.+. ..+..+++.+...|.++++++..+.. .+. .-.+.|.+
T Consensus 129 ~~~~~l~~~~iPvV~~~~~~~~-~--~~~~V~~D~~---~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~-~R~~Gf~~ 201 (329)
T TIGR01481 129 KLREEFSRSPVPVVLAGTVDKE-N--ELPSVNIDYK---QATKEAVGELIAKGHKSIAFVGGPLSDSINGE-DRLEGYKE 201 (329)
T ss_pred HHHHHHHhcCCCEEEEecCCCC-C--CCCEEEECcH---HHHHHHHHHHHHCCCCeEEEEecCcccccchH-HHHHHHHH
Confidence 2333455678999987643222 1 1223455655 66677888887889999999974332 123 45688889
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKG 223 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~ 223 (808)
.+++.|+.+........ .....+-...++++.+..+++|+. .+...|..+++++++.|+..++
T Consensus 202 ~l~~~g~~~~~~~~~~~-~~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP~ 264 (329)
T TIGR01481 202 ALNKAGIQFGEDLVCEG-KYSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVPE 264 (329)
T ss_pred HHHHcCCCCCcceEEec-CCChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCC
Confidence 99998876432211111 112233344555665556776554 5556788999999999985444
No 152
>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=97.38 E-value=0.023 Score=58.69 Aligned_cols=209 Identities=14% Similarity=0.067 Sum_probs=112.2
Q ss_pred EEEEEEecC--CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCC--CCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 3 HVGVILDMR--SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSK--GDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 3 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~--~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
|||+++|.. .+.-.....+++-+ ..+. ++++.+...++. .++..-.+....+++. +|.+||=.. .+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~---~~~~----g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~-~vDgiIv~~-~~~ 71 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTAR---LEEL----NIPYELTQFSSRPGIDHRLQSQQLNEALQS-KPDYLIFTL-DSL 71 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHH---HHHc----CCcEEEEEeccCcccCHHHHHHHHHHHHHc-CCCEEEEcC-Cch
Confidence 699999973 23211222233222 3322 245555443432 3555555555566655 888888643 322
Q ss_pred -HHHHHHHhcCCCCccEEec-cCCCCc-cc-cc-ceeeeccCCchhhHHHHHHHHHHHh--cCCcEEEEEEecCCc-ccc
Q 047109 79 -GAHILAEIGSKAKIPVISL-YATLPS-SL-TS-YSIQIDQDDEASQSQAKGIADLIRV--FKWKHVILIYEDNTW-GSD 150 (808)
Q Consensus 79 -~~~~~~~~~~~~~iP~is~-~~~~~~-~l-s~-~~~r~~p~~~~~~~~~~a~~~ll~~--~~w~~v~ii~~d~~~-g~~ 150 (808)
....+..+. ..++|.+.. ....+. .. .+ ....+.+.+. ..+..+++.+.. .|.++++++...... +.
T Consensus 72 ~~~~~~~~l~-~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~---~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~- 146 (280)
T cd06303 72 RHRKLIERVL-ASGKTKIILQNITTPVKAWLKHQPLLYVGFDHA---AGARLLADYFIKRYPNHARYAMLYFSPGYIST- 146 (280)
T ss_pred hhHHHHHHHH-hCCCCeEEEeCCCCCccccccCCCceEeCCCHH---HHHHHHHHHHHHhcCCCcEEEEEECCCCcchh-
Confidence 223333444 346676555 322221 01 11 2333455655 667778887766 789999999754322 22
Q ss_pred CcHHHHHHhhhcC-CcEEEEEEecCCCCCChHHHHHHHHHhcCCC--CeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEE
Q 047109 151 NIIPYLFDSLHDN-DIDIARRITISMSSNTDDQVIEKLSMLKSSE--TKVFVVHMSHALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 151 ~~~~~~~~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
.-.+.|++.++++ |+.+... +.. ..+..+-...++++.+.. +++ |++++...|..+++++++.|+. ++...+
T Consensus 147 ~R~~gf~~al~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~nd~~A~g~l~al~~~G~~-~dv~vv 221 (280)
T cd06303 147 ARGDTFIDCVHARNNWTLTSE--FYT-DATRQKAYQATSDILSNNPDVDF-IYACSTDIALGASDALKELGRE-DDILIN 221 (280)
T ss_pred HHHHHHHHHHHhCCCceEEEe--ecC-CCCHHHHHHHHHHHHHhCCCCcE-EEECCcHHHHHHHHHHHHcCCC-CCcEEE
Confidence 3457888889887 7664322 221 112233334455544333 444 4466677788999999999984 344444
Q ss_pred EeC
Q 047109 228 VTA 230 (808)
Q Consensus 228 ~~~ 230 (808)
+-+
T Consensus 222 g~d 224 (280)
T cd06303 222 GWG 224 (280)
T ss_pred ecC
Confidence 433
No 153
>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=97.38 E-value=0.025 Score=59.27 Aligned_cols=205 Identities=15% Similarity=0.141 Sum_probs=113.0
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-ecCCChhHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAII-CTEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aii-G~~~~s~~~ 80 (808)
|||++.|... +.=.....+++-+.++.+ ..+.+.+.+...++..-.+...+++.. ++.+|| .|. .+...
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~-------~g~~~~~~~~~~~~~~q~~~i~~l~~~-~vdgiii~~~-~~~~~ 71 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENG-------GKVEFTFYDAKNNQSTQNEQIDTALAK-GVDLLAVNLV-DPTAA 71 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhC-------CCeeEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEecC-chhhH
Confidence 6899998543 222234556666666541 134455567777887777777777776 888766 455 44333
Q ss_pred HHHHHhcCCCCccEEeccCCCCcc-ccc--ceeeeccCCchhhHHHHHHHHHHHhc--CCc-----------EEEEEEec
Q 047109 81 HILAEIGSKAKIPVISLYATLPSS-LTS--YSIQIDQDDEASQSQAKGIADLIRVF--KWK-----------HVILIYED 144 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~-ls~--~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~-----------~v~ii~~d 144 (808)
..+...+...+||+|......+.. ..+ .+..+.++.. ..++.+++++... +-+ .++++..+
T Consensus 72 ~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~V~~d~~---~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~ 148 (303)
T cd01539 72 QTVINKAKQKNIPVIFFNREPEEEDIKSYDKAYYVGTDAE---QSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGE 148 (303)
T ss_pred HHHHHHHHHCCCCEEEeCCCCcccccccccccceeeecHH---HHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcC
Confidence 444445566899999986532210 111 2233455555 5666666766443 221 23445433
Q ss_pred CCc--cccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC---CCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 145 NTW--GSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS---ETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 145 ~~~--g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
... .. .-.+.|++.+++.+..+........ ..+.+.....++++..+ .+++ |++.+...+..+++++++.|.
T Consensus 149 ~~~~~~~-~R~~gf~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~L~~~~~~~~a-i~~~~d~~a~g~~~al~~~g~ 225 (303)
T cd01539 149 PGHPDAI-ARTKYSIETLNDAGIKTEELASDTA-NWDRAQAKDKMDALLLKYGDKIEA-VIANNDAMALGAIEALQKYGY 225 (303)
T ss_pred CCCchhh-hhhhhHHHHHHhcCCCeEEEEeecC-CCCHHHHHHHHHHHHHhcCCCccE-EEECCchHHHHHHHHHHHcCC
Confidence 221 12 3357788899888876533222222 11222333344444322 2454 444556667788899999987
Q ss_pred CCC
Q 047109 220 MSK 222 (808)
Q Consensus 220 ~~~ 222 (808)
..+
T Consensus 226 ~~p 228 (303)
T cd01539 226 NKG 228 (303)
T ss_pred CcC
Confidence 543
No 154
>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=97.37 E-value=0.014 Score=59.52 Aligned_cols=200 Identities=11% Similarity=0.003 Sum_probs=116.6
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|.. .+.-.....+++-+.++.| +++. +.++..++....+....+.+. ++.+||=.. +.....
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~g-------~~~~--~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~-~~~~~~ 69 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKHG-------YKVV--LLQTNYDKEKELEYLELLKTK-QVDGLILCS-RENDWE 69 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHcC-------CEEE--EEeCCCChHHHHHHHHHHHHc-CCCEEEEeC-CCCCHH
Confidence 489999963 3444455667776666432 3444 345555666555666666665 788777433 222223
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 159 (808)
.+..+.+ .+ |++......+. ..-.+.++.. ..+..+++.+...|-++++++..+.. ... .-.+.|.+.
T Consensus 70 ~~~~~~~-~~-pvv~~~~~~~~----~~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~Gf~~~ 139 (260)
T cd06286 70 VIEPYTK-YG-PIVLCEEYDSK----NISSVYIDHY---EAFYEALKYLIQKGYRKIAYCIGRKKSLNSQ-SRKKAYKDA 139 (260)
T ss_pred HHHHHhc-CC-CEEEEecccCC----CCCEEEECCh---HHHHHHHHHHHHCCCceEEEEcCCcccchhH-HHHHHHHHH
Confidence 3444443 34 88876532211 2223556666 77888888888889999999975432 222 446788888
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMMSKGYS 225 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~ 225 (808)
+++.|+.+.....+.. .....+-...+..+.+ ..+++ +++++...+..+++.+++.|+..++-+
T Consensus 140 l~~~~~~~~~~~i~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~ip~di 205 (260)
T cd06286 140 LEEYGLTPDEEWIFEG-CFTIEDGERIGHQLLKMKDRPDA-IFTGSDEVAAGIITEAKKQGIRVPEDL 205 (260)
T ss_pred HHHcCCCCChHheEeC-CCCHHHHHHHHHHHHcCCCCCCE-EEEcchHHHHHHHHHHHHcCCCCCcce
Confidence 9888865422111111 1122233344444443 34564 456667778899999999997544333
No 155
>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=97.37 E-value=0.017 Score=59.25 Aligned_cols=205 Identities=12% Similarity=0.058 Sum_probs=115.9
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||++.|... +.-.....+++-+.++. ++++. +.++..++..-.+....+.+. ++.+||--. +.....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-------gy~v~--~~~~~~~~~~~~~~i~~~~~~-~~dgiii~~-~~~~~~ 69 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADAR-------GLSLV--LCATRNRPERELTYLRWLDTN-HVDGLIFVT-NRPDDG 69 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHHC-------CCEEE--EEeCCCCHHHHHHHHHHHHHC-CCCEEEEeC-CCCCHH
Confidence 4899998633 33333444444444322 24553 334444665444445555544 888888643 322222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCc--cccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTW--GSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~--g~~~~~~~~~~~ 159 (808)
.+..+.. .++|+|......+. . ......+.+. ..+..+++.+...|-++++++..+... .. .-.+.|.+.
T Consensus 70 ~~~~~~~-~~~pvV~i~~~~~~-~--~~~~V~~d~~---~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~-~R~~Gf~~a 141 (269)
T cd06293 70 ALAKLIN-SYGNIVLVDEDVPG-A--KVPKVFCDNE---QGGRLATRHLARAGHRRIAFVGGPDALISAR-ERYAGYREA 141 (269)
T ss_pred HHHHHHh-cCCCEEEECCCCCC-C--CCCEEEECCH---HHHHHHHHHHHHCCCceEEEEecCcccccHH-HHHHHHHHH
Confidence 2333333 47999998754332 1 1234566777 788888888888899999999754332 22 335788899
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
+++.|..+........ ..+.+.....+.++.+ ..+++|+ +++...+..+++++.+.|+..++-+-|+
T Consensus 142 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~al~~~g~~vp~di~i~ 210 (269)
T cd06293 142 LAEAHIPEVPEYVCFG-DYTREFGRAAAAQLLARGDPPTAIF-AASDEIAIGLLEVLRERGLSIPGDMSLV 210 (269)
T ss_pred HHHcCCCCChheEEec-CCCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCccceEEE
Confidence 9888765322111111 1122333344554432 3356544 4456667788999999997545544443
No 156
>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=97.36 E-value=0.011 Score=60.61 Aligned_cols=207 Identities=9% Similarity=-0.002 Sum_probs=117.4
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
.||++.|.. .+.-.....+++-+.++. ++++ .+.++..++..-.+....+++. ++.+||- +. ... .
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~--~~~~~~~~~~~~~~~i~~l~~~-~~dgiii~~~-~~~-~ 68 (270)
T cd06296 1 LIGLVFPDLDSPWASEVLRGVEEAAAAA-------GYDV--VLSESGRRTSPERQWVERLSAR-RTDGVILVTP-ELT-S 68 (270)
T ss_pred CeEEEECCCCCccHHHHHHHHHHHHHHc-------CCeE--EEecCCCchHHHHHHHHHHHHc-CCCEEEEecC-CCC-h
Confidence 389999863 333334455555555442 2344 4445555665445555666665 8888764 33 222 2
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFD 158 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~ 158 (808)
.. ...+...++|+|........ -. .+....++.. ..++.+++.+...|.++++++..+.. ... .-.+.|.+
T Consensus 69 ~~-~~~~~~~~ipvV~i~~~~~~-~~-~~~~v~~d~~---~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~-~r~~gf~~ 141 (270)
T cd06296 69 AQ-RAALRRTGIPFVVVDPAGDP-DA-DVPSVGATNW---AGGLAATEHLLELGHRRIGFITGPPDLLCSR-ARLDGYRA 141 (270)
T ss_pred HH-HHHHhcCCCCEEEEecccCC-CC-CCCEEEeCcH---HHHHHHHHHHHHcCCCcEEEEcCCCcchhHH-HHHHHHHH
Confidence 22 34456679999998754211 01 2233556666 77788888887789999999975432 223 44678888
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCe-EEEEeC
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGY-SWIVTA 230 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~-~~i~~~ 230 (808)
.+++.|+.+........ ....+.....+.++.+. .+++ |++.+...+..+++.+.+.|+..++. ..+.-+
T Consensus 142 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 142 ALAEAGIPVDPALVREG-DFSTESGFRAAAELLALPERPTA-IFAGNDLMALGVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HHHHcCCCCChHHheeC-CCCHHHHHHHHHHHHhCCCCCcE-EEEcCcHHHHHHHHHHHHhCCCCCCceEEEEEC
Confidence 88888765432111111 11222333344444332 3444 44456666788999999999754443 344433
No 157
>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=97.34 E-value=0.023 Score=58.98 Aligned_cols=212 Identities=8% Similarity=0.032 Sum_probs=115.5
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
+||+++|.. .+.-....++++.+.++. ++++ .+.++. ++..-.+...+++.. ++.+||=....+....
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~-------g~~~--~~~~~~-~~~~~~~~i~~~~~~-~~dgiii~~~~~~~~~ 69 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK-------GFTV--VKIDVP-DGEKVLSAIDNLGAQ-GAKGFVICVPDVKLGP 69 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc-------CCEE--EEccCC-CHHHHHHHHHHHHHc-CCCEEEEccCchhhhH
Confidence 589999853 333334555666666552 2344 345555 666555666666665 7887775330333344
Q ss_pred HHHHhcCCCCccEEeccCCCCcccc---c-ceeeeccCCchhhHHHHHHHHHH----HhcCC--cEEEEEEe-cC--Ccc
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLT---S-YSIQIDQDDEASQSQAKGIADLI----RVFKW--KHVILIYE-DN--TWG 148 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls---~-~~~r~~p~~~~~~~~~~a~~~ll----~~~~w--~~v~ii~~-d~--~~g 148 (808)
.....+...+||+|......+. .. + .+-....+.. ..+..+++.+ ...|+ ++++++.. .. ...
T Consensus 70 ~~~~~~~~~~iPvV~~~~~~~~-~~~~~~~~~~~V~~d~~---~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~ 145 (289)
T cd01540 70 AIVAKAKAYNMKVVAVDDRLVD-ADGKPMEDVPHVGMSAT---KIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTA 145 (289)
T ss_pred HHHHHHHhCCCeEEEecCCCcc-cCCCccccceEecCCHH---HHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcch
Confidence 4455666789999998643321 11 1 1222344444 4455555544 34677 78888752 22 233
Q ss_pred ccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCC--CeE-EEEEcCHHHHHHHHHHHHHcCCCCCCeE
Q 047109 149 SDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSE--TKV-FVVHMSHALASHLFLNAKKLGMMSKGYS 225 (808)
Q Consensus 149 ~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~v-iil~~~~~~~~~~l~~a~~~gl~~~~~~ 225 (808)
. .-.+.+++.+++.|+.............+.+.-...++++..+. ++. .+++.+...+..+++++.+.|+..++..
T Consensus 146 ~-~R~~G~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~ 224 (289)
T cd01540 146 K-PRTDGALEALKAPGFPEANIFQAPQKTTDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVI 224 (289)
T ss_pred h-hHHHHHHHHHhcCCCCcceEecccccCcchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceE
Confidence 4 45788888998887653211111110011222223444443333 343 5666777778899999999998532333
Q ss_pred EEEeC
Q 047109 226 WIVTA 230 (808)
Q Consensus 226 ~i~~~ 230 (808)
.++-+
T Consensus 225 vig~d 229 (289)
T cd01540 225 GVGIN 229 (289)
T ss_pred EEecC
Confidence 44333
No 158
>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=97.34 E-value=0.015 Score=59.75 Aligned_cols=202 Identities=14% Similarity=0.125 Sum_probs=112.6
Q ss_pred EEEEEEec------CCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCC
Q 047109 3 HVGVILDM------RSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMT 76 (808)
Q Consensus 3 ~IG~i~~~------~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~ 76 (808)
.||+++|. +.+.-.....+++-+.++. ++++.+ .+.. ++..-.+...+++...++.+||-.. .
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~-------g~~~~~--~~~~-~~~~~~~~~~~~~~~~~~dgiii~~-~ 69 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN-------GYDISL--ATGK-NEEELLEEVKKMIQQKRVDGFILLY-S 69 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC-------CCEEEE--ecCC-CcHHHHHHHHHHHHHcCcCEEEEec-C
Confidence 48999985 2333333445555555442 245543 3333 3344455666666554677766533 2
Q ss_pred hhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccc-cCcHHH
Q 047109 77 PTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGS-DNIIPY 155 (808)
Q Consensus 77 s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~-~~~~~~ 155 (808)
.... .....+...+||+|......+. - ..+..+.+... ..++.+++.+...|.++++++.....+.. ..-.+.
T Consensus 70 ~~~~-~~~~~~~~~~ipvV~~~~~~~~-~-~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g 143 (270)
T cd06294 70 REDD-PIIDYLKEEKFPFVVIGKPEDD-K-ENITYVDNDNI---QAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQG 143 (270)
T ss_pred cCCc-HHHHHHHhcCCCEEEECCCCCC-C-CCCCeEEECcH---HHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHH
Confidence 2222 2233445679999998653221 1 11222445555 66777888887779999999975443211 134678
Q ss_pred HHHhhhcCCcEEEE--EEecCCCCCChHHHHHHHHHhcCCC--CeEEEEEcCHHHHHHHHHHHHHcCCCCCCeE
Q 047109 156 LFDSLHDNDIDIAR--RITISMSSNTDDQVIEKLSMLKSSE--TKVFVVHMSHALASHLFLNAKKLGMMSKGYS 225 (808)
Q Consensus 156 ~~~~~~~~g~~i~~--~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~l~~a~~~gl~~~~~~ 225 (808)
|.+.+++.|+.+.. ...... +.......+.++.++. +++|+. .+...+..+++++++.|+..++-+
T Consensus 144 f~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv 213 (270)
T cd06294 144 YKQALEDHGIPDRNEVIISLDF---SEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDL 213 (270)
T ss_pred HHHHHHHcCCCCCcceEEecCC---chHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcce
Confidence 88899888753211 111122 2233344555554333 555444 566678899999999998544433
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=97.33 E-value=0.02 Score=58.76 Aligned_cols=195 Identities=12% Similarity=0.055 Sum_probs=113.3
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCC--CCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSK--GDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~--~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||+++|.. .++=.....+++-+.++.| +++. +.+.. .++..-.+....+++. ++.+||-.......
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g-------~~~~--~~~~~~~~~~~~~~~~i~~~~~~-~vdgiI~~~~~~~~ 70 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLG-------VSLK--LLEAGGYPNLAKQIAQLEDCAAW-GADAILLGAVSPDG 70 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcC-------CEEE--EecCCCCCCHHHHHHHHHHHHHc-CCCEEEEcCCChhh
Confidence 689999863 3333345556666665443 3443 34433 2444455566666665 88888743202222
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCC-----cEEEEEEecCC--ccccCc
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKW-----KHVILIYEDNT--WGSDNI 152 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w-----~~v~ii~~d~~--~g~~~~ 152 (808)
...+ ..+...+||+|......+. .+....+..++. ..++.+++.+...+- ++++++..... ... .-
T Consensus 71 ~~~~-~~~~~~giPvV~~~~~~~~--~~~~~~V~~d~~---~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~-~R 143 (268)
T cd06306 71 LNEI-LQQVAASIPVIALVNDINS--PDITAKVGVSWY---EMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVK-AV 143 (268)
T ss_pred HHHH-HHHHHCCCCEEEeccCCCC--cceeEEecCChH---HHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHH-HH
Confidence 1223 3345689999987532111 112223556666 777888888876665 89999975433 223 34
Q ss_pred HHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 153 IPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 153 ~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
.+.|++.+++.++++... ... ..+.+.-...++++.+ ..+++|+. ....+..+++.+++.|+
T Consensus 144 ~~g~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~ 207 (268)
T cd06306 144 EKGFRDALAGSAIEISAI--KYG-DTGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGL 207 (268)
T ss_pred HHHHHHHHhhcCcEEeee--ccC-CccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCC
Confidence 577888898888876542 111 1133333445555432 34576653 36678889999999997
No 160
>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=97.32 E-value=0.016 Score=59.76 Aligned_cols=209 Identities=12% Similarity=0.047 Sum_probs=126.2
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRSW-AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
+||+++|.-.. +=.....|++-+.++ . ++.+- +.++..++..- +....+.+. +|.++|=.. ......
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~----~---Gy~l~--l~~t~~~~~~e-~~i~~l~~~-~vDGiI~~s-~~~~~~ 70 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEARE----H---GYQLL--LCNTGDDEEKE-EYIELLLQR-RVDGIILAS-SENDDE 70 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHH----T---TCEEE--EEEETTTHHHH-HHHHHHHHT-TSSEEEEES-SSCTCH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHH----c---CCEEE--EecCCCchHHH-HHHHHHHhc-CCCEEEEec-ccCChH
Confidence 69999998653 222334444444333 2 24443 34555566655 555555544 888888544 333334
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcE-EEEEEecCCccc-cCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKH-VILIYEDNTWGS-DNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~-v~ii~~d~~~g~-~~~~~~~~~~ 159 (808)
.+..+... ++|+|........ .. .+-.....+. ..+..+++.+...|.++ ++++..+..... ..-.+.+.++
T Consensus 71 ~l~~~~~~-~iPvV~~~~~~~~-~~-~~~~V~~D~~---~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~A 144 (279)
T PF00532_consen 71 ELRRLIKS-GIPVVLIDRYIDN-PE-GVPSVYIDNY---EAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDA 144 (279)
T ss_dssp HHHHHHHT-TSEEEEESS-SCT-TC-TSCEEEEEHH---HHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHH
T ss_pred HHHHHHHc-CCCEEEEEeccCC-cc-cCCEEEEcch---HHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHH
Confidence 55556666 9999998765322 10 1112234455 66677888888999999 999997764432 1445678999
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeE-EEEEcCHHHHHHHHHHHHHcC-CCCCCeEEEEeC
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKV-FVVHMSHALASHLFLNAKKLG-MMSKGYSWIVTA 230 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~~l~~a~~~g-l~~~~~~~i~~~ 230 (808)
++++|+++........ ..+.++-...++++.+..+++ .|++++..-|...++++.+.| +..++-+-+..+
T Consensus 145 l~~~Gl~~~~~~i~~~-~~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~gr~~ip~di~~~~~ 216 (279)
T PF00532_consen 145 LKEAGLPIDEEWIFEG-DFDYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERGRLKIPEDIVSGFD 216 (279)
T ss_dssp HHHTTSCEEEEEEEES-SSSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT-TCTTTEEEECSC
T ss_pred HHHcCCCCCccccccc-CCCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcCCcccChhheeeec
Confidence 9999986554433322 224444445556665555541 456677788899999999999 765655533333
No 161
>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=97.32 E-value=0.025 Score=57.83 Aligned_cols=206 Identities=14% Similarity=0.143 Sum_probs=118.2
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|... +.=.....+++-|.++.+ +.+ .+.++..++..-.+...++++. ++.+||-.. ......
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~g-------~~~--~~~~~~~~~~~~~~~~~~l~~~-~~dgiii~~-~~~~~~ 69 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAHG-------YQV--LVCNSDNDPEKEKEYLESLLAY-QVDGLIVNP-TGNNKE 69 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHcC-------CEE--EEEcCCCCHHHHHHHHHHHHHc-CcCEEEEeC-CCCChH
Confidence 4899998643 222334555555555432 344 3445556666666666677765 788777432 222222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC-cc-ccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT-WG-SDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~-~g-~~~~~~~~~~~ 159 (808)
.+ ..+...++|+|......+. . .+.....++. ..+..+++.+...|-++++++..... .. ...-.+.+.+.
T Consensus 70 ~l-~~~~~~~ipvV~~~~~~~~-~--~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~ 142 (267)
T cd06283 70 LY-QRLAKNGKPVVLVDRKIPE-L--GVDTVTLDNY---EAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEA 142 (267)
T ss_pred HH-HHHhcCCCCEEEEcCCCCC-C--CCCEEEeccH---HHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHH
Confidence 33 3345679999998754322 1 2223445556 77888888888889999999975433 11 11345778888
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCC--CeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSE--TKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
+++.|........... ..+..+....++++.++. +++|+ +++...+..+++.+++.|+..++-+.|+
T Consensus 143 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vp~di~v~ 211 (267)
T cd06283 143 LAEHGIGVNEELIEID-DEDADELDERLRQLLNKPKKKTAIF-AANGLILLEVLKALKELGIRIPEDVGLI 211 (267)
T ss_pred HHHcCCCCCcceeEec-ccchHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCccceEEE
Confidence 8888743221111111 112334455666665443 45444 4456667788999999998544444333
No 162
>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=97.31 E-value=0.026 Score=57.72 Aligned_cols=206 Identities=13% Similarity=0.072 Sum_probs=115.4
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
.||+++|.... .....+...+++.-+.. ++++. +.++..++..-.+....++.. ++.+||-.. .......
T Consensus 1 ~igvi~~~~~~---~~~~~~~~~~~~~~~~~---g~~~~--~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~-~~~~~~~ 70 (264)
T cd06274 1 TIGLIIPDLEN---RSFARIAKRLEALARER---GYQLL--IACSDDDPETERETVETLIAR-QVDALIVAG-SLPPDDP 70 (264)
T ss_pred CEEEEeccccC---chHHHHHHHHHHHHHHC---CCEEE--EEeCCCCHHHHHHHHHHHHHc-CCCEEEEcC-CCCchHH
Confidence 48999996432 22333333333333322 23443 344555666556666666665 888888543 3222222
Q ss_pred HHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHhh
Q 047109 83 LAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDSL 160 (808)
Q Consensus 83 ~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~~ 160 (808)
+.. +...++|+|......+. . .+-.....+. ..+..+++.+...|.++++++..+.. ... .-.+.|++.+
T Consensus 71 ~~~-~~~~~ipvV~~~~~~~~-~--~~~~V~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~gf~~~~ 142 (264)
T cd06274 71 YYL-CQKAGLPVVALDRPGDP-S--RFPSVVSDNR---DGAAELTRELLAAPPEEVLFLGGLPELSPSR-ERLAGFRQAL 142 (264)
T ss_pred HHH-HHhcCCCEEEecCccCC-C--CCCEEEEccH---HHHHHHHHHHHHCCCCcEEEEeCCCcccchH-HHHHHHHHHH
Confidence 333 45678999998654322 1 1122444555 55677888887789999999976533 222 4467888899
Q ss_pred hcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC---CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 161 HDNDIDIARRITISMSSNTDDQVIEKLSMLKSS---ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 161 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
++.|..+........ ..+.+.-...++++.++ .+++|+ +.+...|..+++++++.|+..++-+-|+
T Consensus 143 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~ip~dv~v~ 211 (264)
T cd06274 143 ADAGLPVQPDWIYAE-GYSPESGYQLMAELLARLGRLPRALF-TTSYTLLEGVLRFLRERPGLAPSDLRIA 211 (264)
T ss_pred HHcCCCCCcceeecC-CCChHHHHHHHHHHHccCCCCCcEEE-EcChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 888754221111111 11222333344444332 356555 4566778889999999997544444443
No 163
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=97.29 E-value=0.02 Score=58.55 Aligned_cols=205 Identities=13% Similarity=0.087 Sum_probs=114.4
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|.. .+.=.....+++-|.++.| +.+. +.++..++..-......+++. ++.+||-.. ......
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~g-------~~~~--~~~~~~~~~~~~~~~~~l~~~-~vdgiIi~~-~~~~~~ 69 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAAG-------YSTI--IGNSDENPETENRYLDNLLSQ-RVDGIIVVP-HEQSAE 69 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHcC-------CEEE--EEeCCCCHHHHHHHHHHHHhc-CCCEEEEcC-CCCChH
Confidence 489999863 3332345556666655432 2333 334555665555555566655 888888643 333333
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 159 (808)
.+ .-+...++|+|......+. .. +-....... ..+..+++.+...|-++++++..... ... .-.+.|.+.
T Consensus 70 ~~-~~l~~~~ipvV~~~~~~~~-~~--~~~v~~d~~---~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~-~R~~gf~~~ 141 (265)
T cd06299 70 QL-EDLLKRGIPVVFVDREITG-SP--IPFVTSDPQ---PGMTEAVSLLVALGHKKIGYISGPQDTSTGR-ERLEAFRQA 141 (265)
T ss_pred HH-HHHHhCCCCEEEEecccCC-CC--CCEEEECcH---HHHHHHHHHHHHcCCCcEEEEeCCCCcccHH-HHHHHHHHH
Confidence 33 3444569999988654322 11 112233444 44556667777779999999965432 122 334678888
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
++++|..+........ .....+....+.++.+..+++ |++++...+..+++.+++.|+..++-+.|+
T Consensus 142 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~a-v~~~~d~~a~gv~~al~~~g~~vp~dv~v~ 208 (265)
T cd06299 142 CASLGLEVNEDLVVLG-GYSQESGYAGATKLLDQGATA-IIAGDSMMTIGAIRAIHDAGLVIGEDISLI 208 (265)
T ss_pred HHHCCCCCChHhEEec-CcchHHHHHHHHHHHcCCCCE-EEEcCcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 8888854321111111 112223334455554444675 445556678889999999997544434433
No 164
>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=97.28 E-value=0.018 Score=59.30 Aligned_cols=202 Identities=9% Similarity=0.044 Sum_probs=110.5
Q ss_pred EEEEEEecCC--------cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecC
Q 047109 3 HVGVILDMRS--------WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTE 74 (808)
Q Consensus 3 ~IG~i~~~~~--------~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~ 74 (808)
.||++.|..+ +.-.....+++-++++. ++++.+...+ .+. .+.+.+.+...++.+||-..
T Consensus 5 ~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~v~~~~--~~~---~~~~~~~l~~~~~dgiii~~ 72 (275)
T cd06295 5 TIALVVPEPHERDQSFSDPFFLSLLGGIADALAER-------GYDLLLSFVS--SPD---RDWLARYLASGRADGVILIG 72 (275)
T ss_pred EEEEEecCccccccccCCchHHHHHHHHHHHHHHc-------CCEEEEEeCC--chh---HHHHHHHHHhCCCCEEEEeC
Confidence 5899999522 22222334444333322 2455544333 221 23344555444788876422
Q ss_pred CChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCc
Q 047109 75 MTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNI 152 (808)
Q Consensus 75 ~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~ 152 (808)
+...... ...+...+||+|......+. ..+....+.+. ..+..+++.+...|.++++++..+.. .+. .-
T Consensus 73 -~~~~~~~-~~~~~~~~ipvV~~~~~~~~---~~~~~V~~d~~---~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~-~r 143 (275)
T cd06295 73 -QHDQDPL-PERLAETGLPFVVWGRPLPG---QPYCYVGSDNV---GGGRLATEHLLARGRRRIAFLGGPQDMPEGE-ER 143 (275)
T ss_pred -CCCChHH-HHHHHhCCCCEEEECCccCC---CCCCEEEECcH---HHHHHHHHHHHHCCCCeEEEEcCCCCcchhH-HH
Confidence 2111222 34456789999998654332 12334566667 77888888888889999999975433 222 44
Q ss_pred HHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEE
Q 047109 153 IPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 153 ~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
.+.|.+.+++.|..+........ ..+.......+.++.++ .+++|+.. +...+..+++.+++.|+..++-+.|
T Consensus 144 ~~gf~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~~ip~~i~i 218 (275)
T cd06295 144 LEGYREALAEAGLPLDPRLVAPG-DFTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGRRVPEDVAV 218 (275)
T ss_pred HHHHHHHHHHcCCCCChhhEEec-cCCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCCCCccceEE
Confidence 67888899888754322111111 11222333444444333 35655444 4556778889999999743433333
No 165
>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=97.27 E-value=0.019 Score=58.79 Aligned_cols=198 Identities=11% Similarity=0.103 Sum_probs=113.0
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|... +.=.....+++-+.++. ++++ .+.++..++..-.+....+.+. ++.+||=.. +.....
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~-------~~~~--~~~~~~~~~~~~~~~i~~l~~~-~~dgiii~~-~~~~~~ 69 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER-------GYST--FVANTGDNPDAQRRAIEMLLDR-RVDGLILGD-ARSDDH 69 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC-------CCEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEec-CCCChH
Confidence 4899999633 33223344444444332 2344 3345555666555555566655 888777332 222223
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 159 (808)
.+.. +...+||++......+. .-....+.. ..+..+++.+...|.++++++..+.. .+. .-.+.|.+.
T Consensus 70 ~~~~-~~~~~iPvv~~~~~~~~-----~~~V~~d~~---~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~-~R~~Gf~~~ 139 (265)
T cd06285 70 FLDE-LTRRGVPFVLVLRHAGT-----SPAVTGDDV---LGGRLATRHLLDLGHRRIAVLAGPDYASTAR-DRLAGFRAA 139 (265)
T ss_pred HHHH-HHHcCCCEEEEccCCCC-----CCEEEeCcH---HHHHHHHHHHHHCCCccEEEEeCCcccccHH-HHHHHHHHH
Confidence 3333 45578999987653322 112345555 66777888888889999999975432 233 346778888
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKG 223 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~ 223 (808)
+++.|..+.....+.. ..+.......+.++.+. .+++ |++.+...+..+++.+++.|+..++
T Consensus 140 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~~p~ 203 (265)
T cd06285 140 LAEAGIEVPPERIVYS-GFDIEGGEAAAEKLLRSDSPPTA-IFAVNDFAAIGVMGAARDRGLRVPD 203 (265)
T ss_pred HHHcCCCCChhhEEeC-CCCHHHHHHHHHHHHcCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCc
Confidence 8888876432111111 11222323344554332 3454 4555667788899999999985333
No 166
>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=97.25 E-value=0.049 Score=56.24 Aligned_cols=199 Identities=13% Similarity=0.118 Sum_probs=111.9
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
+||++.|... +.-.....+++-+.++. +++ +.+.++..++..-.+....+++. ++.+||- +. .+...
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~-------g~~--v~~~~~~~~~~~~~~~i~~~~~~-~~Dgiii~~~-~~~~~ 69 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL-------GYE--LISTDAQGDLTKQIADVEDLLTR-GVNVLIINPV-DPEGL 69 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc-------CCE--EEEEcCCCCHHHHHHHHHHHHHc-CCCEEEEecC-Cccch
Confidence 5899998643 22233444555555432 233 34456666776666666667765 8877774 33 33322
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHh-cCCc--EEEEEEecC--CccccCcHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRV-FKWK--HVILIYEDN--TWGSDNIIPY 155 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~-~~w~--~v~ii~~d~--~~g~~~~~~~ 155 (808)
......+...+||+|......+. ..+.+..+..+.. ..++.+++.+.. .|-+ +++++..+. ..+. .-.+.
T Consensus 70 ~~~i~~~~~~~iPvV~~~~~~~~-~~~~~~~v~~d~~---~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~-~R~~g 144 (282)
T cd06318 70 VPAVAAAKAAGVPVVVVDSSINL-EAGVVTQVQSSNA---KNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQ-ARRDG 144 (282)
T ss_pred HHHHHHHHHCCCCEEEecCCCCC-CcCeEEEEecCcH---HHHHHHHHHHHHHhCCCCceEEEEECCCCCchHh-HHHHh
Confidence 23334445679999998753221 1112334566666 778888887754 6755 898887532 2344 45677
Q ss_pred HHHhhhcCCcE------EEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 156 LFDSLHDNDID------IARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 156 ~~~~~~~~g~~------i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
|++.++++|.. +........ ..+..+-...+.++... .+++ |++.+...+..+++++++.|+
T Consensus 145 f~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~al~~~g~ 214 (282)
T cd06318 145 FLLGVSEAQLRKYGKTNFTIVAQGYG-DWTREGGLKAMEDLLVAHPDINV-VYSENDDMALGAMRVLAEAGK 214 (282)
T ss_pred HHHHHhhCcccccccCCeEEEecCCC-CCCHHHHHHHHHHHHHhCCCcCE-EEECCcchHHHHHHHHHHcCC
Confidence 88888887642 111110111 11222333344444322 3444 445556667889999999997
No 167
>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=97.24 E-value=0.013 Score=60.89 Aligned_cols=182 Identities=14% Similarity=0.155 Sum_probs=109.2
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
|||++...+.+.=....+|++-++++..- ....+++.+.+..+|+....+.+.++.+. +...|+--. + ..+..
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g~----~~~~~~~~~~~a~~d~~~~~~~~~~l~~~-~~DlIi~~g-t-~aa~~ 73 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELGY----DEKNVEIEYKNAEGDPEKLRQIARKLKAQ-KPDLIIAIG-T-PAAQA 73 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT------CCCEEEEEEE-TT-HHHHHHHHHHHCCT-S-SEEEEES-H-HHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcCC----ccccEEEEEecCCCCHHHHHHHHHHHhcC-CCCEEEEeC-c-HHHHH
Confidence 68999998887544566777777665532 22578888889999999998888888765 788877654 3 34455
Q ss_pred HHHhcCCCCccEEeccCCCCccccc----------ceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCc-cc
Q 047109 83 LAEIGSKAKIPVISLYATLPSSLTS----------YSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTW-GS 149 (808)
Q Consensus 83 ~~~~~~~~~iP~is~~~~~~~~ls~----------~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~-g~ 149 (808)
+....... +|+|..+.++|. ..+ ++.-+. +. ......+++++++ +-++++++|++++- +.
T Consensus 74 ~~~~~~~~-iPVVf~~V~dp~-~~~l~~~~~~~~~nvTGv~--~~---~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~ 146 (294)
T PF04392_consen 74 LAKHLKDD-IPVVFCGVSDPV-GAGLVDSLDRPGKNVTGVS--ER---PPIEKQLELIKKLFPDAKRIGVLYDPSEPNSV 146 (294)
T ss_dssp HHHH-SS--S-EEEECES-TT-TTTS-S-SSS--SSEEEEE--E------HHHHHHHHHHHSTT--EEEEEEETT-HHHH
T ss_pred HHHhcCCC-cEEEEEeccChh-hhhccccccCCCCCEEEEE--CC---cCHHHHHHHHHHhCCCCCEEEEEecCCCccHH
Confidence 55444433 999998886665 332 222222 22 3345566666553 46899999987643 34
Q ss_pred cCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH
Q 047109 150 DNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA 205 (808)
Q Consensus 150 ~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 205 (808)
...+.+++.+++.|+++.... ++ +..++...++.+. .+.|++++..+..
T Consensus 147 -~~~~~~~~~a~~~g~~l~~~~-v~----~~~~~~~~~~~l~-~~~da~~~~~~~~ 195 (294)
T PF04392_consen 147 -AQIEQLRKAAKKLGIELVEIP-VP----SSEDLEQALEALA-EKVDALYLLPDNL 195 (294)
T ss_dssp -HHHHHHHHHHHHTT-EEEEEE-ES----SGGGHHHHHHHHC-TT-SEEEE-S-HH
T ss_pred -HHHHHHHHHHHHcCCEEEEEe-cC----cHhHHHHHHHHhh-ccCCEEEEECCcc
Confidence 567888888999999876542 32 3457788888876 4568888876553
No 168
>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=97.23 E-value=0.042 Score=57.28 Aligned_cols=211 Identities=12% Similarity=0.097 Sum_probs=115.5
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~~ 81 (808)
|||+++|.... .....+..++++.-++. ++++.++ .++..++..-.+....++.. ++.+||= +. ......
T Consensus 1 ~i~~i~~~~~~---~~~~~~~~gi~~~a~~~---g~~~~~~-~~~~~~~~~~~~~l~~~~~~-~~dgiii~~~-~~~~~~ 71 (294)
T cd06316 1 KAAIVMHTSGS---DWSNAQVRGAKDEFAKL---GIEVVAT-TDAQFDPAKQVADIETTISQ-KPDIIISIPV-DPVSTA 71 (294)
T ss_pred CeEEEecCCCC---hHHHHHHHHHHHHHHHc---CCEEEEe-cCCCCCHHHHHHHHHHHHHh-CCCEEEEcCC-Cchhhh
Confidence 68999985332 12333444443333222 2344322 35667777667777777776 7777654 43 322223
Q ss_pred HHHHhcCCCCccEEeccCCCCcccc--c-ceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCccc-cCcHHH
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLT--S-YSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTWGS-DNIIPY 155 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls--~-~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~g~-~~~~~~ 155 (808)
.....+...+||+|......+. .. . .+.-+..+.. ..++.+++.+... +-++++++..+.+... ..-.+.
T Consensus 72 ~~i~~~~~~~iPvV~~~~~~~~-~~~~~~~~~~v~~d~~---~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g 147 (294)
T cd06316 72 AAYKKVAEAGIKLVFMDNVPSG-LEHGKDYAGIVTDDNY---GNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQG 147 (294)
T ss_pred HHHHHHHHcCCcEEEecCCCcc-cccCcceEEEEccCcH---HHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHH
Confidence 3334455679999988764332 22 1 2333455555 6677788887665 7899999975433221 033577
Q ss_pred HHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 047109 156 LFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTAS 231 (808)
Q Consensus 156 ~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 231 (808)
|.+.+++++..+........ .+.......++++.+ ..+++|+ +.+...+..+++.+++.|+ .+...++-+.
T Consensus 148 f~~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~--~di~vvg~d~ 220 (294)
T cd06316 148 FKETIKKNYPDITIVAEKGI--DGPSKAEDIANAMLTQNPDLKGIY-AVWDVPAEGVIAALRAAGR--DDIKVTTVDL 220 (294)
T ss_pred HHHHHHHhCCCcEEEeecCC--cchhHHHHHHHHHHHhCCCeeEEE-eCCCchhHHHHHHHHHcCC--CCceEEEeCC
Confidence 77788766533322211111 112222334444432 2345544 4456678899999999997 4555555443
No 169
>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=97.21 E-value=0.046 Score=56.21 Aligned_cols=178 Identities=8% Similarity=-0.011 Sum_probs=106.8
Q ss_pred EEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCch
Q 047109 41 VLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEA 118 (808)
Q Consensus 41 ~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~ 118 (808)
.+.+.++..++..-.+...++++. ++.+||= +. .+........-+...+||+|......+. ... ......+.+.
T Consensus 31 ~~~~~~~~~d~~~~~~~i~~~~~~-~vdgiii~~~-~~~~~~~~i~~~~~~~iPvV~~~~~~~~-~~~~~~~~v~~d~~- 106 (272)
T cd06313 31 DVTWYGGALDAVKQVAAIENMASQ-GWDFIAVDPL-GIGTLTEAVQKAIARGIPVIDMGTLIAP-LQINVHSFLAPDNY- 106 (272)
T ss_pred EEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEcCC-ChHHhHHHHHHHHHCCCcEEEeCCCCCC-CCCceEEEECCCcH-
Confidence 344556667888777888888876 8887775 43 3333333333344569999998764322 111 2334566767
Q ss_pred hhHHHHHHHHHHHhc--CCcEEEEEEecCCccc-cCcHHHHHHhhhcCC-cEEEEEEecCCCCCChHHHHHHHHHhcCCC
Q 047109 119 SQSQAKGIADLIRVF--KWKHVILIYEDNTWGS-DNIIPYLFDSLHDND-IDIARRITISMSSNTDDQVIEKLSMLKSSE 194 (808)
Q Consensus 119 ~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~g~-~~~~~~~~~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~ 194 (808)
..++.+++.+... |.++++++..+..... ..-.+.|.+.+++.+ .++... ... ..+.......++++.+..
T Consensus 107 --~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~l~~~ 181 (272)
T cd06313 107 --FMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPA-NWDVSKAARIWETWLTKY 181 (272)
T ss_pred --HHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCC-CCCHHHHHHHHHHHHHhC
Confidence 7788888887666 8899999975432221 034678888888875 554431 111 112233344555544333
Q ss_pred --CeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 195 --TKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 195 --~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
+++ |++.+...+..+++.+++.|+ .+...++-+
T Consensus 182 ~~~~a-i~~~nd~~a~g~~~al~~~g~--~di~vvgfd 216 (272)
T cd06313 182 PQLDG-AFCHNDSMALAAYQIMKAAGR--TKIVIGGVD 216 (272)
T ss_pred CCCCE-EEECCCcHHHHHHHHHHHcCC--CceEEEeec
Confidence 444 455666677888999999997 444444333
No 170
>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=97.20 E-value=0.028 Score=57.50 Aligned_cols=201 Identities=10% Similarity=0.051 Sum_probs=109.9
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
.||+++|.... .....+.-++++.-++. ++++. +.++..++..-.+....+.+. ++.++|-.. +......
T Consensus 1 ~i~vi~~~~~~---~~~~~~~~gi~~~~~~~---gy~~~--~~~~~~~~~~~~~~i~~l~~~-~~dgiii~~-~~~~~~~ 70 (265)
T cd06290 1 TIGVLTQDFAS---PFYGRILKGMERGLNGS---GYSPI--IATGHWNQSRELEALELLKSR-RVDALILLG-GDLPEEE 70 (265)
T ss_pred CEEEEECCCCC---chHHHHHHHHHHHHHHC---CCEEE--EEeCCCCHHHHHHHHHHHHHC-CCCEEEEeC-CCCChHH
Confidence 48999985332 12333333343333322 23443 344555665555555556655 888887433 2222222
Q ss_pred HHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecC--CccccCcHHHHHHhh
Q 047109 83 LAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDN--TWGSDNIIPYLFDSL 160 (808)
Q Consensus 83 ~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~~ 160 (808)
+..+ . .++|+|......+. . .+-....++. ..+..+++.+...|.++++++..+. .... .-.+.|.+.+
T Consensus 71 ~~~~-~-~~iPvV~i~~~~~~-~--~~~~V~~d~~---~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~r~~gf~~~~ 141 (265)
T cd06290 71 ILAL-A-EEIPVLAVGRRVPG-P--GAASIAVDNF---QGGYLATQHLIDLGHRRIAHITGPRGHIDAR-DRLAGYRKAL 141 (265)
T ss_pred HHHH-h-cCCCEEEECCCcCC-C--CCCEEEECcH---HHHHHHHHHHHHCCCCeEEEEeCccccchhh-HHHHHHHHHH
Confidence 2233 2 48999998764322 1 1223445666 6677888877777999999997542 2222 3457788888
Q ss_pred hcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCe
Q 047109 161 HDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGY 224 (808)
Q Consensus 161 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~ 224 (808)
.+.|+.+.....+.. ..........++++.++ .+++| ++++...+..+++.+++.|+..++.
T Consensus 142 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai-i~~~~~~a~~~~~~l~~~g~~ip~d 205 (265)
T cd06290 142 EEAGLEVQPDLIVQG-DFEEESGLEAVEELLQRGPDFTAI-FAANDQTAYGARLALYRRGLRVPED 205 (265)
T ss_pred HHcCCCCCHHHEEec-CCCHHHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCcc
Confidence 887765432111111 11222223345555433 34654 4556677888999999999754443
No 171
>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=0.034 Score=56.90 Aligned_cols=198 Identities=16% Similarity=0.113 Sum_probs=110.6
Q ss_pred EEEEEEec-CCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDM-RSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||++.|. +.+.=.....+++-+.++. ++++. +.++..++.+-.+....+.+. ++.+||-.. .....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~i~~~~~~-~~dgiii~~-~~~~~- 68 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYKK-------GYKLI--LCNSDNDPEKEREYLEMLRQN-QVDGIIAGT-HNLGI- 68 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHHC-------CCeEE--EecCCccHHHHHHHHHHHHHc-CCCEEEEec-CCcCH-
Confidence 48999984 3332223344444443332 23443 445555666555555555554 788777433 22221
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC---ccccCcHHHHHH
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT---WGSDNIIPYLFD 158 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~---~g~~~~~~~~~~ 158 (808)
. -+...++|+|......+. .+-...++.. ..++.+++.+...|.++++++..... ... .-.+.|.+
T Consensus 69 --~-~~~~~gipvv~~~~~~~~----~~~~V~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~-~r~~gf~~ 137 (265)
T cd06291 69 --E-EYENIDLPIVSFDRYLSE----NIPIVSSDNY---EGGRLAAEELIERGCKHIAHIGGPNNTVSPTN-LRYEGFLD 137 (265)
T ss_pred --H-HHhcCCCCEEEEeCCCCC----CCCeEeechH---HHHHHHHHHHHHcCCcEEEEEccCcccccchH-HHHHHHHH
Confidence 1 334678999998764332 2223455556 66788888887789999999975433 222 34578888
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSW 226 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~ 226 (808)
.++++|+.+.... ... ..+..+....++++.+. .+++ |++++...+..+++...+.|+..++-+-
T Consensus 138 ~l~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~al~~~g~~vp~di~ 204 (265)
T cd06291 138 VLKENGLEVRIIE-IQE-NFDDAEKKEEIKELLEEYPDIDG-IFASNDLTAILVLKEAQQRGIRVPEDLQ 204 (265)
T ss_pred HHHHcCCCCChhe-eec-cccchHHHHHHHHHHhCCCCCCE-EEECChHHHHHHHHHHHHcCCCCCcceE
Confidence 9988887643211 111 11111223344444333 2454 4444555688899999999975344333
No 172
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.15 E-value=0.036 Score=59.18 Aligned_cols=201 Identities=10% Similarity=0.077 Sum_probs=113.2
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|.. .+.-.....+++-+.++ .+ +.+ .+.++..++..-.+....++.. ++.+||-.. ......
T Consensus 66 ~Igvv~~~~~~~~~~~i~~gi~~~a~~---~g----~~~--~~~~~~~~~~~~~~~~~~l~~~-~vdgiIi~~-~~~~~~ 134 (342)
T PRK10014 66 VIGLIVRDLSAPFYAELTAGLTEALEA---QG----RMV--FLLQGGKDGEQLAQRFSTLLNQ-GVDGVVIAG-AAGSSD 134 (342)
T ss_pred EEEEEeCCCccchHHHHHHHHHHHHHH---cC----CEE--EEEeCCCCHHHHHHHHHHHHhC-CCCEEEEeC-CCCCcH
Confidence 689999853 33333344555555443 22 233 2334445555555555556654 788888533 222223
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccc-cCcHHHHHHhh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGS-DNIIPYLFDSL 160 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~-~~~~~~~~~~~ 160 (808)
.....+...++|+|......+. . .+-...+.+. ..+..+++.|...|.++++++..+..... ..-.+.|.+.+
T Consensus 135 ~~~~~l~~~~iPvV~~~~~~~~--~-~~~~V~~D~~---~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~al 208 (342)
T PRK10014 135 DLREMAEEKGIPVVFASRASYL--D-DVDTVRPDNM---QAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCATL 208 (342)
T ss_pred HHHHHHhhcCCCEEEEecCCCC--C-CCCEEEeCCH---HHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHHHHH
Confidence 3345556779999987642211 1 1122455666 67788888888889999999965432211 03456788899
Q ss_pred hcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 047109 161 HDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSK 222 (808)
Q Consensus 161 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~ 222 (808)
++.|+.+.....+.. ..........+.++.+. .+++|+ +.+...|..+++.+.+.|+.-+
T Consensus 209 ~~~g~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 209 LKFGLPFHSEWVLEC-TSSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHcCCCCCcceEecC-CCChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 988875432211111 11222233344444333 345544 5666778889999999997543
No 173
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.13 E-value=0.054 Score=57.48 Aligned_cols=203 Identities=13% Similarity=0.092 Sum_probs=112.8
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|.. .+.=.....+++-+.++ . ++++.+ .++..++..-.+....+++. ++.+||-.........
T Consensus 63 ~Igvv~~~~~~~~~~~l~~gi~~~~~~----~---g~~~~~--~~~~~~~~~~~~~~~~l~~~-~vdgiIi~~~~~~~~~ 132 (328)
T PRK11303 63 SIGLIIPDLENTSYARIAKYLERQARQ----R---GYQLLI--ACSDDQPDNEMRCAEHLLQR-QVDALIVSTSLPPEHP 132 (328)
T ss_pred eEEEEeCCCCCchHHHHHHHHHHHHHH----c---CCEEEE--EeCCCCHHHHHHHHHHHHHc-CCCEEEEcCCCCCChH
Confidence 589999853 33222234454444433 1 244443 33444555444555555554 8888775320222222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 159 (808)
.+.. +...++|+|......+. . .+-...+++. ..+..+++.+...|.++++++..... .+. .-.+.|.+.
T Consensus 133 ~~~~-l~~~~iPvV~v~~~~~~-~--~~~~V~~d~~---~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~-~R~~Gf~~a 204 (328)
T PRK11303 133 FYQR-LQNDGLPIIALDRALDR-E--HFTSVVSDDQ---DDAEMLAESLLKFPAESILLLGALPELSVSF-EREQGFRQA 204 (328)
T ss_pred HHHH-HHhcCCCEEEECCCCCC-C--CCCEEEeCCH---HHHHHHHHHHHHCCCCeEEEEeCccccccHH-HHHHHHHHH
Confidence 2333 34568999987653222 1 1223445656 66777888887789999999975433 223 345788899
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
++++|+.+.....-.. +.++-...++++.+. .+++|+. .+...|..+++++.+.|+..++-+-|
T Consensus 205 l~~~g~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~al~~~g~~vP~disv 270 (328)
T PRK11303 205 LKDDPREVHYLYANSF---EREAGAQLFEKWLETHPMPDALFT-TSYTLLQGVLDVLLERPGELPSDLAI 270 (328)
T ss_pred HHHcCCCceEEEeCCC---ChHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 9998875432211111 222223344444333 4565544 45566788899999999854544433
No 174
>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=97.09 E-value=0.047 Score=57.25 Aligned_cols=204 Identities=15% Similarity=0.094 Sum_probs=115.7
Q ss_pred EEEEEEecC-C-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhc-CCeEEEEecCCChhH
Q 047109 3 HVGVILDMR-S-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQN-VDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~-~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~-~~v~aiiG~~~~s~~ 79 (808)
.||+++|.. . +.-.....+++.+.++. ++++.+ .++..++..-.+....+++. .+|.+||=.. .+..
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~gi~~~~~~~-------g~~v~~--~~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~-~~~~ 70 (305)
T cd06324 1 SVVFLNPGKSDEPFWNSVARFMQAAADDL-------GIELEV--LYAERDRFLMLQQARTILQRPDKPDALIFTN-EKSV 70 (305)
T ss_pred CeEEecCCCCCCcHHHHHHHHHHHHHHhc-------CCeEEE--EeCCCCHHHHHHHHHHHHHhccCCCEEEEcC-Cccc
Confidence 389999864 3 22233445555554432 234433 35556776666666666653 2788776432 2222
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccc---------c---ceeeeccCCchhhHHHHHHHHHHHhcCCcE--------EE
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLT---------S---YSIQIDQDDEASQSQAKGIADLIRVFKWKH--------VI 139 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls---------~---~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~--------v~ 139 (808)
.......+...++|+|......+. .. + ++-...++.. ..++.+++.+...+.++ ++
T Consensus 71 ~~~~~~~~~~~giPvV~~~~~~~~-~~~~~~~~~~~~~~~~~~~V~~d~~---~~g~~~~~~l~~~g~~~~~~~g~~~i~ 146 (305)
T cd06324 71 APELLRLAEGAGVKLFLVNSGLTE-AQARELGPPREKFPDWLGQLLPNDE---EAGYLMAEALISQARSVQAPGGRIDLL 146 (305)
T ss_pred hHHHHHHHHhCCCeEEEEecCCCc-chhhcccccccccCceeeeeccCcH---HHHHHHHHHHHHHhhcccCCCCceeEE
Confidence 333345566789999998754332 11 0 2345667777 77788888887666553 77
Q ss_pred EEEecCC--ccccCcHHHHHHhhhcCC-cEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHH
Q 047109 140 LIYEDNT--WGSDNIIPYLFDSLHDND-IDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNA 214 (808)
Q Consensus 140 ii~~d~~--~g~~~~~~~~~~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a 214 (808)
++..+.. ... .-.+.|++.++++| ..+.. .+.. ......-...++++.++ ..++|+ +.+...+..+++++
T Consensus 147 ~i~~~~~~~~~~-~R~~Gf~~~~~~~g~~~~~~--~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al 221 (305)
T cd06324 147 AISGDPTTPAAI-LREAGLRRALAEHPDVRLRQ--VVYA-GWSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAA 221 (305)
T ss_pred EEeCCCCChHHH-HHHHHHHHHHHHCCCceEee--eecC-CCCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHH
Confidence 6664322 222 34577888898887 33322 1221 11233334455555433 356544 55666788899999
Q ss_pred HHcCCCCCCeE
Q 047109 215 KKLGMMSKGYS 225 (808)
Q Consensus 215 ~~~gl~~~~~~ 225 (808)
++.|+..++-+
T Consensus 222 ~~~g~~vp~di 232 (305)
T cd06324 222 KEAGRKPGRDV 232 (305)
T ss_pred HHcCCCcCCCE
Confidence 99998544333
No 175
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.08 E-value=0.05 Score=57.65 Aligned_cols=205 Identities=9% Similarity=0.040 Sum_probs=112.7
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
.||+++|... +.=.....+++-+.++ . ++++. +.++..++..-.+....+.+. +|.+||= |.+.+...
T Consensus 58 ~Igvi~~~~~~~~~~~~~~gi~~~~~~---~----g~~~~--~~~~~~~~~~~~~~~~~l~~~-~vdGiI~~~~~~~~~~ 127 (327)
T PRK10423 58 TIGMLITASTNPFYSELVRGVERSCFE---R----GYSLV--LCNTEGDEQRMNRNLETLMQK-RVDGLLLLCTETHQPS 127 (327)
T ss_pred eEEEEeCCCCCCcHHHHHHHHHHHHHH---c----CCEEE--EEeCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCcchhh
Confidence 5899998643 3322344555554443 1 23443 344555666555556666654 7887774 32022211
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFD 158 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~ 158 (808)
. ..+....++|+|........ ........... ..+..+++.+...|.++++++..+.. ... .-.+.|.+
T Consensus 128 ~--~~l~~~~~iPvV~i~~~~~~---~~~~~v~~d~~---~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~-~R~~Gf~~ 198 (327)
T PRK10423 128 R--EIMQRYPSVPTVMMDWAPFD---GDSDLIQDNSL---LGGDLATQYLIDKGYTRIACITGPLDKTPAR-LRLEGYRA 198 (327)
T ss_pred H--HHHHhcCCCCEEEECCccCC---CCCCEEEEChH---HHHHHHHHHHHHcCCCeEEEEeCCccccchH-HHHHHHHH
Confidence 1 11222248999988642211 11122344444 55777888888889999999964432 223 44688899
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
.++++|+.+.....+.. ......-...+.++.+. .+++ |++++...+..+++.+++.|+..++-+-|+
T Consensus 199 al~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~A~g~~~~l~~~g~~vP~dvsvi 268 (327)
T PRK10423 199 AMKRAGLNIPDGYEVTG-DFEFNGGFDAMQQLLALPLRPQA-VFTGNDAMAVGVYQALYQAGLSVPQDIAVI 268 (327)
T ss_pred HHHHcCCCCCcceEEeC-CCChHHHHHHHHHHhcCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 99998876432111111 11222223344454433 3454 445566778889999999998545444433
No 176
>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=97.08 E-value=0.044 Score=56.01 Aligned_cols=192 Identities=15% Similarity=0.109 Sum_probs=108.4
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|... +.=.....+++-+.++. ++++.+...++ +. ...+...++++. ++.+||--. +.....
T Consensus 1 ~I~~i~~~~~~~~~~~~~~~i~~~~~~~-------g~~~~~~~~~~--~~-~~~~~i~~~~~~-~vdgiii~~-~~~~~~ 68 (266)
T cd06278 1 LIGVVVADLDNPFYSELLEALSRALQAR-------GYQPLLINTDD--DE-DLDAALRQLLQY-RVDGVIVTS-GTLSSE 68 (266)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHC-------CCeEEEEcCCC--CH-HHHHHHHHHHHc-CCCEEEEec-CCCCHH
Confidence 3899998633 32222333443333222 24555554443 33 333445556655 888888644 333332
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 159 (808)
. ...+...++|+|......+. +.+....++.. ..++.+++.+...|-++++++..+.. ... .-.+.|.+.
T Consensus 69 ~-~~~~~~~~ipvV~~~~~~~~---~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~gf~~~ 140 (266)
T cd06278 69 L-AEECRRNGIPVVLINRYVDG---PGVDAVCSDNY---EAGRLAAELLLAKGCRRIAFIGGPADTSTSR-ERERGFRDA 140 (266)
T ss_pred H-HHHHhhcCCCEEEECCccCC---CCCCEEEEChH---HHHHHHHHHHHHCCCceEEEEcCCCcccchH-HHHHHHHHH
Confidence 2 44456679999998653222 13344666777 78888888888889999999986543 233 445788888
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcC
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLG 218 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~g 218 (808)
+++.|..+.... .. ..+..+....+.++.+. .+++|+. .+...+..+++.+++.+
T Consensus 141 ~~~~~~~~~~~~-~~--~~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~~l~~~~ 197 (266)
T cd06278 141 LAAAGVPVVVEE-AG--DYSYEGGYEAARRLLASRPRPDAIFC-ANDLLAIGVMDAARQEG 197 (266)
T ss_pred HHHcCCChhhhc-cC--CCCHHHHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHhc
Confidence 888887643211 11 11223333444444333 3455444 44555677788887753
No 177
>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=97.06 E-value=0.033 Score=56.80 Aligned_cols=199 Identities=10% Similarity=-0.021 Sum_probs=105.4
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
|||+++|... ........+.-++++.-++. ++.+ .+.++. ++....+...++... ++.+||-.. .... ..
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~~---gy~~--~~~~~~-~~~~~~~~~~~l~~~-~vdgiii~~-~~~~-~~ 70 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKEL---GVEV--KYVESV-EDADYEPNLRQLAAQ-GYDLIFGVG-FGFM-DA 70 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHhc---CceE--EEEecC-CHHHHHHHHHHHHHc-CCCEEEECC-cchh-HH
Confidence 6999999511 11123344444444443332 2343 344444 555555555566654 788776533 3212 23
Q ss_pred HHHhcC-CCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc-CCcEEEEEEecCC-ccccCcHHHHHHh
Q 047109 83 LAEIGS-KAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF-KWKHVILIYEDNT-WGSDNIIPYLFDS 159 (808)
Q Consensus 83 ~~~~~~-~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~-~w~~v~ii~~d~~-~g~~~~~~~~~~~ 159 (808)
+..... ..++|++......+. .. .+-.....+. .-++.++.++... |-++++++..+.. ... .-.+.|.+.
T Consensus 71 ~~~~~~~~~~ipvv~~~~~~~~-~~-~~~~v~~d~~---~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~-~R~~Gf~~~ 144 (260)
T cd06304 71 VEKVAKEYPDVKFAIIDGVVDA-PP-NVASYVFREY---EGSYLAGVLAALMTKTGKVGFVGGMPIPEVN-RFINGFAAG 144 (260)
T ss_pred HHHHHHHCCCCEEEEecCccCC-CC-CeeeeecchH---HHHHHHHHHHHHhccCCceEEEeccccHHHH-HHHHHHHHH
Confidence 334444 347898887543211 01 1112333433 4444555666554 8899999975432 122 335788889
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLG 218 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~g 218 (808)
++++|..+...........+...-...++++.+..+++| ++.+...+..+++++++.|
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 145 AKSVNPDITVLVIYTGSFFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HHHhCCCcEEEEEEecCccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 998886533211111101112233344555554557764 6677777888999999987
No 178
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=97.05 E-value=0.1 Score=55.71 Aligned_cols=205 Identities=12% Similarity=-0.002 Sum_probs=113.4
Q ss_pred eEEEEEEecCCc-chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhH
Q 047109 2 VHVGVILDMRSW-AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTG 79 (808)
Q Consensus 2 i~IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~ 79 (808)
-+||++.|.... .=.....+++-+.++. ++++.+...+...+..+-.+....+++. ++.+||= |. ....
T Consensus 47 ~~Igvv~p~~~~~f~~~~~~gi~~aa~~~-------G~~l~i~~~~~~~~~~~q~~~i~~l~~~-~vdgIIl~~~-~~~~ 117 (343)
T PRK10936 47 WKLCALYPHLKDSYWLSVNYGMVEEAKRL-------GVDLKVLEAGGYYNLAKQQQQLEQCVAW-GADAILLGAV-TPDG 117 (343)
T ss_pred eEEEEEecCCCchHHHHHHHHHHHHHHHh-------CCEEEEEcCCCCCCHHHHHHHHHHHHHh-CCCEEEEeCC-ChHH
Confidence 479999987442 2223445666555542 2344433222223455445556666665 7888774 44 3332
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc-----CCcEEEEEEecCC--ccccCc
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF-----KWKHVILIYEDNT--WGSDNI 152 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~-----~w~~v~ii~~d~~--~g~~~~ 152 (808)
..... .+...+||+|......+. -. ....+.+.+. ..++..++.+... |-.+++++..+.. ... .-
T Consensus 118 ~~~~l-~~~~~giPvV~~~~~~~~-~~-~~~~V~~D~~---~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~-~R 190 (343)
T PRK10936 118 LNPDL-ELQAANIPVIALVNGIDS-PQ-VTTRVGVSWY---QMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSK-AV 190 (343)
T ss_pred hHHHH-HHHHCCCCEEEecCCCCC-cc-ceEEEecChH---HHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHH-HH
Confidence 22222 455678999976432111 11 2233456666 6777777776544 4789999975432 222 33
Q ss_pred HHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 047109 153 IPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVT 229 (808)
Q Consensus 153 ~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 229 (808)
.+.|++.+++.|+++.....-.. +.+.-...++++.+ ..+++|+ +....+..+++.+++.|+ ++.+.|++
T Consensus 191 ~~Gf~~~l~~~~i~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~--~~di~Vvg 262 (343)
T PRK10936 191 EQGFRAAIAGSDVRIVDIAYGDN---DKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNL--TDKIKLVS 262 (343)
T ss_pred HHHHHHHHhcCCCEEEEeecCCC---cHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCC--CCCeEEEE
Confidence 57788888888988754211111 22222334444432 2467765 345667788999999997 34444443
No 179
>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=97.05 E-value=0.036 Score=56.79 Aligned_cols=196 Identities=13% Similarity=0.020 Sum_probs=104.8
Q ss_pred EEEEEEec----CCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh
Q 047109 3 HVGVILDM----RSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT 78 (808)
Q Consensus 3 ~IG~i~~~----~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~ 78 (808)
|||++.|. +.+.-.+...|++.+.++ . ++++.+. ++. ++..-.+....+.+. +|.+||--. ...
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~----~---gy~~~i~--~~~-~~~~~~~~i~~l~~~-~vdgiI~~~-~~~ 68 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE----L---GIEYKYV--ESK-SDADYEPNLEQLADA-GYDLIVGVG-FLL 68 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH----c---CCeEEEE--ecC-CHHHHHHHHHHHHhC-CCCEEEEcC-cch
Confidence 69999985 233333444555555554 2 2344333 333 444334455555554 899998643 221
Q ss_pred HHHHHHHhcCCC-CccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHh-cCCcEEEEEEecCCccccCcHHHH
Q 047109 79 GAHILAEIGSKA-KIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRV-FKWKHVILIYEDNTWGSDNIIPYL 156 (808)
Q Consensus 79 ~~~~~~~~~~~~-~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~-~~w~~v~ii~~d~~~g~~~~~~~~ 156 (808)
..........+ ++|++......+. .. .+-+...... ..+..++.++.. .|.++++++..+.........+.|
T Consensus 69 -~~~~~~~~~~~~~~PiV~i~~~~~~-~~-~~~~v~~d~~---~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf 142 (265)
T cd06354 69 -ADALKEVAKQYPDQKFAIIDAVVDD-PP-NVASIVFKEE---EGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGF 142 (265)
T ss_pred -HHHHHHHHHHCCCCEEEEEecccCC-CC-cEEEEEecch---hHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHH
Confidence 22334444444 7999887652211 01 1122333443 344444566654 389999999754321120223678
Q ss_pred HHhhhcCC---cEEEEEEecCCCCCC-hHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 047109 157 FDSLHDND---IDIARRITISMSSNT-DDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLG 218 (808)
Q Consensus 157 ~~~~~~~g---~~i~~~~~~~~~~~~-~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~g 218 (808)
++.+++.| ..+........ ..+ ..+-...++++.+.++++ |++.+...+..+++++++.|
T Consensus 143 ~~~~~~~g~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ll~~~pda-I~~~nd~~A~gv~~al~~~g 206 (265)
T cd06354 143 EAGVKYVNPGVPDIEVLVQYAG-SFNDPAKGKEIAQAMYDQGADV-IFAAAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHHhccCCCceEEEEEcC-cccCHHHHHHHHHHHHHCCCcE-EEECCCCCchHHHHHHHhcC
Confidence 88888888 65433211111 112 223334555655445775 55556777889999999987
No 180
>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=96.99 E-value=0.068 Score=54.91 Aligned_cols=207 Identities=12% Similarity=0.070 Sum_probs=117.6
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChh--
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPT-- 78 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~-- 78 (808)
.||+++|... +.-.....+++-+.++ . ++++. +.++..++..-.+....+++. ++.++|= +. ...
T Consensus 1 ~Igvi~~~~~~~~~~~~~~gi~~~~~~----~---g~~~~--~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~-~~~~~ 69 (273)
T cd06292 1 LVGLLVPELSNPIFPAFAEAIEAALAQ----Y---GYTVL--LCNTYRGGVSEADYVEDLLAR-GVRGVVFISS-LHADT 69 (273)
T ss_pred CEEEEeCCCcCchHHHHHHHHHHHHHH----C---CCEEE--EEeCCCChHHHHHHHHHHHHc-CCCEEEEeCC-CCCcc
Confidence 3899999643 3333344555555544 2 33443 445555666666666777766 7888774 22 211
Q ss_pred -HHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCc--cccCcHHH
Q 047109 79 -GAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTW--GSDNIIPY 155 (808)
Q Consensus 79 -~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~--g~~~~~~~ 155 (808)
.......-+...++|+|......+. -. .+-....++. ..+..+++.+...|.++++++...... .. .-.+.
T Consensus 70 ~~~~~~i~~~~~~~ipvV~i~~~~~~-~~-~~~~V~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~g 143 (273)
T cd06292 70 HADHSHYERLAERGLPVVLVNGRAPP-PL-KVPHVSTDDA---LAMRLAVRHLVALGHRRIGFASGPGRTVPRR-RKIAG 143 (273)
T ss_pred cchhHHHHHHHhCCCCEEEEcCCCCC-CC-CCCEEEECcH---HHHHHHHHHHHHCCCceEEEEeCCcccccHH-HHHHH
Confidence 1112223345679999998754322 11 1223455666 778888888888899999998754322 22 34678
Q ss_pred HHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 156 LFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 156 ~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
|.+.++++|+.......+.. ..+.......+.++.+..+++|+ +.+...+..+++...+.|+..++-+-|+
T Consensus 144 f~~~~~~~~~~~~~~~i~~~-~~~~~~~~~~~~~~l~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~di~ii 214 (273)
T cd06292 144 FRAALEEAGLEPPEALVARG-MFSVEGGQAAAVELLGSGPTAIV-AASDLMALGAIRAARRRGLRVPEDVSVV 214 (273)
T ss_pred HHHHHHHcCCCCChhheEeC-CCCHHHHHHHHHHHhcCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 88888888853211111111 11222333344444433467544 5566677888999999997544444443
No 181
>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=96.99 E-value=0.057 Score=55.39 Aligned_cols=202 Identities=12% Similarity=0.018 Sum_probs=112.0
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||++.|.. .+.-.....+++.+.++. ++++.+...+ . +..-.+...+++...+|.+||=.. .....
T Consensus 1 ~Igvi~p~~~~~~~~~~~~~i~~~~~~~-------gy~~~~~~~~--~-~~~~~~~~~~~l~~~~vdgvi~~~-~~~~~- 68 (269)
T cd06297 1 TISVLLPVVATEFYRRLLEGIEGALLEQ-------RYDLALFPLL--S-LARLKRYLESTTLAYLTDGLLLAS-YDLTE- 68 (269)
T ss_pred CEEEEeCCCcChhHHHHHHHHHHHHHHC-------CCEEEEEeCC--C-cHHHHHHHHHHHHhcCCCEEEEec-CccCh-
Confidence 389999864 333333445555555442 2455544333 2 222233333434444788777533 32222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecC--C------ccccCcH
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDN--T------WGSDNII 153 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~--~------~g~~~~~ 153 (808)
.....+...++|+|......+. . -.+.++.. ..+..+++.|... .++++++..+. . .+. .-.
T Consensus 69 ~~~~~l~~~~iPvv~~~~~~~~-~----~~v~~d~~---~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~-~R~ 138 (269)
T cd06297 69 RLAERRLPTERPVVLVDAENPR-F----DSFYLDNR---LGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFA-ERR 138 (269)
T ss_pred HHHHHHhhcCCCEEEEccCCCC-C----CEEEECcH---HHHHHHHHHHHHh-CCceEEEeCccccccccccccHH-HHH
Confidence 2334456679999998653322 1 12345666 7777788877666 79999986432 1 223 347
Q ss_pred HHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 154 PYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 154 ~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
+.|++.+++.|+.+.....+.. ..+..+....+.++.+. .+++ |++.+...+..+++.+++.|...++-+.|+
T Consensus 139 ~gf~~~~~~~g~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vP~di~vv 213 (269)
T cd06297 139 AGFQQALKDAGRPFSPDLLAIT-DHSEEGGRLAMRHLLEKASPPLA-VFASADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHHHcCCCCChhhEEeC-CCChhhHHHHHHHHHcCCCCCcE-EEEcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8889999998876432111111 11223334455555433 2444 444556678889999999997655544443
No 182
>PRK09701 D-allose transporter subunit; Provisional
Probab=96.98 E-value=0.21 Score=52.50 Aligned_cols=209 Identities=12% Similarity=0.054 Sum_probs=116.4
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
+||++.|... +.=.....+++-+.++. ++++.+...+...++..-.+...+++.. ++.+||- +. .+...
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~-------g~~v~~~~~~~~~~~~~~~~~i~~l~~~-~vDgiIi~~~-~~~~~ 96 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKTL-------GVSVDIFASPSEGDFQSQLQLFEDLSNK-NYKGIAFAPL-SSVNL 96 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHHc-------CCeEEEecCCCCCCHHHHHHHHHHHHHc-CCCEEEEeCC-ChHHH
Confidence 6899998633 22222334444443332 2455544334455666666667777766 7888775 33 33222
Q ss_pred -HHHHHhcCCCCccEEeccCCCCc-ccc--c--ceeeeccCCchhhHHHHHHHHHHHh-cCC--cEEEEEEecCCc--cc
Q 047109 81 -HILAEIGSKAKIPVISLYATLPS-SLT--S--YSIQIDQDDEASQSQAKGIADLIRV-FKW--KHVILIYEDNTW--GS 149 (808)
Q Consensus 81 -~~~~~~~~~~~iP~is~~~~~~~-~ls--~--~~~r~~p~~~~~~~~~~a~~~ll~~-~~w--~~v~ii~~d~~~--g~ 149 (808)
..+..+ ...+||++......+. .+. + ....+.++.. ..+..+++.+.. .|- ++++++..+... ..
T Consensus 97 ~~~l~~~-~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~---~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~ 172 (311)
T PRK09701 97 VMPVARA-WKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNV---AVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGE 172 (311)
T ss_pred HHHHHHH-HHCCCcEEEeCCCCCcccccccCCceEEEeccchH---HHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHH
Confidence 223333 4578999998754321 011 1 2233555656 777888887744 454 799988654322 22
Q ss_pred cCcHHHHHHhhhcCC-cEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 047109 150 DNIIPYLFDSLHDND-IDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSW 226 (808)
Q Consensus 150 ~~~~~~~~~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~ 226 (808)
.-.+.|++.+++++ +++........ ...+-...++++.+. .+++ |++.+...+..+++++++.|+. .+...
T Consensus 173 -~R~~Gf~~al~~~~~~~~~~~~~~~~---~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~-~dv~v 246 (311)
T PRK09701 173 -ARRNGATEAFKKASQIKLVASQPADW---DRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT-GKVLV 246 (311)
T ss_pred -HHHHHHHHHHHhCCCcEEEEecCCCC---CHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC-CCEEE
Confidence 44578888998887 76543221111 222333444554333 3454 5566666788999999999973 33333
Q ss_pred EEeC
Q 047109 227 IVTA 230 (808)
Q Consensus 227 i~~~ 230 (808)
++.+
T Consensus 247 vg~d 250 (311)
T PRK09701 247 VGTD 250 (311)
T ss_pred EEeC
Confidence 3333
No 183
>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=96.96 E-value=0.065 Score=54.90 Aligned_cols=199 Identities=13% Similarity=0.068 Sum_probs=108.2
Q ss_pred EEEEEec----CCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 4 VGVILDM----RSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 4 IG~i~~~----~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
||+++|. +.+.-.....+++-+.++. ++++.+...|. +...-......+.+ .++.+||-.. ....
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~-------g~~~~~~~~~~--~~~~~~~~~~~l~~-~~vdgiii~~-~~~~ 70 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKY-------GYNLILKFVSD--EDEEEFELPSFLED-GKVDGIILLG-GIST 70 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHc-------CCEEEEEeCCC--ChHHHHHHHHHHHH-CCCCEEEEeC-CCCh
Confidence 8999997 2333333444444444332 34665555443 33222222233444 4888888643 3222
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccc-cCcHHHHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGS-DNIIPYLFD 158 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~-~~~~~~~~~ 158 (808)
. ....+...++|+|......+. . .+-....+.. ..++.+++.+...|.++++++..+..... ..-.+.|.+
T Consensus 71 ~--~~~~l~~~~ipvV~~~~~~~~-~--~~~~V~~d~~---~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 142 (268)
T cd06277 71 E--YIKEIKELGIPFVLVDHYIPN-E--KADCVLTDNY---SGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKK 142 (268)
T ss_pred H--HHHHHhhcCCCEEEEccCCCC-C--CCCEEEecch---HHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHH
Confidence 2 234455679999987654332 1 1112344555 56666777777779999999975543211 134567888
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGMMSKG 223 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl~~~~ 223 (808)
.+++.|+.+...............+...++++. ..+++ |++.+...+..+++++++.|+..++
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~a-i~~~~d~~a~g~~~a~~~~g~~~p~ 205 (268)
T cd06277 143 ALLDHGIPFNEDYDITEKEEDEEDIGKFIDELK-PLPTA-FFCSNDGVAFLLIKVLKEMGIRVPE 205 (268)
T ss_pred HHHHcCCCCCcceEEEcchhHHHHHHHHHhcCC-CCCCE-EEECCcHHHHHHHHHHHHcCCCCCC
Confidence 888888764321111110012233444444332 23554 5555666678888999999985333
No 184
>PRK09526 lacI lac repressor; Reviewed
Probab=96.93 E-value=0.13 Score=54.86 Aligned_cols=201 Identities=10% Similarity=0.076 Sum_probs=110.6
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe--cCCChhH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC--TEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG--~~~~s~~ 79 (808)
.||+++|... +.-.....+++-+.++ . ++.+.+...+. .++..-.+....+.+. ++.+||- +. .+..
T Consensus 65 ~Igvv~~~~~~~~~~~~~~gi~~~a~~---~----g~~~~i~~~~~-~~~~~~~~~l~~l~~~-~vdGiii~~~~-~~~~ 134 (342)
T PRK09526 65 TIGLATTSLALHAPSQIAAAIKSRADQ---L----GYSVVISMVER-SGVEACQAAVNELLAQ-RVSGVIINVPL-EDAD 134 (342)
T ss_pred eEEEEeCCCCcccHHHHHHHHHHHHHH---C----CCEEEEEeCCC-ChHHHHHHHHHHHHhc-CCCEEEEecCC-Ccch
Confidence 5899998533 2222344455544443 1 34555443322 2333333444555554 8888775 43 3322
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLF 157 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~ 157 (808)
...+. ....++|+|......+. .+....+++. ..+..+++.+...|.++++++..... ... .-.+.|.
T Consensus 135 ~~~~~--~~~~~iPvV~~d~~~~~----~~~~V~~d~~---~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~-~R~~Gf~ 204 (342)
T PRK09526 135 AEKIV--ADCADVPCLFLDVSPQS----PVNSVSFDPE---DGTRLGVEHLVELGHQRIALLAGPESSVSAR-LRLAGWL 204 (342)
T ss_pred HHHHH--hhcCCCCEEEEeccCCC----CCCEEEECcH---HHHHHHHHHHHHCCCCeEEEEeCCCccccHH-HHHHHHH
Confidence 22211 22358999987642111 2233455656 66677888888889999999975432 222 3357788
Q ss_pred HhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEE
Q 047109 158 DSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 158 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
+.+++.|+.+.....-.. +..+-...+.++.+. .+++ |++++...+..+++.+++.|+..++-+-|
T Consensus 205 ~al~~~gi~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~A~g~~~al~~~g~~vP~disv 272 (342)
T PRK09526 205 EYLTDYQLQPIAVREGDW---SAMSGYQQTLQMLREGPVPSA-ILVANDQMALGVLRALHESGLRVPGQISV 272 (342)
T ss_pred HHHHHcCCCcceEEeCCC---chHHHHHHHHHHhcCCCCCcE-EEEcCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 999988876433211111 222222334444332 3554 44566677889999999999865544433
No 185
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.92 E-value=0.052 Score=56.17 Aligned_cols=196 Identities=16% Similarity=0.152 Sum_probs=109.3
Q ss_pred EEEEEEec------CCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCC
Q 047109 3 HVGVILDM------RSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMT 76 (808)
Q Consensus 3 ~IG~i~~~------~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~ 76 (808)
.||+++|. +.+.-.....+++-+.++. ++++.+. ++.. .. +....+.. .++.++|-.. +
T Consensus 1 ~igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~~-------g~~~~~~--~~~~-~~---~~~~~~~~-~~~dgiii~~-~ 65 (283)
T cd06279 1 AVGVVLTDSLSYAFSDPVASQFLAGVAEVLDAA-------GVNLLLL--PASS-ED---SDSALVVS-ALVDGFIVYG-V 65 (283)
T ss_pred CEEEEeCCcccccccCccHHHHHHHHHHHHHHC-------CCEEEEe--cCcc-HH---HHHHHHHh-cCCCEEEEeC-C
Confidence 38999996 2333333455555444432 2344443 3222 11 22234444 4888888644 3
Q ss_pred hhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC----------
Q 047109 77 PTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT---------- 146 (808)
Q Consensus 77 s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~---------- 146 (808)
.... .....+...++|+|......+. ..-.+.++.. ..+..+++.+...|.++++++..+..
T Consensus 66 ~~~~-~~~~~~~~~~ipvV~~~~~~~~----~~~~v~~d~~---~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~ 137 (283)
T cd06279 66 PRDD-PLVAALLRRGLPVVVVDQPLPP----GVPSVGIDDR---AAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTD 137 (283)
T ss_pred CCCh-HHHHHHHHcCCCEEEEecCCCC----CCCEEeeCcH---HHHHHHHHHHHHcCCCcEEEecCccccccccccccc
Confidence 3222 2333446679999987653222 2233566666 77888888888889999999975421
Q ss_pred ---------ccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCC--CeEEEEEcCHHHHHHHHHHHH
Q 047109 147 ---------WGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSE--TKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 147 ---------~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~l~~a~ 215 (808)
... .-.+.|.+.+++.|+.......+.....+.......+.++.++. +++ |++++...+..++++++
T Consensus 138 ~~~~~~~~~~~~-~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~gv~~al~ 215 (283)
T cd06279 138 ERLASATFSVAR-ERLEGYLEALEEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTA-ILCMSDVLALGALQVAR 215 (283)
T ss_pred ccccccccccHH-HHHHHHHHHHHHcCCCCChheEEecCCCchHHHHHHHHHHHcCCCCCcE-EEECCcHHHHHHHHHHH
Confidence 112 33577888888887543211111110112234445555554333 444 44556667788999999
Q ss_pred HcCCCCCC
Q 047109 216 KLGMMSKG 223 (808)
Q Consensus 216 ~~gl~~~~ 223 (808)
+.|+..++
T Consensus 216 ~~g~~ip~ 223 (283)
T cd06279 216 ELGLRVPE 223 (283)
T ss_pred HcCCCCCC
Confidence 99985343
No 186
>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=96.91 E-value=0.18 Score=51.68 Aligned_cols=205 Identities=12% Similarity=0.099 Sum_probs=110.3
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhH-H
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTG-A 80 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~-~ 80 (808)
+||++...+.+.=.....+++-+..+. ++++.+. .++..++..-.+....+++. +|.++|= |. .... .
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~~-~~~~~~~~~~~~~i~~l~~~-~vDgiIi~~~-~~~~~~ 70 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKEL-------GVDVEFV-VPQQGTVNAQLRMLEDLIAE-GVDGIAISPI-DPKAVI 70 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHHc-------CCeEEEe-CCCCCCHHHHHHHHHHHHhc-CCCEEEEecC-ChhHhH
Confidence 588887665543223444444444442 2344433 13444666555666666665 8888874 44 3332 2
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCC--ccccCcHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNT--WGSDNIIPYL 156 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~--~g~~~~~~~~ 156 (808)
..+..+ .. ++|+|......+. .. .+........ ..++.+++.+.+. +-.+++++..... ... .-.+.|
T Consensus 71 ~~l~~~-~~-~ipvV~~~~~~~~-~~-~~~~V~~D~~---~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~-~R~~gf 142 (271)
T cd06314 71 PALNKA-AA-GIKLITTDSDAPD-SG-RYVYIGTDNY---AAGRTAGEIMKKALPGGGKVAIFVGSLGADNAK-ERIQGI 142 (271)
T ss_pred HHHHHH-hc-CCCEEEecCCCCc-cc-eeEEEccChH---HHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHH-HHHHHH
Confidence 333444 45 9999998653322 11 1122345555 6677788877553 3346666664332 223 446788
Q ss_pred HHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 157 FDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 157 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
++.+++.|+.+.... .. .....+....++++.+. .++.|+ +.+...+..++..+++.|+. ++...++-+
T Consensus 143 ~~~~~~~~~~~~~~~-~~--~~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~al~~~g~~-~di~vig~d 213 (271)
T cd06314 143 KDAIKDSKIEIVDTR-GD--EEDFAKAKSNAEDALNAHPDLKCMF-GLYAYNGPAIAEAVKAAGKL-GKVKIVGFD 213 (271)
T ss_pred HHHHhcCCcEEEEEe-cC--ccCHHHHHHHHHHHHHhCCCccEEE-ecCCccHHHHHHHHHHcCCC-CceEEEEeC
Confidence 999999998765421 11 11223334455555433 345554 44445566678888899974 333333333
No 187
>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=96.88 E-value=0.076 Score=56.28 Aligned_cols=200 Identities=10% Similarity=0.102 Sum_probs=110.5
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
.||+++|.. .+.-.....+++-+.++ . ++++.+ .++..++..-.+....+.+. ++.+||- |. .....
T Consensus 62 ~Igvi~~~~~~~~~~~~~~~i~~~~~~----~---gy~~~i--~~~~~~~~~~~~~~~~l~~~-~vdgiIi~~~-~~~~~ 130 (327)
T TIGR02417 62 TIGLVIPDLENYSYARIAKELEQQCRE----A---GYQLLI--ACSDDNPDQEKVVIENLLAR-QVDALIVASC-MPPED 130 (327)
T ss_pred eEEEEeCCCCCccHHHHHHHHHHHHHH----C---CCEEEE--EeCCCCHHHHHHHHHHHHHc-CCCEEEEeCC-CCCCh
Confidence 689999853 33322334444444332 1 244433 34444565555555556554 7888774 33 32122
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCc--cccCcHHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTW--GSDNIIPYLFD 158 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~--g~~~~~~~~~~ 158 (808)
..+ ..+...++|+|......+. . .+-...+++. ..+..+++.+...|.++++++...... .. .-.+.|.+
T Consensus 131 ~~~-~~l~~~~iPvV~~~~~~~~-~--~~~~V~~dn~---~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~-~R~~Gf~~ 202 (327)
T TIGR02417 131 AYY-QKLQNEGLPVVALDRSLDD-E--HFCSVISDDV---DAAAELIERLLSQHADEFWYLGAQPELSVSR-DRLAGFRQ 202 (327)
T ss_pred HHH-HHHHhcCCCEEEEccccCC-C--CCCEEEeCcH---HHHHHHHHHHHHCCCCeEEEEeCcccchhHH-HHHHHHHH
Confidence 223 3344568999987653322 1 1122445555 556667777877899999999754332 22 34577888
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC---CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS---ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSW 226 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~ 226 (808)
.+++.|+.......-.. ..++-...+.++.+. .+++|+. .+...|..+++++.+.| ..++-+-
T Consensus 203 al~~~~~~~~~~~~~~~---~~~~~~~~~~~ll~~~~~~~~Ai~~-~~D~~A~g~~~al~~~g-~vP~dvs 268 (327)
T TIGR02417 203 ALKQATLEVEWVYGGNY---SRESGYQMFAKLCARLGRLPQALFT-TSYTLLEGVLDYMLERP-LLDSQLH 268 (327)
T ss_pred HHHHcCCChHhEEeCCC---ChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcC-CCCCcce
Confidence 89888875322111111 222233344554432 3565444 45667888999999999 5454333
No 188
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=96.85 E-value=0.15 Score=53.16 Aligned_cols=200 Identities=9% Similarity=0.040 Sum_probs=110.1
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
+||++.|... +.=.....+++-+.++. ++++.+. .++..++....+....+++. ++.+||- +. .+...
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~-------g~~v~~~-~~~~~d~~~~~~~i~~~~~~-~~DgiIi~~~-~~~~~ 70 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKEL-------GVDAIYV-GPTTADAAGQVQIIEDLIAQ-GVDAIAVVPN-DPDAL 70 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHh-------CCeEEEE-CCCCCCHHHHHHHHHHHHhc-CCCEEEEecC-CHHHH
Confidence 5899998533 33223455555555542 2343322 24446777666666677765 7887775 33 33322
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc-CC-cEEEEEEecCCccc-cCcHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF-KW-KHVILIYEDNTWGS-DNIIPYLF 157 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~-~w-~~v~ii~~d~~~g~-~~~~~~~~ 157 (808)
......+...++|+|......+. -...+....+.+. ..+..+++.+... +- ++++++..+..... ..-.+.|+
T Consensus 71 ~~~~~~~~~~~iPvV~v~~~~~~-~~~~~~~v~~D~~---~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~ 146 (298)
T cd06302 71 EPVLKKAREAGIKVVTHDSDVQP-DNRDYDIEQADNK---AIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAK 146 (298)
T ss_pred HHHHHHHHHCCCeEEEEcCCCCC-CcceeEEeccCHH---HHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHH
Confidence 33333455679999998653211 0002233345656 7777888877555 43 69999875433211 02347888
Q ss_pred HhhhcCC---cEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 047109 158 DSLHDND---IDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMM 220 (808)
Q Consensus 158 ~~~~~~g---~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~ 220 (808)
+.++++| +++.. .+.. ..+.+.-...++++.++ .+++ |++.+...|..+++++++.|+.
T Consensus 147 ~~l~~~g~~~~~~~~--~~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~D~~A~g~~~al~~~g~~ 210 (298)
T cd06302 147 AYQKEKYYPMLELVD--RQYG-DDDADKSYQTAQELLKAYPDLKG-IIGPTSVGIPGAARAVEEAGLK 210 (298)
T ss_pred HHHhhcCCCCeEEeC--cccC-CCCHHHHHHHHHHHHHhCCCceE-EEECCCcchhHHHHHHHhcCCC
Confidence 8998886 33221 1111 11222323344444322 3444 4445566788899999999974
No 189
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=96.85 E-value=0.16 Score=53.68 Aligned_cols=198 Identities=14% Similarity=0.107 Sum_probs=121.0
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|.-. ++=.....|++-+.++-+ ..+.+..+..++..-.+....+.+. +|.+||=.. ... ..
T Consensus 60 ~Ig~i~p~~~~~~~~~i~~gi~~~~~~~g---------y~~~l~~~~~~~~~e~~~~~~l~~~-~vdGiIi~~-~~~-~~ 127 (333)
T COG1609 60 TIGLVVPDITNPFFAEILKGIEEAAREAG---------YSLLLANTDDDPEKEREYLETLLQK-RVDGLILLG-ERP-ND 127 (333)
T ss_pred EEEEEeCCCCCchHHHHHHHHHHHHHHcC---------CEEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEec-CCC-CH
Confidence 5899999322 222233444444443332 2344555555666555555555555 898888532 112 12
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecC--CccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDN--TWGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~--~~g~~~~~~~~~~~ 159 (808)
.....+...++|+|......+. . .+-...+++. ..++.+++.+...|.++++++.... ..+. .-.+.+.+.
T Consensus 128 ~~~~~l~~~~~P~V~i~~~~~~-~--~~~~V~~Dn~---~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~-~R~~Gf~~a 200 (333)
T COG1609 128 SLLELLAAAGIPVVVIDRSPPG-L--GVPSVGIDNF---AGAYLATEHLIELGHRRIAFIGGPLDSSASR-ERLEGYRAA 200 (333)
T ss_pred HHHHHHHhcCCCEEEEeCCCcc-C--CCCEEEEChH---HHHHHHHHHHHHCCCceEEEEeCCCccccHh-HHHHHHHHH
Confidence 2334455559999998764432 1 3344567777 8888899999999999999999763 2334 457889999
Q ss_pred hhcCCcEE--EEEEecCCCCCChHHHHHHHHHhcCCC---CeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 047109 160 LHDNDIDI--ARRITISMSSNTDDQVIEKLSMLKSSE---TKVFVVHMSHALASHLFLNAKKLGMMSKG 223 (808)
Q Consensus 160 ~~~~g~~i--~~~~~~~~~~~~~~~~~~~l~~l~~~~---~~viil~~~~~~~~~~l~~a~~~gl~~~~ 223 (808)
+++.|+.. .....-.. +..+-...+.++.... +++ ++|++...|..+++++.+.|+..++
T Consensus 201 l~~~~~~~~~~~i~~~~~---~~~~g~~~~~~ll~~~~~~ptA-if~~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 201 LREAGLPINPEWIVEGDF---SEESGYEAAERLLARGEPRPTA-IFCANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHCCCCCCcceEEecCC---ChHHHHHHHHHHHhcCCCCCcE-EEEcCcHHHHHHHHHHHHcCCCCCC
Confidence 99999875 22221111 2334344444444322 554 5666777899999999999985444
No 190
>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=96.83 E-value=0.084 Score=53.88 Aligned_cols=200 Identities=11% Similarity=0.092 Sum_probs=112.5
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDMRSW-AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
.||+++|.... .=.....+++-++++ . ++++. +.++..++..-......+.+. ++.+||= |. .....
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~---~----g~~~~--~~~~~~~~~~~~~~i~~l~~~-~~dgiii~~~-~~~~~ 69 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYR---A----GLRVI--LCNTDEDPEKEAMYLELMEEE-RVTGVIFAPT-RATLR 69 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHH---C----CCEEE--EEeCCCCHHHHHHHHHHHHhC-CCCEEEEeCC-CCCch
Confidence 48999987542 222344455555444 2 34554 344445665544444555554 6776664 33 22211
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC-ccccCcHHHHHHh
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT-WGSDNIIPYLFDS 159 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~-~g~~~~~~~~~~~ 159 (808)
... +...++|+|......+. . .+-....+.. ..+..+++.+...|.++++++..+.. ... .-.+.|++.
T Consensus 70 --~~~-~~~~~iPvV~~~~~~~~-~--~~~~v~~d~~---~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~-~R~~gf~~~ 139 (263)
T cd06280 70 --RLA-ELRLSFPVVLIDRAGPA-G--RVDAVVLDNR---AAARTLVEHLVAQGYRRIGGLFGNASTTGA-ERRAGYEDA 139 (263)
T ss_pred --HHH-HHhcCCCEEEECCCCCC-C--CCCEEEECcH---HHHHHHHHHHHHCCCceEEEEeCCCCCCHH-HHHHHHHHH
Confidence 122 24568999998754322 1 1112344555 66777888888889999999875432 222 345778888
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
++++|+..... .+.. +..+....+.++.+. .+++ |++.+...+..+++.+++.|+..++-+.++
T Consensus 140 ~~~~~~~~~~~-~~~~---~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~~p~di~ii 205 (263)
T cd06280 140 MRRHGLAPDAR-FVAP---TAEAAEAALAAWLAAPERPEA-LVASNGLLLLGALRAVRAAGLRIPQDLALA 205 (263)
T ss_pred HHHcCCCCChh-hccc---CHHHHHHHHHHHhcCCCCCcE-EEECCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 88888764321 1122 222323344444333 3455 455666678889999999998555444443
No 191
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=96.82 E-value=0.1 Score=53.57 Aligned_cols=208 Identities=16% Similarity=0.179 Sum_probs=117.7
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChh---
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPT--- 78 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~--- 78 (808)
.||+++|.... .....+..++++.-++. ++++ .+.++..++....+..+.+++. +|.++|= +. .+.
T Consensus 1 ~igvv~~~~~~---~~~~~~~~gi~~~~~~~---g~~~--~~~~~~~~~~~~~~~i~~l~~~-~vdgii~~~~-~~~~~~ 70 (273)
T cd01541 1 NIGVITTYISD---YIFPSIIRGIESVLSEK---GYSL--LLASTNNDPERERKCLENMLSQ-GIDGLIIEPT-KSALPN 70 (273)
T ss_pred CeEEEeCCccc---hhHHHHHHHHHHHHHHc---CCEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecc-cccccc
Confidence 38999985332 12223333333333322 2344 4456667787777777788776 8888874 32 221
Q ss_pred HHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC-ccccCcHHHHH
Q 047109 79 GAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT-WGSDNIIPYLF 157 (808)
Q Consensus 79 ~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~-~g~~~~~~~~~ 157 (808)
........+...++|+|......+. . .+..+..++. ..+..+++.+...|.++++++...+. .+. .-.+.+.
T Consensus 71 ~~~~~~~~~~~~~ipvV~~~~~~~~-~--~~~~V~~D~~---~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~-~r~~g~~ 143 (273)
T cd01541 71 PNIDLYLKLEKLGIPYVFINASYEE-L--NFPSLVLDDE---KGGYKATEYLIELGHRKIAGIFKADDLQGV-KRMKGFI 143 (273)
T ss_pred ccHHHHHHHHHCCCCEEEEecCCCC-C--CCCEEEECcH---HHHHHHHHHHHHcCCcCEEEecCCCcccHH-HHHHHHH
Confidence 1112223345668999998654322 1 2234566666 77788888888889999998874332 223 3457788
Q ss_pred HhhhcCCcEEEEE--EecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 047109 158 DSLHDNDIDIARR--ITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVT 229 (808)
Q Consensus 158 ~~~~~~g~~i~~~--~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 229 (808)
+.+++.|..+... ..... ..........++++.+. .+++| ++.+...+..+++++.+.|+..++-+-|++
T Consensus 144 ~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~av-~~~~d~~a~g~~~al~~~g~~~p~dv~vvg 217 (273)
T cd01541 144 KAYREHGIPFNPSNVITYTT-EEKEEKLFEKIKEILKRPERPTAI-VCYNDEIALRVIDLLKELGLKIPEDISVVG 217 (273)
T ss_pred HHHHHcCCCCChHHEEeccc-cchhhHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCcEEEEE
Confidence 8888887642211 01111 11112333445454332 35654 556667788899999999985555444443
No 192
>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=96.78 E-value=0.24 Score=51.62 Aligned_cols=203 Identities=13% Similarity=0.074 Sum_probs=108.5
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhH-
Q 047109 3 HVGVILDMRSW-AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTG- 79 (808)
Q Consensus 3 ~IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~- 79 (808)
|||+++|.... +=.....+++-+.++. ++++.+...+...++..-.+....+++. ++.+||= +. ....
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~~-------g~~v~~~~~~~~~~~~~~~~~i~~l~~~-~vDgiIi~~~-~~~~~ 71 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKHL-------GVELKVLEAGGYPNLDKQLAQIEQCKSW-GADAILLGTV-SPEAL 71 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHHh-------CCEEEEEcCCCCCCHHHHHHHHHHHHHc-CCCEEEEecC-Chhhh
Confidence 68999986432 2112333444333321 2455443333233555555566666655 8888874 33 2222
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHh-cC----CcEEEEEEecCCc--cccCc
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRV-FK----WKHVILIYEDNTW--GSDNI 152 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~-~~----w~~v~ii~~d~~~--g~~~~ 152 (808)
...+..+ . .++|+|......+. .+.+..+..... ..++.+++.+.. .. -.+++++...... .. .-
T Consensus 72 ~~~l~~~-~-~~iPvV~~~~~~~~--~~~~~~V~~D~~---~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~-~R 143 (295)
T TIGR02955 72 NHDLAQL-T-KSIPVFALVNQIDS--NQVKGRVGVDWY---QMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTK-PV 143 (295)
T ss_pred hHHHHHH-h-cCCCEEEEecCCCc--cceeEEEeecHH---HHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchh-HH
Confidence 2333333 3 48999876322111 012233455555 666777776654 11 3469999755432 23 44
Q ss_pred HHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 047109 153 IPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVT 229 (808)
Q Consensus 153 ~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 229 (808)
.+.|++.+++.|+.+... ... ..+...-...++++.+ ..+++| +++...+..+++++++.|+ ++-+.+++
T Consensus 144 ~~Gf~~al~~~g~~~~~~--~~~-~~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~--~~dv~vvg 215 (295)
T TIGR02955 144 TQGFRAALEGSDVEISAI--LWA-DNDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM--TQQIKLVS 215 (295)
T ss_pred HHHHHHHHhcCCcEEEEE--ecC-CCcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc--cCCeEEEE
Confidence 678899999889876542 211 1122333334444432 235653 5566668888999988886 34444443
No 193
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.78 E-value=0.13 Score=54.53 Aligned_cols=203 Identities=15% Similarity=0.120 Sum_probs=112.4
Q ss_pred EEEEEEec-CCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDM-RSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|. +.+.-.....+++-+.++. ++++. +.+...++..-.+....+++. ++.+||-.. +.....
T Consensus 65 ~Igvi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~~~~~~~~-~vdgiI~~~-~~~~~~ 133 (331)
T PRK14987 65 AIGVLLPSLTNQVFAEVLRGIESVTDAH-------GYQTM--LAHYGYKPEMEQERLESMLSW-NIDGLILTE-RTHTPR 133 (331)
T ss_pred EEEEEeCCCcchhHHHHHHHHHHHHHHC-------CCEEE--EecCCCCHHHHHHHHHHHHhc-CCCEEEEcC-CCCCHH
Confidence 58999984 3333223444555544432 23443 344445555444555555554 888888532 221222
Q ss_pred HHHHhcCCCCccEEeccC-CCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC-ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYA-TLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT-WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~-~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~-~g~~~~~~~~~~~ 159 (808)
.+ ..+...++|+|.... ..+. . . ....+... ..+..+++.+...|.++++++..... ... .-.+.|.+.
T Consensus 134 ~~-~~l~~~~iPvV~~~~~~~~~-~--~-~~V~~Dn~---~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~-~R~~Gf~~a 204 (331)
T PRK14987 134 TL-KMIEVAGIPVVELMDSQSPC-L--D-IAVGFDNF---EAARQMTTAIIARGHRHIAYLGARLDERTI-IKQKGYEQA 204 (331)
T ss_pred HH-HHHHhCCCCEEEEecCCCCC-C--C-ceEEeCcH---HHHHHHHHHHHHCCCceEEEEcCCCcccHH-HHHHHHHHH
Confidence 22 334567999997532 1122 1 1 13556666 66777888888889999999964332 122 335778889
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
++++|+.... ..... ......-...++++.+. .+++ |++++...|..+++++++.|+.-++-+-|+
T Consensus 205 l~~~g~~~~~-~~~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~nD~~A~g~~~al~~~g~~vP~disvi 272 (331)
T PRK14987 205 MLDAGLVPYS-VMVEQ-SSSYSSGIELIRQARREYPQLDG-VFCTNDDLAVGAAFECQRLGLKVPDDMAIA 272 (331)
T ss_pred HHHcCCCccc-eeecC-CCChhhHHHHHHHHHhcCCCCCE-EEECCcHHHHHHHHHHHHcCCCCCCccEEE
Confidence 9988863211 11111 11112222344444433 3555 445667778889999999998655544443
No 194
>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=96.75 E-value=0.28 Score=50.35 Aligned_cols=210 Identities=13% Similarity=0.085 Sum_probs=110.4
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
+||++.|... +.-.....+++-+.++.+-. ...+.... ....++..-.+....+. . ++.++|= +. .....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~----~~~~~~~~-~~~~~~~~~~~~i~~~~-~-~vdgiii~~~-~~~~~ 72 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA----RIRVRIHF-VESFDPAALAAALLRLG-A-RSDGVALVAP-DHPQV 72 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc----CceEEEEE-ccCCCHHHHHHHHHHHH-h-cCCEEEEeCC-CcHHH
Confidence 6899998643 33334555666665554321 12222222 22345554444444444 4 6777763 44 33322
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhc-C--CcEEEEEEecCCc--cccCcHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVF-K--WKHVILIYEDNTW--GSDNIIPY 155 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~-~--w~~v~ii~~d~~~--g~~~~~~~ 155 (808)
......+...++|+|......+. -. .+..+..... ..+..+++++... | -++++++..+... .. .-.+.
T Consensus 73 ~~~i~~~~~~~ipvV~~~~~~~~-~~-~~~~V~~d~~---~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~-~R~~g 146 (275)
T cd06307 73 RAAVARLAAAGVPVVTLVSDLPG-SP-RAGYVGIDNR---AAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHE-EREMG 146 (275)
T ss_pred HHHHHHHHHCCCcEEEEeCCCCC-Cc-eeeEEccChH---HHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchH-HHHHH
Confidence 23334444579999987643221 11 1222444555 5666667766543 5 4699998754322 22 34578
Q ss_pred HHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 047109 156 LFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVTA 230 (808)
Q Consensus 156 ~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~ 230 (808)
|.+.+++++..+........ ..+.++....++++.+ ..+++|+...+. +..+++.+++.|+. .+...++-+
T Consensus 147 f~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~-~di~Ivg~d 219 (275)
T cd06307 147 FRSVLREEFPGLRVLETLEG-LDDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA-GKVVFVGHE 219 (275)
T ss_pred HHHHHHhhCCCcEEEeeccC-CCChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC-CCcEEEEec
Confidence 88899887755433222221 1122333344555432 346676666543 46889999999973 344444333
No 195
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=96.74 E-value=0.11 Score=55.36 Aligned_cols=202 Identities=11% Similarity=0.084 Sum_probs=108.9
Q ss_pred EEEEEEec-CCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDM-RSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|. +.++-.....+++-+.++. + +.+ .+.++..++..-.+....+++. ++.++|-.. ......
T Consensus 61 ~Igvi~~~~~~~f~~~~~~gi~~~~~~~---g----~~~--~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~-~~~~~~ 129 (343)
T PRK10727 61 TVGLVVGDVSDPFFGAMVKAVEQVAYHT---G----NFL--LIGNGYHNEQKERQAIEQLIRH-RCAALVVHA-KMIPDA 129 (343)
T ss_pred eEEEEeCCCCcchHHHHHHHHHHHHHHc---C----CEE--EEEeCCCCHHHHHHHHHHHHhc-CCCEEEEec-CCCChH
Confidence 68999884 2333223334444443332 1 233 3445555665555555566655 788877532 211112
Q ss_pred HHHHhcCCCCcc-EEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCc--cccCcHHHHHH
Q 047109 82 ILAEIGSKAKIP-VISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTW--GSDNIIPYLFD 158 (808)
Q Consensus 82 ~~~~~~~~~~iP-~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~--g~~~~~~~~~~ 158 (808)
.+..+.. ++| +|......+. .. +-...+.+. ..+..+++.+...|.++++++...... .. .-.+.|.+
T Consensus 130 ~~~~~~~--~~p~vV~i~~~~~~-~~--~~~V~~Dn~---~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~-~R~~Gf~~ 200 (343)
T PRK10727 130 ELASLMK--QIPGMVLINRILPG-FE--NRCIALDDR---YGAWLATRHLIQQGHTRIGYLCSNHSISDAE-DRLQGYYD 200 (343)
T ss_pred HHHHHHh--cCCCEEEEecCCCC-CC--CCEEEECcH---HHHHHHHHHHHHCCCccEEEEeCCccccchH-HHHHHHHH
Confidence 2333333 577 6766543222 11 112455555 666777788877899999999754322 22 34578889
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSW 226 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~ 226 (808)
.+++.|+.+........ ..+...-...++++.+. .+++| ++.+...|..+++++++.|+..++-+-
T Consensus 201 al~~~gi~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai-~~~nD~~A~g~~~al~~~G~~vP~dis 268 (343)
T PRK10727 201 ALAESGIPANDRLVTFG-EPDESGGEQAMTELLGRGRNFTAV-ACYNDSMAAGAMGVLNDNGIDVPGEIS 268 (343)
T ss_pred HHHHCCCCCChhhEEeC-CCChhHHHHHHHHHHhCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCccee
Confidence 99998875432111111 11222222344444333 34554 455677788999999999985444333
No 196
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=96.72 E-value=0.075 Score=54.16 Aligned_cols=198 Identities=14% Similarity=0.011 Sum_probs=108.8
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||++.|... +.-.....+++-+.++. ++++.+...+ ++... ...+.+ .++.+||-.. +.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~~~~~---~~~~~---~~~l~~-~~vdgii~~~-~~~~~~ 65 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISKN-------GYNMNVSITP---SLAEA---EDLFKE-NRFDGVIIFG-ESASDV 65 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHHc-------CCEEEEEecc---cHHHH---HHHHHH-cCcCEEEEeC-CCCChH
Confidence 4899998643 33333445555554432 2344444332 33222 233444 3788777433 222222
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDS 159 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~ 159 (808)
.+ ..+...++|+|......+. .+-.+..++. ..+..+++.+...|-++++++..... ... .-.+.|.+.
T Consensus 66 ~~-~~~~~~~ipvV~~~~~~~~----~~~~V~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~gf~~~ 136 (261)
T cd06272 66 EY-LYKIKLAIPVVSYGVDYDL----KYPIVNVDNE---KAMELAVLYLAEKGHKKIAYIGDLSLDRRQR-KRFKGFLET 136 (261)
T ss_pred HH-HHHHHcCCCEEEEcccCCC----CCCEEEEChH---HHHHHHHHHHHHcCchhEEEeecccccccHH-HHHHHHHHH
Confidence 22 3344678999987653221 1122455666 77788888888889999999975443 222 345788889
Q ss_pred hhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCC--CeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 047109 160 LHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSE--TKVFVVHMSHALASHLFLNAKKLGMMSKGYSW 226 (808)
Q Consensus 160 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~ 226 (808)
+++.|+.+........ ..+.......+.++.+.. +++ |++++...+..+++.+++.|+..++-+-
T Consensus 137 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp~dv~ 203 (261)
T cd06272 137 CDENGISISDSHIDVD-GLSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIPEDIE 203 (261)
T ss_pred HHHcCCCCCHHHeeeC-CCCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCCCceE
Confidence 9888864322111111 112223334445544333 454 5556666788899999999985444433
No 197
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=96.56 E-value=0.47 Score=50.08 Aligned_cols=213 Identities=14% Similarity=0.136 Sum_probs=126.1
Q ss_pred eEEEEEEecCCc-chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-ecCCChhH
Q 047109 2 VHVGVILDMRSW-AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAII-CTEMTPTG 79 (808)
Q Consensus 2 i~IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aii-G~~~~s~~ 79 (808)
.+||++.+..+. +=..+..+++-+.+++.. ...+...|...++..-++...+++.+ ++.+|+ .|. ++..
T Consensus 34 ~~i~~~~~~~~~~f~~~~~~g~~~~a~~~g~-------~~~~~~~~~~~d~~~Q~~~i~~~ia~-~~daIiv~~~-d~~~ 104 (322)
T COG1879 34 KTIGVVVPTLGNPFFQAVRKGAEAAAKKLGV-------VVAVVIADAQNDVAKQIAQIEDLIAQ-GVDAIIINPV-DPDA 104 (322)
T ss_pred ceEEEEeccCCChHHHHHHHHHHHHHHHcCC-------cEEEEecccccChHHHHHHHHHHHHc-CCCEEEEcCC-Chhh
Confidence 368888887664 222344444444444332 45667778888999999999999866 887777 566 7778
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHH-hcCC-cEEEEEEecCCc--cccCcHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIR-VFKW-KHVILIYEDNTW--GSDNIIPY 155 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~-~~~w-~~v~ii~~d~~~--g~~~~~~~ 155 (808)
......-+...+||+|++.+..+. -......+..... ..++..++.+. +++- -+++++...... .. .-.+.
T Consensus 105 ~~~~v~~a~~aGIpVv~~d~~~~~-~~~~~~~vg~dn~---~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~-~R~~G 179 (322)
T COG1879 105 LTPAVKKAKAAGIPVVTVDSDIPG-PGDRVAYVGSDNY---KAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAE-ERVKG 179 (322)
T ss_pred hHHHHHHHHHCCCcEEEEecCCCC-CCceeEEEecCcH---HHHHHHHHHHHHHhCCCCeEEEEecCCCCchHH-HHHhh
Confidence 888888888899999999876555 2222222222334 45555566553 3332 346666544322 22 44678
Q ss_pred HHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH-HHHHHHHHHHHHcCCCCCCeEEEE-eCc
Q 047109 156 LFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH-ALASHLFLNAKKLGMMSKGYSWIV-TAS 231 (808)
Q Consensus 156 ~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~l~~a~~~gl~~~~~~~i~-~~~ 231 (808)
+++.+++.+..+........ ..+...-.+....+..+.+++-.+++.. ..+.-..+++++.|... .+.++ .+.
T Consensus 180 ~~~~l~~~~~~~~v~~~~~~-~~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~--~v~v~g~D~ 254 (322)
T COG1879 180 FRDALKEHPPDIEVVDVQTG-DWDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG--DVVVVGFDG 254 (322)
T ss_pred HHHHHHhCCCcEEEeeccCC-cccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC--ceEEEEecC
Confidence 88889888742222222222 2233344445566666667766665544 44555667777788633 44444 444
No 198
>PRK09492 treR trehalose repressor; Provisional
Probab=96.56 E-value=0.18 Score=52.98 Aligned_cols=188 Identities=14% Similarity=0.081 Sum_probs=108.0
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCCh-hHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTP-TGA 80 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s-~~~ 80 (808)
+||+++|.- .+.-.....++ .+++++.| +++ .+.++..++....+....+.+. +|.++|-.. .+ ...
T Consensus 64 ~Ig~i~~~~~~~~~~~~~~~i---~~~~~~~g----y~~--~~~~~~~~~~~~~~~~~~l~~~-~vdgiIi~~-~~~~~~ 132 (315)
T PRK09492 64 VVGIIVSRLDSLSENQAVRTM---LPAFYEQG----YDP--IIMESQFSPEKVNEHLGVLKRR-NVDGVILFG-FTGITE 132 (315)
T ss_pred eEEEEecCCcCcccHHHHHHH---HHHHHHcC----CeE--EEEecCCChHHHHHHHHHHHhc-CCCEEEEeC-CCcccH
Confidence 699999853 23222233333 34444432 343 4456666666555555555554 899888643 22 121
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEec-C--CccccCcHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYED-N--TWGSDNIIPYLF 157 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d-~--~~g~~~~~~~~~ 157 (808)
. .....++|++......+. +-...+++. ..+..+++.+...|.++++++... . ..+. .-.+.|.
T Consensus 133 ~----~l~~~~~pvv~i~~~~~~-----~~~V~~D~~---~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~-~R~~Gf~ 199 (315)
T PRK09492 133 E----MLAPWQDKLVLLARDAKG-----FSSVCYDDE---GAIKLLMQRLYDQGHRHISYLGVDHSDVTTGK-RRHQAYL 199 (315)
T ss_pred H----HHHhcCCCEEEEeccCCC-----CcEEEECcH---HHHHHHHHHHHHcCCCeEEEEcCCcccchhHH-HHHHHHH
Confidence 1 222345677766532222 223445555 666777788878899999999632 2 2233 4567889
Q ss_pred HhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 158 DSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 158 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
+.+++.|+.+... .-.. +...-...+.++.+..+++|+ +.+...|..+++++++.|+
T Consensus 200 ~al~~~g~~~~~~-~~~~---~~~~~~~~~~~~l~~~~~ai~-~~~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 200 AFCKQHKLTPVAA-LGGL---SMQSGYELVAKVLTPETTALV-CATDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHcCCCceee-cCCC---CchHHHHHHHHHhhcCCCEEE-EcCcHHHHHHHHHHHHcCC
Confidence 9999999875431 1111 212222344444445677665 5556778889999999997
No 199
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=96.55 E-value=0.25 Score=52.31 Aligned_cols=199 Identities=9% Similarity=0.069 Sum_probs=113.9
Q ss_pred eEEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCCh-hH
Q 047109 2 VHVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTP-TG 79 (808)
Q Consensus 2 i~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s-~~ 79 (808)
.+||++.|... ++-.....+++-+.++.| +. +.+.++..++..-.+....+++. ++.+||=.. .. ..
T Consensus 26 ~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g-------~~--l~i~~~~~~~~~~~~~i~~l~~~-~vDGiIi~~-~~~~~ 94 (330)
T PRK10355 26 VKIGMAIDDLRLERWQKDRDIFVKKAESLG-------AK--VFVQSANGNEETQMSQIENMINR-GVDVLVIIP-YNGQV 94 (330)
T ss_pred ceEEEEecCCCchHHHHHHHHHHHHHHHcC-------CE--EEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeC-CChhh
Confidence 57999998543 333344555555554432 33 34456666777666666677765 888887533 32 22
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecC---CccccCcHHHH
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDN---TWGSDNIIPYL 156 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~---~~g~~~~~~~~ 156 (808)
.......+...++|+|......+. .+....+.+++. ..++.+++.+...|.++++++.... ..+. .-.+.+
T Consensus 95 ~~~~l~~~~~~~iPvV~id~~~~~--~~~~~~V~~D~~---~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~-~R~~gf 168 (330)
T PRK10355 95 LSNVIKEAKQEGIKVLAYDRMINN--ADIDFYISFDNE---KVGELQAKALVDKVPQGNYFLMGGSPVDNNAK-LFRAGQ 168 (330)
T ss_pred HHHHHHHHHHCCCeEEEECCCCCC--CCccEEEecCHH---HHHHHHHHHHHHhcCCCCEEEEeCCCCCccHH-HHHHHH
Confidence 233334556778999998653221 112224667777 8888889988777888877655322 1222 335667
Q ss_pred HHhhhcC---C-cEEEEEEecCCCCCChHHHHHHHHHhc-C--CCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 047109 157 FDSLHDN---D-IDIARRITISMSSNTDDQVIEKLSMLK-S--SETKVFVVHMSHALASHLFLNAKKLGMM 220 (808)
Q Consensus 157 ~~~~~~~---g-~~i~~~~~~~~~~~~~~~~~~~l~~l~-~--~~~~viil~~~~~~~~~~l~~a~~~gl~ 220 (808)
++.++++ | +.+........ ....+-...++++. + ..+++ |++.+...|..+++.+++.|+.
T Consensus 169 ~~~l~~~~~~~~i~~~~~~~~~~--~~~~~~~~~~~~lL~~~~~~~~a-I~~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 169 MKVLKPYIDSGKIKVVGDQWVDG--WLPENALKIMENALTANNNKIDA-VVASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHhhhccCCCeEEecccCCCC--CCHHHHHHHHHHHHHhCCCCccE-EEECCCchHHHHHHHHHHCCCC
Confidence 7777653 4 44322211111 12223333444432 2 23554 5556677788899999999974
No 200
>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=96.48 E-value=0.17 Score=51.68 Aligned_cols=203 Identities=12% Similarity=0.056 Sum_probs=113.5
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
+||+++|.+.+.-.....+++-+.++. + ++++.+ .+. +. .+....+. ..+|.++|-.. .+...
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~---g~~~~~--~~~--~~---~~~~~~l~-~~~vdGiI~~~-~~~~~-- 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---G---PWSIYL--EPR--GL---QEPLRWLK-DWQGDGIIARI-DDPEM-- 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---C---CeEEEE--ecc--cc---hhhhhhcc-ccccceEEEEC-CCHHH--
Confidence 589999966554445555665555543 2 234333 222 11 23333344 44888888644 33222
Q ss_pred HHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhc
Q 047109 83 LAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHD 162 (808)
Q Consensus 83 ~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~ 162 (808)
+ ..+...++|+|......+. ..+-++...+. ..+..+++.+...|.++++++..........-.+.|++++++
T Consensus 64 ~-~~l~~~~~PvV~~~~~~~~---~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~ 136 (265)
T cd01543 64 A-EALQKLGIPVVDVSGSREK---PGIPRVTTDNA---AIGRMAAEHFLERGFRHFAFYGLPGARWSDEREEAFRQLVAE 136 (265)
T ss_pred H-HHHhhCCCCEEEEeCccCC---CCCCEEeeCHH---HHHHHHHHHHHHCCCcEEEEEcCCCCHHHHHHHHHHHHHHHH
Confidence 2 3345569999998653222 12345667777 777888888888899999998754431111335788889999
Q ss_pred CCcEEEEEEecCCC-CCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 047109 163 NDIDIARRITISMS-SNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKG-YSWIVTA 230 (808)
Q Consensus 163 ~g~~i~~~~~~~~~-~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~-~~~i~~~ 230 (808)
.|..+......... ..+..+....+.++.++ .+++ |++++...+..+++.+++.|+.-++ ...++-+
T Consensus 137 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 137 AGYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVG-IFACTDARARQLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred cCCccccccCccccccccHHHHHHHHHHHHhcCCCCcE-EEecChHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 88765211111110 00112223344444322 3454 5555677788899999999975333 3344433
No 201
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.32 E-value=0.31 Score=51.10 Aligned_cols=207 Identities=12% Similarity=0.032 Sum_probs=112.6
Q ss_pred eEEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 2 VHVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 2 i~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
-+||++.|... +.-.....+++-+.++.+ +++. +.+...+...-.+....+... ++.+||=-. +....
T Consensus 36 ~~ig~v~~~~~~~~~~~~~~gi~~~~~~~g-------~~~~--~~~~~~~~~~~~~~i~~l~~~-~vDgiIi~~-~~~~~ 104 (309)
T PRK11041 36 RTILVIVPDICDPFFSEIIRGIEVTAAEHG-------YLVL--IGDCAHQNQQEKTFVNLIITK-QIDGMLLLG-SRLPF 104 (309)
T ss_pred cEEEEEeCCCcCccHHHHHHHHHHHHHHCC-------CEEE--EEeCCCChHHHHHHHHHHHHc-CCCEEEEec-CCCCh
Confidence 36999998533 333344555555555432 3333 334444555555555566654 788887432 21111
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCc--cccCcHHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTW--GSDNIIPYLFD 158 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~--g~~~~~~~~~~ 158 (808)
..... ......|++......+. . .+.....+.. ..+..+++.+...|.++++++...... .. .-.+.|++
T Consensus 105 ~~~~~-~~~~~~pvv~~~~~~~~-~--~~~~V~~Dn~---~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~-~R~~Gf~~ 176 (309)
T PRK11041 105 DASKE-EQRNLPPMVMANEFAPE-L--ELPTVHIDNL---TAAFEAVNYLHELGHKRIACIAGPEEMPLCH-YRLQGYVQ 176 (309)
T ss_pred HHHHH-HHhcCCCEEEEccccCC-C--CCCEEEECcH---HHHHHHHHHHHHcCCceEEEEeCCccccchH-HHHHHHHH
Confidence 11111 12223467765543222 1 1222445666 677778888877899999999754332 22 34678888
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWIVT 229 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 229 (808)
.+++.|+.+.....+.. ..........+.++.+. .+++|+ +++...+..++++.++.|+..++-+.|++
T Consensus 177 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~gv~~al~~~g~~ip~di~vvg 247 (309)
T PRK11041 177 ALRRCGITVDPQYIARG-DFTFEAGAKALKQLLDLPQPPTAVF-CHSDVMALGALSQAKRMGLRVPQDLSIIG 247 (309)
T ss_pred HHHHcCCCCCHHHeEeC-CCCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 99888876532111111 11222333455555433 356655 45666677899999999975444444443
No 202
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=96.22 E-value=0.2 Score=50.90 Aligned_cols=198 Identities=10% Similarity=-0.089 Sum_probs=103.9
Q ss_pred EEEEEEecCCcch-hhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRSWAG-KISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~~~g-~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
|||+++| |+.+ ........-+++++.++. + +++.+.+...++....+..++++++ ++..||+.. .....
T Consensus 1 kva~l~~--g~~~D~~~n~~~~~G~~~~~~~~---g--v~~~~~e~~~~~~~~~~~i~~~~~~-g~dlIi~~g--~~~~~ 70 (258)
T cd06353 1 KVAFVYV--GPIGDQGWNYAHDEGRKAAEKAL---G--VEVTYVENVPEGADAERVLRELAAQ-GYDLIFGTS--FGFMD 70 (258)
T ss_pred CEEEEEe--CCCCccchhHHHHHHHHHHHHhc---C--CeEEEEecCCchHhHHHHHHHHHHc-CCCEEEECc--hhhhH
Confidence 6899997 3331 112233344445554432 2 2344445554777788888888876 899999853 34444
Q ss_pred HHHHhcCCC-CccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhh
Q 047109 82 ILAEIGSKA-KIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSL 160 (808)
Q Consensus 82 ~~~~~~~~~-~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~ 160 (808)
++..++..+ ++.++...... . -. ++........|+..++-.++.++.. -.+|++|..............|.+.+
T Consensus 71 ~~~~vA~~~p~~~F~~~d~~~-~-~~-Nv~~~~~~~~e~~ylaG~~Aa~~t~--t~kVG~I~g~~~~~~~~~~~gF~~G~ 145 (258)
T cd06353 71 AALKVAKEYPDVKFEHCSGYK-T-AP-NVGSYFARIYEGRYLAGVVAGKMTK--TNKVGYVAAFPIPEVVRGINAFALGA 145 (258)
T ss_pred HHHHHHHHCCCCEEEECCCCC-C-CC-CeeeEechhhHHHHHHHHHHHHhhc--CCcEEEEcCcccHHHHHHHHHHHHHH
Confidence 445555433 45444433211 1 11 2222222222122444444544443 35899997654322114456677766
Q ss_pred hcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 047109 161 HDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLG 218 (808)
Q Consensus 161 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~g 218 (808)
+..+-++.....+..+..+...-....+.+.+.++|+|+..+.. ...++++++.|
T Consensus 146 ~~~~p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~~~---~g~~~aa~~~g 200 (258)
T cd06353 146 RSVNPDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHTDS---PGVIQAAEEKG 200 (258)
T ss_pred HHHCCCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecCCC---hHHHHHHHHhC
Confidence 65443333322222101122233455566667899988888732 45778888876
No 203
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.12 E-value=0.54 Score=50.26 Aligned_cols=202 Identities=10% Similarity=0.021 Sum_probs=108.6
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.||+++|... +.-.....+++-+.++.+ +.+ .+.++..++..-.+....+.+. ++.+||-.. ......
T Consensus 61 ~Igvi~~~~~~~f~~~l~~gi~~~~~~~g-------y~~--~~~~~~~~~~~~~~~i~~l~~~-~vdGiIi~~-~~~~~~ 129 (346)
T PRK10401 61 TIGVVVMDVSDAFFGALVKAVDLVAQQHQ-------KYV--LIGNSYHEAEKERHAIEVLIRQ-RCNALIVHS-KALSDD 129 (346)
T ss_pred EEEEEeCCCCCccHHHHHHHHHHHHHHCC-------CEE--EEEcCCCChHHHHHHHHHHHhc-CCCEEEEeC-CCCChH
Confidence 5899998533 322234444444444322 233 3445555555544555555554 788877432 111112
Q ss_pred HHHHhcCCCCcc-EEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC--ccccCcHHHHHH
Q 047109 82 ILAEIGSKAKIP-VISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFD 158 (808)
Q Consensus 82 ~~~~~~~~~~iP-~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~ 158 (808)
.+..+.. ++| ++......+. . .+-.....+. ..+..+++.+...|.++++++..... .+. .-.+.|.+
T Consensus 130 ~~~~~~~--~~p~vV~i~~~~~~-~--~~~~V~~D~~---~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~-~R~~Gf~~ 200 (346)
T PRK10401 130 ELAQFMD--QIPGMVLINRVVPG-Y--AHRCVCLDNV---SGARMATRMLLNNGHQRIGYLSSSHGIEDDA-MRRAGWMS 200 (346)
T ss_pred HHHHHHh--cCCCEEEEecccCC-C--CCCEEEECcH---HHHHHHHHHHHHCCCCeEEEEeCCCcCcchH-HHHHHHHH
Confidence 2333333 355 6765543222 1 1112444555 55667778888889999999975432 233 44688899
Q ss_pred hhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 047109 159 SLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS--SETKVFVVHMSHALASHLFLNAKKLGMMSKGYSW 226 (808)
Q Consensus 159 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~ 226 (808)
.++++|+.+........ ....+.-...+.++.+ ..+++|+ +.+...+..+++++++.|+..++-+-
T Consensus 201 al~~~gi~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~al~~~G~~vP~dis 268 (346)
T PRK10401 201 ALKEQGIIPPESWIGTG-TPDMQGGEAAMVELLGRNLQLTAVF-AYNDNMAAGALTALKDNGIAIPLHLS 268 (346)
T ss_pred HHHHcCCCCChhheecC-CCChHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCceE
Confidence 99999875432111111 1122222234444433 2456544 56677788999999999986544433
No 204
>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=96.06 E-value=0.98 Score=47.12 Aligned_cols=198 Identities=10% Similarity=0.083 Sum_probs=100.7
Q ss_pred EEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEE-ecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 4 VGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHS-RDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 4 IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~-~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
||++.|... +.=.....+++-+.++.+ . ..+++ .++..++..-.+....+++. ++.+||= |. .+...
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~g-------~-~~~i~~~~~~~d~~~q~~~i~~l~~~-~vdgiIi~~~-~~~~~ 70 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKELG-------S-VYIIYTGPTGTTAEGQIEVVNSLIAQ-KVDAIAISAN-DPDAL 70 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHhC-------C-eeEEEECCCCCCHHHHHHHHHHHHHc-CCCEEEEeCC-ChHHH
Confidence 678887533 222234455555555443 1 11222 23456777777777777766 7887664 44 44333
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHH-Hhc-CCcEEEEEEecCCccc-cCcHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLI-RVF-KWKHVILIYEDNTWGS-DNIIPYLF 157 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll-~~~-~w~~v~ii~~d~~~g~-~~~~~~~~ 157 (808)
.....-+...+||+|......+. ..........|.. ..++..++.+ ++. +-.+++++..+..... ....+.++
T Consensus 71 ~~~l~~~~~~giPvV~~~~~~~~--~~~~~~v~~~Dn~--~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~ 146 (302)
T TIGR02637 71 VPALKKAMKRGIKVVTWDSGVAP--EGRNLFLNQASAD--LIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMK 146 (302)
T ss_pred HHHHHHHHHCCCEEEEeCCCCCC--CceeEEEecCCHH--HHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHH
Confidence 33444456679999997654322 1122333333330 3344444444 332 2269999975432111 02346677
Q ss_pred HhhhcCC---cEEEEEEecCCCCCChHHHHHHHHHhcCCC--CeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 158 DSLHDND---IDIARRITISMSSNTDDQVIEKLSMLKSSE--TKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 158 ~~~~~~g---~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
+.++++| .++... ... ....+.-...++++.+.. +++|+. .....+...++++++.|+
T Consensus 147 ~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~L~~~~~~~ai~~-~~d~~a~ga~~al~~~g~ 209 (302)
T TIGR02637 147 KELKDPKYPKVKLVAT--VYG-DDDAQKSYQEAQGLLKSYPNLKGIIA-PTTVGIKAAAQAVSDAKL 209 (302)
T ss_pred HHHhhccCCCCEEEee--ecC-CchHHHHHHHHHHHHHhCCCccEEEe-CCCchHHHHHHHHHhcCC
Confidence 7776653 343322 111 112233334444444333 444443 345667778888888886
No 205
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=95.95 E-value=1.2 Score=47.30 Aligned_cols=202 Identities=16% Similarity=0.150 Sum_probs=105.7
Q ss_pred eEEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhH
Q 047109 2 VHVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTG 79 (808)
Q Consensus 2 i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~ 79 (808)
.+||++.|.. .+.=.....+++-+.++. ++ ..+++.++..++....+....++.. +|.+||= +. .+..
T Consensus 25 ~~Igvv~~~~~~~f~~~~~~gi~~~a~~~---g~-----~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~-~~~~ 94 (330)
T PRK15395 25 TRIGVTIYKYDDNFMSVVRKAIEKDAKAA---PD-----VQLLMNDSQNDQSKQNDQIDVLLAK-GVKALAINLV-DPAA 94 (330)
T ss_pred ceEEEEEecCcchHHHHHHHHHHHHHHhc---CC-----eEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEecc-CHHH
Confidence 4799999843 333223444554444443 21 2344456666666666666666654 7888775 33 3222
Q ss_pred HHHHHHhcCCCCccEEeccCCCCc-cccc--ceeeeccCCchhhHHHHHHHHHHHh------------cCCcEEEEEEec
Q 047109 80 AHILAEIGSKAKIPVISLYATLPS-SLTS--YSIQIDQDDEASQSQAKGIADLIRV------------FKWKHVILIYED 144 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~-~ls~--~~~r~~p~~~~~~~~~~a~~~ll~~------------~~w~~v~ii~~d 144 (808)
.......+...+||+|......+. .+.+ ....+..+.. ..++.+++.+.. .|-.+++++...
T Consensus 95 ~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~---~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~ 171 (330)
T PRK15395 95 APTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSK---ESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGE 171 (330)
T ss_pred HHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChH---HHHHHHHHHHHHHHhhccccccCCCCceEEEEEecC
Confidence 233334455679999998764221 0111 1223455555 555555554432 133344555433
Q ss_pred CC--ccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC----CCeEEEEEcCHHHHHHHHHHHHHcC
Q 047109 145 NT--WGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS----ETKVFVVHMSHALASHLFLNAKKLG 218 (808)
Q Consensus 145 ~~--~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~----~~~viil~~~~~~~~~~l~~a~~~g 218 (808)
.. ... .-.+.+++.++++|+.+.... ......+.+.-...++++.++ .+++ |++++...+..+++++++.|
T Consensus 172 ~~~~~~~-~R~~G~~~al~~~g~~~~~~~-~~~~~~~~~~a~~~~~~~l~~~~~~~~~a-i~~~~d~~A~gvl~al~~~G 248 (330)
T PRK15395 172 PGHPDAE-ARTTYVIKELNDKGIKTEQLQ-LDTAMWDTAQAKDKMDAWLSGPNANKIEV-VIANNDAMAMGAVEALKAHN 248 (330)
T ss_pred CCCchHH-HHHHHHHHHHHhcCCCeeeee-cccCCcCHHHHHHHHHHHHhhCcCCCeeE-EEECCchHHHHHHHHHHhcC
Confidence 22 122 235778888888887654321 211011222333344444332 2444 44556677888999999999
Q ss_pred C
Q 047109 219 M 219 (808)
Q Consensus 219 l 219 (808)
+
T Consensus 249 l 249 (330)
T PRK15395 249 K 249 (330)
T ss_pred C
Confidence 7
No 206
>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=95.83 E-value=0.76 Score=48.01 Aligned_cols=167 Identities=12% Similarity=0.098 Sum_probs=95.4
Q ss_pred EEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhh
Q 047109 42 LHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQ 120 (808)
Q Consensus 42 ~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~ 120 (808)
+.+.++..++..-.+....+++. +|.+||= +. .+.........+...+||+|......+. .. ....+..+..
T Consensus 31 v~~~~~~~~~~~q~~~i~~l~~~-~vDgIIi~~~-~~~~~~~~l~~~~~~~iPvV~~d~~~~~-~~-~~~~V~~d~~--- 103 (302)
T TIGR02634 31 VFVQSANGNEAKQISQIENLIAR-GVDVLVIIPQ-NGQVLSNAVQEAKDEGIKVVAYDRLIND-AD-IDFYLSFDNE--- 103 (302)
T ss_pred EEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEeCC-ChhHHHHHHHHHHHCCCeEEEecCcCCC-CC-ccEEEecCHH---
Confidence 34556777777666777777766 7887774 33 3332334444456679999998654332 11 1223455656
Q ss_pred HHHHHHHHHHHhcCCc-EEEEEEecCCc--cccCcHHHHHHhhhcC----CcEEEEEEecCCCCCChHHHHHHHHHhcC-
Q 047109 121 SQAKGIADLIRVFKWK-HVILIYEDNTW--GSDNIIPYLFDSLHDN----DIDIARRITISMSSNTDDQVIEKLSMLKS- 192 (808)
Q Consensus 121 ~~~~a~~~ll~~~~w~-~v~ii~~d~~~--g~~~~~~~~~~~~~~~----g~~i~~~~~~~~~~~~~~~~~~~l~~l~~- 192 (808)
..++.+++.+...+-+ +++++..+... .. .-.+.+++.+++. ++.+.... ... .....+....++++..
T Consensus 104 ~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~-~R~~g~~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~~~~~~~~ll~~ 180 (302)
T TIGR02634 104 KVGEMQARAVLEAAPKGNYFLMGGSPTDNNAK-LLRGGQMKVLQPAIDSGDIKIVGDQ-WVD-GWLPENALRIMENALTA 180 (302)
T ss_pred HHHHHHHHHHHhhCCCCCEEEEeCCCCCcchH-HHHHHHHHHHhhhccCCCeEEecCc-CCC-CCCHHHHHHHHHHHHHh
Confidence 7778888888666655 78887643221 22 2245666667653 35543221 111 1123334455555432
Q ss_pred --CCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 193 --SETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 193 --~~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
..+++ |++++...+..+++++++.|+
T Consensus 181 ~~~~~~a-I~~~~D~~A~g~~~al~~~g~ 208 (302)
T TIGR02634 181 NDNKVDA-VVASNDATAGGAIQALTAQGL 208 (302)
T ss_pred CCCCccE-EEECCCchHHHHHHHHHHCCC
Confidence 23565 444555667788999999997
No 207
>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=95.82 E-value=0.8 Score=48.04 Aligned_cols=188 Identities=13% Similarity=0.030 Sum_probs=105.2
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCCh-hHH
Q 047109 3 HVGVILDMR-SWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTP-TGA 80 (808)
Q Consensus 3 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s-~~~ 80 (808)
.||+++|.- .+.-.....+++- ...+. ++.+ .+.++..++....+....+.+ .++.++|--. .. ...
T Consensus 61 ~Ig~i~~~~~~~~~~~~~~~i~~---~~~~~----gy~~--~i~~~~~~~~~~~~~~~~l~~-~~vdGvIi~~-~~~~~~ 129 (311)
T TIGR02405 61 VVAVIVSRLDSPSENLAVSGMLP---VFYTA----GYDP--IIMESQFSPQLTNEHLSVLQK-RNVDGVILFG-FTGCDE 129 (311)
T ss_pred EEEEEeCCcccccHHHHHHHHHH---HHHHC----CCeE--EEecCCCChHHHHHHHHHHHh-cCCCEEEEeC-CCCCCH
Confidence 589999852 2221122233333 33332 2343 344555566544444444444 4788877422 21 111
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEec-CC--ccccCcHHHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYED-NT--WGSDNIIPYLF 157 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d-~~--~g~~~~~~~~~ 157 (808)
. .....++|++......+. +-.+.+++. ..+..+++.+...|.++++++..+ .. .+. .-.+.|.
T Consensus 130 ~----~l~~~~~p~V~i~~~~~~-----~~~V~~D~~---~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~-~R~~gf~ 196 (311)
T TIGR02405 130 E----ILESWNHKAVVIARDTGG-----FSSVCYDDY---GAIELLMANLYQQGHRHISFLGVDPSDKTTGL-MRHNAYL 196 (311)
T ss_pred H----HHHhcCCCEEEEecCCCC-----ccEEEeCcH---HHHHHHHHHHHHcCCCcEEEEccCcccchhHH-HHHHHHH
Confidence 1 223456788877643222 123455666 667778888888899999999632 22 233 4567899
Q ss_pred HhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 158 DSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 158 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
+.+++.|+..... .... +.+.....+.++.+.++++| ++++...|..+++.+.+.|+
T Consensus 197 ~a~~~~gi~~~~~-~~~~---~~~~~~~~~~~~l~~~~tAi-~~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 197 AYCESANLEPIYQ-TGQL---SHESGYVLTDKVLKPETTAL-VCATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHcCCCceee-eCCC---CHHHHHHHHHHHHhcCCCEE-EECCcHHHHHHHHHHHHcCC
Confidence 9999999863211 1111 22222334444433456655 57777788899999999996
No 208
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=95.80 E-value=0.095 Score=52.81 Aligned_cols=117 Identities=12% Similarity=0.083 Sum_probs=70.1
Q ss_pred eehhhhhccCCceeeecCCcHH------Hhh-hccCCCc---ccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHH
Q 047109 629 TVQQIKLASRDNIGSQLGSFVP------GAL-SNLNFKD---SRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAF 698 (808)
Q Consensus 629 t~~~~~~~~~~~i~~~~~s~~~------~~l-~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~ 698 (808)
+++++ +++++++...+... ..| ++.+... .+.+...+....++.|.+|+ +|+.+......+.+
T Consensus 99 ~l~dL---~Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~G~----~Da~~~~~~~~~~~ 171 (243)
T PF12974_consen 99 SLADL---KGKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLNGK----ADAAAIPSDAFERL 171 (243)
T ss_dssp SHHHH---GGSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHTTS----SSEEEEEHHHHHHH
T ss_pred Chhhc---CCCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHcCC----ccEEEEechhHHHH
Confidence 34555 89999986544222 223 3434331 12334557788999998888 99999888777766
Q ss_pred HhcC---CCceEEeccccccccceEEEEeCCCC--ChHHHHHHHHhhhhcCchHHHHHHh
Q 047109 699 LAKY---STDYTMIAPNYTTTSGFGFVFQKGSP--LVHDISRAIAKLREEGTLRKIEIEW 753 (808)
Q Consensus 699 ~~~~---~~~l~~~~~~~~~~~~~~~~~~k~sp--~~~~~~~~i~~l~e~G~~~~~~~~~ 753 (808)
.... ..+++++...-. .....++.+++-| .++++..++..+..+-.-..+.+.+
T Consensus 172 ~~~~~~~~~~~rvl~~s~~-~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 172 EAEGPDIPSQLRVLWTSPP-YPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp HHH-HHHHTTEEEEEEEEE-EE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred HHccCcccccEEEEEEeCC-CCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 6542 346777754322 2334567777755 8999999999999753334444443
No 209
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=95.70 E-value=1.5 Score=46.41 Aligned_cols=198 Identities=10% Similarity=0.080 Sum_probs=105.3
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhHH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTGA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~~ 80 (808)
+||++....+ ++=.....|++-|.++.+ +++.+. ..+..++..-++...+++++ +|.+|+- |. ++...
T Consensus 25 ~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G-------~~v~~~-~~~~~d~~~q~~~i~~li~~-~vdgIiv~~~-d~~al 94 (336)
T PRK15408 25 RIAFIPKLVGVGFFTSGGNGAKEAGKELG-------VDVTYD-GPTEPSVSGQVQLINNFVNQ-GYNAIIVSAV-SPDGL 94 (336)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHhC-------CEEEEE-CCCCCCHHHHHHHHHHHHHc-CCCEEEEecC-CHHHH
Confidence 6787776544 332344556655555432 355432 23445666666777778876 8888875 44 44434
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccccceeeecc-CCchhhHHHHHHHHHHHh-c--CCcEEEEEEecCCccc-cCcHHH
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQ-DDEASQSQAKGIADLIRV-F--KWKHVILIYEDNTWGS-DNIIPY 155 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p-~~~~~~~~~~a~~~ll~~-~--~w~~v~ii~~d~~~g~-~~~~~~ 155 (808)
.....-+...+||+|++.+..+. .+..+-+.. ++. ..+..+++.+.+ . +-.+++++........ ....+.
T Consensus 95 ~~~l~~a~~~gIpVV~~d~~~~~--~~~~~~V~~~~~~---~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 95 CPALKRAMQRGVKVLTWDSDTKP--ECRSYYINQGTPE---QLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCC--ccceEEEecCCHH---HHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 45555566779999998764322 111111122 223 456666666543 2 3468988875332111 023356
Q ss_pred HHHhhhcC--CcEEEEEEecCCCCCChHHHHHHHHHhcCCCC--eEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 156 LFDSLHDN--DIDIARRITISMSSNTDDQVIEKLSMLKSSET--KVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 156 ~~~~~~~~--g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~--~viil~~~~~~~~~~l~~a~~~gl 219 (808)
+.+.+.+. +++++... ... .+...-....+++.++.+ +.|+.. +...+...++++++.|+
T Consensus 170 ~~~~l~~~~p~~~vv~~~-~~~--~d~~~a~~~~~~lL~~~pdi~aI~~~-~~~~~~Ga~~Al~~~g~ 233 (336)
T PRK15408 170 AKAKIAKEHPGWEIVTTQ-FGY--NDATKSLQTAEGILKAYPDLDAIIAP-DANALPAAAQAAENLKR 233 (336)
T ss_pred HHHHHHhhCCCCEEEeec-CCC--CcHHHHHHHHHHHHHHCCCCcEEEEC-CCccHHHHHHHHHhCCC
Confidence 66666443 56665432 111 122333334555544444 444433 33334467888888886
No 210
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=95.56 E-value=0.13 Score=54.18 Aligned_cols=66 Identities=23% Similarity=0.267 Sum_probs=42.5
Q ss_pred eehhhhhccCCceeeecCCcHHHhh----hccCCCcccc-cccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhc
Q 047109 629 TVQQIKLASRDNIGSQLGSFVPGAL----SNLNFKDSRL-KKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAK 701 (808)
Q Consensus 629 t~~~~~~~~~~~i~~~~~s~~~~~l----~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~ 701 (808)
+++++ .++++++..+++.+..+ ++.+.....+ ..+.+..+..+++.+|+ +|+++....+......+
T Consensus 123 s~~dL---~Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~~~~~~~al~~G~----vDa~~~~ep~~~~~~~~ 193 (314)
T PRK11553 123 TVADL---KGHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLTPADARAAFQQGN----VDAWAIWDPYYSAALLQ 193 (314)
T ss_pred CHHHh---CCCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecChHHHHHHHHcCC----CCEEEEcCcHHHHHHhc
Confidence 34555 78899988887766655 3333322222 23446677889998888 99998876665554443
No 211
>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=95.30 E-value=0.12 Score=54.11 Aligned_cols=65 Identities=14% Similarity=0.141 Sum_probs=40.9
Q ss_pred eehhhhhccCCceeeecCCcHHHh----hhccCCCcccccc-cCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHh
Q 047109 629 TVQQIKLASRDNIGSQLGSFVPGA----LSNLNFKDSRLKK-YNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLA 700 (808)
Q Consensus 629 t~~~~~~~~~~~i~~~~~s~~~~~----l~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~ 700 (808)
+++++ ++++|++..++..+.. +++.+.....+.. .-...+...++.+|+ +|+.+..........+
T Consensus 94 s~~DL---kGK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~G~----vDa~~~~~p~~~~~~~ 163 (300)
T TIGR01729 94 KPEDL---KGKNVAVPFVSTTHYSLLAALKHWKTDPREVNILNLKPPQIVAAWQRGD----IDAAYVWPPALSELLK 163 (300)
T ss_pred ChhHc---CCCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEecCcHHHHHHHHcCC----cCEEEEecHHHHHHHh
Confidence 34455 8999999877665543 3333333222222 224567888998888 9999888776654444
No 212
>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=95.30 E-value=0.74 Score=47.11 Aligned_cols=197 Identities=10% Similarity=-0.025 Sum_probs=104.5
Q ss_pred EEEEEEecCCc--chhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEe-cCCChhH
Q 047109 3 HVGVILDMRSW--AGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIIC-TEMTPTG 79 (808)
Q Consensus 3 ~IG~i~~~~~~--~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG-~~~~s~~ 79 (808)
|||++.+.+.. .+......+..++++.-++. ++.+.+.. +..+.. ... +++.++|- +. .+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~---g~~~~~~~--~~~~~~--------~~~-~~vdgii~~~~-~~~- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQEL---GIELTKFF--RDDDLL--------EIL-EDVDGIIAIGK-FSQ- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHc---CCEEEEEe--ccchhH--------Hhc-cCcCEEEEecC-CCH-
Confidence 68999994421 12223334444444444433 23444432 222211 122 36776663 33 222
Q ss_pred HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCC-------ccccCc
Q 047109 80 AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNT-------WGSDNI 152 (808)
Q Consensus 80 ~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~-------~g~~~~ 152 (808)
..+ ..+...++|+|......+. . .+-.+..++. ..+..+++.+...|.++++++..... ... .-
T Consensus 65 -~~~-~~~~~~~~pvV~~~~~~~~-~--~~~~v~~D~~---~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~-~R 135 (270)
T cd01544 65 -EQL-AKLAKLNPNLVFVDSNPAP-D--GFDSVVPDFE---QAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIED-PR 135 (270)
T ss_pred -HHH-HHHHhhCCCEEEECCCCCC-C--CCCEEEECHH---HHHHHHHHHHHHcCCCcEEEECCCcccccccchhhh-HH
Confidence 222 3344568999997653221 1 2223556666 77777888888889999999986542 122 33
Q ss_pred HHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhc-CC---CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEE
Q 047109 153 IPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLK-SS---ETKVFVVHMSHALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 153 ~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~-~~---~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
.+.|.+.+.+.|.. .....+.. ..+..+....++++. +. .+++ |++++...+..+++.+++.|+..++-+.|
T Consensus 136 ~~gf~~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~v 211 (270)
T cd01544 136 ETAFREYMKEKGLY-DPELIYIG-DFTVESGYQLMKEALKSLGDNLPTA-FFIASDPMAIGALRALQEAGIKVPEDVSV 211 (270)
T ss_pred HHHHHHHHHHcCCC-ChheEeeC-CCCHHHHHHHHHHHHhccCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 67788888888741 11111111 112222233344433 22 2454 45566777889999999999854443333
No 213
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=94.90 E-value=2.5 Score=43.51 Aligned_cols=201 Identities=10% Similarity=0.020 Sum_probs=101.8
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh-HH
Q 047109 3 HVGVILDMRS-WAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT-GA 80 (808)
Q Consensus 3 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~-~~ 80 (808)
+||++.|... +.-.....+++-+.++.+ ++ +.+.++..++..-.+....+++. +|.+||=...... ..
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~g-------y~--~~~~~~~~~~~~~~~~i~~l~~~-~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAIG-------WN--LRILDGRGSEAGQAAALNQAIAL-KPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHcC-------cE--EEEECCCCCHHHHHHHHHHHHHc-CCCEEEEcCCCHHHHH
Confidence 5899998533 222223344444433322 33 34445656776655666666655 8888775430222 12
Q ss_pred HHHHHhcCCCCccEEeccCCCCcccc-c--ceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCccc----cC
Q 047109 81 HILAEIGSKAKIPVISLYATLPSSLT-S--YSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTWGS----DN 151 (808)
Q Consensus 81 ~~~~~~~~~~~iP~is~~~~~~~~ls-~--~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~g~----~~ 151 (808)
..+.. +...++|+|......+..-. + .+-.+...+. ..++.+++.|... |-++++++.... ... ..
T Consensus 72 ~~~~~-~~~~~iPvV~~d~~~~~~~~~~~~~~~~v~~D~~---~~~~~~~~~L~~~~~G~~~i~~i~~~~-~~~~~~r~~ 146 (280)
T cd06315 72 AELEL-AQKAGIPVVGWHAGPEPGPIEEPGIFYNVTTDPL---AVAEVAALYAIANSGGKAGVVIFTDSR-FSIAKAKAN 146 (280)
T ss_pred HHHHH-HHHCCCCEEEecCCCCCCcccCCceeEEecCCHH---HHHHHHHHHHHHHcCCCceEEEEeCCC-CccHHHHHH
Confidence 23333 44579999998653211010 0 1333455555 6667788877655 889999986432 211 01
Q ss_pred cHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC---CCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 047109 152 IIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS---ETKVFVVHMSHALASHLFLNAKKLGMMSK 222 (808)
Q Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~l~~a~~~gl~~~ 222 (808)
..+.+.+.+++.++ ........ ..........++++.++ .++ .|++++...+..+++.+++.|+..+
T Consensus 147 ~~~~~~~a~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~-ai~~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 147 AMKEIIEACKGCTV--LSIEDVPI-SRTATRMPALTARLLQRYGDKWT-HSLAINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHHHHHhCCCCEE--EEecccCc-chhhhhhHHHHHHHHHhcCcccc-eecccchhhhHHhHHHHHHhcccCC
Confidence 22333333333333 11111111 10111111233333322 245 4566667778889999999998544
No 214
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=94.72 E-value=0.48 Score=47.00 Aligned_cols=91 Identities=7% Similarity=0.086 Sum_probs=71.4
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCC------CCChHHHHHHHHHhcCCCCe
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMS------SNTDDQVIEKLSMLKSSETK 196 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~------~~~~~~~~~~l~~l~~~~~~ 196 (808)
+.++.+.++++|-++++++.+ |-. +..+.+.+.+++.|+.|+....+... ..+.+.+...+.++...++|
T Consensus 108 ~~A~~~AL~alg~~RIalvTP---Y~~-~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aD 183 (239)
T TIGR02990 108 SSAAVDGLAALGVRRISLLTP---YTP-ETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDAD 183 (239)
T ss_pred HHHHHHHHHHcCCCEEEEECC---CcH-HHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCC
Confidence 568889999999999999975 555 78899999999999999876444321 11345666667777678999
Q ss_pred EEEEEcCHHHHHHHHHHHHHc
Q 047109 197 VFVVHMSHALASHLFLNAKKL 217 (808)
Q Consensus 197 viil~~~~~~~~~~l~~a~~~ 217 (808)
+|++.|..-....++.++.+.
T Consensus 184 AifisCTnLrt~~vi~~lE~~ 204 (239)
T TIGR02990 184 ALFLSCTALRAATCAQRIEQA 204 (239)
T ss_pred EEEEeCCCchhHHHHHHHHHH
Confidence 999999998888888888653
No 215
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=93.42 E-value=0.15 Score=49.43 Aligned_cols=172 Identities=12% Similarity=0.130 Sum_probs=94.1
Q ss_pred ceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceee-------eccccceeeccc
Q 047109 442 LIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTI-------TANRSLYVDFTL 514 (808)
Q Consensus 442 ~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~-------t~~r~~~~dfs~ 514 (808)
.+++|+.--|.+.+.+ .++.+.+.+..- -..-++.|.+|++|+++.+-.- ..+..-.++|..
T Consensus 24 r~YEGLATGl~~~f~~-~~ip~~~aymRG----------a~~Rie~l~~g~yDfaVvS~lAA~~~i~~~~~l~i~~~fG~ 92 (232)
T PF14503_consen 24 RRYEGLATGLYEQFEE-SGIPLNFAYMRG----------AENRIEALKNGRYDFAVVSKLAAEHYIEEGEDLEIVLEFGP 92 (232)
T ss_dssp HHHHHHHHHHHCTTT---TS-EEEEE-S-----------HHHHHHHHHTTS-SEEEEEHHHHCCCCCC-SSEEEEEE--T
T ss_pred hhhHHHHHHHHHHhcc-CCCceEEEeecc----------chHHHHHHHhCCcceEeehHHHHHHHHhhccCeEEEEeeCC
Confidence 6888999888888877 777777777752 3567999999999999976311 122334567766
Q ss_pred cceeccEEEEEecCCCCccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCCCcchhhHHHHHHHHhhhcCc
Q 047109 515 PYTDMGIGMIVPTDRNNNMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQGSPAHQFGMIFWYSFSTLVFSQR 594 (808)
Q Consensus 515 p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 594 (808)
--+.+.-+++.+.+....
T Consensus 93 ~sYvs~Hvli~~~~~~~~-------------------------------------------------------------- 110 (232)
T PF14503_consen 93 GSYVSEHVLIFRDGEKKE-------------------------------------------------------------- 110 (232)
T ss_dssp TSSS--EEEEEETT-GGG--------------------------------------------------------------
T ss_pred CCcccceEEEEecCCccc--------------------------------------------------------------
Confidence 556666667766553211
Q ss_pred cccccchhhHHHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeeecCCcHHHhhhccCCCcccccccC-CHHHHH
Q 047109 595 EKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQLGSFVPGALSNLNFKDSRLKKYN-SAEEFA 673 (808)
Q Consensus 595 ~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~-~~~~~~ 673 (808)
+..++++|+=..|..+..+.+..+...++...+ +..+++
T Consensus 111 ----------------------------------------i~dGmRVGiD~~S~Dq~~LT~~~~~gk~Ve~Vei~Y~q~~ 150 (232)
T PF14503_consen 111 ----------------------------------------IEDGMRVGIDPSSIDQKILTEAEFEGKNVEFVEIPYNQLL 150 (232)
T ss_dssp ---------------------------------------------EEEE-TT-HHHHHHHHHHHTTS--EEEE--HHHHH
T ss_pred ----------------------------------------eeeeeEeecCCCCccHHHHHHHHhCCCceEEEEecHHHHH
Confidence 126889999999999988866666665554443 567889
Q ss_pred HHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEecc----ccccccceEEEEeCCCC-ChHHHH
Q 047109 674 NALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAP----NYTTTSGFGFVFQKGSP-LVHDIS 734 (808)
Q Consensus 674 ~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~~~~k~sp-~~~~~~ 734 (808)
+.+.+|. +||.+....... .+.. ++...+- .......-.+.++|+++ +...++
T Consensus 151 ~~l~~g~----IDA~IWN~d~i~---~~~~-~l~~~~l~~~~~~~~~seAVivi~~~~~~i~~ll~ 208 (232)
T PF14503_consen 151 ELLRSGE----IDAAIWNYDEIE---DKNF-GLKYVPLKDDPMSKDASEAVIVIRKDNEPIKALLR 208 (232)
T ss_dssp HHHHHTS------EEEEE--HHC---CHHC-TEEEEE--SSCHHHHTT-EEEEEETT-HHHHHHHH
T ss_pred HHHHCCC----ccEEEECCcccc---cccC-CeeEEeCCchHHHHhcCeeEEEEeCCCHHHHHHHH
Confidence 9998888 999999865111 1111 3333211 11113456788888875 444444
No 216
>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=93.13 E-value=6.2 Score=37.81 Aligned_cols=178 Identities=15% Similarity=0.138 Sum_probs=109.9
Q ss_pred eHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEec
Q 047109 448 CVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPT 527 (808)
Q Consensus 448 ~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~ 527 (808)
-.+++..+.+..- .+++++... +...++..|.+|++|+++..... ....+. ..++....+++++++
T Consensus 21 l~~~l~~~~~~~P-~i~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 86 (209)
T PF03466_consen 21 LPPLLAEFRERHP-NIRIEIREG---------DSDELIEALRSGELDLAITFGPP---PPPGLE-SEPLGEEPLVLVVSP 86 (209)
T ss_dssp HHHHHHHHHHHST-TEEEEEEEE---------SHHHHHHHHHTTSSSEEEESSSS---SSTTEE-EEEEEEEEEEEEEET
T ss_pred HHHHHHHHHHHCC-CcEEEEEec---------cchhhhHHHhcccccEEEEEeec---cccccc-cccccceeeeeeeec
Confidence 5678888888776 466666654 56899999999999999875433 333343 368889999999987
Q ss_pred CCCC-ccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCCCcchhhHHHHHHHHhhhcCccccccchhhHHH
Q 047109 528 DRNN-NMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQGSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKFVV 606 (808)
Q Consensus 528 ~~~~-~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ril~ 606 (808)
..+. .-
T Consensus 87 ~~pl~~~------------------------------------------------------------------------- 93 (209)
T PF03466_consen 87 DHPLAQK------------------------------------------------------------------------- 93 (209)
T ss_dssp TSGGGTT-------------------------------------------------------------------------
T ss_pred ccccccc-------------------------------------------------------------------------
Confidence 7532 10
Q ss_pred HHHHHHHHHHHHHhhhhhheeeeehhhhhccCCceeee-cCCcHHHhh----hccCCCcccccccCCHHHHHHHHhcCCC
Q 047109 607 IVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNIGSQ-LGSFVPGAL----SNLNFKDSRLKKYNSAEEFANALSKGSK 681 (808)
Q Consensus 607 ~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i~~~-~~s~~~~~l----~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 681 (808)
.-++.+++ .+..+... .+......+ ++.+.........++.......+..|.
T Consensus 94 -------------------~~i~~~dL---~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~- 150 (209)
T PF03466_consen 94 -------------------KPITLEDL---ADYPLILLSPGSPYRDQLDRWLREHGFSPNIVIEVDSFESILSLVASGD- 150 (209)
T ss_dssp -------------------SSSSGGGG---TTSEEEEESTTTSHHHHHHHHHHHTTEEEEEEEEESSHHHHHHHHHTTS-
T ss_pred -------------------ccchhhhh---hhccccccccccccccccccccccccccccccccccchhhhcccccccc-
Confidence 00134444 45554443 344444433 333443334456788899999998776
Q ss_pred CCceEEEEechhhHHHHHhcCCCceEE--eccccccccceEEEEeCCCCChHHHHHHHHhhhh
Q 047109 682 NGGISAIIDEIPYIKAFLAKYSTDYTM--IAPNYTTTSGFGFVFQKGSPLVHDISRAIAKLRE 742 (808)
Q Consensus 682 ~~~~~a~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~~k~sp~~~~~~~~i~~l~e 742 (808)
-.+++.+.....+. ... ++.. +...-. ...++++.+++.+....+...+..+++
T Consensus 151 ---gi~~~p~~~~~~~~-~~~--~l~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~~~~~~l~~ 206 (209)
T PF03466_consen 151 ---GIAILPDSLAQDEL-ESG--ELVFLPLPDPPL-PRPIYLVWRKDRPLSPAIQWFIDLLRE 206 (209)
T ss_dssp ---EBEEEEHHHHHHHH-HCT--TEEEEEESSSTE-EEEEEEEEETTGTTHHHHHHHHHHHHH
T ss_pred ---ceeecCcccccccc-cCC--CEEEEECCCCCC-ceEEEEEEECCCCCCHHHHHHHHHHHH
Confidence 55665554433333 222 3442 333233 677888889988777777777766654
No 217
>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=92.60 E-value=2.6 Score=43.02 Aligned_cols=155 Identities=14% Similarity=0.087 Sum_probs=89.2
Q ss_pred cCCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEe
Q 047109 64 NVDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYE 143 (808)
Q Consensus 64 ~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~ 143 (808)
..+|.++|-.. .......+.. +...++|+|......+. ...+-.+...+. ..+..+++.+...|.++++++..
T Consensus 54 ~~~vdgiIi~~-~~~~~~~~~~-l~~~~iPvV~i~~~~~~--~~~~~~V~~d~~---~~~~~a~~~L~~~G~~~I~~i~~ 126 (269)
T cd06287 54 ALDIDGAILVE-PMADDPQVAR-LRQRGIPVVSIGRPPGD--RTDVPYVDLQSA---ATARMLLEHLRAQGARQIALIVG 126 (269)
T ss_pred ccCcCeEEEec-CCCCCHHHHH-HHHcCCCEEEeCCCCCC--CCCCCeEeeCcH---HHHHHHHHHHHHcCCCcEEEEeC
Confidence 44788766422 1111122333 34568999998654320 001223445555 66677788888889999999974
Q ss_pred cCC--ccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 144 DNT--WGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 144 d~~--~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
... ... .-.+.|.+++++.|+..... .... ..+.++-...++++.+. .+++ |++.+...|..+++.+++.|+
T Consensus 127 ~~~~~~~~-~R~~gf~~a~~~~g~~~~~~-~~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~A~gvl~al~~~gl 202 (269)
T cd06287 127 SARRNSYL-EAEAAYRAFAAEHGMPPVVL-RVDE-AGGEEAGYAACAQLLAQHPDLDA-LCVPVDAFAVGAVRAATELGR 202 (269)
T ss_pred CcccccHH-HHHHHHHHHHHHcCCCccee-EecC-CCChHHHHHHHHHHHhCCCCCCE-EEEcCcHHHHHHHHHHHHcCC
Confidence 332 222 34678888999888753221 1111 11222333444554332 3555 445577788899999999998
Q ss_pred CCCCeEEEEe
Q 047109 220 MSKGYSWIVT 229 (808)
Q Consensus 220 ~~~~~~~i~~ 229 (808)
.-++-+-|++
T Consensus 203 ~vP~dvsvig 212 (269)
T cd06287 203 AVPDQLRVVT 212 (269)
T ss_pred CCCCceEEEe
Confidence 6665554443
No 218
>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=92.45 E-value=7.5 Score=36.31 Aligned_cols=70 Identities=11% Similarity=0.197 Sum_probs=46.5
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+..++++.+.++.. ++++++... ....++..|.+|++|+++..... ....++ ..++....++++++
T Consensus 14 ~l~~~i~~~~~~~p-~i~i~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~ 79 (197)
T cd05466 14 LLPPLLAAFRQRYP-GVELSLVEG---------GSSELLEALLEGELDLAIVALPV---DDPGLE-SEPLFEEPLVLVVP 79 (197)
T ss_pred HhHHHHHHHHHHCC-CCEEEEEEC---------ChHHHHHHHHcCCceEEEEcCCC---CCCcce-EeeeeccceEEEec
Confidence 45567777777654 356666554 45788999999999999865432 223343 35667778888887
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 80 ~~~~ 83 (197)
T cd05466 80 PDHP 83 (197)
T ss_pred CCCC
Confidence 6643
No 219
>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=92.37 E-value=13 Score=37.00 Aligned_cols=207 Identities=13% Similarity=0.141 Sum_probs=122.0
Q ss_pred eEEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCC--CCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 2 VHVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSK--GDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 2 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~--~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
.|||++.+- ...+....+|++..+++--.. .|..+++-+. .+-..+......|..+..+-|||-...-+++
T Consensus 3 ~kIGivTgt-vSq~ed~~r~Ae~l~~~Yg~~------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vpGt 75 (275)
T PF12683_consen 3 YKIGIVTGT-VSQSEDEYRGAEELIKKYGDV------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVPGT 75 (275)
T ss_dssp EEEEEEE---TTT-HHHHHHHHHHHHHHHHH------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS---
T ss_pred eEEEEEeCC-cccChHHHHHHHHHHHHhCcc------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCcch
Confidence 689988773 444566778888888876553 6666666443 5566788888888889999999965414555
Q ss_pred HHHHHHhcC-CCCccEEeccCCC-Cccccc-ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCc----
Q 047109 80 AHILAEIGS-KAKIPVISLYATL-PSSLTS-YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNI---- 152 (808)
Q Consensus 80 ~~~~~~~~~-~~~iP~is~~~~~-~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~---- 152 (808)
+.+...+=+ +-.|..|+-.... |..++. .=+-+.+... ..+..++...+.+|-+.++-+.....-+. ..
T Consensus 76 ~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aDi~~~~D~~---~~G~~i~~~Ak~mGAktFVh~sfprhms~-~~l~~R 151 (275)
T PF12683_consen 76 AEAFRKIKEKRPDILLIAGEPHEDPEVISSAADIVVNPDEI---SRGYTIVWAAKKMGAKTFVHYSFPRHMSY-ELLARR 151 (275)
T ss_dssp HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSSEEEE--HH---HHHHHHHHHHHHTT-S-EEEEEETTGGGS-HHHHHH
T ss_pred HHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccCeEeccchh---hccHHHHHHHHHcCCceEEEEechhhcch-HHHHHH
Confidence 666665543 5678777754332 221222 2233345555 77899999999999999999866554443 33
Q ss_pred HHHHHHhhhcCCcEEEEEEecC-CCCCC---hHHH--HHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 153 IPYLFDSLHDNDIDIARRITIS-MSSNT---DDQV--IEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 153 ~~~~~~~~~~~g~~i~~~~~~~-~~~~~---~~~~--~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
.+.+++.+++.|++.+....-. .+..+ .++| ..+-+++++-+.++-|.+++......+++++.+.|.
T Consensus 152 r~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 152 RDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcCC
Confidence 3566777888999988653321 10111 1222 123345566789999999999999999999999873
No 220
>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []. ; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....
Probab=91.81 E-value=0.58 Score=37.37 Aligned_cols=55 Identities=18% Similarity=0.303 Sum_probs=46.7
Q ss_pred CcchhhHHHHHHHHhhhcC--ccccccchhhHHHHHHHHHHHHHHHHhhhhhheeee
Q 047109 575 AHQFGMIFWYSFSTLVFSQ--REKLLSNWSKFVVIVWVFVVLILTSSYTATLTSMLT 629 (808)
Q Consensus 575 ~~~~~~~~~~~~~~l~~~~--~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~lt 629 (808)
..++.+++|+++.++.--| ...|.+..+|++...+.+.++.+.+...+.+++.++
T Consensus 22 ~~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l~ 78 (79)
T PF07885_consen 22 KWSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVLT 78 (79)
T ss_dssp TTSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4578899999999998765 447889999999999999999999999999987653
No 221
>TIGR00035 asp_race aspartate racemase.
Probab=91.52 E-value=1.6 Score=43.42 Aligned_cols=89 Identities=18% Similarity=0.170 Sum_probs=56.5
Q ss_pred CCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHH
Q 047109 49 GDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIAD 128 (808)
Q Consensus 49 ~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ 128 (808)
.++...+..+.+.+.+.|+.+|+=+. .+.... +..+-+..++|+|+.. ++.++
T Consensus 58 ~~~~~~l~~~~~~L~~~g~d~iviaC-NTah~~-~~~l~~~~~iPii~i~-------------------------~~~~~ 110 (229)
T TIGR00035 58 DRPRPILIDIAVKLENAGADFIIMPC-NTAHKF-AEDIQKAIGIPLISMI-------------------------EETAE 110 (229)
T ss_pred chHHHHHHHHHHHHHHcCCCEEEECC-ccHHHH-HHHHHHhCCCCEechH-------------------------HHHHH
Confidence 44666666666666667999988775 443332 5566666788888731 22223
Q ss_pred HHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEE
Q 047109 129 LIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIA 168 (808)
Q Consensus 129 ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~ 168 (808)
.++..+.++|+++...... -...+++.+++.|+.+.
T Consensus 111 ~~~~~~~~~VgvLaT~~T~----~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 111 AVKEDGVKKAGLLGTKGTM----KDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHHHcCCCEEEEEecHHHH----HhHHHHHHHHHCCCEEE
Confidence 3455578899999766542 22446777888887654
No 222
>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=91.14 E-value=17 Score=37.92 Aligned_cols=206 Identities=14% Similarity=0.024 Sum_probs=104.3
Q ss_pred eEEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCC-CHHHHHHHHHHhhhcCCeEEEEecCCChhHH
Q 047109 2 VHVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKG-DPLHALTTVLNLMQNVDLQAIICTEMTPTGA 80 (808)
Q Consensus 2 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~-~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~ 80 (808)
.+|+++.|-.-.. ...-..+.-+++++.++. + .+++...+... ++....+...++.++ +...||++. ..-.
T Consensus 2 ~~v~~~~~g~~~D-~g~n~~~~~G~~~~~~~~---~-~i~~~~~e~~~~~~~~~~~~~~~~~~~-g~dlIi~~g--~~~~ 73 (306)
T PF02608_consen 2 KKVALLDPGGIND-KGFNQSAYEGLKRAEKEL---D-GIEIIYVENVPETDADYEEAIRQLADQ-GYDLIIGHG--FEYS 73 (306)
T ss_dssp EEEEEESSS-CCC-SSHHHHHHHHHHHHHHHC---T-TEEEEEEES-S-TCHHHHHHHHHHHHT-T-SEEEEES--GGGH
T ss_pred eEEEEEECCCCCC-ccHHHHHHHHHHHHHHHc---C-CceEEEEecCCccHHHHHHHHHHHHHc-CCCEEEEcc--HHHH
Confidence 4677777744322 112233334444444332 1 34555555544 455566666677665 899999864 4455
Q ss_pred HHHHHhcCCC-CccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEE---ecCCccccCcHHHH
Q 047109 81 HILAEIGSKA-KIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIY---EDNTWGSDNIIPYL 156 (808)
Q Consensus 81 ~~~~~~~~~~-~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~---~d~~~g~~~~~~~~ 156 (808)
.++..++..+ ++-++......+. ..+++........|+..++-.++-++..- .+++++. ..+......+...|
T Consensus 74 ~~~~~vA~~yPd~~F~~~d~~~~~-~~~Nv~~~~f~~~e~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~~~~~~gF 150 (306)
T PF02608_consen 74 DALQEVAKEYPDTKFIIIDGYIDA-PEPNVISITFREEEASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPVNRFINGF 150 (306)
T ss_dssp HHHHHHHTC-TTSEEEEESS---S-T-TTEEEEEE-HHHHHHHHHHHHHHHHSS--TEEEEEEEEES--SCTTHHHHHHH
T ss_pred HHHHHHHHHCCCCEEEEEecCcCC-CCCcEEEEEccccchhHHHHHHHHHHhcc--CcccccccccCCCcHhHHHHHHHH
Confidence 6666777766 6666665544333 21123333333222225555566655543 5888887 43322221456677
Q ss_pred HHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 157 FDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 157 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
...++..+-.+.....+..+..+...-....+.+...++|+|+..+.. ....++++|++.|.
T Consensus 151 ~~Ga~~~np~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~~ag~-~~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 151 IAGAKYVNPDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFPVAGG-SGQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHHTTTT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEEE-CC-CHHHHHHHHHHHTH
T ss_pred HHHHHHhCcCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEECCCC-CchHHHHHHHHcCC
Confidence 777776654444333332201233333444455666999999886654 44678888999884
No 223
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=90.94 E-value=6.8 Score=40.34 Aligned_cols=102 Identities=9% Similarity=0.008 Sum_probs=64.3
Q ss_pred ccCCceeeecCCcHHHhh------hccC-CC---cccccccCC-HHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC-C
Q 047109 636 ASRDNIGSQLGSFVPGAL------SNLN-FK---DSRLKKYNS-AEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY-S 703 (808)
Q Consensus 636 ~~~~~i~~~~~s~~~~~l------~~~~-~~---~~~~~~~~~-~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~-~ 703 (808)
+++++++...-++.--++ .+.+ .. .-.-+.+.. -+.++..+.+|+ +|+............... .
T Consensus 142 lkgk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~nG~----vDva~~~~~~~~~~~~~~~~ 217 (299)
T COG3221 142 LKGKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVANGQ----VDVAAVNSSARGLLKKAAPE 217 (299)
T ss_pred hcCCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHcCC----ceEEeccHHHHhhhhhcccc
Confidence 388898886433323222 2222 11 011233444 678888998888 998888776665554443 2
Q ss_pred ---CceEEeccccccccceEEEEeCCCC--ChHHHHHHHHhhhh
Q 047109 704 ---TDYTMIAPNYTTTSGFGFVFQKGSP--LVHDISRAIAKLRE 742 (808)
Q Consensus 704 ---~~l~~~~~~~~~~~~~~~~~~k~sp--~~~~~~~~i~~l~e 742 (808)
++++++...=. ..+..+++++.-| +++++..++..+-+
T Consensus 218 ~~~~~l~vi~~S~~-iP~~pi~vr~~L~~~~k~kl~~af~~l~~ 260 (299)
T COG3221 218 GVAEKLRVIWKSPL-IPNDPIAVRSDLPADLKEKLRDAFLDLAK 260 (299)
T ss_pred cchhhceEEEecCC-CCCCCEEEeCCCCHHHHHHHHHHHHhcCc
Confidence 36777755322 3445677888866 99999999999986
No 224
>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=89.80 E-value=3.8 Score=43.05 Aligned_cols=66 Identities=12% Similarity=0.179 Sum_probs=43.5
Q ss_pred eehhhhhccCCceeeecCCcHHHhh----hccCCCccccccc-CCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhc
Q 047109 629 TVQQIKLASRDNIGSQLGSFVPGAL----SNLNFKDSRLKKY-NSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAK 701 (808)
Q Consensus 629 t~~~~~~~~~~~i~~~~~s~~~~~l----~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~ 701 (808)
++.++ ++++|++..++..+.++ ++.+.....+... -...+...++.+|+ +|+.+.-.++......+
T Consensus 100 svaDL---KGKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~~~~d~~aAl~~G~----VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 100 SLADL---KGQKVNLVELSVSHYLLARALESVGLSEKDVKVVNTSDADIVAAFITKD----VTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CHHHc---CCCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeCChHHHHHHHhcCC----CcEEEEcCchHHHHHhC
Confidence 56666 99999999988766444 4444443222222 24467889998888 99998877765544443
No 225
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=89.21 E-value=2.6 Score=42.57 Aligned_cols=84 Identities=18% Similarity=0.082 Sum_probs=46.5
Q ss_pred cCCceee-ecCCcHHHhh----hccCCCc---ccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCC-CceE
Q 047109 637 SRDNIGS-QLGSFVPGAL----SNLNFKD---SRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYS-TDYT 707 (808)
Q Consensus 637 ~~~~i~~-~~~s~~~~~l----~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~l~ 707 (808)
+++++++ ..++..+..+ ++.+... .++...+. .+..+.+.+|+ +|+++...++......+.. ..+.
T Consensus 120 kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~g~----iDa~~~~eP~~~~~~~~g~g~~v~ 194 (252)
T PF13379_consen 120 KGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRAGE----IDAAVLWEPFASQAEAKGIGKIVA 194 (252)
T ss_dssp STEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHTTS-----SEEEEETTHHHHHHHTTS-EEEE
T ss_pred CCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhCCC----cCEEEecCCHHHHHHhccCCeEEE
Confidence 6788998 4566554333 4444433 34444445 88999998888 9999998887776665543 1222
Q ss_pred EeccccccccceE-EEEeCC
Q 047109 708 MIAPNYTTTSGFG-FVFQKG 726 (808)
Q Consensus 708 ~~~~~~~~~~~~~-~~~~k~ 726 (808)
..++... ..+.+ +++++.
T Consensus 195 ~~~~~~~-~~p~~~~~~~~~ 213 (252)
T PF13379_consen 195 DSGDVWG-NHPCCVIVARRD 213 (252)
T ss_dssp EHHHCST-T-B-EEEEEEHH
T ss_pred EeccccC-CCCeEEEEECHH
Confidence 2233333 33444 455553
No 226
>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=88.82 E-value=21 Score=33.64 Aligned_cols=71 Identities=10% Similarity=0.073 Sum_probs=45.9
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-..++..+.+..- .+++++... +...+...|.+|++|+++...... .....+.+ .+.....++++++
T Consensus 14 ~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~~-~~l~~~~~~~v~~ 81 (201)
T cd08418 14 LMPAVINRFKEQFP-DVQISIYEG---------QLSSLLPELRDGRLDFAIGTLPDE-MYLKELIS-EPLFESDFVVVAR 81 (201)
T ss_pred hhHHHHHHHHHHCC-CceEEEEeC---------cHHHHHHHHHcCCCcEEEEecCCC-CCCcceeE-EeecCCceEEEeC
Confidence 45577777777764 355555543 567899999999999998632111 11223433 5677778888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 82 ~~~ 84 (201)
T cd08418 82 KDH 84 (201)
T ss_pred CCC
Confidence 654
No 227
>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=88.67 E-value=5.1 Score=37.62 Aligned_cols=101 Identities=6% Similarity=0.018 Sum_probs=68.8
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcC--CcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEE
Q 047109 121 SQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDN--DIDIARRITISMSSNTDDQVIEKLSMLKSSETKVF 198 (808)
Q Consensus 121 ~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~--g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 198 (808)
+....+.+.+...++ ++.++..+. +..+.+.+.+++. |+.|+....-+. +..+...+++.|.++++|+|
T Consensus 35 dl~~~l~~~~~~~~~-~ifllG~~~-----~~~~~~~~~l~~~yP~l~ivg~~~g~f---~~~~~~~i~~~I~~~~pdiv 105 (172)
T PF03808_consen 35 DLFPDLLRRAEQRGK-RIFLLGGSE-----EVLEKAAANLRRRYPGLRIVGYHHGYF---DEEEEEAIINRINASGPDIV 105 (172)
T ss_pred HHHHHHHHHHHHcCC-eEEEEeCCH-----HHHHHHHHHHHHHCCCeEEEEecCCCC---ChhhHHHHHHHHHHcCCCEE
Confidence 446666666666654 788877655 4556666667665 677776443222 45678889999999999999
Q ss_pred EEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccc
Q 047109 199 VVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTM 233 (808)
Q Consensus 199 il~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 233 (808)
++.+..+.-..++.+.++.. +..+|+..+...
T Consensus 106 ~vglG~PkQE~~~~~~~~~l---~~~v~i~vG~~~ 137 (172)
T PF03808_consen 106 FVGLGAPKQERWIARHRQRL---PAGVIIGVGGAF 137 (172)
T ss_pred EEECCCCHHHHHHHHHHHHC---CCCEEEEECchh
Confidence 99987777667766666543 233777777654
No 228
>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=88.52 E-value=3.5 Score=40.41 Aligned_cols=54 Identities=26% Similarity=0.295 Sum_probs=34.5
Q ss_pred eehhhhhccCCceeeecCCcHHHhh----hccCCCcccccccC-CHHHHHHHHhcCCCCCceEEEE
Q 047109 629 TVQQIKLASRDNIGSQLGSFVPGAL----SNLNFKDSRLKKYN-SAEEFANALSKGSKNGGISAII 689 (808)
Q Consensus 629 t~~~~~~~~~~~i~~~~~s~~~~~l----~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~a~~ 689 (808)
++.++ ++++|++..++..+..+ ++.+.....+...+ +..+...+|.+|+ +|+.+
T Consensus 87 ~~~DL---kGK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~g~----vDa~~ 145 (216)
T PF09084_consen 87 SPADL---KGKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLSGQ----VDAAI 145 (216)
T ss_dssp SGGGG---TTSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHTTS----SSEEE
T ss_pred CHHHh---CCCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhcCC----CCEEE
Confidence 45555 89999999876544333 45555444444433 3566667898888 99888
No 229
>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=88.38 E-value=2.2 Score=44.88 Aligned_cols=43 Identities=5% Similarity=-0.023 Sum_probs=30.4
Q ss_pred HHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEece
Q 047109 449 VDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGET 500 (808)
Q Consensus 449 ~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~ 500 (808)
..+.+.+++.++ .+++++.+. +.....+..|.+|++|+++...
T Consensus 48 ~~la~~~~~~~~-~i~v~~~~~--------~~~~~~~~~l~~G~~D~~~~~~ 90 (320)
T TIGR02122 48 GAIAQLINKKSG-KLRVRVQST--------GGSVENVNLLEAGEADLAIVQS 90 (320)
T ss_pred HHHHHHHhccCC-CeeEEEEeC--------cchHHHHHHHhCCCCcEEEEcc
Confidence 456777777776 246666553 1346788999999999998753
No 230
>PRK10200 putative racemase; Provisional
Probab=88.25 E-value=2.9 Score=41.38 Aligned_cols=91 Identities=13% Similarity=0.101 Sum_probs=60.1
Q ss_pred CCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHH
Q 047109 47 SKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGI 126 (808)
Q Consensus 47 ~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~ 126 (808)
+.-+|...+....+.+.+.|+.+|+=|. .+..+. ...+-+..++|+|+.. ++.
T Consensus 56 ~~~~~~~~l~~~~~~L~~~g~~~iviaC-NTah~~-~~~l~~~~~iPii~ii-------------------------~~~ 108 (230)
T PRK10200 56 EWDKTGDILAEAALGLQRAGAEGIVLCT-NTMHKV-ADAIESRCSLPFLHIA-------------------------DAT 108 (230)
T ss_pred CcchHHHHHHHHHHHHHHcCCCEEEECC-chHHHH-HHHHHHhCCCCEeehH-------------------------HHH
Confidence 3356888888888888888999999876 444443 5667777889988721 123
Q ss_pred HHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcC-CcEEE
Q 047109 127 ADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDN-DIDIA 168 (808)
Q Consensus 127 ~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~-g~~i~ 168 (808)
.+.++..+-++|+++...... -...+++.+.+. |+.+.
T Consensus 109 ~~~~~~~~~~~VglLaT~~Ti----~s~~Y~~~l~~~~g~~~~ 147 (230)
T PRK10200 109 GRAITGAGMTRVALLGTRYTM----EQDFYRGRLTEQFSINCL 147 (230)
T ss_pred HHHHHHcCCCeEEEeccHHHH----HHhHHHHHHHHhcCCeEe
Confidence 333444577899999877643 234555565644 77653
No 231
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=87.62 E-value=21 Score=34.42 Aligned_cols=88 Identities=17% Similarity=0.213 Sum_probs=61.4
Q ss_pred CCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHH-HhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHH
Q 047109 49 GDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILA-EIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIA 127 (808)
Q Consensus 49 ~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~-~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~ 127 (808)
.++...+..+.+-+++-|+..|+=|. .++..++ .+-...+||+++. .++-+
T Consensus 58 ~~~~~~L~~~a~~Le~~GAd~i~l~~---NT~H~~~d~iq~~~~iPllhI-------------------------idaTa 109 (230)
T COG1794 58 DEAGEILIDAAKKLERAGADFIVLPT---NTMHKVADDIQKAVGIPLLHI-------------------------IDATA 109 (230)
T ss_pred ccHHHHHHHHHHHHHhcCCCEEEEeC---CcHHHHHHHHHHhcCCCeehH-------------------------HHHHH
Confidence 56666666666666666999998875 3344444 5556778988872 34566
Q ss_pred HHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEE
Q 047109 128 DLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIA 168 (808)
Q Consensus 128 ~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~ 168 (808)
+-+++-|-++++++.....- .....++.+.++|+.++
T Consensus 110 ~~ik~~g~kkvgLLgT~~Tm----~~~fY~~~l~~~gievv 146 (230)
T COG1794 110 KAIKAAGAKKVGLLGTRFTM----EQGFYRKRLEEKGIEVV 146 (230)
T ss_pred HHHHhcCCceeEEeeccchH----HhHHHHHHHHHCCceEe
Confidence 66777799999999866542 23556788999998765
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=87.24 E-value=27 Score=33.12 Aligned_cols=74 Identities=8% Similarity=0.051 Sum_probs=48.3
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.- ++++++... +...+++.|.+|++|+++............+.. .+......++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~~-~~l~~~~~~~~~ 81 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVHA---------EQKLPLDALLAGEIDFALGYSHDDGAEPRLIEE-RDWWEDTYVVIA 81 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEEC---------ChHhHHHHHHCCCccEEEecccccccCCCCEEE-EEEecCcEEEEE
Confidence 345688888888763 346665543 568999999999999998643211000223433 567777888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 82 ~~~hp 86 (202)
T cd08468 82 SRDHP 86 (202)
T ss_pred eCCCC
Confidence 76644
No 233
>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=87.07 E-value=7.1 Score=40.13 Aligned_cols=61 Identities=15% Similarity=0.145 Sum_probs=38.8
Q ss_pred cCCceeeecCCcHHHhh----hccCCCcccc-cccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhc
Q 047109 637 SRDNIGSQLGSFVPGAL----SNLNFKDSRL-KKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAK 701 (808)
Q Consensus 637 ~~~~i~~~~~s~~~~~l----~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~ 701 (808)
.++++++..++.....+ ++.+.....+ ..+.+..+..+.+.+|+ +++++...........+
T Consensus 100 ~Gk~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~~~~~~~al~~g~----vda~~~~~p~~~~~~~~ 165 (288)
T TIGR01728 100 KGKRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLGPSDARAAFAAGQ----VDAWAIWEPWGSALVEE 165 (288)
T ss_pred CCCEEEecCCccHHHHHHHHHHHcCCCccceeEEecCcHHHHHHHHCCC----CCEEEeccchHhHHhhc
Confidence 78899987776544433 3333332222 22345677889998888 99998877666555444
No 234
>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=87.00 E-value=24 Score=33.39 Aligned_cols=70 Identities=13% Similarity=0.047 Sum_probs=46.5
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.++.- .+++++... +.+.+...|.+|++|+++..... ....+. +.|.....++++++
T Consensus 14 ~l~~~l~~~~~~~P-~v~v~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~ 79 (201)
T cd08459 14 FLPRLLAALREVAP-GVRIETVRL---------PVDELEEALESGEIDLAIGYLPD---LGAGFF-QQRLFRERYVCLVR 79 (201)
T ss_pred HHHHHHHHHHHHCC-CCeEEEEec---------CccCHHHHhhCCCceEEEEcCCC---Ccccce-EEEeecCceEEEEc
Confidence 34577888887764 345655543 44678899999999999864321 122343 46888888888887
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 80 ~~~~ 83 (201)
T cd08459 80 KDHP 83 (201)
T ss_pred CCCc
Confidence 6643
No 235
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=86.63 E-value=2.5 Score=38.94 Aligned_cols=98 Identities=13% Similarity=0.151 Sum_probs=62.1
Q ss_pred HHHHHhcCCcEEEEEEecCC--ccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHH-HHhcCCCCeEEEEEcC
Q 047109 127 ADLIRVFKWKHVILIYEDNT--WGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKL-SMLKSSETKVFVVHMS 203 (808)
Q Consensus 127 ~~ll~~~~w~~v~ii~~d~~--~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l-~~l~~~~~~viil~~~ 203 (808)
++.+...|.++++++..... +.. .-.+.|.+++++.|+.......... ....+..... ..+++..++. |++++
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~-~r~~gf~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~pda-ii~~~ 76 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSR-ERLEGFREALKEHGIEFEELIFFSD--DDSEDAREAQLLWLRRLRPDA-IICSN 76 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHH-HHHHHHHHHHHHTTSEEEGEEEEES--SSHHHHHHHHHHHHHTCSSSE-EEESS
T ss_pred ChHHHHCCCCeEEEEecCCCChhHH-HHHHHHHHHHHHCCCCCCeeEeecC--CcchhHHHHHHHHHhcCCCcE-EEEcC
Confidence 45677889999999994332 223 5578899999999988655443333 1332333222 2333336665 44578
Q ss_pred HHHHHHHHHHHHHcCCCCCCeEEEE
Q 047109 204 HALASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 204 ~~~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
...+..+++.+.+.|+.-++-+-|+
T Consensus 77 ~~~a~~~~~~l~~~g~~vP~di~vv 101 (160)
T PF13377_consen 77 DRLALGVLRALRELGIRVPQDISVV 101 (160)
T ss_dssp HHHHHHHHHHHHHTTSCTTTTSEEE
T ss_pred HHHHHHHHHHHHHcCCcccccccEE
Confidence 8889999999999998544433333
No 236
>cd08442 PBP2_YofA_SoxR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold. YofA is a LysR-like transcriptional regulator of cell growth in Bacillus subtillis. YofA controls cell viability and the formation of constrictions during cell division. YofaA positively regulates expression of the cell division gene ftsW, and thus is essential for cell viability during stationary-phase growth of Bacillus substilis. YofA shows significant homology to SoxR from Arthrobacter sp. TE1826. SoxR is a negative regulator for the sarcosine oxidase gene soxA. Sarcosine oxidase catalyzes the oxidative demethylation of sarcosine, which is involved in the metabolism of creatine and choline. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides
Probab=86.53 E-value=28 Score=32.50 Aligned_cols=70 Identities=11% Similarity=0.066 Sum_probs=46.7
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.- ++++++... +...+...+.+|++|+++... +.....+. ..+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~ 78 (193)
T cd08442 13 VRLPPLLAAYHARYP-KVDLSLSTG---------TTGALIQAVLEGRLDGAFVAG---PVEHPRLE-QEPVFQEELVLVS 78 (193)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEeC---------CcHHHHHHHHCCCccEEEEeC---CCCCCCcE-EEEeecCcEEEEe
Confidence 445788888888765 345555543 457889999999999998532 22223333 3567777888888
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 79 ~~~~ 82 (193)
T cd08442 79 PKGH 82 (193)
T ss_pred cCCC
Confidence 7654
No 237
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=86.02 E-value=18 Score=34.33 Aligned_cols=89 Identities=6% Similarity=0.116 Sum_probs=64.1
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCC------ChHHHHHHHHHhcCCCCeE
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSN------TDDQVIEKLSMLKSSETKV 197 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~------~~~~~~~~l~~l~~~~~~v 197 (808)
-++++-++.++-+++.++.+ |-. +..+...+.++++|+.|+....+...++ .....-....++...++|.
T Consensus 107 ~Avv~aL~al~a~ri~vlTP---Y~~-evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Da 182 (238)
T COG3473 107 TAVVEALNALGAQRISVLTP---YID-EVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADA 182 (238)
T ss_pred HHHHHHHHhhCcceEEEecc---chh-hhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCe
Confidence 36778899999999999974 444 7888999999999999986554432000 1223444556677789999
Q ss_pred EEEEcCHHHHHHHHHHHHH
Q 047109 198 FVVHMSHALASHLFLNAKK 216 (808)
Q Consensus 198 iil~~~~~~~~~~l~~a~~ 216 (808)
||+.|..-.+..++....+
T Consensus 183 iFiSCTnlRt~eii~~lE~ 201 (238)
T COG3473 183 IFISCTNLRTFEIIEKLER 201 (238)
T ss_pred EEEEeeccccHHHHHHHHH
Confidence 9999887776666666554
No 238
>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=85.56 E-value=19 Score=33.91 Aligned_cols=128 Identities=16% Similarity=0.187 Sum_probs=77.2
Q ss_pred CCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHH
Q 047109 49 GDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIAD 128 (808)
Q Consensus 49 ~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ 128 (808)
++-.+++..+.+++..+++.+||.-. .++. .+-+..++|+|... ++.. +..+++.+
T Consensus 17 ~~~e~~v~~a~~~~~~~g~dViIsRG---~ta~---~lr~~~~iPVV~I~---------------~s~~---Dil~al~~ 72 (176)
T PF06506_consen 17 ASLEEAVEEARQLLESEGADVIISRG---GTAE---LLRKHVSIPVVEIP---------------ISGF---DILRALAK 72 (176)
T ss_dssp --HHHHHHHHHHHHTTTT-SEEEEEH---HHHH---HHHCC-SS-EEEE------------------HH---HHHHHHHH
T ss_pred ecHHHHHHHHHHhhHhcCCeEEEECC---HHHH---HHHHhCCCCEEEEC---------------CCHh---HHHHHHHH
Confidence 57788999999994445999999865 2233 34556689999842 2223 33444444
Q ss_pred HHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHH
Q 047109 129 LIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALAS 208 (808)
Q Consensus 129 ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~ 208 (808)
. +.++ ++++++...+.. ...+.+.+.+ |..+..... .+..++...+.++++.+.++|+-...
T Consensus 73 a-~~~~-~~Iavv~~~~~~---~~~~~~~~ll---~~~i~~~~~-----~~~~e~~~~i~~~~~~G~~viVGg~~----- 134 (176)
T PF06506_consen 73 A-KKYG-PKIAVVGYPNII---PGLESIEELL---GVDIKIYPY-----DSEEEIEAAIKQAKAEGVDVIVGGGV----- 134 (176)
T ss_dssp C-CCCT-SEEEEEEESS-S---CCHHHHHHHH---T-EEEEEEE-----SSHHHHHHHHHHHHHTT--EEEESHH-----
T ss_pred H-HhcC-CcEEEEeccccc---HHHHHHHHHh---CCceEEEEE-----CCHHHHHHHHHHHHHcCCcEEECCHH-----
Confidence 2 2344 899999876643 2356666666 666654322 15679999999999999988775542
Q ss_pred HHHHHHHHcCC
Q 047109 209 HLFLNAKKLGM 219 (808)
Q Consensus 209 ~~l~~a~~~gl 219 (808)
..+.|.+.|+
T Consensus 135 -~~~~A~~~gl 144 (176)
T PF06506_consen 135 -VCRLARKLGL 144 (176)
T ss_dssp -HHHHHHHTTS
T ss_pred -HHHHHHHcCC
Confidence 3566788887
No 239
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=85.43 E-value=41 Score=34.89 Aligned_cols=70 Identities=13% Similarity=0.106 Sum_probs=46.9
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-..++..+.+..- .+++.+... +-+.++++|.+|++|+++..... ....+ .+.++....++++++
T Consensus 105 ~~~~~l~~~~~~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~l-~~~~l~~~~~~~~~~ 170 (305)
T PRK11151 105 LLPHIIPMLHQTFP-KLEMYLHEA---------QTHQLLAQLDSGKLDCAILALVK---ESEAF-IEVPLFDEPMLLAVY 170 (305)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEeC---------CHHHHHHHHHcCCccEEEEecCC---CCCCe-EEEEeccCcEEEEec
Confidence 34567777776553 356666543 45789999999999999864321 12223 357888889999987
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 171 ~~hp 174 (305)
T PRK11151 171 EDHP 174 (305)
T ss_pred CCCC
Confidence 6643
No 240
>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=85.15 E-value=9.3 Score=38.71 Aligned_cols=89 Identities=10% Similarity=0.057 Sum_probs=66.3
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
+||.|.+...+.-.....|+...++..|.+ .++...+..+..|+.++.+.+..++++ ++.+|++.. ... .
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~p~-----~~v~~~~~g~~~D~~~a~~~a~~l~~~-G~DvI~~~~-~~~---g 191 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVNPD-----ATVKVIWTGSWFDPAKEKEAALALIDQ-GADVIYQHT-DSP---G 191 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHCCC-----cEEEEEEecCCCCcHHHHHHHHHHHHC-CCcEEEecC-CCh---H
Confidence 688888877665556677898888888843 466667777788999999999999987 999888765 332 3
Q ss_pred HHHhcCCCCccEEeccCCC
Q 047109 83 LAEIGSKAKIPVISLYATL 101 (808)
Q Consensus 83 ~~~~~~~~~iP~is~~~~~ 101 (808)
+...+...++..|......
T Consensus 192 ~~~aa~~~g~~~IG~d~dq 210 (258)
T cd06353 192 VIQAAEEKGVYAIGYVSDM 210 (258)
T ss_pred HHHHHHHhCCEEEeeccch
Confidence 4445556788999986543
No 241
>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=85.04 E-value=44 Score=33.42 Aligned_cols=145 Identities=12% Similarity=0.057 Sum_probs=86.1
Q ss_pred HHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHh--cCC
Q 047109 58 VLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRV--FKW 135 (808)
Q Consensus 58 a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~--~~w 135 (808)
..+.++ .+|.++|=-. +..........+...++|++......+. .. .+-.....+. ..+..+++.+.. .|.
T Consensus 45 ~~~~~~-~~vdGvIi~~-~~~~~~~~~~~~~~~~~PvV~i~~~~~~-~~-~~~~V~~D~~---~~~~~a~~~L~~~~~G~ 117 (247)
T cd06276 45 IISNTK-GKYSGYVVMP-HFKNEIQYFLLKKIPKEKLLILDHSIPE-GG-EYSSVAQDFE---KAIYNALQEGLEKLKKY 117 (247)
T ss_pred HHHHHh-cCCCEEEEec-CCCCcHHHHHHhccCCCCEEEEcCcCCC-CC-CCCeEEEccH---HHHHHHHHHHHHHhcCC
Confidence 334443 4677766322 1111111334555578999998754321 11 1223455666 677778888877 899
Q ss_pred cEEEEEEecC-CccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHH
Q 047109 136 KHVILIYEDN-TWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNA 214 (808)
Q Consensus 136 ~~v~ii~~d~-~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a 214 (808)
++++++.... ..+. .-.+.+++.+++.|+.... ... .. . ... ..++ .|++.+...|..+++.+
T Consensus 118 ~~Ia~i~~~~~~~~~-~R~~gf~~~l~~~g~~~~~---~~~--~~--~------~~~-~~~~-ai~~~~d~~A~g~~~~l 181 (247)
T cd06276 118 KKLILVFPNKTAIPK-EIKRGFERFCKDYNIETEI---IND--YE--N------REI-EKGD-LYIILSDTDLVFLIKKA 181 (247)
T ss_pred CEEEEEecCccHhHH-HHHHHHHHHHHHcCCCccc---ccc--cc--h------hhc-cCCc-EEEEeCHHHHHHHHHHH
Confidence 9999997543 2333 5578889999999976432 111 01 1 001 1234 46667788899999999
Q ss_pred HHcCCCCCCeE
Q 047109 215 KKLGMMSKGYS 225 (808)
Q Consensus 215 ~~~gl~~~~~~ 225 (808)
++.|+.-++-+
T Consensus 182 ~~~g~~iP~di 192 (247)
T cd06276 182 RESGLLLGKDI 192 (247)
T ss_pred HHcCCcCCcee
Confidence 99998544433
No 242
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=84.92 E-value=47 Score=34.72 Aligned_cols=194 Identities=11% Similarity=0.123 Sum_probs=114.6
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.+... .+++++... ....++..|.+|++|+++..... .....+. +.++.....++++
T Consensus 106 ~~l~~~l~~f~~~~P-~i~l~l~~~---------~~~~~~~~L~~g~~Dl~i~~~~~--~~~~~l~-~~~l~~~~~~~v~ 172 (316)
T PRK12679 106 YSLPEVIKAFRELFP-EVRLELIQG---------TPQEIATLLQNGEADIGIASERL--SNDPQLV-AFPWFRWHHSLLV 172 (316)
T ss_pred cchHHHHHHHHHHCC-CeEEEEecC---------CHHHHHHHHHcCCCCEEEecccC--CCCCCce-EEEccCCcEEEEe
Confidence 456778888888764 345555442 45788999999999999853221 1122343 3577888888888
Q ss_pred ecCCCC-ccceeeccCchhHHHHHHHHHHHHHhhheeeecccCCCCCCCCCcchhhHHHHHHHHhhhcCccccccchhhH
Q 047109 526 PTDRNN-NMWIFLKPLKPNLWLTTAALFVLTGFVVWIIERPINDEFQGSPAHQFGMIFWYSFSTLVFSQREKLLSNWSKF 604 (808)
Q Consensus 526 ~~~~~~-~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~s~s~Ri 604 (808)
++..+. .-
T Consensus 173 ~~~hpl~~~----------------------------------------------------------------------- 181 (316)
T PRK12679 173 PHDHPLTQI----------------------------------------------------------------------- 181 (316)
T ss_pred cCCCccccC-----------------------------------------------------------------------
Confidence 766442 10
Q ss_pred HHHHHHHHHHHHHHHhhhhhheeeeehhhhhccCCce-eeecCCc----HHHhhhccCCCcccccccCCHHHHHHHHhcC
Q 047109 605 VVIVWVFVVLILTSSYTATLTSMLTVQQIKLASRDNI-GSQLGSF----VPGALSNLNFKDSRLKKYNSAEEFANALSKG 679 (808)
Q Consensus 605 l~~~w~~~~lil~~~Y~a~L~s~lt~~~~~~~~~~~i-~~~~~s~----~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~ 679 (808)
.-++.+++ .+..+ ....+.. ...++...+.........++.....+++..|
T Consensus 182 ---------------------~~i~~~~L---~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~v~~g 237 (316)
T PRK12679 182 ---------------------TPLTLESI---AKWPLITYRQGITGRSRIDDAFARKGLLADIVLSAQDSDVIKTYVALG 237 (316)
T ss_pred ---------------------CCCCHHHH---hCCCeEEecCCCcHHHHHHHHHHHcCCCceEEEEeccHHHHHHHHHcC
Confidence 00123333 23332 2223322 2334444344333344567778888888777
Q ss_pred CCCCceEEEEechhhHHHHHhcCCCceEEec--cccccccceEEEEeCCCCChHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 680 SKNGGISAIIDEIPYIKAFLAKYSTDYTMIA--PNYTTTSGFGFVFQKGSPLVHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 680 ~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~~k~sp~~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
. -.+++.... ... . ..+.+..+. .... ...++++.+|+.+....+...+..+.+.=-.+.++++.+.+
T Consensus 238 ~----Gi~~lp~~~-~~~-~--~~~~L~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 307 (316)
T PRK12679 238 L----GIGLVAEQS-SGE-Q--EESNLIRLDTRHLFD-ANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKRQVMEN 307 (316)
T ss_pred C----cEEEecccc-ccc-c--cCCcEEEEECcccCC-CceEEEEEeCCchhhHHHHHHHHHHhcccCHHHHHHHHhhc
Confidence 5 444444432 222 1 122455443 2333 56788999999988888888888887776778888887765
No 243
>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=84.88 E-value=29 Score=32.68 Aligned_cols=69 Identities=13% Similarity=0.186 Sum_probs=46.0
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.++.- ++++++... +...+...|.+|++|+++... +.....+. ..++....++++++
T Consensus 14 ~~~~~i~~~~~~~P-~i~l~~~~~---------~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~ 79 (200)
T cd08417 14 LLPPLLARLRQEAP-GVRLRFVPL---------DRDDLEEALESGEIDLAIGVF---PELPPGLR-SQPLFEDRFVCVAR 79 (200)
T ss_pred HHHHHHHHHHhhCC-CeEEEeccC---------CHHHHHHHHHcCCCCEEEeec---ccCCCccc-hhhhhcCceEEEec
Confidence 34567777777663 345555433 567899999999999998642 22223333 36788888888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 80 ~~~ 82 (200)
T cd08417 80 KDH 82 (200)
T ss_pred CCC
Confidence 654
No 244
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=84.71 E-value=53 Score=34.08 Aligned_cols=73 Identities=10% Similarity=0.133 Sum_probs=47.2
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.+..- .+++++... ....++..|.+|++|+++..-....+....+ ...++....++++++
T Consensus 109 ~~~~~l~~~~~~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~ 177 (305)
T CHL00180 109 LMPRLIGLFRQRYP-QINVQLQVH---------STRRIAWNVANGQIDIAIVGGEVPTELKKIL-EITPYVEDELALIIP 177 (305)
T ss_pred HHHHHHHHHHHHCC-CceEEEEeC---------CHHHHHHHHHcCCccEEEEcCccCcccccce-eEEEeccCcEEEEEC
Confidence 45677777777654 345555443 5688999999999999986322111111223 246778888899988
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 178 ~~~p 181 (305)
T CHL00180 178 KSHP 181 (305)
T ss_pred CCCc
Confidence 7643
No 245
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=84.65 E-value=45 Score=34.83 Aligned_cols=95 Identities=13% Similarity=0.054 Sum_probs=55.2
Q ss_pred hhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEec--cccccccceEEEEeCCCCC
Q 047109 652 ALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIA--PNYTTTSGFGFVFQKGSPL 729 (808)
Q Consensus 652 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~~k~sp~ 729 (808)
++...+.........++.+...+++..|. -.+++.+ ....... .. ++..++ .... ...++++.+|+.+.
T Consensus 210 ~~~~~~~~~~~~~~~~~~~~~~~~v~~g~----Gv~~lp~-~~~~~~~--~~-~l~~~~i~~~~~-~~~~~l~~~~~~~~ 280 (313)
T PRK12684 210 AFALRGLKPDIVLEAIDADVIKTYVELGL----GVGIVAD-MAFDPER--DR-NLRAIDAGHLFG-SSTTRLGLRRGAYL 280 (313)
T ss_pred HHHHcCCCCCeEEEeCCHHHHHHHHHhCC----ceEEeeh-hhccccc--cC-CeEEEECCCCCc-ceeEEEEEECCCcC
Confidence 34333443333455667888888887765 3444443 2222221 12 455443 2333 45688999999888
Q ss_pred hHHHHHHHHhhhhcCchHHHHHHhcCC
Q 047109 730 VHDISRAIAKLREEGTLRKIEIEWFND 756 (808)
Q Consensus 730 ~~~~~~~i~~l~e~G~~~~~~~~~~~~ 756 (808)
...+...+..+++. +..++.++.++.
T Consensus 281 ~~~~~~f~~~l~~~-~~~~~~~~~~~~ 306 (313)
T PRK12684 281 RGYVYTFIELFAPT-LNRKLVEQALKG 306 (313)
T ss_pred CHHHHHHHHHHHHH-hCHHHHHHHhcc
Confidence 88888777777764 566666666543
No 246
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=84.00 E-value=4.6 Score=43.61 Aligned_cols=81 Identities=9% Similarity=0.104 Sum_probs=60.9
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.+|.+++.++++..-... ...+.+.+.+++.|+.+.....+.. .++.++....++.+++.++|+||-.+
T Consensus 19 ~~~l~~~~~~~g~~~~livt~~~~~~~-g~~~~v~~~L~~~~i~~~~f~~v~~-np~~~~v~~~~~~~~~~~~D~IiaiG 96 (383)
T PRK09860 19 LTDAMNMMADYGFTRTLIVTDNMLTKL-GMAGDVQKALEERNIFSVIYDGTQP-NPTTENVAAGLKLLKENNCDSVISLG 96 (383)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhC-ccHHHHHHHHHHcCCeEEEeCCCCC-CcCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 355778888899999999886543334 6788999999999987654333443 45677888889999999999999776
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 97 GGS 99 (383)
T PRK09860 97 GGS 99 (383)
T ss_pred Cch
Confidence 543
No 247
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=83.96 E-value=8.1 Score=38.63 Aligned_cols=103 Identities=16% Similarity=0.232 Sum_probs=62.4
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
..+.+++++++.+++.++++...|.. ..+.+.+.+++.|+++........ ..+..+......+++..++|+|+-.+.
T Consensus 8 ~~l~~~l~~~~~~~~lvv~d~~t~~~--~g~~v~~~l~~~g~~v~~~~~~~~-~~~~~~~~~~~~~~~~~~~d~ii~vGg 84 (250)
T PF13685_consen 8 DKLPEILSELGLKKVLVVTDENTYKA--AGEKVEESLKSAGIEVAVIEEFVG-DADEDEVEKLVEALRPKDADLIIGVGG 84 (250)
T ss_dssp GGHHHHHGGGT-SEEEEEEETTHHHH--HHHHHHHHHHTTT-EEEEEE-EE----BHHHHHHHHTTS--TT--EEEEEES
T ss_pred HHHHHHHHhcCCCcEEEEEcCCHHHH--HHHHHHHHHHHcCCeEEEEecCCC-CCCHHHHHHHHHHhcccCCCEEEEeCC
Confidence 34677888888899999998887754 678999999999999874432222 235556667777777778888888776
Q ss_pred HHHHHHHHHH-HHHcCCCCCCeEEEEeCccc
Q 047109 204 HALASHLFLN-AKKLGMMSKGYSWIVTASTM 233 (808)
Q Consensus 204 ~~~~~~~l~~-a~~~gl~~~~~~~i~~~~~~ 233 (808)
+. ...+.+- |.++|+ .|+-+-+....
T Consensus 85 G~-i~D~~K~~A~~~~~---p~isVPTa~S~ 111 (250)
T PF13685_consen 85 GT-IIDIAKYAAFELGI---PFISVPTAASH 111 (250)
T ss_dssp HH-HHHHHHHHHHHHT-----EEEEES--SS
T ss_pred cH-HHHHHHHHHHhcCC---CEEEecccccc
Confidence 64 3444443 445663 56666555433
No 248
>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=83.28 E-value=13 Score=34.93 Aligned_cols=100 Identities=10% Similarity=0.038 Sum_probs=65.0
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcC--CcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEE
Q 047109 121 SQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDN--DIDIARRITISMSSNTDDQVIEKLSMLKSSETKVF 198 (808)
Q Consensus 121 ~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~--g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 198 (808)
+....+.+.+...+ .++.++.... +..+.+.+.+++. |++|+....-+. +..+-..+++.|.+++||+|
T Consensus 33 dl~~~ll~~~~~~~-~~v~llG~~~-----~~~~~~~~~l~~~yp~l~i~g~~~g~~---~~~~~~~i~~~I~~~~pdiv 103 (171)
T cd06533 33 DLMPALLELAAQKG-LRVFLLGAKP-----EVLEKAAERLRARYPGLKIVGYHHGYF---GPEEEEEIIERINASGADIL 103 (171)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCH-----HHHHHHHHHHHHHCCCcEEEEecCCCC---ChhhHHHHHHHHHHcCCCEE
Confidence 45566666665554 6788877555 3455555556654 777776433232 33444458899999999999
Q ss_pred EEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 047109 199 VVHMSHALASHLFLNAKKLGMMSKGYSWIVTAST 232 (808)
Q Consensus 199 il~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~ 232 (808)
++.+..+.-..++.+.++.. +.-+++..++.
T Consensus 104 ~vglG~PkQE~~~~~~~~~l---~~~v~~~vG~~ 134 (171)
T cd06533 104 FVGLGAPKQELWIARHKDRL---PVPVAIGVGGS 134 (171)
T ss_pred EEECCCCHHHHHHHHHHHHC---CCCEEEEecee
Confidence 99988877777777666653 34566665553
No 249
>PF01177 Asp_Glu_race: Asp/Glu/Hydantoin racemase; InterPro: IPR015942 This entry represents a group of related proteins that includes aspartate racemase, glutamate racemase, hydantoin racemase and arylmalonate decarboxylase. Aspartate racemase (5.1.1.13 from EC) and glutamate racemase (5.1.1.3 from EC) are two evolutionary related bacterial enzymes that do not seem to require a cofactor for their activity []. Glutamate racemase, which interconverts L-glutamate into D-glutamate, is required for the biosynthesis of peptidoglycan and some peptide-based antibiotics such as gramicidin S. In addition to characterised aspartate and glutamate racemases, this family also includes a hypothetical protein from Erwinia carotovora and one from Escherichia coli (ygeA). Two conserved cysteines are present in the sequence of these enzymes. They are expected to play a role in catalytic activity by acting as bases in proton abstraction from the substrate.; PDB: 3S7Z_A 3S81_C 3OUT_A 3EIS_B 3IXL_A 3IP8_A 2VLB_D 3DTV_A 3IXM_A 3DG9_A ....
Probab=83.24 E-value=47 Score=32.34 Aligned_cols=123 Identities=13% Similarity=0.220 Sum_probs=71.4
Q ss_pred hhcCCeEEEEecCCChhHHHHHHHhc-CCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEE
Q 047109 62 MQNVDLQAIICTEMTPTGAHILAEIG-SKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVIL 140 (808)
Q Consensus 62 i~~~~v~aiiG~~~~s~~~~~~~~~~-~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~i 140 (808)
+.+.++.+|+-+. . +....+..+- ...++|+++.. ++.++-+.. +-+++++
T Consensus 61 l~~~g~d~i~i~C-~-s~~~~~~~~~~~~~~iPv~~~~-------------------------~a~~~~~~~-~~~ri~v 112 (216)
T PF01177_consen 61 LEKAGVDAIVIAC-N-SAHPFVDELRKERVGIPVVGIV-------------------------EAALEAAKA-GGKRIGV 112 (216)
T ss_dssp HHHTTESEEEESS-H-HHHHHHHHHHHHHHSSEEEESH-------------------------HHHHHHHHH-TSSEEEE
T ss_pred HHhCCCCEEEEcC-C-chhhhHHHHhhhcCceEEEecc-------------------------HHHHHHHHh-cCCEEEE
Confidence 3346899999865 3 3323344444 55688877721 233444444 8899999
Q ss_pred EEecCCccccCcHHHHHHhhhcC-Cc--EEEEEE--ecC----CCCCChH---HHHHHHHHh-cCCCCeEEEEEcCHHHH
Q 047109 141 IYEDNTWGSDNIIPYLFDSLHDN-DI--DIARRI--TIS----MSSNTDD---QVIEKLSML-KSSETKVFVVHMSHALA 207 (808)
Q Consensus 141 i~~d~~~g~~~~~~~~~~~~~~~-g~--~i~~~~--~~~----~~~~~~~---~~~~~l~~l-~~~~~~viil~~~~~~~ 207 (808)
+..... .....+.+.+++. |+ .++... .+. ....+.. .+...++++ +..++|+|++.|..-..
T Consensus 113 l~t~~~----~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~ 188 (216)
T PF01177_consen 113 LTTYTT----EKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDGADAIILGCTHLPL 188 (216)
T ss_dssp EESHHH----HHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGG
T ss_pred EecCcc----cchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCCCCEEEECCCchHH
Confidence 986332 4456677777777 76 444321 111 2011222 455555555 47899999999876543
Q ss_pred H-HHHHHHHH
Q 047109 208 S-HLFLNAKK 216 (808)
Q Consensus 208 ~-~~l~~a~~ 216 (808)
. ...+.+.+
T Consensus 189 ~~~~~~~l~~ 198 (216)
T PF01177_consen 189 LLGAIEALEE 198 (216)
T ss_dssp GHHHHHHHHH
T ss_pred HHHHHHhhcc
Confidence 3 55555554
No 250
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=83.21 E-value=17 Score=38.32 Aligned_cols=149 Identities=10% Similarity=-0.046 Sum_probs=81.7
Q ss_pred CCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEec
Q 047109 65 VDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYED 144 (808)
Q Consensus 65 ~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d 144 (808)
.+|.++|--...+. .....+...++|++......+. . .+-.....+. ..+..+++.+...|.++++++..+
T Consensus 113 ~~vDgiI~~~~~~~---~~~~~l~~~~~pvV~~~~~~~~--~-~~~~V~~D~~---~~~~~a~~~l~~~G~~~i~~i~~~ 183 (327)
T PRK10339 113 KNVTGILIVGKPTP---ALRAAASALTDNICFIDFHEPG--S-GYDAVDIDLA---RISKEIIDFYINQGVNRIGFIGGE 183 (327)
T ss_pred ccCCEEEEeCCCCH---HHHHHHHhcCCCEEEEeCCCCC--C-CCCEEEECHH---HHHHHHHHHHHHCCCCeEEEeCCc
Confidence 36777664220222 1223344568999887543221 1 1122455555 666778888888899999999644
Q ss_pred CCc--cccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 047109 145 NTW--GSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFLNAKKLGMM 220 (808)
Q Consensus 145 ~~~--g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~~a~~~gl~ 220 (808)
... .. .-.+.|.+.++..|+. .....+.. .....+....++++.+. .+++ |++++...|..+++++++.|+.
T Consensus 184 ~~~~~~~-~R~~gf~~~~~~~g~~-~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~a-i~~~~D~~A~g~~~al~~~g~~ 259 (327)
T PRK10339 184 DEPGKAD-IREVAFAEYGRLKQVV-REEDIWRG-GFSSSSGYELAKQMLAREDYPKA-LFVASDSIAIGVLRAIHERGLN 259 (327)
T ss_pred cccchhh-HHHHHHHHHHHHcCCC-Chhheeec-CcChhHHHHHHHHHHhCCCCCCE-EEECCcHHHHHHHHHHHHcCCC
Confidence 322 22 3356777778777751 11011111 11222233344444332 3554 5556677788999999999985
Q ss_pred CCCeEE
Q 047109 221 SKGYSW 226 (808)
Q Consensus 221 ~~~~~~ 226 (808)
.++-+-
T Consensus 260 vP~di~ 265 (327)
T PRK10339 260 IPQDIS 265 (327)
T ss_pred CCCceE
Confidence 444333
No 251
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=82.64 E-value=45 Score=34.75 Aligned_cols=71 Identities=8% Similarity=0.165 Sum_probs=47.5
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.+..- ++++++... ....++.+|.+|++|+++..... ......+. ..|+....++++++
T Consensus 111 ~l~~~l~~~~~~~p-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~l~-~~~l~~~~~~lv~~ 178 (312)
T PRK10341 111 FMSDMINKFKEVFP-KAQVSMYEA---------QLSSFLPAIRDGRLDFAIGTLSN-EMKLQDLH-VEPLFESEFVLVAS 178 (312)
T ss_pred hHHHHHHHHHHhCC-CCEEEEEeC---------CHHHHHHHHHcCCCcEEEecCCc-ccccCCee-EEEEecccEEEEEc
Confidence 34577888877654 356666654 56899999999999999854221 11122333 36888888888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 179 ~~~ 181 (312)
T PRK10341 179 KSR 181 (312)
T ss_pred CCC
Confidence 654
No 252
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=82.40 E-value=6.5 Score=41.77 Aligned_cols=92 Identities=10% Similarity=0.076 Sum_probs=70.5
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
-..+.+.++.+|++++-|+.+..-... ...+.+.+.+++.|+.+.....+.. .+..+.....+..+++.++|.||-.+
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~-g~~~~v~~~L~~~~i~~~if~~v~p-~P~~~~v~~~~~~~~~~~~D~iIalG 94 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKL-GLLDKVLDSLDAAGIEYEVFDEVEP-EPTIETVEAGAEVAREFGPDTIIALG 94 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccc-hhHHHHHHHHHhcCCeEEEecCCCC-CCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 456777888899999999997776666 7899999999999988776555555 56677888888999999999999976
Q ss_pred CHH--HHHHHHHHHHH
Q 047109 203 SHA--LASHLFLNAKK 216 (808)
Q Consensus 203 ~~~--~~~~~l~~a~~ 216 (808)
.+. |+...+.-...
T Consensus 95 GGS~~D~AK~i~~~~~ 110 (377)
T COG1454 95 GGSVIDAAKAIALLAE 110 (377)
T ss_pred CccHHHHHHHHHHHhh
Confidence 553 44444433333
No 253
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=82.32 E-value=5.8 Score=42.98 Aligned_cols=81 Identities=11% Similarity=0.035 Sum_probs=60.8
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.+|.+++.++.+..-... ...+.+.+.|++.|+.+.....+.. .++.+.....++..++.++|+||-.+
T Consensus 37 ~~~l~~~~~~~g~~~~lvv~~~~~~~~-g~~~~v~~~L~~~gi~~~~~~~v~~-~P~~~~v~~~~~~~r~~~~D~IiavG 114 (395)
T PRK15454 37 VSSCGQQAQTRGLKHLFVMADSFLHQA-GMTAGLTRSLAVKGIAMTLWPCPVG-EPCITDVCAAVAQLRESGCDGVIAFG 114 (395)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhC-ccHHHHHHHHHHcCCeEEEECCCCC-CcCHHHHHHHHHHHHhcCcCEEEEeC
Confidence 356778888899888888775544444 6788899999999988764433443 44566788888889999999999987
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 115 GGS 117 (395)
T PRK15454 115 GGS 117 (395)
T ss_pred ChH
Confidence 664
No 254
>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=81.64 E-value=6.5 Score=42.34 Aligned_cols=80 Identities=10% Similarity=0.087 Sum_probs=60.2
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.++.+++.++++...... ...+.+.+.+++.|+++.....+.. .++.++....+...++.++|.||-.+
T Consensus 12 ~~~l~~~l~~~g~~~~liv~~~~~~~~-~~~~~v~~~L~~~g~~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~d~IIaiG 89 (370)
T cd08192 12 IKELPAECAELGIKRPLIVTDPGLAAL-GLVARVLALLEDAGLAAALFDEVPP-NPTEAAVEAGLAAYRAGGCDGVIAFG 89 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhC-ccHHHHHHHHHHcCCeEEEeCCCCC-CCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 345677788889999999986554433 5788999999999988754333444 45667888888888889999999775
Q ss_pred CH
Q 047109 203 SH 204 (808)
Q Consensus 203 ~~ 204 (808)
.+
T Consensus 90 GG 91 (370)
T cd08192 90 GG 91 (370)
T ss_pred Cc
Confidence 54
No 255
>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=81.50 E-value=50 Score=31.45 Aligned_cols=72 Identities=15% Similarity=0.146 Sum_probs=48.5
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.- .+++++... ++.+.+++.|.+|++|+++... +.....+++ .++.....++++
T Consensus 13 ~~~~~~l~~~~~~~P-~~~v~~~~~--------~~~~~l~~~L~~g~lDl~i~~~---~~~~~~l~~-~~l~~~~~~lv~ 79 (203)
T cd08463 13 LFLPELVARFRREAP-GARLEIHPL--------GPDFDYERALASGELDLVIGNW---PEPPEHLHL-SPLFSDEIVCLM 79 (203)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEeC--------CcchhHHHHHhcCCeeEEEecc---ccCCCCcEE-eEeecCceEEEE
Confidence 456688888888765 346665542 1347899999999999998632 111233444 577788888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 80 ~~~h~ 84 (203)
T cd08463 80 RADHP 84 (203)
T ss_pred eCCCC
Confidence 87644
No 256
>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=81.47 E-value=47 Score=31.10 Aligned_cols=69 Identities=14% Similarity=0.169 Sum_probs=46.5
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.+..- .+++++... +...++..|.+|++|+++... +.....+.+ .+.....++++++
T Consensus 14 ~l~~~l~~~~~~~P-~i~i~~~~~---------~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~~-~~l~~~~~~~v~~ 79 (198)
T cd08421 14 FLPEDLASFLAAHP-DVRIDLEER---------LSADIVRAVAEGRADLGIVAG---NVDAAGLET-RPYRTDRLVVVVP 79 (198)
T ss_pred hhHHHHHHHHHHCC-CceEEEEec---------CcHHHHHHHhcCCceEEEEec---CCCCCCcEE-EEeecCcEEEEeC
Confidence 34578888887763 345555543 457889999999999998532 222333433 6778888888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 80 ~~~ 82 (198)
T cd08421 80 RDH 82 (198)
T ss_pred CCC
Confidence 664
No 257
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=80.99 E-value=61 Score=33.51 Aligned_cols=88 Identities=9% Similarity=0.104 Sum_probs=57.2
Q ss_pred CCCeEEEEeecCCccceEEEeeCCCCCCccceEEEEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcC
Q 047109 412 KINKLRIGVPVNGHIEFVHVVRDPQSVNATLIVKGFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQ 491 (808)
Q Consensus 412 ~~~~l~v~~~~~~~~p~~~~~~~~~~~~~~~~~~G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g 491 (808)
..+.|++++... . . ..+-.+++..+.+... .+++++... +..++...|.+|
T Consensus 93 ~~g~l~I~~~~~--~--~---------------~~~l~~~l~~~~~~~p-~i~~~~~~~---------~~~~~~~~l~~g 143 (302)
T PRK09791 93 LAGQINIGMGAS--I--A---------------RSLMPAVISRFHQQHP-QVKVRIMEG---------QLVSMINELRQG 143 (302)
T ss_pred cceEEEEEechH--H--H---------------HhhhHHHHHHHHHHCC-CeEEEEEeC---------ChHHHHHHHHCC
Confidence 357889988731 1 1 1345677888887665 455555543 457999999999
Q ss_pred cccEEEeceeeeccccceeeccccceeccEEEEEecCCC
Q 047109 492 KFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPTDRN 530 (808)
Q Consensus 492 ~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~~~~ 530 (808)
++|+++...... .....+.+ .|+....+++++++..+
T Consensus 144 ~~Di~i~~~~~~-~~~~~~~~-~~l~~~~~~l~~~~~~~ 180 (302)
T PRK09791 144 ELDFTINTYYQG-PYDHEFTF-EKLLEKQFAVFCRPGHP 180 (302)
T ss_pred CccEEEEecCCc-ccccceeE-EEeccceEEEEEcCCCC
Confidence 999988632111 11233444 68888889998887643
No 258
>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=80.77 E-value=6.6 Score=42.92 Aligned_cols=81 Identities=15% Similarity=0.186 Sum_probs=61.3
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
.+.+.+.++.++.+++.++++...+.. ...+.+.+.+++.|+.+.....+.. .++.+.....++.+++.++|+||-.+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~~-g~~~~v~~~L~~~gi~~~~f~~v~~-~p~~~~v~~~~~~~~~~~~D~IIaiG 88 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQL-PPVKVVLDSLEAAGINFEVYDDVRV-EPTDESFKDAIAFAKKGQFDAFVAVG 88 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhhc-chHHHHHHHHHHcCCcEEEeCCCCC-CcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 355677888899999999987665544 5678999999999988764333443 44667788888888889999999886
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 89 GGS 91 (414)
T cd08190 89 GGS 91 (414)
T ss_pred Ccc
Confidence 553
No 259
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=80.37 E-value=7.9 Score=41.84 Aligned_cols=80 Identities=11% Similarity=0.150 Sum_probs=59.5
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.+|.+++.++++...+-. ...+.+.+.+++.|+.+.....+.. .++.++....++.+++.++|+||-.+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~-g~~~~v~~~L~~~g~~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~D~IIaiG 95 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKC-GVVAKVTDVLDAAGLAYEIYDGVKP-NPTIEVVKEGVEVFKASGADYLIAIG 95 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhC-cchHHHHHHHHHCCCeEEEeCCCCC-CcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 355777888889999999886654444 5788999999999987654333433 34566788888888889999999776
Q ss_pred CH
Q 047109 203 SH 204 (808)
Q Consensus 203 ~~ 204 (808)
.+
T Consensus 96 GG 97 (382)
T PRK10624 96 GG 97 (382)
T ss_pred Ch
Confidence 54
No 260
>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=80.34 E-value=51 Score=31.09 Aligned_cols=68 Identities=13% Similarity=0.058 Sum_probs=44.1
Q ss_pred eHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEec
Q 047109 448 CVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPT 527 (808)
Q Consensus 448 ~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~ 527 (808)
-..++..+.+..- .+++++... +. .+++.|.+|++|+++..-. .....+. ..|+....+++++++
T Consensus 15 l~~~i~~~~~~~P-~i~l~i~~~---------~~-~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 79 (200)
T cd08462 15 LPPVIERVAREAP-GVRFELLPP---------DD-QPHELLERGEVDLLIAPER---FMSDGHP-SEPLFEEEFVCVVWA 79 (200)
T ss_pred HHHHHHHHHHHCC-CCEEEEecC---------Ch-hHHHHHhcCCeeEEEecCC---CCCCCce-eeeeeccceEEEEcC
Confidence 4567777777664 345555542 33 8999999999999986321 1122333 347777888888876
Q ss_pred CCC
Q 047109 528 DRN 530 (808)
Q Consensus 528 ~~~ 530 (808)
..+
T Consensus 80 ~hp 82 (200)
T cd08462 80 DNP 82 (200)
T ss_pred CCC
Confidence 644
No 261
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=80.26 E-value=57 Score=33.87 Aligned_cols=68 Identities=10% Similarity=0.070 Sum_probs=43.7
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+...++..+.++.- .+++.+... ....+...|.+|++|+++.... .....++ ..|+....++++++
T Consensus 106 ~~~~~l~~~~~~~p-~i~l~~~~~---------~~~~~~~~l~~g~~Di~i~~~~---~~~~~~~-~~~l~~~~~~lv~~ 171 (305)
T PRK11233 106 LTMPLLQAVRAEFP-GIVLYLHEN---------SGATLNEKLMNGQLDMAVIYEH---SPVAGLS-SQPLLKEDLFLVGT 171 (305)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEEC---------CcHHHHHHHHCCCCCEEEEcCC---cCCCCcE-EEEEeeeeEEEEEc
Confidence 34567888887763 335555442 3468889999999999985321 1122233 35777888888887
Q ss_pred cC
Q 047109 527 TD 528 (808)
Q Consensus 527 ~~ 528 (808)
+.
T Consensus 172 ~~ 173 (305)
T PRK11233 172 QD 173 (305)
T ss_pred Cc
Confidence 55
No 262
>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=80.04 E-value=53 Score=30.79 Aligned_cols=69 Identities=13% Similarity=0.086 Sum_probs=45.4
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.++.- ++++++... +...++..+.+|++|+++.... .....+. +.++....++++++
T Consensus 14 ~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~~~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~ 79 (199)
T cd08426 14 LLPSLIARFRQRYP-GVFFTVDVA---------STADVLEAVLSGEADIGLAFSP---PPEPGIR-VHSRQPAPIGAVVP 79 (199)
T ss_pred HHHHHHHHHHHhCC-CeEEEEEeC---------CcHHHHHHHHCCCccEEEecCC---CCCCCeE-EEeeccCcEEEEec
Confidence 34567777777654 345555543 4478899999999999986322 1122333 36777888888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 80 ~~h 82 (199)
T cd08426 80 PGH 82 (199)
T ss_pred CCC
Confidence 654
No 263
>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=79.51 E-value=39 Score=31.90 Aligned_cols=70 Identities=14% Similarity=0.106 Sum_probs=46.3
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.- .+++++... +. .+++.|.+|++|+++.... .....+. ..|+....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~l~~~---------~~-~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~ 77 (200)
T cd08460 13 AFGPALLAAVAAEAP-GVRLRFVPE---------SD-KDVDALREGRIDLEIGVLG---PTGPEIR-VQTLFRDRFVGVV 77 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEecC---------ch-hHHHHHHCCCccEEEecCC---CCCcchh-eeeeeccceEEEE
Confidence 455677888888764 345655432 34 6789999999999986321 1122343 3677888888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 78 ~~~hp 82 (200)
T cd08460 78 RAGHP 82 (200)
T ss_pred eCCCC
Confidence 87643
No 264
>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=79.33 E-value=8.7 Score=41.46 Aligned_cols=81 Identities=11% Similarity=0.165 Sum_probs=60.4
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.++.+++.++++...... ...+.+.+.+++.|+.+.....+.. .++.++....++.+++.++|.||-.+
T Consensus 14 l~~l~~~l~~~~~~~~livt~~~~~~~-~~~~~v~~~L~~~~~~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~D~IIaiG 91 (376)
T cd08193 14 LARLGELLAALGAKRVLVVTDPGILKA-GLIDPLLASLEAAGIEVTVFDDVEA-DPPEAVVEAAVEAARAAGADGVIGFG 91 (376)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhC-ccHHHHHHHHHHcCCeEEEECCCCC-CcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 345667788888899999886654334 5788899999999987654333434 45667888888899889999999887
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 92 GGs 94 (376)
T cd08193 92 GGS 94 (376)
T ss_pred Cch
Confidence 554
No 265
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=78.97 E-value=74 Score=32.72 Aligned_cols=71 Identities=8% Similarity=0.049 Sum_probs=48.5
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.. ++.+++... ....++..|.+|++|+++... +.+...+. +.++....+++++
T Consensus 104 ~~l~~~l~~~~~~~p-~~~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~---~~~~~~l~-~~~l~~~~~~~~~ 169 (296)
T PRK11242 104 YLIGPLIDAFHARYP-GITLTIREM---------SQERIEALLADDELDVGIAFA---PVHSPEIE-AQPLFTETLALVV 169 (296)
T ss_pred hhhHHHHHHHHHHCC-CCEEEEEeC---------CHHHHHHHHHCCCCcEEEEec---CCCCccee-EEEeeeccEEEEE
Confidence 346678888888754 456665543 457889999999999998532 22223333 4678888888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 170 ~~~~p 174 (296)
T PRK11242 170 GRHHP 174 (296)
T ss_pred cCCCc
Confidence 87643
No 266
>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=78.92 E-value=79 Score=32.62 Aligned_cols=72 Identities=15% Similarity=0.161 Sum_probs=48.0
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.++.- .+++.+... +...++.++.+|++|++++.... ......+.+ .|......+++++
T Consensus 107 ~~~~~l~~~~~~~P-~~~i~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~-~~~~~~~~~-~~l~~~~~~~~~~ 174 (300)
T TIGR02424 107 LMPEVVKRFLARAP-RLRVRIMTG---------PNAYLLDQLRVGALDLVVGRLGA-PETMQGLSF-EHLYNEPVVFVVR 174 (300)
T ss_pred hhHHHHHHHHHhCC-CcEEEEEeC---------chHHHHHHHHCCCCCEEEEecCC-cccccceee-eeecCCceEEEEc
Confidence 35577777877765 456666543 45788999999999999864322 222233433 5788888888887
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 175 ~~hp 178 (300)
T TIGR02424 175 AGHP 178 (300)
T ss_pred CCCc
Confidence 6543
No 267
>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=78.89 E-value=9.7 Score=41.02 Aligned_cols=80 Identities=9% Similarity=0.129 Sum_probs=60.6
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.++.+++.++++...+.. ...+.+.+.+++.|+++.....+.. ..+.++....+..++..++|.||-.+
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~~-~~~~~v~~~L~~~~~~~~~~~~~~~-~p~~~~v~~~~~~~~~~~~d~IiaiG 88 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVKT-GVLDKVIDSLKEAGIEVVIFDGVEP-NPTLSNVDAAVAAYREEGCDGVIAVG 88 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhC-ccHHHHHHHHHHcCCeEEEECCCCC-CCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 356777788888899999987665444 6778999999999987654333443 45677888899999888999998776
Q ss_pred CH
Q 047109 203 SH 204 (808)
Q Consensus 203 ~~ 204 (808)
.+
T Consensus 89 GG 90 (370)
T cd08551 89 GG 90 (370)
T ss_pred Cc
Confidence 55
No 268
>PRK07475 hypothetical protein; Provisional
Probab=78.75 E-value=16 Score=36.52 Aligned_cols=135 Identities=13% Similarity=0.113 Sum_probs=77.8
Q ss_pred ceEEEEEEec----------CCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccc
Q 047109 37 KTRLVLHSRD----------SKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLT 106 (808)
Q Consensus 37 ~~~l~~~~~d----------~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls 106 (808)
|+.+.+.+.+ +..++......+.+.+.+.|+.+|+.+ |+........+.+..+||+++. .
T Consensus 39 ~~pv~~~~v~g~~~~~~~~~~~~~~~~~l~~aa~~L~~~G~d~I~~~--Cgt~~~~~~~l~~~~~VPv~~s-----s--- 108 (245)
T PRK07475 39 PFPVRYKVVRGATPERVVEGDDPSLLDAFVAAARELEAEGVRAITTS--CGFLALFQRELAAALGVPVATS-----S--- 108 (245)
T ss_pred CcCEEEEeeCCCCHHHHhcCCCccHHHHHHHHHHHHHHcCCCEEEec--hHHHHHHHHHHHHHcCCCEecc-----H---
Confidence 4566666655 235566666666666666699999997 4444555556777789998871 1
Q ss_pred cceeeeccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCccccCcHHHHHHhhhcCCcEE-E----E-EEe------
Q 047109 107 SYSIQIDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDI-A----R-RIT------ 172 (808)
Q Consensus 107 ~~~~r~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i-~----~-~~~------ 172 (808)
.+.+..++.. +-++|+++..+.. .+ ..+.+++.|+.. + . ...
T Consensus 109 -----------------~~~v~~l~~~~~~~~kIGILtt~~t----~l---~~~~l~~~Gi~~~~~~~~~~g~e~~~~~~ 164 (245)
T PRK07475 109 -----------------LLQVPLIQALLPAGQKVGILTADAS----SL---TPAHLLAVGVPPDTSSLPIAGLEEGGEFR 164 (245)
T ss_pred -----------------HHHHHHHHHhccCCCeEEEEeCCch----hh---hHHHHHhCCCCCCCccccccCcccchHHH
Confidence 1222223332 3589999987664 22 245577777741 1 1 000
Q ss_pred --cCCC-C-CC----hHHHHHHHHHhc--CCCCeEEEEEcCHH
Q 047109 173 --ISMS-S-NT----DDQVIEKLSMLK--SSETKVFVVHMSHA 205 (808)
Q Consensus 173 --~~~~-~-~~----~~~~~~~l~~l~--~~~~~viil~~~~~ 205 (808)
+-.. . .+ .+++...++++. ..++++||+.|..-
T Consensus 165 ~~I~~~~~~~d~~~~~~~l~~~~~~l~~~~~~~daIvL~CTeL 207 (245)
T PRK07475 165 RNILENRGELDNEAAEQEVVAAARALLERHPDIGAIVLECTNM 207 (245)
T ss_pred HHHhcccccccHHHHHHHHHHHHHHHHhhCCCCCEEEEcCcCh
Confidence 0000 0 01 245666667665 34788888877654
No 269
>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=77.60 E-value=10 Score=40.85 Aligned_cols=80 Identities=11% Similarity=0.147 Sum_probs=59.5
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
.+.+.+.++.++-+++.++++...+.. ...+.+.+.+++.|+.+.....+.. .++.+.....+..+++.++|+||-.+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~~-g~~~~v~~~L~~~g~~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~d~IIaiG 91 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVKL-GLLDKVLEALEGAGIEYAVYDGVPP-DPTIENVEAGLALYRENGCDAILAVG 91 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhhc-ccHHHHHHHHHhcCCeEEEeCCCCC-CcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 345677788888899999886654444 5678899999999987654434443 44667788888889889999999765
Q ss_pred CH
Q 047109 203 SH 204 (808)
Q Consensus 203 ~~ 204 (808)
.+
T Consensus 92 GG 93 (374)
T cd08189 92 GG 93 (374)
T ss_pred Cc
Confidence 54
No 270
>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=77.57 E-value=63 Score=30.26 Aligned_cols=70 Identities=9% Similarity=0.008 Sum_probs=45.7
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.+..- ++++++... +...+...+.+|++|+++... ......+. +.++....+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Di~i~~~---~~~~~~~~-~~~l~~~~~~lv~ 78 (198)
T cd08461 13 AILPPLLAALRQEAP-GVRVAIRDL---------ESDNLEAQLERGEVDLALTTP---EYAPDGLR-SRPLFEERYVCVT 78 (198)
T ss_pred HHhHHHHHHHHHHCC-CcEEEEeeC---------CcccHHHHHhcCCCcEEEecC---ccCCccce-eeeeecCcEEEEE
Confidence 345678888888764 345555432 335788999999999998532 11222333 4677788888888
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 79 ~~~~ 82 (198)
T cd08461 79 RRGH 82 (198)
T ss_pred cCCC
Confidence 7654
No 271
>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=77.48 E-value=62 Score=30.13 Aligned_cols=72 Identities=13% Similarity=0.106 Sum_probs=46.1
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.+... ++++++... +.+.+++.|.+|++|+++..-.. ......+. +.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~~~-~~~l~~~~~~~v~ 80 (195)
T cd08427 13 GLLPRALARLRRRHP-DLEVHIVPG---------LSAELLARVDAGELDAAIVVEPP-FPLPKDLV-WTPLVREPLVLIA 80 (195)
T ss_pred HHhHHHHHHHHHHCC-CceEEEEeC---------CcHHHHHHHHCCCCCEEEEcCCC-CccccCce-EEEcccCcEEEEE
Confidence 345678888877764 345555543 45789999999999999863211 11022232 3567778888888
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 81 ~~~~ 84 (195)
T cd08427 81 PAEL 84 (195)
T ss_pred CCCC
Confidence 7654
No 272
>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=77.45 E-value=70 Score=30.76 Aligned_cols=70 Identities=13% Similarity=0.123 Sum_probs=47.1
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+..+++..+.++.. ++++++... +...+.+.|.+|++|+++... ......+. ..|......+++++
T Consensus 14 ~l~~~l~~f~~~~P-~v~l~i~~~---------~~~~~~~~l~~g~~Di~i~~~---~~~~~~l~-~~~l~~~~~~~v~~ 79 (221)
T cd08469 14 LLPALVRRLETEAP-GIDLRIRPV---------TRLDLAEQLDLGRIDLVIGIF---EQIPPRFR-RRTLFDEDEVWVMR 79 (221)
T ss_pred HHHHHHHHHHHHCC-CcEEEEeeC---------ChhhHHHHHHCCCccEEEecC---CCCCccce-eeeeeccceEEEEe
Confidence 34567777777664 345665543 457889999999999998632 22223344 36788888888887
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 80 ~~~p 83 (221)
T cd08469 80 KDHP 83 (221)
T ss_pred CCCc
Confidence 6643
No 273
>cd08438 PBP2_CidR The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of CidR which positively up-regulates the expression of cidABC operon in the presence of acetic acid produced by the metabolism of excess glucose. The CidR affects the control of murein hydrolase activity by enhancing cidABC expression in the presence of acetic acid. Thus, up-regulation of cidABC expression results in increased murein hydrolase activity. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate
Probab=77.39 E-value=62 Score=30.12 Aligned_cols=71 Identities=10% Similarity=0.142 Sum_probs=48.3
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+..++++.+.+... .+++++... +...+...|.+|++|+++..... ....+.+ .++....+++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~~---------~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~~-~~l~~~~~~~v~ 78 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVEY---------GGKKVEQAVLNGELDVGITVLPV---DEEEFDS-QPLCNEPLVAVL 78 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEEc---------CcHHHHHHHHcCCCCEEEEeccc---ccCCcee-EEeccccEEEEe
Confidence 356788888888765 456666543 45788999999999999864322 2223333 567778888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 79 ~~~~~ 83 (197)
T cd08438 79 PRGHP 83 (197)
T ss_pred cCCCC
Confidence 76643
No 274
>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=77.08 E-value=11 Score=40.70 Aligned_cols=81 Identities=12% Similarity=0.118 Sum_probs=59.7
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.+|.+++.++++....-. ...+.+.+.+++.|+.+.....+.. .++.+......+.+++.++|.||-.+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~-g~~~~v~~~L~~~~i~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~D~IiaiG 94 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKF-GVADKVTDLLDEAGIAYELFDEVKP-NPTITVVKAGVAAFKASGADYLIAIG 94 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhc-cchHHHHHHHHHCCCeEEEECCCCC-CcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 345667788889899999886554333 5788999999999987654333333 34567788888888889999999876
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 95 GGS 97 (379)
T TIGR02638 95 GGS 97 (379)
T ss_pred ChH
Confidence 553
No 275
>cd08433 PBP2_Nac The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold. The NAC is a LysR-type transcription regulator that activates expression of operons such as hut (histidine utilization) and ure (urea utilization), allowing use of non-preferred (poor) nitrogen sources, and represses expression of operons, such as glutamate dehydrogenase (gdh), allowing assimilation of the preferred nitrogen source. The expression of the nac gene is fully dependent on the nitrogen regulatory system (NTR) and the sigma54-containing RNA polymerase (sigma54-RNAP). In response to nitrogen starvation, NTR system activates the expression of nac, and NAC activates the expression of hut, ure, and put (proline utilization). NAC is not involved in the transcription of Sigma70-RNAP operons such as glnA, which directly respond by the NTR system, but activates the transcription of sigma70-RNAP dependent operons such as hut.
Probab=76.82 E-value=66 Score=30.11 Aligned_cols=70 Identities=11% Similarity=0.114 Sum_probs=46.1
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.+... ++++++... +-..+...|.+|++|+++... +.....+. +.++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~~---------~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~~~ 78 (198)
T cd08433 13 VLAVPLLRAVRRRYP-GIRLRIVEG---------LSGHLLEWLLNGRLDLALLYG---PPPIPGLS-TEPLLEEDLFLVG 78 (198)
T ss_pred hcchHHHHHHHHHCC-CcEEEEEec---------CcHHHHHHHhCCCCcEEEEeC---CCCCCCee-EEEeccccEEEEe
Confidence 345678888888764 345655543 336889999999999998532 22222232 4577788888888
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 79 ~~~~ 82 (198)
T cd08433 79 PADA 82 (198)
T ss_pred cCCC
Confidence 7653
No 276
>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=76.67 E-value=67 Score=30.12 Aligned_cols=70 Identities=13% Similarity=0.116 Sum_probs=46.5
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.+++- .+++++... +...+...|.+|++|+++... +.....+. +.++....++++++
T Consensus 14 ~l~~~l~~f~~~~P-~v~l~~~~~---------~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~lv~~ 79 (200)
T cd08466 14 LLPRLLARLKQLAP-NISLRESPS---------SEEDLFEDLRLQEVDLVIDYV---PFRDPSFK-SELLFEDELVCVAR 79 (200)
T ss_pred HHHHHHHHHHHHCC-CCEEEEecC---------chHhHHHHHHcCCccEEEecc---cCCCCCce-eeeecccceEEEEe
Confidence 44577777877763 345555543 557889999999999998532 22222333 35777888888888
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 80 ~~~~ 83 (200)
T cd08466 80 KDHP 83 (200)
T ss_pred CCCC
Confidence 6643
No 277
>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=76.53 E-value=58 Score=32.89 Aligned_cols=79 Identities=8% Similarity=0.051 Sum_probs=42.6
Q ss_pred HHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC-CCceEEeccccccccceEEEEeCCCCChHHHHHHHHhhhhcCchH
Q 047109 669 AEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY-STDYTMIAPNYTTTSGFGFVFQKGSPLVHDISRAIAKLREEGTLR 747 (808)
Q Consensus 669 ~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~k~sp~~~~~~~~i~~l~e~G~~~ 747 (808)
..+....+..|. +|+.+....++.-.--.. .+.+.. ...-. ++-..++++++..=.+.+...+..+++...-+
T Consensus 171 ~~~~~~al~~g~----vDaa~v~~~~~~~agl~~~~~~i~~-e~~~~-~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~ 244 (258)
T TIGR00363 171 TSQLPRALDDPK----VDLAVINTTYAGQVGLNPQDDGVFV-EDKDS-PYVNIIVSREDNKDAENVKDFIQSYQSEEVYQ 244 (258)
T ss_pred HHHHHHHhhccc----ccEEEEChHHHHHcCCCcCcCceee-cCCCC-CeeEEEEEcCCccCCHHHHHHHHHHcCHHHHH
Confidence 345567776665 888887766543321111 111211 11111 22244556655435677778888888776666
Q ss_pred HHHHHh
Q 047109 748 KIEIEW 753 (808)
Q Consensus 748 ~~~~~~ 753 (808)
.+.++|
T Consensus 245 ~i~~~~ 250 (258)
T TIGR00363 245 AAQKHF 250 (258)
T ss_pred HHHHHc
Confidence 666664
No 278
>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=76.48 E-value=12 Score=40.39 Aligned_cols=81 Identities=16% Similarity=0.163 Sum_probs=60.5
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.++.+++.++++...+.. ...+.+.+.+++.|+.+.....+.. .++.+.....+..++..++|.||-.+
T Consensus 11 ~~~l~~~~~~~~~~r~livt~~~~~~~-g~~~~v~~~L~~~gi~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~D~IIaiG 88 (375)
T cd08194 11 VDETGAVLADLGGKRPLIVTDKVMVKL-GLVDKLTDSLKKEGIESAIFDDVVS-EPTDESVEEGVKLAKEGGCDVIIALG 88 (375)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhc-chHHHHHHHHHHCCCeEEEECCCCC-CcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 345667777778899999986655544 5778899999999988764434444 45667788888888889999999876
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 89 GGS 91 (375)
T cd08194 89 GGS 91 (375)
T ss_pred Cch
Confidence 553
No 279
>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=75.74 E-value=7.3 Score=41.87 Aligned_cols=89 Identities=10% Similarity=0.114 Sum_probs=66.2
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
+.+.+.++.+| ++.+|++...... ...+.+.+.+++.|+.+.....+.. ..+..+....++.+++.++|.||-.+.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~-~~~~~v~~~L~~~~i~~~~~~~~~~-~p~~~~v~~~~~~~~~~~~D~IIaiGG 87 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKS-GLVDRVLDALEEAGIEVQVFDGVGP-NPTLEDVDEAAEQARKFGADCIIAIGG 87 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHH-THHHHHHHHHHHTTCEEEEEEEESS-S-BHHHHHHHHHHHHHTTSSEEEEEES
T ss_pred HHHHHHHHhcC--CEEEEECchHHhC-ccHHHHHHHHhhCceEEEEEecCCC-CCcHHHHHHHHHHHHhcCCCEEEEcCC
Confidence 45667777787 9999997743333 5789999999999999876665665 567789999999999999999999877
Q ss_pred HH--HHHHHHHHHHH
Q 047109 204 HA--LASHLFLNAKK 216 (808)
Q Consensus 204 ~~--~~~~~l~~a~~ 216 (808)
+. ++...+.....
T Consensus 88 GS~~D~aK~va~~~~ 102 (366)
T PF00465_consen 88 GSVMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred CCcCcHHHHHHhhcc
Confidence 65 34444444333
No 280
>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=75.04 E-value=74 Score=29.82 Aligned_cols=69 Identities=13% Similarity=0.118 Sum_probs=45.5
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.+... ++++++... +...++..|.+|++|+++..- ......+. ..++....++++++
T Consensus 15 ~l~~~l~~~~~~~P-~i~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~ 80 (200)
T cd08411 15 LLPRLLPALRQAYP-KLRLYLRED---------QTERLLEKLRSGELDAALLAL---PVDEPGLE-EEPLFDEPFLLAVP 80 (200)
T ss_pred hhHHHHHHHHHHCC-CcEEEEEeC---------cHHHHHHHHHcCCccEEEEec---cCCCCCce-EEEeeccceEEEec
Confidence 45677888887764 355665543 457889999999999998532 11122233 34667778888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 81 ~~~ 83 (200)
T cd08411 81 KDH 83 (200)
T ss_pred CCC
Confidence 654
No 281
>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=74.97 E-value=14 Score=38.54 Aligned_cols=93 Identities=14% Similarity=0.044 Sum_probs=62.1
Q ss_pred EEEEEE---ecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhH
Q 047109 3 HVGVIL---DMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTG 79 (808)
Q Consensus 3 ~IG~i~---~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~ 79 (808)
+||.+. ....+.-.....|+...++..|.+ .++...+..+-.||.++.+.+..|+++ |+.+|+... ...
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~np~-----i~v~~~~~gs~~D~~~~~~~a~~li~~-GaDvI~~~a--g~~ 199 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVNPD-----IKVNVSYTGSFNDPAKAKEAAEALIDQ-GADVIFPVA--GGS 199 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTTTT------EEEEEE-SSSS-HHHHHHHHHHHHHT-T-SEEEEE---CCC
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhCcC-----ceEEEEEcCCcCchHHHHHHHHHHhhc-CCeEEEECC--CCC
Confidence 467776 555555445678899999999932 577778888889999999999999995 999999833 234
Q ss_pred HHHHHHhcCCCCcc--EEeccCCCCc
Q 047109 80 AHILAEIGSKAKIP--VISLYATLPS 103 (808)
Q Consensus 80 ~~~~~~~~~~~~iP--~is~~~~~~~ 103 (808)
...+...+...+.. .|........
T Consensus 200 ~~gv~~aa~e~g~~~~~IG~d~dq~~ 225 (306)
T PF02608_consen 200 GQGVIQAAKEAGVYGYVIGVDSDQSY 225 (306)
T ss_dssp HHHHHHHHHHHTHETEEEEEES--CC
T ss_pred chHHHHHHHHcCCceEEEEecccccc
Confidence 45555666666777 7776554333
No 282
>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=74.60 E-value=78 Score=29.88 Aligned_cols=70 Identities=7% Similarity=-0.052 Sum_probs=46.6
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
++-.+++..+.++.- .+++++... +...+++.|.+|++|+++..... ....+.. .+.....+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~i~l~i~~~---------~~~~~~~~L~~g~~Dl~i~~~~~---~~~~~~~-~~l~~~~~~lv~ 78 (200)
T cd08465 13 LVLPALMRQLRAEAP-GIDLAVSQA---------SREAMLAQVADGEIDLALGVFPE---LPEELHA-ETLFEERFVCLA 78 (200)
T ss_pred HhhhHHHHHHHHHCC-CcEEEEecC---------ChHhHHHHHHCCCccEEEecccc---CCcCeeE-EEeeeccEEEEE
Confidence 445678888877654 356655543 56899999999999999863221 1223433 467777888888
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 79 ~~~h 82 (200)
T cd08465 79 DRAT 82 (200)
T ss_pred eCCC
Confidence 7654
No 283
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=74.11 E-value=15 Score=38.70 Aligned_cols=61 Identities=16% Similarity=0.167 Sum_probs=38.2
Q ss_pred eehhhhhccCCceeeecCCcHHH----hhhccCCCcccccccC-CHHHHHHHHhcCCCCCceEEEEechhhHH
Q 047109 629 TVQQIKLASRDNIGSQLGSFVPG----ALSNLNFKDSRLKKYN-SAEEFANALSKGSKNGGISAIIDEIPYIK 696 (808)
Q Consensus 629 t~~~~~~~~~~~i~~~~~s~~~~----~l~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~a~~~~~~~~~ 696 (808)
++.++ ++++|++..++..+. ++++.+.....+...+ ...+....+.+|+ +|+.+.-.....
T Consensus 116 s~~DL---kGK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~Al~~G~----VDAa~~~~p~~~ 181 (320)
T PRK11480 116 KPEDL---IGKRIAVPFISTTHYSLLAALKHWGIKPGQVEIVNLQPPAIIAAWQRGD----IDGAYVWAPAVN 181 (320)
T ss_pred ChHHc---CCCEEecCCCCchHHHHHHHHHHcCCCHhheEEEECCcHHHHHHHHcCC----cCEEEEcchHHH
Confidence 44555 899999977665443 3354444333333222 3567888998888 998877665543
No 284
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=73.98 E-value=46 Score=35.30 Aligned_cols=90 Identities=13% Similarity=0.105 Sum_probs=54.3
Q ss_pred EEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCch
Q 047109 39 RLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEA 118 (808)
Q Consensus 39 ~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~ 118 (808)
.+++++.|.-....-+.....+.-.. . .+ .-+. --.....+...+.+.+||+|+-+..... .
T Consensus 23 ~~d~l~~d~LaE~tma~~~~~~~~~p-~-~g-Y~~~-~~~~L~~~L~~~~~~gIkvI~NaGg~np-------------~- 84 (362)
T PF07287_consen 23 DVDYLVGDYLAERTMAILARAKRKDP-T-KG-YAPD-FVRDLRPLLPAAAEKGIKVITNAGGLNP-------------A- 84 (362)
T ss_pred CCCEEEEecHHHHHHHHHHHHHhhCC-C-CC-chHH-HHHHHHHHHHHHHhCCCCEEEeCCCCCH-------------H-
Confidence 57778888755555555543333221 1 10 0111 1223445556777889999986543222 2
Q ss_pred hhHHHHHHHHHHHhcCCc-EEEEEEecCCcc
Q 047109 119 SQSQAKGIADLIRVFKWK-HVILIYEDNTWG 148 (808)
Q Consensus 119 ~~~~~~a~~~ll~~~~w~-~v~ii~~d~~~g 148 (808)
..++.+.+++++.|.+ ||+.|+.|+...
T Consensus 85 --~~a~~v~eia~e~Gl~lkvA~V~gDd~~~ 113 (362)
T PF07287_consen 85 --GCADIVREIARELGLSLKVAVVYGDDLKD 113 (362)
T ss_pred --HHHHHHHHHHHhcCCCeeEEEEECccchH
Confidence 5688889999887776 999999777543
No 285
>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=73.80 E-value=15 Score=39.27 Aligned_cols=80 Identities=6% Similarity=0.095 Sum_probs=58.4
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
..+.+.++.++ +++.++++...+-.....+.+.+.+++.|+.+.....+.. .++.++....++.+++.++|+||-.+.
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~D~IIavGG 92 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEE-NPSLETIMEAVEIAKKFNADFVIGIGG 92 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCC-CcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 44567777788 8998888655433214678899999999987664333443 456678888888999999999999876
Q ss_pred HH
Q 047109 204 HA 205 (808)
Q Consensus 204 ~~ 205 (808)
+.
T Consensus 93 GS 94 (357)
T cd08181 93 GS 94 (357)
T ss_pred ch
Confidence 54
No 286
>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=73.76 E-value=81 Score=29.68 Aligned_cols=72 Identities=15% Similarity=0.114 Sum_probs=48.3
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.- .+++++... ....+...|.+|++|+++..... .....+. +.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~ 79 (198)
T cd08413 13 YVLPPVIAAFRKRYP-KVKLSLHQG---------TPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCVIV 79 (198)
T ss_pred hhccHHHHHHHHhCC-ceEEEEEeC---------CHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEEEe
Confidence 345678888888775 356666543 56788999999999999853211 1122333 3677788888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 80 ~~~hp 84 (198)
T cd08413 80 PPGHP 84 (198)
T ss_pred cCCCc
Confidence 76643
No 287
>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=73.71 E-value=16 Score=39.46 Aligned_cols=81 Identities=14% Similarity=0.177 Sum_probs=58.9
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.++.+++.++++...... ...+.+.+.+++.|+.+.....+.. .++.++....+..+++.++|.||-.+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~-~~~~~v~~~L~~~~~~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~d~IIaiG 93 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKA-GWVDRVIESLEEAGLEYVVFSDVSP-NPRDEEVMAGAELYLENGCDVIIAVG 93 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhC-ccHHHHHHHHHHcCCeEEEeCCCCC-CCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 355677788888899999986554333 4678899999998887654333333 34566788888888888999999876
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 94 GGs 96 (377)
T cd08188 94 GGS 96 (377)
T ss_pred Cch
Confidence 553
No 288
>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=73.48 E-value=79 Score=29.45 Aligned_cols=71 Identities=8% Similarity=0.081 Sum_probs=47.6
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.- ++++++... +...++..|.+|++|+++... +.....+. +.|+....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~~~ 78 (198)
T cd08412 13 YYLPGLLRRFREAYP-GVEVRVVEG---------NQEELEEGLRSGELDLALTYD---LDLPEDIA-FEPLARLPPYVWL 78 (198)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEEC---------CHHHHHHHHHcCCCcEEEEcC---CCCCcccc-eeeeeccceEEEe
Confidence 456688888888764 345555543 457889999999999998632 22223333 4677788888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 79 ~~~~~ 83 (198)
T cd08412 79 PADHP 83 (198)
T ss_pred cCCCC
Confidence 76543
No 289
>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=73.35 E-value=40 Score=31.74 Aligned_cols=98 Identities=11% Similarity=0.067 Sum_probs=62.2
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcC--CcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEE
Q 047109 121 SQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDN--DIDIARRITISMSSNTDDQVIEKLSMLKSSETKVF 198 (808)
Q Consensus 121 ~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~--g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 198 (808)
+....+.+....-+ .++.++.... +.++.+.+.+++. |++|+.. -.. .+.++-..++++|.++++|++
T Consensus 35 dl~~~l~~~~~~~~-~~vfllG~~~-----~v~~~~~~~l~~~yP~l~i~g~--~g~--f~~~~~~~i~~~I~~s~~dil 104 (177)
T TIGR00696 35 DLMEELCQRAGKEK-LPIFLYGGKP-----DVLQQLKVKLIKEYPKLKIVGA--FGP--LEPEERKAALAKIARSGAGIV 104 (177)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCH-----HHHHHHHHHHHHHCCCCEEEEE--CCC--CChHHHHHHHHHHHHcCCCEE
Confidence 45666666665566 5788876554 3555556666554 6777764 122 134455678899999999999
Q ss_pred EEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 047109 199 VVHMSHALASHLFLNAKKLGMMSKGYSWIVTAS 231 (808)
Q Consensus 199 il~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 231 (808)
++.+..+.-..++.+.++.. ..-+++..++
T Consensus 105 ~VglG~PkQE~~~~~~~~~~---~~~v~~gvGg 134 (177)
T TIGR00696 105 FVGLGCPKQEIWMRNHRHLK---PDAVMIGVGG 134 (177)
T ss_pred EEEcCCcHhHHHHHHhHHhC---CCcEEEEece
Confidence 99987777667766554432 2345555444
No 290
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=73.31 E-value=1.2e+02 Score=31.52 Aligned_cols=70 Identities=13% Similarity=0.156 Sum_probs=46.0
Q ss_pred eHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEec
Q 047109 448 CVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPT 527 (808)
Q Consensus 448 ~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~ 527 (808)
-..++..+.++.. .+++++... +++.++..|.+|++|+++..... .....+.+ .|+....+++++++
T Consensus 108 l~~~i~~f~~~~P-~i~l~~~~~---------~~~~~~~~L~~~~~D~~i~~~~~--~~~~~l~~-~~l~~~~~~~v~~~ 174 (309)
T PRK12683 108 LPKVVRQFKEVFP-KVHLALRQG---------SPQEIAEMLLNGEADIGIATEAL--DREPDLVS-FPYYSWHHVVVVPK 174 (309)
T ss_pred HHHHHHHHHHHCC-CceEEEEeC---------CHHHHHHHHHcCCccEEEecCCC--CCCCCceE-EEcccCeEEEEecC
Confidence 4567888877764 345555543 67899999999999998753211 11233444 46777788888876
Q ss_pred CCC
Q 047109 528 DRN 530 (808)
Q Consensus 528 ~~~ 530 (808)
..+
T Consensus 175 ~hp 177 (309)
T PRK12683 175 GHP 177 (309)
T ss_pred CCC
Confidence 543
No 291
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=72.55 E-value=32 Score=34.30 Aligned_cols=99 Identities=10% Similarity=0.059 Sum_probs=61.0
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhc-CCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEE
Q 047109 121 SQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHD-NDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFV 199 (808)
Q Consensus 121 ~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~-~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 199 (808)
++...+.+.....+ .++.++..+.+ .++.+.+.+++ .|+.|+....-.. +.++-..++++|.+++||+++
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~-----v~~~a~~~l~~~y~l~i~g~~~Gyf---~~~e~~~i~~~I~~s~~dil~ 162 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPE-----VLAQTEAKLRTQWNVNIVGSQDGYF---TPEQRQALFERIHASGAKIVT 162 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHH-----HHHHHHHHHHHHhCCEEEEEeCCCC---CHHHHHHHHHHHHhcCCCEEE
Confidence 45666666666666 67888765543 34444444433 3777765432112 344556789999999999999
Q ss_pred EEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 047109 200 VHMSHALASHLFLNAKKLGMMSKGYSWIVTAS 231 (808)
Q Consensus 200 l~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~ 231 (808)
+.+..+.-..++....+.- +..+++..++
T Consensus 163 VglG~PkQE~~~~~~~~~~---~~~v~~gvGg 191 (243)
T PRK03692 163 VAMGSPKQEIFMRDCRLVY---PDALYMGVGG 191 (243)
T ss_pred EECCCcHHHHHHHHHHHhC---CCCEEEEeCe
Confidence 9987776666666555442 2344554444
No 292
>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=71.63 E-value=86 Score=29.10 Aligned_cols=69 Identities=14% Similarity=0.146 Sum_probs=44.9
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-..++..+.++.- ++++++... ....+...|.+|++|+++..... ....+. ..++....++++++
T Consensus 13 ~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~ 78 (197)
T cd08419 13 FAPRLLGAFCRRHP-GVEVSLRVG---------NREQVLERLADNEDDLAIMGRPP---EDLDLV-AEPFLDNPLVVIAP 78 (197)
T ss_pred HhhHHHHHHHHHCC-CceEEEEEC---------CHHHHHHHHhcCCccEEEecCCC---CCCCeE-EEEeccCCEEEEec
Confidence 45567778877753 345555543 45788999999999999853221 112222 45777788888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 79 ~~~ 81 (197)
T cd08419 79 PDH 81 (197)
T ss_pred CCC
Confidence 654
No 293
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=71.46 E-value=1.2e+02 Score=30.86 Aligned_cols=70 Identities=14% Similarity=0.110 Sum_probs=44.9
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.+..- .+++++... ....++..|.+|++|+++.... .....+. ..|+....++++++
T Consensus 103 ~~~~~l~~~~~~~P-~i~i~v~~~---------~~~~~~~~l~~g~~Di~i~~~~---~~~~~~~-~~~l~~~~~~lv~~ 168 (290)
T PRK10837 103 ILPAMIARYRRDYP-QLPLELSVG---------NSQDVINAVLDFRVDIGLIEGP---CHSPELI-SEPWLEDELVVFAA 168 (290)
T ss_pred hhHHHHHHHHHHCC-CceEEEEEC---------CHHHHHHHHHhCCceEEEecCC---CCCCcee-EEEeecceEEEEEc
Confidence 45677788777763 245555443 4578999999999999985321 1122232 35667778888887
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 169 ~~hp 172 (290)
T PRK10837 169 PDSP 172 (290)
T ss_pred CCCh
Confidence 6543
No 294
>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=71.42 E-value=17 Score=39.37 Aligned_cols=79 Identities=8% Similarity=0.094 Sum_probs=57.9
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCc-cccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEE
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTW-GSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVH 201 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~-g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 201 (808)
...+.+.++.++ +++.++++.... .. ...+.+.+.+++.|+.+.....+.. .++.++....+..+++.++|+||-.
T Consensus 14 l~~l~~~~~~~g-~r~livt~~~~~~~~-g~~~~v~~~L~~~~~~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~D~Iiav 90 (380)
T cd08185 14 LNELGEEALKPG-KKALIVTGNGSSKKT-GYLDRVIELLKQAGVEVVVFDKVEP-NPTTTTVMEGAALAREEGCDFVVGL 90 (380)
T ss_pred HHHHHHHHHhcC-CeEEEEeCCCchhhc-cHHHHHHHHHHHcCCeEEEeCCccC-CCCHHHHHHHHHHHHHcCCCEEEEe
Confidence 345667777788 999999865542 34 6778999999999988754333444 4566778888888888999999976
Q ss_pred cCH
Q 047109 202 MSH 204 (808)
Q Consensus 202 ~~~ 204 (808)
+.+
T Consensus 91 GGG 93 (380)
T cd08185 91 GGG 93 (380)
T ss_pred CCc
Confidence 654
No 295
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=71.11 E-value=1.3e+02 Score=31.10 Aligned_cols=72 Identities=19% Similarity=0.154 Sum_probs=47.4
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.+... .+++++... +-+.++..|.+|++|+++..... .....++ +.|+.....++++
T Consensus 106 ~~l~~~l~~~~~~~P-~i~i~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~--~~~~~l~-~~~l~~~~~~~~~ 172 (309)
T PRK12682 106 YVLPRVVAAFRKRYP-KVNLSLHQG---------SPDEIARMVISGEADIGIATESL--ADDPDLA-TLPCYDWQHAVIV 172 (309)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEecC---------CHHHHHHHHHcCCccEEEecCcc--cCCCcce-EEEeeeeeEEEEe
Confidence 345678888888764 345555443 34788999999999999863211 1123343 3578888888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 173 ~~~~p 177 (309)
T PRK12682 173 PPDHP 177 (309)
T ss_pred cCCCc
Confidence 87643
No 296
>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=70.63 E-value=80 Score=31.86 Aligned_cols=100 Identities=12% Similarity=0.104 Sum_probs=59.8
Q ss_pred eehhhhhccCCceeeecCCcHHHhhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHH-HhcCCCceE
Q 047109 629 TVQQIKLASRDNIGSQLGSFVPGALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAF-LAKYSTDYT 707 (808)
Q Consensus 629 t~~~~~~~~~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~l~ 707 (808)
+.+++ +++++++..++.....++..+. ..+ ..+..+....|++|. +|+........... ..+-.+.+.
T Consensus 130 s~~Dl---~G~kir~~~~~~~~~~~~~~Ga---~~v-~~~~~e~~~aL~~G~----vDg~~~~~~~~~~~~~~ev~~y~~ 198 (257)
T TIGR00787 130 KPEDL---KGLKIRIPNSPMNEAQFKALGA---NPE-PMAFSEVYTALQTGV----VDGQENPLSNVYSSKFYEVQKYLS 198 (257)
T ss_pred ChHHh---CCCEEecCCCHHHHHHHHHcCC---ccc-ccCHHHHHHHHHcCC----cccccCCHHHHhhcchhhhcchhe
Confidence 44555 9999999887777888877532 223 667789999999998 99988764432111 111121222
Q ss_pred EeccccccccceEEEEeCCC--CChHHHHHHHHhhhh
Q 047109 708 MIAPNYTTTSGFGFVFQKGS--PLVHDISRAIAKLRE 742 (808)
Q Consensus 708 ~~~~~~~~~~~~~~~~~k~s--p~~~~~~~~i~~l~e 742 (808)
..+ .. .....+.+++.. .|-+....+|.+.-+
T Consensus 199 ~~~--~~-~~~~~~~~n~~~~~~L~~e~q~~i~~a~~ 232 (257)
T TIGR00787 199 MTN--HG-YLGYLVVVNKAFWKSLPPDLQAVVKEAAK 232 (257)
T ss_pred ecC--Cc-ccceEEEEeHHHHhcCCHHHHHHHHHHHH
Confidence 222 22 445567777762 255555555554433
No 297
>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=70.49 E-value=18 Score=39.12 Aligned_cols=81 Identities=15% Similarity=0.202 Sum_probs=59.2
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.++-+++.++++...+.. ...+.+.+.+++.|+.+.....+.. .++.+.....+..+++.++|.||-.+
T Consensus 16 l~~l~~~l~~~g~~~~lvv~~~~~~~~-~~~~~v~~~L~~~~~~~~~f~~v~~-~p~~~~v~~~~~~~~~~~~D~IIavG 93 (377)
T cd08176 16 IKEIGDELKNLGFKKALIVTDKGLVKI-GVVEKVTDVLDEAGIDYVIYDGVKP-NPTITNVKDGLAVFKKEGCDFIISIG 93 (377)
T ss_pred HHHHHHHHHHhCCCeEEEECCchHhhc-CcHHHHHHHHHHcCCeEEEeCCCCC-CCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 345667788888889998886554443 5788899999999987654333433 44667788888888889999999876
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 94 GGS 96 (377)
T cd08176 94 GGS 96 (377)
T ss_pred CcH
Confidence 553
No 298
>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=70.35 E-value=21 Score=38.60 Aligned_cols=79 Identities=8% Similarity=0.133 Sum_probs=55.7
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
..+.+.++.+| +++.++++...+.. ...+.+.+.+++.|+.+.....+.. .+...+....+...++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~-~~~~~v~~~L~~~~~~~~~f~~v~~-~~~~~~v~~~~~~~~~~~~D~IIaiGG 88 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGT-PVFAELVQALAAAGVEVEVFDGVLP-DLPRSELCDAASAAARAGPDVIIGLGG 88 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhc-chHHHHHHHHHHcCCeEEEECCCCC-CcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 45667788888 89999886554444 6788899999999987654333332 224556667777778889999998765
Q ss_pred HH
Q 047109 204 HA 205 (808)
Q Consensus 204 ~~ 205 (808)
+.
T Consensus 89 GS 90 (386)
T cd08191 89 GS 90 (386)
T ss_pred ch
Confidence 53
No 299
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=69.98 E-value=6.7 Score=42.62 Aligned_cols=88 Identities=11% Similarity=0.262 Sum_probs=72.4
Q ss_pred hHHHHHHHHHHHHHhhheeeecccCCCCCCCCCcchhhHHHHHHHHhhhcC--ccccccchhhHHHHHHHHHHHHHHHHh
Q 047109 543 NLWLTTAALFVLTGFVVWIIERPINDEFQGSPAHQFGMIFWYSFSTLVFSQ--REKLLSNWSKFVVIVWVFVVLILTSSY 620 (808)
Q Consensus 543 ~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~p~s~s~Ril~~~w~~~~lil~~~Y 620 (808)
..|..-++.++..+.++++.+.....+-.+....+.-.++|+..-++.--+ ...|..+.+|++..++-++++-+.+.=
T Consensus 235 Tt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fsligiSFFALP 314 (654)
T KOG1419|consen 235 TTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIGISFFALP 314 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHHHHHHhcc
Confidence 578888888889999999999886665555556688899999988888655 568999999999999999999888888
Q ss_pred hhhhheeeee
Q 047109 621 TATLTSMLTV 630 (808)
Q Consensus 621 ~a~L~s~lt~ 630 (808)
.+-|.|=+++
T Consensus 315 AGILGSGfAL 324 (654)
T KOG1419|consen 315 AGILGSGFAL 324 (654)
T ss_pred cccccchhhh
Confidence 8888876643
No 300
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=69.82 E-value=1.5e+02 Score=31.11 Aligned_cols=70 Identities=16% Similarity=0.122 Sum_probs=45.6
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.+... ++++++... +.+.++..|.+|++|+++..-. ......+.+ .|+.....+++++
T Consensus 107 ~l~~~l~~f~~~~P-~i~i~i~~~---------~~~~~~~~L~~g~iDl~i~~~~--~~~~~~l~~-~~l~~~~~~~v~~ 173 (324)
T PRK12681 107 ALPPVIKGFIERYP-RVSLHMHQG---------SPTQIAEAAAKGNADFAIATEA--LHLYDDLIM-LPCYHWNRSVVVP 173 (324)
T ss_pred hhHHHHHHHHHHCC-CcEEEEEeC---------CHHHHHHHHHcCCCCEEEecCc--ccCCCCeEE-EEeccceeEEEeC
Confidence 45677788877764 456665543 5689999999999999986321 111223333 4667777777877
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 174 ~~h 176 (324)
T PRK12681 174 PDH 176 (324)
T ss_pred CCC
Confidence 554
No 301
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=69.58 E-value=85 Score=32.07 Aligned_cols=158 Identities=18% Similarity=0.186 Sum_probs=90.0
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcc-eEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYK-TRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAH 81 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~ 81 (808)
.|++||+-++. .-+-+++.|+.++-...-.++ -.+++-...+-.|.. +.++. =+.+|.--. .+ -.
T Consensus 46 ~laliFeK~ST---RTR~SFeva~~qlGg~~~~l~~~~~Qlgr~Esi~DTA-------rVLsr-~~D~I~~R~-~~--~~ 111 (310)
T COG0078 46 NLALIFEKTST---RTRVSFEVAATQLGGHAIYLGPGDSQLGRGESIKDTA-------RVLSR-MVDAIMIRG-FS--HE 111 (310)
T ss_pred eEEEEecCCCc---hhhhhHHHHHHHcCCCeEEeCCCccccCCCCcHHHHH-------HHHHh-hhheEEEec-cc--HH
Confidence 37888887665 456788888877765543343 333333222222222 22322 233444322 11 23
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHH---HhcC---CcEEEEEEecCCccccCcHHH
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLI---RVFK---WKHVILIYEDNTWGSDNIIPY 155 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll---~~~~---w~~v~ii~~d~~~g~~~~~~~ 155 (808)
.+..++....||+|.-- ++. . +-++++++++ .++| -.+++.+.+. . +....
T Consensus 112 ~ve~lA~~s~VPViNgL-tD~--------------~---HP~Q~LADl~Ti~E~~g~l~g~k~a~vGDg----N-Nv~nS 168 (310)
T COG0078 112 TLEELAKYSGVPVINGL-TDE--------------F---HPCQALADLMTIKEHFGSLKGLKLAYVGDG----N-NVANS 168 (310)
T ss_pred HHHHHHHhCCCceEccc-ccc--------------c---CcHHHHHHHHHHHHhcCcccCcEEEEEcCc----c-hHHHH
Confidence 66788999999988832 122 2 4456777776 4554 4677776533 3 78889
Q ss_pred HHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHh-cCCCCeEEE
Q 047109 156 LFDSLHDNDIDIARRITISMSSNTDDQVIEKLSML-KSSETKVFV 199 (808)
Q Consensus 156 ~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l-~~~~~~vii 199 (808)
+.......|..+.....-.. . ..+++....+++ +++++.+.+
T Consensus 169 l~~~~a~~G~dv~ia~Pk~~-~-p~~~~~~~a~~~a~~~g~~i~~ 211 (310)
T COG0078 169 LLLAAAKLGMDVRIATPKGY-E-PDPEVVEKAKENAKESGGKITL 211 (310)
T ss_pred HHHHHHHhCCeEEEECCCcC-C-cCHHHHHHHHHHHHhcCCeEEE
Confidence 99999999988765422111 1 234666666554 445555433
No 302
>cd08467 PBP2_SyrM The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold. Rhizobium is a nitrogen fixing bacteria present in the roots of leguminous plants, which fixes atmospheric nitrogen to the soil. Most Rhizobium species possess multiple nodulation (nod) genes for the development of nodules. For example, Rhizobium meliloti possesses three copies of nodD genes. NodD1 and NodD2 activate nod operons when Rhizobium is exposed to inducers synthesized by the host plant, while NodD3 acts independent of plant inducers and requires the symbiotic regulator SyrM for nod gene expression. SyrM activates the expression of the regulatory nodulation gene nodD3. In turn, NodD3 activates expression of syrM. In addition, SyrM is involved in exopolysaccharide synthesis. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are
Probab=68.88 E-value=1e+02 Score=28.94 Aligned_cols=70 Identities=11% Similarity=0.023 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.- ++++++... ....+...|.+|++|+++... +.....+. ..+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~~---------~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~ 78 (200)
T cd08467 13 ALLPRLAPRLRERAP-GLDLRLCPI---------GDDLAERGLEQGTIDLAVGRF---AVPPDGLV-VRRLYDDGFACLV 78 (200)
T ss_pred HHHHHHHHHHHhhCC-CCEEEEecC---------CcccHHHHhhCCCcCEEEecC---CCCCccce-eEEeeeccEEEEE
Confidence 345678888887765 356665543 446889999999999998532 11122343 3577788888888
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 79 ~~~h 82 (200)
T cd08467 79 RHGH 82 (200)
T ss_pred cCCC
Confidence 7654
No 303
>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=66.68 E-value=1.1e+02 Score=28.30 Aligned_cols=69 Identities=17% Similarity=0.326 Sum_probs=45.3
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-..++..+.+..- .+++++... ....++..+.+|++|+++... ......+.+ .++....++++++
T Consensus 14 ~l~~~l~~~~~~~P-~i~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~---~~~~~~l~~-~~l~~~~~~~v~~ 79 (195)
T cd08434 14 LVPDLIRAFRKEYP-NVTFELHQG---------STDELLDDLKNGELDLALCSP---VPDEPDIEW-IPLFTEELVLVVP 79 (195)
T ss_pred hhHHHHHHHHHhCC-CeEEEEecC---------cHHHHHHHHHcCCccEEEEcc---CCCCCCeeE-EEeecceEEEEec
Confidence 45567777887763 245555442 457889999999999998532 222333443 5777788888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 80 ~~~ 82 (195)
T cd08434 80 KDH 82 (195)
T ss_pred CCC
Confidence 654
No 304
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=65.59 E-value=50 Score=33.20 Aligned_cols=40 Identities=13% Similarity=0.280 Sum_probs=28.6
Q ss_pred HHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEec
Q 047109 57 TVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISL 97 (808)
Q Consensus 57 ~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~ 97 (808)
.+..|.++.|+.+|+=+. .+..+.....+-+..++|+|..
T Consensus 52 ~~~~L~~~~g~d~ivIaC-NTA~a~~~~~l~~~~~iPii~i 91 (251)
T TIGR00067 52 LLTFLKERHNIKLLVVAC-NTASALALEDLQRNFDFPVVGV 91 (251)
T ss_pred HHHHHHHhCCCCEEEEeC-chHHHHHHHHHHHHCCCCEEee
Confidence 333344256899998886 6666667778888889999984
No 305
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=65.00 E-value=1.2e+02 Score=34.47 Aligned_cols=128 Identities=16% Similarity=0.161 Sum_probs=79.1
Q ss_pred CCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHH
Q 047109 49 GDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIAD 128 (808)
Q Consensus 49 ~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ 128 (808)
..-..+++.+.+.+..+++.+||.-. ++ +.. +-+...||+|....+. . +..+++.
T Consensus 47 ~~~~~~v~~~~~~~~~~~~dviIsrG-~t--a~~---i~~~~~iPVv~i~~s~---------------~---Dil~al~- 101 (538)
T PRK15424 47 LGFEKAVTYIRKRLATERCDAIIAAG-SN--GAY---LKSRLSVPVILIKPSG---------------F---DVMQALA- 101 (538)
T ss_pred hhHHHHHHHHHHHHhhCCCcEEEECc-hH--HHH---HHhhCCCCEEEecCCH---------------h---HHHHHHH-
Confidence 45667888886644445899999866 32 233 3345689999854322 2 3344443
Q ss_pred HHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHH
Q 047109 129 LIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALAS 208 (808)
Q Consensus 129 ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~ 208 (808)
..+.++ .+++++...... ..++.+.+.+ ++.+.... +. +.++....+.++++.+.++||-.+
T Consensus 102 ~a~~~~-~~iavv~~~~~~---~~~~~~~~~l---~~~i~~~~-~~----~~~e~~~~v~~lk~~G~~~vvG~~------ 163 (538)
T PRK15424 102 RARKLT-SSIGVVTYQETI---PALVAFQKTF---NLRIEQRS-YV----TEEDARGQINELKANGIEAVVGAG------ 163 (538)
T ss_pred HHHhcC-CcEEEEecCccc---HHHHHHHHHh---CCceEEEE-ec----CHHHHHHHHHHHHHCCCCEEEcCc------
Confidence 335555 577777654432 2345555555 55555432 21 567999999999999999888443
Q ss_pred HHHHHHHHcCC
Q 047109 209 HLFLNAKKLGM 219 (808)
Q Consensus 209 ~~l~~a~~~gl 219 (808)
.....|.++|+
T Consensus 164 ~~~~~A~~~g~ 174 (538)
T PRK15424 164 LITDLAEEAGM 174 (538)
T ss_pred hHHHHHHHhCC
Confidence 33567888887
No 306
>PRK00865 glutamate racemase; Provisional
Probab=64.82 E-value=52 Score=33.32 Aligned_cols=114 Identities=14% Similarity=0.166 Sum_probs=61.7
Q ss_pred hhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEE
Q 047109 62 MQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILI 141 (808)
Q Consensus 62 i~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii 141 (808)
+.+.++.+|+=+. .+..+.++..+-+..++|+|+ .- |. +...++.-+-++|+++
T Consensus 63 L~~~g~d~iVIaC-NTa~~~~l~~lr~~~~iPvig-i~--~a----------------------~~~a~~~~~~~~igVL 116 (261)
T PRK00865 63 LLEYGVKMLVIAC-NTASAVALPDLRERYDIPVVG-IV--PA----------------------IKPAAALTRNGRIGVL 116 (261)
T ss_pred HHhCCCCEEEEeC-chHHHHHHHHHHHhCCCCEEe-eH--HH----------------------HHHHHHhcCCCeEEEE
Confidence 3345899988876 555555666777778999998 31 11 1111122345678888
Q ss_pred EecCCccccCcHHHHHHhhhcCC--cEEEEEE------ecCCC---C-CChHHHHHHHHHhcCCCCeEEEEEcCHH
Q 047109 142 YEDNTWGSDNIIPYLFDSLHDND--IDIARRI------TISMS---S-NTDDQVIEKLSMLKSSETKVFVVHMSHA 205 (808)
Q Consensus 142 ~~d~~~g~~~~~~~~~~~~~~~g--~~i~~~~------~~~~~---~-~~~~~~~~~l~~l~~~~~~viil~~~~~ 205 (808)
.....--. ..+++.+++.| .++.... .+... . .....+...++.+.+.++|+||+.|..-
T Consensus 117 aT~~Ti~s----~~y~~~i~~~~~~~~v~~~~~~~lv~~ie~g~~~~~~~~~~l~~~l~~l~~~g~d~iILGCTh~ 188 (261)
T PRK00865 117 ATPGTVKS----AAYRDLIARFAPDCQVESLACPELVPLVEAGILGGPVTLEVLREYLAPLLAAGIDTLVLGCTHY 188 (261)
T ss_pred ECHHHhhc----hHHHHHHHHhCCCCEEEEecCHHHHHHHhCCCcCCHHHHHHHHHHHHHHhcCCCCEEEECCcCH
Confidence 76653211 23344444443 3321100 01000 0 0123466777777777899999988654
No 307
>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=64.33 E-value=27 Score=37.75 Aligned_cols=80 Identities=13% Similarity=0.157 Sum_probs=56.7
Q ss_pred HHHHHHHHhc---CCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEE
Q 047109 124 KGIADLIRVF---KWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVV 200 (808)
Q Consensus 124 ~a~~~ll~~~---~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil 200 (808)
..+.+.++.+ |.+++.++++..........+.+.+.+++.|+.+.....+.. .++.++....++.+++.++|+||-
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~-~p~~~~v~~~~~~~~~~~~D~IIa 90 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTP-NPTVDQVDEAAKLGREFGAQAVIA 90 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCC-CCCHHHHHHHHHHHHHcCCCEEEE
Confidence 4566667766 779999998655433214578899999999987654333433 446677888888888889999997
Q ss_pred EcCH
Q 047109 201 HMSH 204 (808)
Q Consensus 201 ~~~~ 204 (808)
.+.+
T Consensus 91 iGGG 94 (383)
T cd08186 91 IGGG 94 (383)
T ss_pred eCCc
Confidence 7554
No 308
>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=64.03 E-value=29 Score=37.55 Aligned_cols=79 Identities=13% Similarity=0.241 Sum_probs=56.6
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCc-cccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTW-GSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~-g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
..+.+.++.++ +++.++.+...+ .. ...+.+.+.+++.|+.+.....+.. .++.++....+..+++.++|+||-.+
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~-~~~~~v~~~L~~~g~~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~D~IIaiG 94 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKN-GLYDRVIASLKEAGIEVVELGGVEP-NPRLETVREGIELCKEEKVDFILAVG 94 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhc-CcHHHHHHHHHHcCCeEEEECCccC-CCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 45667777775 899998765433 23 4678899999999987654333444 44567788888888889999999876
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 95 GGS 97 (382)
T cd08187 95 GGS 97 (382)
T ss_pred ChH
Confidence 553
No 309
>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=63.62 E-value=1.5e+02 Score=33.62 Aligned_cols=135 Identities=13% Similarity=0.135 Sum_probs=83.2
Q ss_pred CCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHH
Q 047109 49 GDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIAD 128 (808)
Q Consensus 49 ~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ 128 (808)
++-..+++.+.+.+..+++.+||.-. . ++..+. +...||+|....+ .. +..+++ .
T Consensus 37 ~~~~~~~~~a~~~~~~~~~dviIsrG-~--ta~~i~---~~~~iPVv~i~~s---------------~~---Dil~al-~ 91 (526)
T TIGR02329 37 LGFEDAVREIRQRLGAERCDVVVAGG-S--NGAYLK---SRLSLPVIVIKPT---------------GF---DVMQAL-A 91 (526)
T ss_pred ccHHHHHHHHHHHHHhCCCcEEEECc-h--HHHHHH---HhCCCCEEEecCC---------------hh---hHHHHH-H
Confidence 57778888886644455899999866 3 333333 3457999985422 22 334444 3
Q ss_pred HHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHH
Q 047109 129 LIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALAS 208 (808)
Q Consensus 129 ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~ 208 (808)
..+.++ .+++++...... ...+.+.+.+ ++.+.... +. +.++....+.++++.+.++||-.+
T Consensus 92 ~a~~~~-~~ia~vg~~~~~---~~~~~~~~ll---~~~i~~~~-~~----~~~e~~~~~~~l~~~G~~~viG~~------ 153 (526)
T TIGR02329 92 RARRIA-SSIGVVTHQDTP---PALRRFQAAF---NLDIVQRS-YV----TEEDARSCVNDLRARGIGAVVGAG------ 153 (526)
T ss_pred HHHhcC-CcEEEEecCccc---HHHHHHHHHh---CCceEEEE-ec----CHHHHHHHHHHHHHCCCCEEECCh------
Confidence 345555 577777654432 2344555554 55554422 21 567999999999999999887433
Q ss_pred HHHHHHHHcCCCCCCeEEEEe
Q 047109 209 HLFLNAKKLGMMSKGYSWIVT 229 (808)
Q Consensus 209 ~~l~~a~~~gl~~~~~~~i~~ 229 (808)
.....|+++|| +.+.|.+
T Consensus 154 ~~~~~A~~~gl---~~ili~s 171 (526)
T TIGR02329 154 LITDLAEQAGL---HGVFLYS 171 (526)
T ss_pred HHHHHHHHcCC---ceEEEec
Confidence 33577889998 3445443
No 310
>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=63.35 E-value=1.3e+02 Score=27.98 Aligned_cols=72 Identities=11% Similarity=0.091 Sum_probs=46.2
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeee--ccccceeeccccceeccEEEE
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTIT--ANRSLYVDFTLPYTDMGIGMI 524 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t--~~r~~~~dfs~p~~~~~~~~l 524 (808)
+-.+++..+.+... .+++++... +-..+...+.+|++|+++...... ......+. +.+.....++++
T Consensus 14 ~l~~~l~~~~~~~P-~i~i~~~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~~-~~~l~~~~~~~~ 82 (200)
T cd08423 14 LLPPALAALRARHP-GLEVRLREA---------EPPESLDALRAGELDLAVVFDYPVTPPPDDPGLT-RVPLLDDPLDLV 82 (200)
T ss_pred hhhHHHHHHHHhCC-CCeEEEEeC---------CHHHHHHHHhcCCccEEEEeccccccCCCCCCcE-EEEeccCcEEEE
Confidence 45677888887764 345555543 346889999999999998532110 11223333 467778888888
Q ss_pred EecCC
Q 047109 525 VPTDR 529 (808)
Q Consensus 525 v~~~~ 529 (808)
+++..
T Consensus 83 ~~~~~ 87 (200)
T cd08423 83 LPADH 87 (200)
T ss_pred ecCCC
Confidence 87654
No 311
>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=63.20 E-value=1.4e+02 Score=28.38 Aligned_cols=72 Identities=8% Similarity=0.186 Sum_probs=44.6
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.+..- .+++++... +...++..|.+|++|+++........-...+. ..|+....+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~~---------~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~~-~~~l~~~~~~~~~ 81 (204)
T cd08429 13 SIAYRLLEPAMDLHE-PIRLVCREG---------KLEQLLADLALHRLDMVLADRPMPSSLDVKGY-SHRLGECGVSFFA 81 (204)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEeC---------CHHHHHHHHHcCCccEEEecCCCccccchhee-eccccccceEEEe
Confidence 345677788777764 345665543 67899999999999998853221111001122 3477777777776
Q ss_pred ecC
Q 047109 526 PTD 528 (808)
Q Consensus 526 ~~~ 528 (808)
+.+
T Consensus 82 ~~~ 84 (204)
T cd08429 82 APP 84 (204)
T ss_pred cCC
Confidence 543
No 312
>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=63.01 E-value=1.3e+02 Score=27.90 Aligned_cols=71 Identities=13% Similarity=0.132 Sum_probs=46.1
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.. .+++++... +-..++.+|.+|++|+++..... ....+. +.+.....+.+++
T Consensus 13 ~~l~~~l~~~~~~~P-~~~l~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~ 78 (201)
T cd08420 13 YLLPRLLARFRKRYP-EVRVSLTIG---------NTEEIAERVLDGEIDLGLVEGPV---DHPDLI-VEPFAEDELVLVV 78 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEeC---------CcHHHHHHHHCCCccEEEecCCC---CCcceE-EEeecCccEEEEe
Confidence 345678888888764 345555443 34678999999999999864322 222333 3577778888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 79 ~~~~~ 83 (201)
T cd08420 79 PPDHP 83 (201)
T ss_pred cCCCC
Confidence 76543
No 313
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=62.37 E-value=86 Score=33.24 Aligned_cols=73 Identities=14% Similarity=0.050 Sum_probs=59.7
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
+||.+..+..|.-.....|+++.++..|.+ .++...+..+=.||.++.+++..|+++ ||.+|.... .+.....
T Consensus 163 ~vG~vgg~~~p~v~~f~~gF~~Gak~~np~-----i~v~v~~~gsf~D~~k~k~~a~~li~~-GaDVI~~~a-g~~~~gv 235 (345)
T COG1744 163 KVGFVGGMDIPEVNRFINGFLAGAKSVNPD-----IKVKVVYVGSFSDPAKGKEAANALIDQ-GADVIYPAA-GGTGVGV 235 (345)
T ss_pred ceeEEecccchhhHHHHHHHHHHHHhhCCC-----ccEEEEEecCccChHHHHHHHHHHHhc-CCCEEEecC-CCCcchH
Confidence 578888887777666788999999999965 577888888889999999999999987 999999877 5554444
No 314
>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=62.33 E-value=27 Score=37.13 Aligned_cols=78 Identities=15% Similarity=0.118 Sum_probs=55.1
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
..+.+.++.++ +++.++++...+ . ...+.+.+.+++.|+.+.....+.. .++.++.....+..++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~-~~~~~v~~~l~~~~~~~~~~~~~~~-~p~~~~v~~~~~~~~~~~~d~iiavGG 87 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-A-AAKDKIKAALEQSGIEITDFIWYGG-ESTYENVERLKKNPAVQEADMIFAVGG 87 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-H-HHHHHHHHHHHHCCCeEEEEEecCC-CCCHHHHHHHHHHHhhcCCCEEEEeCC
Confidence 44566677777 899888865544 3 4577888889888987654434444 445667777788888889999998765
Q ss_pred HH
Q 047109 204 HA 205 (808)
Q Consensus 204 ~~ 205 (808)
+.
T Consensus 88 Gs 89 (345)
T cd08171 88 GK 89 (345)
T ss_pred cH
Confidence 53
No 315
>PF14981 FAM165: FAM165 family
Probab=61.91 E-value=13 Score=25.30 Aligned_cols=32 Identities=19% Similarity=0.239 Sum_probs=28.0
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 047109 776 LTNFGGLFLITGISSTLALVAFLVSSIHKKRP 807 (808)
Q Consensus 776 l~~l~g~f~ll~~g~~la~~vf~~E~~~~~~~ 807 (808)
++++-.++|+|..--.+-|+.|.+-.+|.+||
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~kr 34 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKR 34 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 57788899999999999999999999887764
No 316
>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=61.63 E-value=1.4e+02 Score=27.83 Aligned_cols=69 Identities=13% Similarity=0.125 Sum_probs=44.5
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-..++..+.+..- .+++++... +...+...|.+|++|+++..-. .....+. ..++....++++++
T Consensus 14 ~~~~~l~~~~~~~P-~i~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~~~~ 79 (198)
T cd08441 14 WLMPVLDQFRERWP-DVELDLSSG---------FHFDPLPALLRGELDLVITSDP---LPLPGIA-YEPLFDYEVVLVVA 79 (198)
T ss_pred hhHHHHHHHHHhCC-CeEEEEEeC---------CchhHHHHHHcCCceEEEecCC---cCCCCcE-EEEccCCcEEEEEc
Confidence 34577788887764 245555543 4578899999999999985321 1122333 34677777888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 80 ~~~ 82 (198)
T cd08441 80 PDH 82 (198)
T ss_pred CCC
Confidence 654
No 317
>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=60.92 E-value=1.4e+02 Score=27.72 Aligned_cols=70 Identities=10% Similarity=0.049 Sum_probs=44.5
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
++-..++..+.++.- ++++++... ....+...|.+|++|+++.... .....+. ..+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~~---------~~~~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~ 78 (200)
T cd08464 13 WLAPPLLAALRAEAP-GVRLVFRQV---------DPFNVGDMLDRGEIDLAIGVFG---ELPAWLK-REVLYTEGYACLF 78 (200)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEecC---------CcccHHHHHhcCcccEEEecCC---CCcccce-eeeecccceEEEE
Confidence 345577778877764 345555543 3467889999999999985321 1123333 3577777887777
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 79 ~~~~ 82 (200)
T cd08464 79 DPQQ 82 (200)
T ss_pred eCCC
Confidence 6553
No 318
>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=59.92 E-value=1.1e+02 Score=29.60 Aligned_cols=71 Identities=13% Similarity=0.068 Sum_probs=39.5
Q ss_pred cCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEeccccccccceEEEEeCCCCChHHHHHHHHhhhh
Q 047109 666 YNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAPNYTTTSGFGFVFQKGSPLVHDISRAIAKLRE 742 (808)
Q Consensus 666 ~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~k~sp~~~~~~~~i~~l~e 742 (808)
..+..+..+.+.+|+ +++.+......... .... .....+........+++++.|+++=.+.-.++|..+..
T Consensus 135 ~~~~~~~~~~~~~Ge----~~~~~~~~~~~~~~-~~~~-~~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~s 205 (216)
T TIGR01256 135 GEDVRQALQFVETGN----APAGIVALSDVIPS-KKVG-SVATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLKS 205 (216)
T ss_pred cCcHHHHHHHHHcCC----CCEEeeehhhhccc-CCcc-EEEEeCccccCCccccEEEEECCCChHHHHHHHHHHcC
Confidence 345567788887777 88777644322111 1112 23333433221455788999998755555555555544
No 319
>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=59.80 E-value=30 Score=34.98 Aligned_cols=78 Identities=5% Similarity=0.072 Sum_probs=53.0
Q ss_pred EEEEEEe--cCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC-HHHHHHHHHH
Q 047109 137 HVILIYE--DNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS-HALASHLFLN 213 (808)
Q Consensus 137 ~v~ii~~--d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~~l~~ 213 (808)
+++++.. ++.|.. ...+.+.+++++.|+++..... ..+.......++.+.+.+.|.+|+... .......++.
T Consensus 1 ~Ig~i~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~----~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~ 75 (273)
T cd06305 1 RIAVVRYGGSGDFDQ-AYLAGTKAEAEALGGDLRVYDA----GGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKR 75 (273)
T ss_pred CeEEEeecCCCcHHH-HHHHHHHHHHHHcCCEEEEECC----CCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHH
Confidence 3566765 345555 6788999999999999876322 223344556777777778999988753 3445567788
Q ss_pred HHHcCC
Q 047109 214 AKKLGM 219 (808)
Q Consensus 214 a~~~gl 219 (808)
+.+.|+
T Consensus 76 ~~~~~i 81 (273)
T cd06305 76 ALDAGI 81 (273)
T ss_pred HHHcCC
Confidence 888775
No 320
>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=59.73 E-value=1.5e+02 Score=27.48 Aligned_cols=70 Identities=9% Similarity=0.034 Sum_probs=47.2
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.+..- .+++++... ....+...|.+|++|+++.... .....+ .+.|+....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~v~ 78 (196)
T cd08415 13 SLLPRAIARFRARHP-DVRISLHTL---------SSSTVVEAVLSGQADLGLASLP---LDHPGL-ESEPLASGRAVCVL 78 (196)
T ss_pred cccHHHHHHHHHHCC-CcEEEEEec---------chHHHHHHHHcCCccEEEEeCC---CCCCcc-eeeeecccceEEEE
Confidence 456788888887663 345555543 4578899999999999986322 112223 34677888888888
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 79 ~~~~ 82 (196)
T cd08415 79 PPGH 82 (196)
T ss_pred cCCC
Confidence 7654
No 321
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=58.98 E-value=2.2e+02 Score=29.29 Aligned_cols=94 Identities=6% Similarity=0.145 Sum_probs=60.7
Q ss_pred CeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-ceeee--c---cCCchhhHHHHHHHHHHHhcC-----
Q 047109 66 DLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-YSIQI--D---QDDEASQSQAKGIADLIRVFK----- 134 (808)
Q Consensus 66 ~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~--~---p~~~~~~~~~~a~~~ll~~~~----- 134 (808)
-+.-++||. ..+....++.++...++=.+..+...+. +.+ +|.|+ . |....-.....++.++.+.++
T Consensus 10 ~iitv~G~D-r~GIVA~Vs~~Lae~g~NI~disq~~d~-~~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~~i 87 (289)
T PRK13010 10 YVLTLACPS-APGIVAAVSGFLAEKGCYIVELTQFDDD-ESGRFFMRVSFHAQSAEAASVDTFRQEFQPVAEKFDMQWAI 87 (289)
T ss_pred EEEEEECCC-CCCcHHHHHHHHHHCCCCEEeccccccc-ccCcEEEEEEEEcCCCCCCCHHHHHHHHHHHHHHhCCeEEE
Confidence 478889999 9999999999888887777776554333 444 66663 2 222101144455666666543
Q ss_pred -----CcEEEEEEecCCccccCcHHHHHHhhhcCCc
Q 047109 135 -----WKHVILIYEDNTWGSDNIIPYLFDSLHDNDI 165 (808)
Q Consensus 135 -----w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~ 165 (808)
.++++++.+-.. ..++.+.+..++...
T Consensus 88 ~~~~~~~kiavl~Sg~g----~nl~al~~~~~~~~l 119 (289)
T PRK13010 88 HPDGQRPKVVIMVSKFD----HCLNDLLYRWRMGEL 119 (289)
T ss_pred ecCCCCeEEEEEEeCCC----ccHHHHHHHHHCCCC
Confidence 568999886653 466777777766543
No 322
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=58.67 E-value=51 Score=33.95 Aligned_cols=92 Identities=20% Similarity=0.203 Sum_probs=68.2
Q ss_pred ceeeeccCCchhhHHHHH----HHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHH
Q 047109 108 YSIQIDQDDEASQSQAKG----IADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQV 183 (808)
Q Consensus 108 ~~~r~~p~~~~~~~~~~a----~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~ 183 (808)
+.|-+.|+.. ..++. +.+-++..|.|++.++++-..--. ...+..++.|+++||.+..-..... .++..++
T Consensus 42 ~af~m~~s~~---rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~-~~~~~a~~~L~~~~I~~~vyD~v~~-ePtv~s~ 116 (465)
T KOG3857|consen 42 VAFFMIPSTS---RFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKL-GLVKVAQDSLEENGINVEVYDKVQP-EPTVGSV 116 (465)
T ss_pred eeEEeccchh---hhcchhHHHHHHHHHhcCccceEEeeCCChhhc-ccHHHHHHHHHHcCCceEEecCccC-CCchhhH
Confidence 4455555554 44433 345577899999999997776555 6788899999999999887555544 4567788
Q ss_pred HHHHHHhcCCCCeEEEEEcCH
Q 047109 184 IEKLSMLKSSETKVFVVHMSH 204 (808)
Q Consensus 184 ~~~l~~l~~~~~~viil~~~~ 204 (808)
...++-.|..+.|.++-.+.+
T Consensus 117 ~~alefak~~~fDs~vaiGGG 137 (465)
T KOG3857|consen 117 TAALEFAKKKNFDSFVAIGGG 137 (465)
T ss_pred HHHHHHHHhcccceEEEEcCc
Confidence 889998888888988887654
No 323
>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=58.28 E-value=16 Score=36.71 Aligned_cols=78 Identities=14% Similarity=0.155 Sum_probs=57.5
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc-CHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM-SHALASHLFLNA 214 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-~~~~~~~~l~~a 214 (808)
|+++..+ +.|.. ...+.+++.+++.|+.+... .+. ..+.+.....++++.+.++|.|++.. ++.....+++.+
T Consensus 1 I~vi~~~~~~~~~~-~~~~g~~~~a~~~g~~~~~~--~~~-~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~ 76 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQ-QVIKGAKAAAKELGYEVEIV--FDA-QNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKA 76 (257)
T ss_dssp EEEEESSSSSHHHH-HHHHHHHHHHHHHTCEEEEE--EES-TTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHH
T ss_pred cEEEeCCCCCHHHH-HHHHHHHHHHHHcCCEEEEe--CCC-CCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHH
Confidence 4555543 34555 67889999999999998764 222 33556677888888888999888874 555678999999
Q ss_pred HHcCC
Q 047109 215 KKLGM 219 (808)
Q Consensus 215 ~~~gl 219 (808)
.+.|+
T Consensus 77 ~~~gI 81 (257)
T PF13407_consen 77 KAAGI 81 (257)
T ss_dssp HHTTS
T ss_pred hhcCc
Confidence 99986
No 324
>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=58.10 E-value=34 Score=36.48 Aligned_cols=77 Identities=10% Similarity=0.108 Sum_probs=56.3
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
..+.+.++.++ +++.++++...+ . ...+.+.+.+++.|+.+.+. .+.. .++.++....++.+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~-~-~~~~~v~~~L~~~~i~~~~~-~~~~-~p~~~~v~~~~~~~~~~~~D~IIavGG 86 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVL-D-LVGAKIEESLAAAGIDARFE-VFGG-ECTRAEIERLAEIARDNGADVVIGIGG 86 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH-H-HHHHHHHHHHHhCCCeEEEE-EeCC-cCCHHHHHHHHHHHhhcCCCEEEEecC
Confidence 45667777776 899888854433 3 57788889999999887643 3444 456678888888888899999888765
Q ss_pred HH
Q 047109 204 HA 205 (808)
Q Consensus 204 ~~ 205 (808)
+.
T Consensus 87 GS 88 (351)
T cd08170 87 GK 88 (351)
T ss_pred ch
Confidence 54
No 325
>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=58.04 E-value=1.6e+02 Score=27.39 Aligned_cols=71 Identities=13% Similarity=0.092 Sum_probs=47.3
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.++.- ++++++... ....+.+.|.+|++|+++... ........+++ .++....++++++
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~-~~~~~~~~l~~-~~l~~~~~~~~~~ 81 (198)
T cd08437 14 YFPKLAKDLIKTGL-MIQIDTYEG---------GSAELLEQLLQGDLDIALLGS-LTPLENSALHS-KIIKTQHFMIIVS 81 (198)
T ss_pred HhHHHHHHHHHhCC-ceEEEEEEc---------CHHHHHHHHHcCCCCEEEecC-CCCCCcccceE-EEeecceEEEEec
Confidence 34677888888765 456666543 567899999999999998532 11112233443 5777888888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 82 ~~h 84 (198)
T cd08437 82 KDH 84 (198)
T ss_pred CCC
Confidence 654
No 326
>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=57.50 E-value=27 Score=34.93 Aligned_cols=76 Identities=13% Similarity=0.142 Sum_probs=53.2
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++.++ +.|.. ...+.+++++++.|+.+.... . ..+.+.....++++.+.+.+.|++......... ++.+.
T Consensus 2 i~~v~~~~~~~~~~-~~~~g~~~~~~~~g~~~~~~~---~-~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~ 75 (264)
T cd06267 2 IGVIVPDISNPFFA-ELLRGIEEAAREAGYSVLLCN---S-DEDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELA 75 (264)
T ss_pred EEEEECCCCCHHHH-HHHHHHHHHHHHcCCEEEEEc---C-CCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHH
Confidence 5666655 56666 778889999999998877532 1 223345566777787788999998776655555 77777
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.|.
T Consensus 76 ~~~i 79 (264)
T cd06267 76 ALGI 79 (264)
T ss_pred HcCC
Confidence 7775
No 327
>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=57.50 E-value=1.6e+02 Score=27.28 Aligned_cols=70 Identities=10% Similarity=0.114 Sum_probs=46.9
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-..++..+.++.- ++++++... ....+...|.+|++|+++... +.....+. ..++....++++++
T Consensus 15 ~l~~~l~~~~~~~P-~v~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~ 80 (197)
T cd08425 15 LIGPLIDRFHARYP-GIALSLREM---------PQERIEAALADDRLDLGIAFA---PVRSPDID-AQPLFDERLALVVG 80 (197)
T ss_pred hhHHHHHHHHHHCC-CcEEEEEEC---------cHHHHHHHHHcCCccEEEEec---CCCCCCcE-EEEeccccEEEEec
Confidence 34678888887765 456666543 457888999999999998532 22222333 35777788888887
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 81 ~~~p 84 (197)
T cd08425 81 ATHP 84 (197)
T ss_pred CCCc
Confidence 6643
No 328
>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=57.39 E-value=1.6e+02 Score=27.28 Aligned_cols=73 Identities=16% Similarity=0.123 Sum_probs=46.9
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.- ++++++... ....+...+.+|++|+++..... +.....+. +.++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l~-~~~l~~~~~~~v~ 80 (199)
T cd08416 13 NTVPRIIMGLKLRRP-ELDIELTLG---------SNKDLLKKLKDGELDAILVATPE-GLNDPDFE-VVPLFEDDIFLAV 80 (199)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEEEc---------CcHHHHHHHhCCCCCEEEEecCC-cCCCCCeE-EEEeecceEEEEE
Confidence 445678888888774 345655543 44678899999999999863211 11222233 4567778888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 81 ~~~hp 85 (199)
T cd08416 81 PATSP 85 (199)
T ss_pred CCCCc
Confidence 76543
No 329
>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=56.38 E-value=1.9e+02 Score=27.69 Aligned_cols=85 Identities=14% Similarity=0.151 Sum_probs=51.2
Q ss_pred ecCCcHHHhhh----ccCCCccccccc----CCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEecccccc
Q 047109 644 QLGSFVPGALS----NLNFKDSRLKKY----NSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAPNYTT 715 (808)
Q Consensus 644 ~~~s~~~~~l~----~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 715 (808)
..||.....++ ..+.....+.-| .+..+....+..|. .|+-+.-...+. +.. +|..+ ++.
T Consensus 100 ~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~G~----AD~G~g~~~~A~----~~~-gL~Fv--pl~- 167 (193)
T PF12727_consen 100 QPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVASGK----ADAGIGIRAAAE----EFY-GLDFV--PLA- 167 (193)
T ss_pred CCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHcCC----CCEEeehHHHHH----hhc-CCCcE--Ecc-
Confidence 35666665553 233333334433 45677788898887 888887655433 211 23333 334
Q ss_pred ccceEEEEeCCCCChHHHHHHHHhh
Q 047109 716 TSGFGFVFQKGSPLVHDISRAIAKL 740 (808)
Q Consensus 716 ~~~~~~~~~k~sp~~~~~~~~i~~l 740 (808)
...|-++++|..-..+.+.+.|.-|
T Consensus 168 ~E~~dlv~~~~~~~~~~vq~ll~~l 192 (193)
T PF12727_consen 168 EERYDLVIRREDLEDPAVQALLDFL 192 (193)
T ss_pred ccceEEEEEhhHcCCHHHHHHHHHh
Confidence 6778899999877777777766554
No 330
>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=55.87 E-value=79 Score=27.56 Aligned_cols=61 Identities=13% Similarity=0.089 Sum_probs=41.4
Q ss_pred cHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH----HHHHHHHHHHHcCC
Q 047109 152 IIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA----LASHLFLNAKKLGM 219 (808)
Q Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~----~~~~~l~~a~~~gl 219 (808)
....+...++..|+.+..-.. .... ...+..+.+.++++|.+++... .+..++++.++.+.
T Consensus 15 G~~~~~~~l~~~G~~vi~lG~----~vp~---e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 15 GAKVIARALRDAGFEVIYTGL----RQTP---EEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred HHHHHHHHHHHCCCEEEECCC----CCCH---HHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 456777789999999876432 1123 3455555668899999987543 46677777888775
No 331
>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=55.79 E-value=1.7e+02 Score=27.00 Aligned_cols=70 Identities=7% Similarity=-0.007 Sum_probs=46.7
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.- ++++++... +...+...+.+|++|+++... ......+. +.++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~~---------~~~~~~~~l~~~~~Di~i~~~---~~~~~~~~-~~~l~~~~~~~~~ 78 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHEM---------SSAEQIEALLRGELDLGFVHS---RRLPAGLS-ARLLHREPFVCCL 78 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEeC---------CHHHHHHHHHcCCcceEEEeC---CCCCcCce-EEEEecCcEEEEe
Confidence 345678888887764 345655543 568899999999999987532 22223333 3577788888887
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 79 ~~~h 82 (197)
T cd08448 79 PAGH 82 (197)
T ss_pred eCCC
Confidence 7654
No 332
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=55.66 E-value=1e+02 Score=29.71 Aligned_cols=97 Identities=23% Similarity=0.246 Sum_probs=57.2
Q ss_pred cCCceeee---cCCcHHHhh----hccCCCcccccccCC----HHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCc
Q 047109 637 SRDNIGSQ---LGSFVPGAL----SNLNFKDSRLKKYNS----AEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTD 705 (808)
Q Consensus 637 ~~~~i~~~---~~s~~~~~l----~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~ 705 (808)
..+++..+ +||.....+ .+.......|.-|.. .......+.+|+ .|+-+.-+..+ .++ +
T Consensus 96 ~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~G~----AD~GvGlr~~A----~~~--g 165 (223)
T COG1910 96 LRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVASGR----ADAGVGLRHAA----EKY--G 165 (223)
T ss_pred hhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHcCC----CCccccHHHHH----HHc--C
Confidence 45544443 566555444 333333345555543 345567787887 89888854433 333 2
Q ss_pred eEEeccccccccceEEEEeCCCCChHHHHHHHHhhhhcCch
Q 047109 706 YTMIAPNYTTTSGFGFVFQKGSPLVHDISRAIAKLREEGTL 746 (808)
Q Consensus 706 l~~~~~~~~~~~~~~~~~~k~sp~~~~~~~~i~~l~e~G~~ 746 (808)
|..+ ++. .+.|-++.+|+.--.+.+...+..|++.++-
T Consensus 166 L~Fi--pl~-~E~YD~virke~~~~~~vr~fi~~L~s~~~~ 203 (223)
T COG1910 166 LDFI--PLG-DEEYDFVIRKERLDKPVVRAFIKALKSEGFA 203 (223)
T ss_pred CceE--Ecc-cceEEEEEehhHccCHHHHHHHHHhcccccc
Confidence 4433 344 7778899999876666777777777765543
No 333
>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=55.45 E-value=28 Score=34.79 Aligned_cols=78 Identities=13% Similarity=0.181 Sum_probs=52.1
Q ss_pred EEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHH
Q 047109 137 HVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNA 214 (808)
Q Consensus 137 ~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a 214 (808)
+++++.+. ..+.. .+...+++.+++.|+.+..... ..+.+.....++++.+.+++.+|+..........+..+
T Consensus 1 ~ig~v~~~~~~~~~~-~~~~g~~~~~~~~g~~l~~~~~----~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l 75 (264)
T cd01537 1 TIGVLVPDLDNPFFA-QVLKGIEEAAKAAGYQVLLANS----QNDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLA 75 (264)
T ss_pred CeEEEEcCCCChHHH-HHHHHHHHHHHHcCCeEEEEeC----CCCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHh
Confidence 36777765 45666 7888999999999988765432 22334566777777777899888876544433356666
Q ss_pred HHcCC
Q 047109 215 KKLGM 219 (808)
Q Consensus 215 ~~~gl 219 (808)
.+.+.
T Consensus 76 ~~~~i 80 (264)
T cd01537 76 RKAGI 80 (264)
T ss_pred hhcCC
Confidence 66654
No 334
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=55.44 E-value=43 Score=30.31 Aligned_cols=84 Identities=19% Similarity=0.112 Sum_probs=57.3
Q ss_pred hhhHHHHHHHHHHHHHhcCCCcceE--EEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCc
Q 047109 15 GKISNSCISMAISDFYALNTHYKTR--LVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKI 92 (808)
Q Consensus 15 g~~~~~a~~~Av~~iN~~~~~l~~~--l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~i 92 (808)
|.+..+-++=|+.+..+. ++-+-+ ++-.-.--.-+-.+|++++.+|-.- ++.++-|..|....+.++..+-..++|
T Consensus 92 GAqVsqVA~GAIsEADRH-NiRGERISvDTiPlVGEE~laEAVkAV~rLpRv-~iLVLAGslMGGkIteaVk~lr~~hgI 169 (218)
T COG1707 92 GAQVSQVARGAISEADRH-NIRGERISVDTIPLVGEEELAEAVKAVARLPRV-GILVLAGSLMGGKITEAVKELREEHGI 169 (218)
T ss_pred chhHHHHHHhhcchhhhc-ccccceeeeecccccChHHHHHHHHHHhccccc-eeEEEecccccchHHHHHHHHHHhcCC
Confidence 445555556666665433 244423 3322223346777889998888766 788888887677788999999999999
Q ss_pred cEEeccCC
Q 047109 93 PVISLYAT 100 (808)
Q Consensus 93 P~is~~~~ 100 (808)
|+||..-.
T Consensus 170 ~VISL~M~ 177 (218)
T COG1707 170 PVISLNMF 177 (218)
T ss_pred eEEEeccC
Confidence 99997543
No 335
>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=55.27 E-value=1.7e+02 Score=26.89 Aligned_cols=71 Identities=11% Similarity=-0.007 Sum_probs=46.3
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.+..- ++++++... +...+...|.+|++|+++..... .....+.+ .++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~~-~~l~~~~~~~~~ 79 (194)
T cd08436 13 VDLPELLARFHRRHP-GVDIRLRQA---------GSDDLLAAVREGRLDLAFVGLPE--RRPPGLAS-RELAREPLVAVV 79 (194)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEecC---------CHHHHHHHHHcCCccEEEEecCC--CCCCCcEE-EEeecceEEEEe
Confidence 345677778877764 345655543 45788999999999999864321 12233333 567777888888
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 80 ~~~~ 83 (194)
T cd08436 80 APDH 83 (194)
T ss_pred cCCC
Confidence 7654
No 336
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=55.24 E-value=45 Score=35.79 Aligned_cols=78 Identities=8% Similarity=0.131 Sum_probs=56.1
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.++ +++.++++...+ . ...+.+.+.+++.|+.+.+. .+.. .++.+.....++.+++.++|+||-.+
T Consensus 18 ~~~l~~~l~~~g-~~~livtd~~~~-~-~~~~~v~~~l~~~~~~~~~~-~~~~-ep~~~~v~~~~~~~~~~~~d~IIavG 92 (366)
T PRK09423 18 LARLGEYLKPLG-KRALVIADEFVL-G-IVGDRVEASLKEAGLTVVFE-VFNG-ECSDNEIDRLVAIAEENGCDVVIGIG 92 (366)
T ss_pred HHHHHHHHHHcC-CEEEEEEChhHH-H-HHHHHHHHHHHhCCCeEEEE-EeCC-CCCHHHHHHHHHHHHhcCCCEEEEec
Confidence 345667778888 999998854443 3 46688888899888876543 3444 44566788888888888999999876
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 93 GGs 95 (366)
T PRK09423 93 GGK 95 (366)
T ss_pred ChH
Confidence 553
No 337
>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=54.62 E-value=53 Score=35.26 Aligned_cols=76 Identities=12% Similarity=0.078 Sum_probs=53.9
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
..+.+.++.++.+++.++++...+ ..+.+.+.+++.|+.+.....+.. .++.+.....+..+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~----~~~~~~~~l~~~~~~~~~~~~~~~-~p~~~~v~~~~~~~~~~~~D~IIavGG 86 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA----IASGLTDILKPLGTLVVVFDDVQP-NPDLEDLAAGIRLLREFGPDAVLAVGG 86 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH----HHHHHHHHHHHcCCeEEEEcCcCC-CcCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 456677888888999999865543 345677778888876554333433 445667888888888889999997765
Q ss_pred H
Q 047109 204 H 204 (808)
Q Consensus 204 ~ 204 (808)
+
T Consensus 87 G 87 (367)
T cd08182 87 G 87 (367)
T ss_pred c
Confidence 5
No 338
>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=54.53 E-value=79 Score=29.31 Aligned_cols=66 Identities=15% Similarity=0.171 Sum_probs=46.6
Q ss_pred CCcEEEEEEecCCccc--cCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC-CCCeEEEEEc
Q 047109 134 KWKHVILIYEDNTWGS--DNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS-SETKVFVVHM 202 (808)
Q Consensus 134 ~w~~v~ii~~d~~~g~--~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~ 202 (808)
..-++++|...|+-+. +.....+...+++.|..+.....++. +.+.+.+.+++..+ .+.|+|+..+
T Consensus 3 ~~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~D---d~~~i~~~l~~~~~~~~~DlVIttG 71 (163)
T TIGR02667 3 IPLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKD---DIYQIRAQVSAWIADPDVQVILITG 71 (163)
T ss_pred CccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCC---CHHHHHHHHHHHHhcCCCCEEEECC
Confidence 3467888876664332 24566788889999999887777665 56678888877643 5789988864
No 339
>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=54.43 E-value=1.8e+02 Score=26.79 Aligned_cols=70 Identities=14% Similarity=0.138 Sum_probs=46.6
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.- ++++++... +...+.+.|.+|++|+++... +.....+. +.++....+++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~~---------~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~~~ 78 (197)
T cd08440 13 TLLPPVLAAFRRRHP-GIRVRLRDV---------SAEQVIEAVRSGEVDFGIGSE---PEADPDLE-FEPLLRDPFVLVC 78 (197)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEEeC---------ChHHHHHHHHcCCccEEEEeC---CCCCCCee-EEEeecccEEEEe
Confidence 345678888887764 355655543 457889999999999998632 22222333 3577778888888
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 79 ~~~~ 82 (197)
T cd08440 79 PKDH 82 (197)
T ss_pred cCCC
Confidence 7654
No 340
>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=54.40 E-value=35 Score=34.55 Aligned_cols=78 Identities=5% Similarity=0.081 Sum_probs=53.5
Q ss_pred EEEEEEec--CCccccCcHHHHHHhhhc-CCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH-HHHHHHH
Q 047109 137 HVILIYED--NTWGSDNIIPYLFDSLHD-NDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA-LASHLFL 212 (808)
Q Consensus 137 ~v~ii~~d--~~~g~~~~~~~~~~~~~~-~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~l~ 212 (808)
+|+++.++ +.|.. ...+.+.+.+++ .|+++..... ..+.......++++.+.+.|.+++..... ....++.
T Consensus 1 ~igvi~~~~~~~~~~-~~~~gi~~~~~~~~~~~~~~~~~----~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~ 75 (272)
T cd06301 1 KIGVSMANFDDNFLT-LLRNAMKEHAKVLGGVELQFEDA----KNDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVK 75 (272)
T ss_pred CeeEeecccCCHHHH-HHHHHHHHHHHHcCCcEEEEeCC----CCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHH
Confidence 46777765 45555 677888899999 8988876422 12445566778888778899888865443 3456777
Q ss_pred HHHHcCC
Q 047109 213 NAKKLGM 219 (808)
Q Consensus 213 ~a~~~gl 219 (808)
++.+.|.
T Consensus 76 ~l~~~~i 82 (272)
T cd06301 76 AANAAGI 82 (272)
T ss_pred HHHHCCC
Confidence 7777764
No 341
>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=54.03 E-value=1.8e+02 Score=26.87 Aligned_cols=71 Identities=6% Similarity=0.108 Sum_probs=45.8
Q ss_pred eHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEec
Q 047109 448 CVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPT 527 (808)
Q Consensus 448 ~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~ 527 (808)
-.+++..+.+..- ++++++... +-..+...+.+|++|+++.... ...+...+. ..|+....+++++++
T Consensus 15 l~~~l~~~~~~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~~-~~~l~~~~~~~~~~~ 82 (201)
T cd08435 15 LPPAIARLLARHP-RLTVRVVEG---------TSDELLEGLRAGELDLAIGRLA-DDEQPPDLA-SEELADEPLVVVARP 82 (201)
T ss_pred HHHHHHHHHHHCC-CeEEEEEeC---------CHHHHHHHHHcCCccEEEEecC-cccCCCCcE-EEEcccCcEEEEEeC
Confidence 4577777777654 455655432 4578899999999999985321 111123343 357778888888887
Q ss_pred CCC
Q 047109 528 DRN 530 (808)
Q Consensus 528 ~~~ 530 (808)
..+
T Consensus 83 ~~~ 85 (201)
T cd08435 83 GHP 85 (201)
T ss_pred CCc
Confidence 643
No 342
>PRK00856 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=54.01 E-value=2e+02 Score=29.82 Aligned_cols=134 Identities=13% Similarity=0.117 Sum_probs=73.1
Q ss_pred EEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHH
Q 047109 4 VGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHIL 83 (808)
Q Consensus 4 IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~ 83 (808)
|+.+|...+. .-+..++.|+.++.... +.+-..++.-.--++++-+.+.++..++.+|+-=. . .-..+
T Consensus 48 ~~~lF~~pST---RTR~SFe~A~~~LGg~~------i~l~~~~~~~~kgEs~~Dta~vls~y~~D~iv~R~-~--~~~~~ 115 (305)
T PRK00856 48 VANLFFEPST---RTRLSFELAAKRLGADV------INFSASTSSVSKGETLADTIRTLSAMGADAIVIRH-P--QSGAA 115 (305)
T ss_pred EEEEeccCCc---chHHHHHHHHHHcCCcE------EEeCCCcccCCCCcCHHHHHHHHHhcCCCEEEEeC-C--ChHHH
Confidence 5667766554 34678888887764322 22211122212223444455555554455555422 1 12234
Q ss_pred HHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHH---HhcC-C--cEEEEEEecCCccccCcHHHHH
Q 047109 84 AEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLI---RVFK-W--KHVILIYEDNTWGSDNIIPYLF 157 (808)
Q Consensus 84 ~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll---~~~~-w--~~v~ii~~d~~~g~~~~~~~~~ 157 (808)
..++...+||+|.-+.++.. +-.+++++++ +++| + .+|+++. |..++. ....+.
T Consensus 116 ~~~a~~~~vPVINa~~g~~~-----------------HPtQ~LaDl~Ti~e~~G~l~g~kv~~vG-D~~~~~--v~~Sl~ 175 (305)
T PRK00856 116 RLLAESSDVPVINAGDGSHQ-----------------HPTQALLDLLTIREEFGRLEGLKVAIVG-DIKHSR--VARSNI 175 (305)
T ss_pred HHHHHHCCCCEEECCCCCCC-----------------CcHHHHHHHHHHHHHhCCCCCCEEEEEC-CCCCCc--HHHHHH
Confidence 45566678999986542222 3345666654 4454 2 4777765 444454 677777
Q ss_pred HhhhcCCcEEEE
Q 047109 158 DSLHDNDIDIAR 169 (808)
Q Consensus 158 ~~~~~~g~~i~~ 169 (808)
..+...|..+..
T Consensus 176 ~~~~~~g~~~~~ 187 (305)
T PRK00856 176 QALTRLGAEVRL 187 (305)
T ss_pred HHHHHcCCEEEE
Confidence 788888887665
No 343
>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=53.50 E-value=1.9e+02 Score=26.96 Aligned_cols=72 Identities=15% Similarity=0.109 Sum_probs=47.8
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
++-.+++..+.++.- ++++++... +...+++.|.+|++|+++..-.. .....+. +.++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~ 79 (198)
T cd08444 13 YALPWVVQAFKEQFP-NVHLVLHQG---------SPEEIASMLANGQADIGIATEAL--ENHPELV-SFPYYDWHHHIIV 79 (198)
T ss_pred hhhhHHHHHHHHHCC-CeEEEEEeC---------CHHHHHHHHHCCCccEEEecccc--CCCcCcE-EeeccccceeEEe
Confidence 456788888888764 356665543 45788999999999999853211 1122232 4677778888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 80 ~~~hp 84 (198)
T cd08444 80 PVGHP 84 (198)
T ss_pred cCCCc
Confidence 76643
No 344
>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=52.82 E-value=17 Score=31.55 Aligned_cols=87 Identities=11% Similarity=0.103 Sum_probs=48.8
Q ss_pred cEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCC--CCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHH
Q 047109 136 KHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMS--SNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLN 213 (808)
Q Consensus 136 ~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~--~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~ 213 (808)
|+++++..++.-+. +...+.+.+.+.|.+|.... +.. ..+..-|.+ +..+ -...|+++++..++....++++
T Consensus 1 ksiAVvGaS~~~~~--~g~~v~~~l~~~G~~v~~Vn--p~~~~i~G~~~y~s-l~e~-p~~iDlavv~~~~~~~~~~v~~ 74 (116)
T PF13380_consen 1 KSIAVVGASDNPGK--FGYRVLRNLKAAGYEVYPVN--PKGGEILGIKCYPS-LAEI-PEPIDLAVVCVPPDKVPEIVDE 74 (116)
T ss_dssp -EEEEET--SSTTS--HHHHHHHHHHHTT-EEEEES--TTCSEETTEE-BSS-GGGC-SST-SEEEE-S-HHHHHHHHHH
T ss_pred CEEEEEcccCCCCC--hHHHHHHHHHhCCCEEEEEC--CCceEECcEEeecc-ccCC-CCCCCEEEEEcCHHHHHHHHHH
Confidence 56788876554443 55566666666887765321 110 001112222 1122 3578999999999999999999
Q ss_pred HHHcCCCCCCeEEEEeCc
Q 047109 214 AKKLGMMSKGYSWIVTAS 231 (808)
Q Consensus 214 a~~~gl~~~~~~~i~~~~ 231 (808)
+.+.| .+.+|+.++.
T Consensus 75 ~~~~g---~~~v~~~~g~ 89 (116)
T PF13380_consen 75 AAALG---VKAVWLQPGA 89 (116)
T ss_dssp HHHHT----SEEEE-TTS
T ss_pred HHHcC---CCEEEEEcch
Confidence 99998 4789998883
No 345
>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=52.71 E-value=1.5e+02 Score=25.39 Aligned_cols=84 Identities=18% Similarity=0.039 Sum_probs=45.0
Q ss_pred HHHhcCCcEEEEEEecCCc-cccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHH
Q 047109 129 LIRVFKWKHVILIYEDNTW-GSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALA 207 (808)
Q Consensus 129 ll~~~~w~~v~ii~~d~~~-g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~ 207 (808)
-++..|.+.|.-+-.|++- +. ...+.+.+.+++.|+.....-.... ..+.+++....+.+.+....|.+.|.++..+
T Consensus 22 ~la~~GfktVInlRpd~E~~~q-p~~~~~~~~a~~~Gl~y~~iPv~~~-~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra 99 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQ-PSSAEEAAAAEALGLQYVHIPVDGG-AITEEDVEAFADALESLPKPVLAHCRSGTRA 99 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT--T-HHCHHHHHHHCT-EEEE----TT-T--HHHHHHHHHHHHTTTTSEEEE-SCSHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCC-CCHHHHHHHHHHcCCeEEEeecCCC-CCCHHHHHHHHHHHHhCCCCEEEECCCChhH
Confidence 4566899999999888653 34 5667788999999998765321111 2244555555555554444566666666666
Q ss_pred HHHHHHH
Q 047109 208 SHLFLNA 214 (808)
Q Consensus 208 ~~~l~~a 214 (808)
..+..-+
T Consensus 100 ~~l~~l~ 106 (110)
T PF04273_consen 100 SALWALA 106 (110)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 6654433
No 346
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=52.56 E-value=3.2e+02 Score=29.26 Aligned_cols=149 Identities=9% Similarity=0.102 Sum_probs=84.8
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChh-HHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPT-GAH 81 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~-~~~ 81 (808)
+|..|.|..|+.=+.....+--+..+.=++. -- -++.+.....-+++..-+++..+-+.+.||.+.+=.. ++. ...
T Consensus 214 ~i~~IaP~HG~i~~~~~~~i~~~Y~~W~~~~-~~-~~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~-~~~~~~e 290 (388)
T COG0426 214 KIEMIAPSHGPIWRGNPKEIVEAYRDWAEGQ-PK-GKVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINL-EDADPSE 290 (388)
T ss_pred CccEEEcCCCceeeCCHHHHHHHHHHHHccC-Cc-ceEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEc-ccCCHHH
Confidence 5778888888761111122233333332221 11 2566555555688887777766666565887777654 333 344
Q ss_pred HHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhh
Q 047109 82 ILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLH 161 (808)
Q Consensus 82 ~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~ 161 (808)
.+..+.+..++ +|. +|. +. -...|+ ...++..+...-.-++.+.+..+..|+. ...+.+++.++
T Consensus 291 I~~~i~~a~~~-vvG----sPT-~~---~~~~p~------i~~~l~~v~~~~~~~k~~~vfgS~GW~g-~av~~i~~~l~ 354 (388)
T COG0426 291 IVEEILDAKGL-VVG----SPT-IN---GGAHPP------IQTALGYVLALAPKNKLAGVFGSYGWSG-EAVDLIEEKLK 354 (388)
T ss_pred HHHHHhhcceE-EEe----cCc-cc---CCCCch------HHHHHHHHHhccCcCceEEEEeccCCCC-cchHHHHHHHH
Confidence 44455555544 333 222 10 011222 2345555554444455666677888888 89999999999
Q ss_pred cCCcEEEEE
Q 047109 162 DNDIDIARR 170 (808)
Q Consensus 162 ~~g~~i~~~ 170 (808)
+.|.++...
T Consensus 355 ~~g~~~~~~ 363 (388)
T COG0426 355 DLGFEFGFD 363 (388)
T ss_pred hcCcEEecc
Confidence 999988765
No 347
>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=52.05 E-value=54 Score=33.05 Aligned_cols=75 Identities=16% Similarity=0.193 Sum_probs=48.4
Q ss_pred EEEEEec-----CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHH
Q 047109 138 VILIYED-----NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFL 212 (808)
Q Consensus 138 v~ii~~d-----~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~ 212 (808)
|+++.++ +.|.. .+.+.+.+.+++.|.++..... .. ........+..+.+.+.|.|++.....+. .++
T Consensus 2 vgv~~~~~~~~~~~~~~-~~~~~i~~~~~~~g~~~~~~~~-~~---~~~~~~~~~~~l~~~~vdgiii~~~~~~~--~~~ 74 (268)
T cd06277 2 IGLIASKRILNSPAFYS-EIYRAIEEEAKKYGYNLILKFV-SD---EDEEEFELPSFLEDGKVDGIILLGGISTE--YIK 74 (268)
T ss_pred eEEEEeccccccCCcHH-HHHHHHHHHHHHcCCEEEEEeC-CC---ChHHHHHHHHHHHHCCCCEEEEeCCCChH--HHH
Confidence 5666655 45555 6778888899999988765432 22 23334455666667788998887644332 366
Q ss_pred HHHHcCC
Q 047109 213 NAKKLGM 219 (808)
Q Consensus 213 ~a~~~gl 219 (808)
.+.+.|.
T Consensus 75 ~l~~~~i 81 (268)
T cd06277 75 EIKELGI 81 (268)
T ss_pred HHhhcCC
Confidence 6777664
No 348
>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=51.52 E-value=2e+02 Score=26.55 Aligned_cols=70 Identities=11% Similarity=0.053 Sum_probs=46.0
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.+..- ++++++... ....+++.+.+|++|+++... ......+. +.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~~~i~~~---------~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~~~ 78 (196)
T cd08456 13 SFLPRAIKAFLQRHP-DVTISIHTR---------DSPTVEQWLSAQQCDLGLVST---LHEPPGIE-RERLLRIDGVCVL 78 (196)
T ss_pred hhHHHHHHHHHHHCC-CcEEEEEeC---------CHHHHHHHHHcCCccEEEEec---CCCCCCee-EEEeeccCeEEEe
Confidence 345678888888764 356666543 456788999999999998532 11222333 4567777888888
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 79 ~~~~ 82 (196)
T cd08456 79 PPGH 82 (196)
T ss_pred cCCC
Confidence 7653
No 349
>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=51.23 E-value=2.1e+02 Score=26.64 Aligned_cols=73 Identities=10% Similarity=0.083 Sum_probs=46.2
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.+..- .+++++... ....+...|.+|++|+++............++ +.+.....++++++
T Consensus 14 ~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~~-~~~l~~~~~~~v~~ 82 (200)
T cd08453 14 VLPELVRRFREAYP-DVELQLREA---------TSDVQLEALLAGEIDAGIVIPPPGASAPPALA-YRPLLSEPLVLAVP 82 (200)
T ss_pred HHHHHHHHHHHhCC-CceEEEEeC---------CHHHHHHHHHcCCCCEEEEecCcccCCCccee-EEEeeeCceEEEEE
Confidence 45677888877663 345555543 45788999999999998853211111122333 46777888888887
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 83 ~~hp 86 (200)
T cd08453 83 AAWA 86 (200)
T ss_pred CCCc
Confidence 6643
No 350
>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=50.88 E-value=1.3e+02 Score=29.32 Aligned_cols=74 Identities=8% Similarity=0.020 Sum_probs=50.7
Q ss_pred cEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc--CHHHHHHHHHH
Q 047109 136 KHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM--SHALASHLFLN 213 (808)
Q Consensus 136 ~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~--~~~~~~~~l~~ 213 (808)
.++++|.+..+. .+...+.++..+..+.+...-|+ ..+.+++...-+.+++.++|+|++.| +....+.++++
T Consensus 126 ~~vGVivP~~eQ-----~~~~~~kW~~l~~~~~~a~asPy-~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~ 199 (221)
T PF07302_consen 126 HQVGVIVPLPEQ-----IAQQAEKWQPLGNPVVVAAASPY-EGDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQR 199 (221)
T ss_pred CeEEEEecCHHH-----HHHHHHHHHhcCCCeEEEEeCCC-CCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHH
Confidence 799999977652 22333444445545554433344 45678899999999999999999976 55667777766
Q ss_pred HH
Q 047109 214 AK 215 (808)
Q Consensus 214 a~ 215 (808)
+.
T Consensus 200 ~~ 201 (221)
T PF07302_consen 200 AL 201 (221)
T ss_pred Hh
Confidence 53
No 351
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=50.86 E-value=2.5e+02 Score=29.10 Aligned_cols=71 Identities=7% Similarity=0.096 Sum_probs=48.0
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
++-.+++..+.++.- .+++++... +...++..|.+|++|+++.... .....+.+ .++....+++++
T Consensus 125 ~~l~~~l~~f~~~~P-~i~l~i~~~---------~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~~-~~l~~~~~~lv~ 190 (314)
T PRK09508 125 RLTSQIYNRIEQIAP-NIHVVFKSS---------LNQNIEHQLRYQETEFVISYEE---FDRPEFTS-VPLFKDELVLVA 190 (314)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEeC---------cchhHHHHHhcCCccEEEecCC---CCccccce-eeeecCceEEEE
Confidence 356788888888764 345555542 3478899999999999986432 22233444 467788888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 191 ~~~hp 195 (314)
T PRK09508 191 SKNHP 195 (314)
T ss_pred cCCCC
Confidence 76643
No 352
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=50.73 E-value=2.9e+02 Score=28.15 Aligned_cols=39 Identities=13% Similarity=0.098 Sum_probs=26.4
Q ss_pred HHHHHHHH-HHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEE
Q 047109 449 VDVFKAAI-DSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVV 497 (808)
Q Consensus 449 ~dl~~~ia-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~ 497 (808)
.++++.+. ++.|++++++... ++..+..+|.+|++|+..
T Consensus 46 ~~~~~~~l~~~~G~~Vel~~f~----------~~~~~~~ALa~GdID~~~ 85 (271)
T PRK11063 46 AEVAQKVAKEKYGLDVELVTFN----------DYVLPNEALSKGDIDANA 85 (271)
T ss_pred HHHHHHHHHHhcCCeEEEEEec----------CcHHHHHHHHcCCcceec
Confidence 34454444 4558765554433 468889999999999864
No 353
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=50.60 E-value=22 Score=42.96 Aligned_cols=51 Identities=14% Similarity=0.264 Sum_probs=44.2
Q ss_pred hhhHHHHHHHHhhhcC--ccccccchhhHHHHHHHHHHHHHHHHhhhhhheee
Q 047109 578 FGMIFWYSFSTLVFSQ--REKLLSNWSKFVVIVWVFVVLILTSSYTATLTSML 628 (808)
Q Consensus 578 ~~~~~~~~~~~l~~~~--~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~l 628 (808)
...++|+++.++..-| ...|.+...|++.++|+++++++.++..+++++++
T Consensus 251 Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li 303 (823)
T PLN03192 251 YISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLV 303 (823)
T ss_pred HHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3458999998888654 44789999999999999999999999999999987
No 354
>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=50.39 E-value=64 Score=34.06 Aligned_cols=77 Identities=13% Similarity=0.130 Sum_probs=53.0
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
..+.+.++.++.+++.++++... .. ...+.+.+.+++. +.+........ ..+.++....+..+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~-~~-~~~~~v~~~l~~~-~~~~~~~~~~~-~p~~~~v~~~~~~~~~~~~d~IIaiGG 87 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGV-VK-GVGEKVADSLKKL-IAVHIFDGVGP-NPTFEEVKEAVERARAAEVDAVIAVGG 87 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCch-hh-hHHHHHHHHHHhc-CcEEEeCCcCC-CcCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 34566777788899999985443 23 4677888888876 65543322222 345667888888888888999887765
Q ss_pred H
Q 047109 204 H 204 (808)
Q Consensus 204 ~ 204 (808)
+
T Consensus 88 G 88 (332)
T cd07766 88 G 88 (332)
T ss_pred c
Confidence 4
No 355
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=49.36 E-value=3.2e+02 Score=28.25 Aligned_cols=70 Identities=11% Similarity=0.126 Sum_probs=43.5
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.+..- ++++++... +-..+...|.+|++|+++.... .....+. ..+.......++++
T Consensus 108 ~l~~~l~~~~~~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~~~~ 173 (309)
T PRK11013 108 LLPGLCQPFLARYP-DVSLNIVPQ---------ESPLLEEWLSAQRHDLGLTETL---HTPAGTE-RTELLTLDEVCVLP 173 (309)
T ss_pred hHHHHHHHHHHHCC-CCeEEEEeC---------CHHHHHHHHHcCCCCEEEEcCC---CCCCCce-eeeecceeEEEEEc
Confidence 45678888887663 345555543 3367889999999999986322 1112232 34566666777777
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 174 ~~~p 177 (309)
T PRK11013 174 AGHP 177 (309)
T ss_pred CCCc
Confidence 6543
No 356
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=48.93 E-value=1.4e+02 Score=27.61 Aligned_cols=79 Identities=13% Similarity=0.146 Sum_probs=55.2
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhh-cCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEE
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLH-DNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVH 201 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~-~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 201 (808)
++.+....++.+-+++.++ ||....+.+.+.+.+.+. -.|+++... +.++....+++ +..+-++++++
T Consensus 18 GQV~~~W~~~~~~~~IiVv--dD~vA~D~~~k~~lkma~~P~gvk~~i~--------sv~~a~~~l~~-~~~~~~vlvl~ 86 (158)
T PRK09756 18 GQVGVTWTSTIGANLLVVV--DDVVANDDIQQKLMGITAETYGFGIRFF--------TIEKTINVIGK-AAPHQKIFLIC 86 (158)
T ss_pred HHHHHhhhcccCCCEEEEE--cchhcCCHHHHHHHHhcCCCCCCEEEEE--------EHHHHHHHHHh-ccCCceEEEEE
Confidence 5677788899999998886 343333256666666655 578776642 33566667776 55667899999
Q ss_pred cCHHHHHHHHH
Q 047109 202 MSHALASHLFL 212 (808)
Q Consensus 202 ~~~~~~~~~l~ 212 (808)
-++.++..+++
T Consensus 87 ~~~~da~~l~~ 97 (158)
T PRK09756 87 RTPQTVRKLVE 97 (158)
T ss_pred CCHHHHHHHHH
Confidence 99999888765
No 357
>PRK11118 putative monooxygenase; Provisional
Probab=48.93 E-value=20 Score=29.49 Aligned_cols=31 Identities=6% Similarity=-0.071 Sum_probs=28.1
Q ss_pred EEEecCCcchhhHHHHHHHHHHHHHhcCCCc
Q 047109 6 VILDMRSWAGKISNSCISMAISDFYALNTHY 36 (808)
Q Consensus 6 ~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l 36 (808)
+-||.+||.|..+..++.-..+.||+.+|+.
T Consensus 7 vdF~~~GP~g~em~~~~~~LA~sI~~EpGli 37 (100)
T PRK11118 7 VDFPFNGPFGEEMAKALKPLAESINEEPGFI 37 (100)
T ss_pred EeccCCCCcHHHHHHHHHHHHHHHhcCCCce
Confidence 5689999999999999999999999999864
No 358
>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=48.87 E-value=49 Score=36.00 Aligned_cols=70 Identities=9% Similarity=0.072 Sum_probs=51.1
Q ss_pred cCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH
Q 047109 133 FKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH 204 (808)
Q Consensus 133 ~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 204 (808)
.+.+++.++++...... ...+.+.+.+++.|+.+.....+.. .++.+.....+..+++.++|+||-.+.+
T Consensus 19 ~~~~k~liVtd~~~~~~-g~~~~v~~~L~~~gi~~~~f~~v~~-~p~~~~v~~~~~~~~~~~~D~IIaiGGG 88 (398)
T cd08178 19 KGKKRAFIVTDRFMVKL-GYVDKVIDVLKRRGVETEVFSDVEP-DPSLETVRKGLELMNSFKPDTIIALGGG 88 (398)
T ss_pred cCCCeEEEEcChhHHhC-ccHHHHHHHHHHCCCeEEEecCCCC-CcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 45689988885544434 5788899999999987654333444 4466678888888888999999977654
No 359
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=48.76 E-value=3.1e+02 Score=30.71 Aligned_cols=129 Identities=9% Similarity=0.034 Sum_probs=69.4
Q ss_pred EEecCCChhHHHHHHHhcC-CCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCcc
Q 047109 70 IICTEMTPTGAHILAEIGS-KAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWG 148 (808)
Q Consensus 70 iiG~~~~s~~~~~~~~~~~-~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g 148 (808)
|++|. +.....++..+.+ ...+=+|.++- .|. +|- ... ...+...+......-+++.|+|.+ .||
T Consensus 198 i~~p~-~~~v~~~l~~~~~l~l~~~~i~p~H-G~i------~r~--~~~---~~l~~Y~~~~~~~~~~kv~IvY~S-~~G 263 (479)
T PRK05452 198 ILTPF-SRLVTPKITEILGFNLPVDMIATSH-GVV------WRD--NPT---QIVELYLKWAADYQEDRITIFYDT-MSN 263 (479)
T ss_pred hhhhh-HHHHHHHHHHHhhcCCCCCEEECCC-Cce------EeC--CHH---HHHHHHHHHhhccCcCcEEEEEEC-Ccc
Confidence 67888 7766666666654 33455566543 444 442 111 222223333333344789999944 355
Q ss_pred c-cCcHHHHHHhhhcC--CcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH------HHHHHHHHHHHHcCC
Q 047109 149 S-DNIIPYLFDSLHDN--DIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH------ALASHLFLNAKKLGM 219 (808)
Q Consensus 149 ~-~~~~~~~~~~~~~~--g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~------~~~~~~l~~a~~~gl 219 (808)
. ...++.+.+.+++. |+.+.... +.. .+...++..+. +++.|++.+.. +....++.......+
T Consensus 264 nTe~mA~~ia~gl~~~g~gv~v~~~~-v~~-----~~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l 335 (479)
T PRK05452 264 NTRMMADAIAQGIAEVDPRVAVKIFN-VAR-----SDKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRF 335 (479)
T ss_pred HHHHHHHHHHHHHHhhCCCceEEEEE-CCC-----CCHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCc
Confidence 3 26678888888876 45544322 221 23334444442 45677776432 245666666666655
Q ss_pred C
Q 047109 220 M 220 (808)
Q Consensus 220 ~ 220 (808)
.
T Consensus 336 ~ 336 (479)
T PRK05452 336 R 336 (479)
T ss_pred C
Confidence 3
No 360
>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=48.30 E-value=1.3e+02 Score=27.39 Aligned_cols=80 Identities=9% Similarity=0.096 Sum_probs=56.2
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
++.+....++++-+++.++- |..-.. .+.+.+.+.+.-.|+++... +.++....+++-...+.++++++-
T Consensus 14 GQV~~~W~~~~~~~~IiVvd-D~~A~D-~~~k~~lkma~P~gvk~~i~--------sve~a~~~l~~~~~~~~~v~vl~k 83 (151)
T TIGR00854 14 GQVGTTWTKVAGANRIIVVN-DDVAND-EVRQTLMGIVAPTGFKVRFV--------SLEKTINVIHKPAYHDQTIFLLFR 83 (151)
T ss_pred hHhhhhhhcccCCCEEEEEc-ccccCC-HHHHHHHHhhCCCCCEEEEE--------EHHHHHHHHhCcCCCCceEEEEEC
Confidence 55667788889988888863 332233 56677777776678886643 334666677665556678999999
Q ss_pred CHHHHHHHHH
Q 047109 203 SHALASHLFL 212 (808)
Q Consensus 203 ~~~~~~~~l~ 212 (808)
++.++..+++
T Consensus 84 ~~~da~~l~~ 93 (151)
T TIGR00854 84 NPQDVLTLVE 93 (151)
T ss_pred CHHHHHHHHH
Confidence 9999888765
No 361
>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=48.11 E-value=50 Score=33.41 Aligned_cols=79 Identities=10% Similarity=0.097 Sum_probs=51.8
Q ss_pred EEEEEEec---CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH-HHHHHHH
Q 047109 137 HVILIYED---NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA-LASHLFL 212 (808)
Q Consensus 137 ~v~ii~~d---~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~l~ 212 (808)
+|+++..+ +.|.. ...+.+.+++++.|..+..... . ..+.+.....++++.+.++|.+++..... .....++
T Consensus 1 ~i~~i~~~~~~~~~~~-~~~~g~~~~~~~~g~~v~~~~~--~-~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~ 76 (271)
T cd06312 1 KIAFVTHGPAGDPFWT-VVKNGAEDAAKDLGVDVEYRGP--E-TFDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIK 76 (271)
T ss_pred CEEEecCCCCCCcHHH-HHHHHHHHHHHHhCCEEEEECC--C-CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHH
Confidence 46666654 34555 6778888999999988765422 1 11334556677778778899888875433 3445677
Q ss_pred HHHHcCC
Q 047109 213 NAKKLGM 219 (808)
Q Consensus 213 ~a~~~gl 219 (808)
.+.+.|.
T Consensus 77 ~~~~~~i 83 (271)
T cd06312 77 RAVAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7777664
No 362
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=47.96 E-value=3.4e+02 Score=28.22 Aligned_cols=69 Identities=12% Similarity=0.113 Sum_probs=45.4
Q ss_pred eHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEec
Q 047109 448 CVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPT 527 (808)
Q Consensus 448 ~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~ 527 (808)
-.+++..+.+..- .+++++... .-..+...|.+|++|+++..- +.....+.+ .++....+++++++
T Consensus 104 l~~~l~~~~~~~P-~i~l~~~~~---------~~~~~~~~L~~g~~Dl~i~~~---~~~~~~~~~-~~l~~~~~~lv~~~ 169 (317)
T PRK15421 104 LTPALENFHKNWP-QVEMDFKSG---------VTFDPQPALQQGELDLVMTSD---ILPRSGLHY-SPMFDYEVRLVLAP 169 (317)
T ss_pred HHHHHHHHHHHCC-CceEEEEeC---------ccHHHHHHHHCCCcCEEEecC---cccCCCceE-EEeccceEEEEEcC
Confidence 4567777777653 345555432 236788999999999998532 222233444 67788888888877
Q ss_pred CCC
Q 047109 528 DRN 530 (808)
Q Consensus 528 ~~~ 530 (808)
..+
T Consensus 170 ~hp 172 (317)
T PRK15421 170 DHP 172 (317)
T ss_pred CCC
Confidence 643
No 363
>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=47.79 E-value=51 Score=32.62 Aligned_cols=78 Identities=10% Similarity=0.125 Sum_probs=52.5
Q ss_pred EEEEEEecC---CccccCcHHHHHHhhhc--CCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHH
Q 047109 137 HVILIYEDN---TWGSDNIIPYLFDSLHD--NDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLF 211 (808)
Q Consensus 137 ~v~ii~~d~---~~g~~~~~~~~~~~~~~--~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l 211 (808)
+|+++.++. .++. ...+.+.+.+++ .++++..... ..+.++....++++.+.+.+.+++.........+.
T Consensus 1 ~Ig~i~~~~~~~~~~~-~~~~~~~~~~~~~g~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~ 75 (269)
T cd01391 1 KIGVLLPLSGSAPFGA-QLLAGIELAAEEIGRGLEVILADS----QSDPERALEALRDLIQQGVDGIIGPPSSSSALAVV 75 (269)
T ss_pred CceEEeecCCCcHHHH-HHHHHHHHHHHHhCCceEEEEecC----CCCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHH
Confidence 366777543 5566 677888888888 7777665322 22334667777777777899998877665555567
Q ss_pred HHHHHcCC
Q 047109 212 LNAKKLGM 219 (808)
Q Consensus 212 ~~a~~~gl 219 (808)
..+.+.+.
T Consensus 76 ~~~~~~~i 83 (269)
T cd01391 76 ELAAAAGI 83 (269)
T ss_pred HHHHHcCC
Confidence 77777664
No 364
>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=47.62 E-value=52 Score=33.06 Aligned_cols=77 Identities=12% Similarity=0.144 Sum_probs=50.0
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++..+ +.|.. ...+.+.+++++.|+++... .. ..+...-...++++.+.++|.+++..........++++.
T Consensus 2 I~vi~~~~~~~~~~-~~~~g~~~~a~~~g~~~~~~---~~-~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (268)
T cd06289 2 IGLVINDLTNPFFA-ELAAGLEEVLEEAGYTVFLA---NS-GEDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLA 76 (268)
T ss_pred EEEEecCCCcchHH-HHHHHHHHHHHHcCCeEEEe---cC-CCChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHH
Confidence 4566653 34555 67788888899999887543 11 123344556777787788898888764433334677777
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.|.
T Consensus 77 ~~~i 80 (268)
T cd06289 77 ESGI 80 (268)
T ss_pred hcCC
Confidence 7764
No 365
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=47.42 E-value=2.8e+02 Score=28.57 Aligned_cols=120 Identities=18% Similarity=0.175 Sum_probs=77.0
Q ss_pred EEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCc
Q 047109 68 QAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTW 147 (808)
Q Consensus 68 ~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~ 147 (808)
.+|++.. ...-...+.+++...+.|+++ .|. . ...+.+.+=+..++...|.||...-
T Consensus 30 ~VIlvsD-n~aD~~lA~~iaellNA~Vlt----tpw-------------g---~ynes~~~eI~~lnpd~VLIIGGp~-- 86 (337)
T COG2247 30 VVILVSD-NEADLLLALPIAELLNAPVLT----TPW-------------G---IYNESVLDEIIELNPDLVLIIGGPI-- 86 (337)
T ss_pred EEEEecc-hHHHHHHhhHHHHHhCCeeEe----cCc-------------c---cccHHHHHHHHhhCCceEEEECCCC--
Confidence 5555555 555566666888888888884 332 1 2345666667788999999987443
Q ss_pred cccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhc-----C-CCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 047109 148 GSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLK-----S-SETKVFVVHMSHALASHLFLNAKKLGM 219 (808)
Q Consensus 148 g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~-----~-~~~~viil~~~~~~~~~~l~~a~~~gl 219 (808)
.......+.+++.|+++..... ....+.-......++ . .+..+++++++.-.. .+|..+++ |.
T Consensus 87 ---AVs~~yE~~Lks~GitV~RigG----~nR~ETa~~v~~~~~~~yp~af~n~kvvvv~GwDy~~-~~~e~~k~-~~ 155 (337)
T COG2247 87 ---AVSPNYENALKSLGITVKRIGG----ANRYETAEKVAKFFREDYPNAFKNVKVVVVYGWDYAD-ALMELMKE-GI 155 (337)
T ss_pred ---cCChhHHHHHHhCCcEEEEecC----cchHHHHHHHHHHHHhhchhhhcCeEEEEEeccccHH-HHHHHHhc-Cc
Confidence 4567788889999999875322 112333344445553 1 346788887766544 77777777 74
No 366
>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=46.91 E-value=58 Score=32.59 Aligned_cols=78 Identities=10% Similarity=0.096 Sum_probs=51.0
Q ss_pred EEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH-HHHHHHHHH
Q 047109 137 HVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH-ALASHLFLN 213 (808)
Q Consensus 137 ~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~l~~ 213 (808)
+|++|.++ +.|.. .+.+.+.+.+++.|+++..... ..+.......++++...+.|.||+.... ......+..
T Consensus 1 ~ig~i~p~~~~~~~~-~~~~~~~~~a~~~g~~~~~~~~----~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~ 75 (267)
T cd01536 1 KIGLVVPSLNNPFWQ-AMNKGAEAAAKELGVELIVLDA----QNDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKK 75 (267)
T ss_pred CEEEEeccccCHHHH-HHHHHHHHHHHhcCceEEEECC----CCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHH
Confidence 46777765 35555 7888889999999988765322 1133445567777777789988886543 333346666
Q ss_pred HHHcCC
Q 047109 214 AKKLGM 219 (808)
Q Consensus 214 a~~~gl 219 (808)
+.+.+.
T Consensus 76 l~~~~i 81 (267)
T cd01536 76 ANAAGI 81 (267)
T ss_pred HHHCCC
Confidence 666653
No 367
>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=46.87 E-value=1.4e+02 Score=27.22 Aligned_cols=80 Identities=13% Similarity=0.155 Sum_probs=56.1
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
++.+....++++-+++.++- |..-.. .+.+.+.+.+.-.|+++... +.++....+.+-+..+.++++++-
T Consensus 13 GQV~~~W~~~~~~~~IvVvd-D~~A~D-~~~k~~l~ma~P~gvk~~i~--------sve~a~~~l~~~~~~~~~v~il~k 82 (151)
T cd00001 13 GQVATTWTKELNANRIIVVN-DEVAND-ELRKTLLKLAAPPGVKLRIF--------TVEKAIEAINSPKYDKQRVFLLFK 82 (151)
T ss_pred hHhhhhhhcccCCCEEEEEc-ccccCC-HHHHHHHHhhCCCCCeEEEE--------EHHHHHHHHhCcCCCCceEEEEEC
Confidence 56677888889989888863 332233 56666666666678876643 334666667665556678999999
Q ss_pred CHHHHHHHHH
Q 047109 203 SHALASHLFL 212 (808)
Q Consensus 203 ~~~~~~~~l~ 212 (808)
++.++..+++
T Consensus 83 ~~~~~~~l~~ 92 (151)
T cd00001 83 NPQDVLRLVE 92 (151)
T ss_pred CHHHHHHHHH
Confidence 9999888865
No 368
>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=46.14 E-value=72 Score=33.96 Aligned_cols=78 Identities=13% Similarity=0.212 Sum_probs=51.8
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCC-CCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMS-SNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~-~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
..+.++++.++.+++.++++...+.. ..+.+.+.+++.|+.+......... ..+.+.....++.+++ ++|+||-.+
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~~~--~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIG 88 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTYAA--AGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVG 88 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHHHH--HHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEEC
Confidence 45667787788899999885444332 3578888899999865432222220 1355667777777776 889988776
Q ss_pred CH
Q 047109 203 SH 204 (808)
Q Consensus 203 ~~ 204 (808)
.+
T Consensus 89 GG 90 (348)
T cd08175 89 SG 90 (348)
T ss_pred Cc
Confidence 54
No 369
>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=45.94 E-value=77 Score=32.48 Aligned_cols=77 Identities=10% Similarity=0.086 Sum_probs=53.1
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC-HHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS-HALASHLFLNA 214 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~~l~~a 214 (808)
++++..+ +.|-. ...+.+.+.+++.|+++..... ..+.+.....++++.+.++|.|++... .+.....++++
T Consensus 2 I~vi~~~~~~~~~~-~~~~gi~~~a~~~g~~~~~~~~----~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l 76 (288)
T cd01538 2 IGLSLPTKTEERWI-RDRPNFEAALKELGAEVIVQNA----NGDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKA 76 (288)
T ss_pred eEEEEeCCCcHHHH-HHHHHHHHHHHHcCCEEEEECC----CCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHH
Confidence 5677754 34555 6788999999999999776432 223344567777777788998888754 34456778888
Q ss_pred HHcCC
Q 047109 215 KKLGM 219 (808)
Q Consensus 215 ~~~gl 219 (808)
.+.|.
T Consensus 77 ~~~~i 81 (288)
T cd01538 77 ADAGI 81 (288)
T ss_pred HHCCC
Confidence 87764
No 370
>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=45.58 E-value=76 Score=33.79 Aligned_cols=77 Identities=16% Similarity=0.179 Sum_probs=52.4
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
..+.+.++.+| +++.++++...+ . ...+.+.+.+++.|+.+.... +.. ..+.+.....++.+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~-~-~~~~~v~~~l~~~~i~~~~~~-~~~-~p~~~~v~~~~~~~~~~~~d~IIavGG 86 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL-K-KSRPRFEAALAKSIIVVDVIV-FGG-ECSTEEVVKALCGAEEQEADVIIGVGG 86 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH-H-HHHHHHHHHHHhcCCeeEEEE-cCC-CCCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 45667788888 888887754433 2 356788888988887654332 333 335567777788888889999887765
Q ss_pred HH
Q 047109 204 HA 205 (808)
Q Consensus 204 ~~ 205 (808)
+.
T Consensus 87 Gs 88 (349)
T cd08550 87 GK 88 (349)
T ss_pred cH
Confidence 53
No 371
>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=45.38 E-value=2.5e+02 Score=25.90 Aligned_cols=70 Identities=10% Similarity=0.126 Sum_probs=46.4
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.++++.+.++.- .+++++... +...+...+.+|++|+++..... .....+ -+.+.....++++++
T Consensus 15 ~l~~~l~~~~~~~P-~i~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~v~~ 81 (199)
T cd08451 15 LVPGLIRRFREAYP-DVELTLEEA---------NTAELLEALREGRLDAAFVRPPV--ARSDGL-VLELLLEEPMLVALP 81 (199)
T ss_pred ccHHHHHHHHHHCC-CcEEEEecC---------ChHHHHHHHHCCCccEEEEecCC--CCCCce-eEEEeecccEEEEec
Confidence 45678888888764 345555543 45788999999999999853221 112223 246777888888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 82 ~~~ 84 (199)
T cd08451 82 AGH 84 (199)
T ss_pred CCC
Confidence 654
No 372
>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=44.59 E-value=65 Score=32.30 Aligned_cols=77 Identities=8% Similarity=0.046 Sum_probs=50.3
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++..+ +.|-. ...+.+.+.+++.|+.+..... .. +.......++++.+.+.|.||+..........++.+.
T Consensus 2 igvv~~~~~~~~~~-~~~~~i~~~~~~~g~~~~~~~~-~~---~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 76 (266)
T cd06282 2 VGVVLPSLANPVFA-ECVQGIQEEARAAGYSLLLATT-DY---DAEREADAVETLLRQRVDGLILTVADAATSPALDLLD 76 (266)
T ss_pred eEEEeCCCCcchHH-HHHHHHHHHHHHCCCEEEEeeC-CC---CHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHh
Confidence 5666643 34444 6778888999999999876432 11 3345556777777778898888643333334677777
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.|.
T Consensus 77 ~~~i 80 (266)
T cd06282 77 AERV 80 (266)
T ss_pred hCCC
Confidence 7775
No 373
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=44.35 E-value=2.9e+02 Score=30.58 Aligned_cols=93 Identities=12% Similarity=0.092 Sum_probs=54.5
Q ss_pred eEEEEEEecCC---cc-hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCC-CCHHHHHHHHHHhhhcCCeEEEEecCCC
Q 047109 2 VHVGVILDMRS---WA-GKISNSCISMAISDFYALNTHYKTRLVLHSRDSK-GDPLHALTTVLNLMQNVDLQAIICTEMT 76 (808)
Q Consensus 2 i~IG~i~~~~~---~~-g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~-~~~~~a~~~a~~li~~~~v~aiiG~~~~ 76 (808)
++||++.-..+ .. ........+..++.+|+. + ++++..+.. .++..+.+++.++ +..++.+||-.. .
T Consensus 1 ~~ig~v~~~~~~~~~~~~~~~~~~~~~~~~~l~~~----~--~~vv~~~~~~~~~~~~~~~~~~~-~~~~~d~ii~~~-~ 72 (452)
T cd00578 1 PKIGFVTGSQHLYGEELLEQVEEYAREVADLLNEL----P--VEVVDKPEVTGTPDEARKAAEEF-NEANCDGLIVWM-H 72 (452)
T ss_pred CEEEEEEecccccChhHHHHHHHHHHHHHHHHhcC----C--ceEEecCcccCCHHHHHHHHHHH-hhcCCcEEEEcc-c
Confidence 47887766555 22 234455556666667654 2 244444433 3666555555444 444788888644 3
Q ss_pred h-hHHHHHHHhcCCCCccEEeccCCCC
Q 047109 77 P-TGAHILAEIGSKAKIPVISLYATLP 102 (808)
Q Consensus 77 s-~~~~~~~~~~~~~~iP~is~~~~~~ 102 (808)
+ +.+..+...+...++|++-++..++
T Consensus 73 tf~~~~~~~~~~~~~~~Pvll~a~~~~ 99 (452)
T cd00578 73 TFGPAKMWIAGLSELRKPVLLLATQFN 99 (452)
T ss_pred ccccHHHHHHHHHhcCCCEEEEeCCCC
Confidence 2 2334455667778999999887665
No 374
>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=44.29 E-value=60 Score=32.83 Aligned_cols=80 Identities=5% Similarity=0.010 Sum_probs=51.7
Q ss_pred EEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHH
Q 047109 137 HVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNA 214 (808)
Q Consensus 137 ~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a 214 (808)
+++++..+ +.|.. .....+.+.+++.|.++.....-. ..+.+.-...++.+.+.++|.|++.....+....+.++
T Consensus 1 ~Igvi~~~~~~~f~~-~~~~gi~~~a~~~g~~~~~~~~~~--~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~ 77 (268)
T cd06306 1 KLCVLYPHLKDAYWL-SVNYGMVEEAKRLGVSLKLLEAGG--YPNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQ 77 (268)
T ss_pred CeEEEcCCCCCHHHH-HHHHHHHHHHHHcCCEEEEecCCC--CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHH
Confidence 36777754 34555 677888899999999877642211 11234455677777778999998876544432256777
Q ss_pred HHcCC
Q 047109 215 KKLGM 219 (808)
Q Consensus 215 ~~~gl 219 (808)
.+.|+
T Consensus 78 ~~~gi 82 (268)
T cd06306 78 VAASI 82 (268)
T ss_pred HHCCC
Confidence 77764
No 375
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=44.09 E-value=86 Score=33.15 Aligned_cols=82 Identities=6% Similarity=-0.040 Sum_probs=56.6
Q ss_pred CCcEEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH-HHHHHH
Q 047109 134 KWKHVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH-ALASHL 210 (808)
Q Consensus 134 ~w~~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~ 210 (808)
.-.+++++... +.|-. ...+.+.+.+++.|+++.... +. ..+.+.-..+++.+.+.+.+.|++.... +.....
T Consensus 22 ~~~~i~~v~k~~~~pf~~-~~~~Gi~~aa~~~G~~v~~~~--~~-~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~ 97 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFT-SGGNGAKEAGKELGVDVTYDG--PT-EPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPA 97 (336)
T ss_pred CCcEEEEEECCCCCHHHH-HHHHHHHHHHHHhCCEEEEEC--CC-CCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHH
Confidence 44688888853 35555 677888899999998887532 22 2233333467788888899999887543 444678
Q ss_pred HHHHHHcCC
Q 047109 211 FLNAKKLGM 219 (808)
Q Consensus 211 l~~a~~~gl 219 (808)
++++.+.|.
T Consensus 98 l~~a~~~gI 106 (336)
T PRK15408 98 LKRAMQRGV 106 (336)
T ss_pred HHHHHHCCC
Confidence 888988875
No 376
>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=44.07 E-value=1.1e+02 Score=30.73 Aligned_cols=76 Identities=14% Similarity=0.099 Sum_probs=50.7
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
|+++.++ +.|-. ...+.+.+++++.|+.+..... ..+.+.....++.+.+.+.|.||+....... ..++++.
T Consensus 2 igvv~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~----~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~ 75 (265)
T cd06299 2 IGVIVPDIRNPYFA-SLATAIQDAASAAGYSTIIGNS----DENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLL 75 (265)
T ss_pred EEEEecCCCCccHH-HHHHHHHHHHHHcCCEEEEEeC----CCCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHH
Confidence 5666653 44555 6778888999999998775432 1133445567777888889988887544333 3477887
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.|.
T Consensus 76 ~~~i 79 (265)
T cd06299 76 KRGI 79 (265)
T ss_pred hCCC
Confidence 7774
No 377
>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=44.00 E-value=57 Score=33.27 Aligned_cols=81 Identities=12% Similarity=0.102 Sum_probs=50.2
Q ss_pred EEEEEEec---CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHH
Q 047109 137 HVILIYED---NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLN 213 (808)
Q Consensus 137 ~v~ii~~d---~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~ 213 (808)
++++|..+ +.|.. ...+.+.+.+++.|..+.....-+....+...-...++++.+.+.|.||+..........++.
T Consensus 1 ~Igvi~~~~~~~~~~~-~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~ 79 (280)
T cd06303 1 KIAVIYPGQQISDYWV-RNIASFTARLEELNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIER 79 (280)
T ss_pred CeeEEecCccHHHHHH-HHHHHHHHHHHHcCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHH
Confidence 36777765 34555 677888899999998876542211100123344566777777899999887543333455666
Q ss_pred HHHcC
Q 047109 214 AKKLG 218 (808)
Q Consensus 214 a~~~g 218 (808)
+.+.+
T Consensus 80 l~~~~ 84 (280)
T cd06303 80 VLASG 84 (280)
T ss_pred HHhCC
Confidence 66655
No 378
>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=43.95 E-value=2.6e+02 Score=25.68 Aligned_cols=69 Identities=9% Similarity=0.132 Sum_probs=45.4
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.+... ++++++... +...+...|.+|++|+++... +.....+. ..++....++++++
T Consensus 14 ~l~~~l~~~~~~~p-~i~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~ 79 (197)
T cd08414 14 LLPRLLRRFRARYP-DVELELREM---------TTAEQLEALRAGRLDVGFVRP---PPDPPGLA-SRPLLREPLVVALP 79 (197)
T ss_pred HHHHHHHHHHHHCC-CcEEEEecC---------ChHHHHHHHHcCCccEEEEcC---CCCCCCee-EEEEeeccEEEEec
Confidence 34567777777654 345555542 457899999999999998632 22222333 36777888888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
+..
T Consensus 80 ~~~ 82 (197)
T cd08414 80 ADH 82 (197)
T ss_pred CCC
Confidence 654
No 379
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=43.91 E-value=1.1e+02 Score=32.33 Aligned_cols=62 Identities=15% Similarity=0.161 Sum_probs=40.1
Q ss_pred cCCceeeecCCc-HHHhh----hccCCCccccc-ccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcC
Q 047109 637 SRDNIGSQLGSF-VPGAL----SNLNFKDSRLK-KYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKY 702 (808)
Q Consensus 637 ~~~~i~~~~~s~-~~~~l----~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~ 702 (808)
+++++|+..++. .+..+ .+.+.....+. ..-...+....+..|+ +|+++.-.........+.
T Consensus 135 kGk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~g~----vda~~~~ep~~~~~~~~~ 202 (335)
T COG0715 135 KGKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAAGQ----VDAFVVWEPWNAAAEGEG 202 (335)
T ss_pred CCceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhcCC----cceEEecCCchhhhhccC
Confidence 899999998875 44333 44444433332 2334457888898888 999887776665555444
No 380
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=43.62 E-value=1.8e+02 Score=26.84 Aligned_cols=79 Identities=14% Similarity=0.136 Sum_probs=54.8
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
++.+....++++-+++.++ ||+-..+.+.+.+.+.+.-.|+++... +.++....+++ ...+-++++++-
T Consensus 16 GQV~~~W~~~~~~~~IvVv--dD~~A~D~~~k~~l~ma~P~gvk~~i~--------sv~~a~~~l~~-~~~~~~v~il~k 84 (157)
T PRK11425 16 GQVGVQWVGFAGANLVLVA--NDEVAEDPVQQNLMEMVLAEGIAVRFW--------TLQKVIDNIHR-AADRQKILLVCK 84 (157)
T ss_pred HHhhhhhhcccCCCEEEEE--cchhcCCHHHHHHHHhhCCCCCeEEEE--------EHHHHHHHHhc-cCCCceEEEEEC
Confidence 5667788888998887776 343332256666666666678876643 33566777776 556668999999
Q ss_pred CHHHHHHHHH
Q 047109 203 SHALASHLFL 212 (808)
Q Consensus 203 ~~~~~~~~l~ 212 (808)
++.++..+++
T Consensus 85 ~~~d~~~l~~ 94 (157)
T PRK11425 85 TPADFLTLVK 94 (157)
T ss_pred CHHHHHHHHH
Confidence 9999888765
No 381
>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=43.61 E-value=73 Score=32.03 Aligned_cols=77 Identities=8% Similarity=0.102 Sum_probs=50.8
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH-HHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH-ALASHLFLNA 214 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~l~~a 214 (808)
|+++..+ +.|.. ...+.+.+.+++.|+++..... ..+.......++++.+.++|.+++.... ......++++
T Consensus 2 i~~~~~~~~~~~~~-~~~~~i~~~~~~~g~~~~i~~~----~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (267)
T cd06322 2 IGASLLTQQHPFYI-ELANAMKEEAKKQKVNLIVSIA----NQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKA 76 (267)
T ss_pred eeEeecCcccHHHH-HHHHHHHHHHHhcCCEEEEecC----CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHH
Confidence 4566655 34555 6788899999999988765321 1133445667777777889998886543 3335567777
Q ss_pred HHcCC
Q 047109 215 KKLGM 219 (808)
Q Consensus 215 ~~~gl 219 (808)
.+.|.
T Consensus 77 ~~~~i 81 (267)
T cd06322 77 KKAGI 81 (267)
T ss_pred HHCCC
Confidence 77764
No 382
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=42.58 E-value=1.2e+02 Score=27.75 Aligned_cols=95 Identities=8% Similarity=-0.027 Sum_probs=54.8
Q ss_pred hhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEE
Q 047109 119 SQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVF 198 (808)
Q Consensus 119 ~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 198 (808)
++.+++.+++.++..+..--.|+.+.-.... +.++.+.+.+.. ...+.....+.. ..+..++...++.+.....+.+
T Consensus 27 G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~-qTa~~l~~~~~~-~~~~~~~~~l~p-~~~~~~~~~~l~~~~~~~~~~v 103 (152)
T TIGR00249 27 GCDESRLVAQWLKGQGVEIERILVSPFVRAE-QTAEIVGDCLNL-PSSAEVLEGLTP-CGDIGLVSDYLEALTNEGVASV 103 (152)
T ss_pred HHHHHHHHHHHHHhCCCCCCEEEECCcHHHH-HHHHHHHHHcCC-CcceEEccCcCC-CCCHHHHHHHHHHHHhcCCCEE
Confidence 3488888999888765443345454444444 444444444321 122332233332 2234566777777665455678
Q ss_pred EEEcCHHHHHHHHHHHHH
Q 047109 199 VVHMSHALASHLFLNAKK 216 (808)
Q Consensus 199 il~~~~~~~~~~l~~a~~ 216 (808)
++++..+....++.....
T Consensus 104 liVgH~P~i~~l~~~l~~ 121 (152)
T TIGR00249 104 LLVSHLPLVGYLVAELCP 121 (152)
T ss_pred EEEeCCCCHHHHHHHHhC
Confidence 888888888888877754
No 383
>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=42.51 E-value=1e+02 Score=33.18 Aligned_cols=75 Identities=12% Similarity=0.232 Sum_probs=53.5
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
..+.+.++.++ +++.++++.... ..+.+.+.+++.|+.+.... +.. .++.++....+..+++.++|+||-.+.
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~----~~~~v~~~L~~~g~~~~~~~-~~~-~p~~~~v~~~~~~~~~~~~D~IIaiGG 84 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL----RAAWLIEALRAAGIEVTHVV-VAG-EPSVELVDAAVAEARNAGCDVVIAIGG 84 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH----HHHHHHHHHHHcCCeEEEec-CCC-CcCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 45666777775 899998854432 45778888999998765432 333 445667888888888899999998875
Q ss_pred HH
Q 047109 204 HA 205 (808)
Q Consensus 204 ~~ 205 (808)
+.
T Consensus 85 GS 86 (374)
T cd08183 85 GS 86 (374)
T ss_pred ch
Confidence 53
No 384
>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=41.26 E-value=59 Score=35.02 Aligned_cols=72 Identities=8% Similarity=0.093 Sum_probs=50.6
Q ss_pred cCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH
Q 047109 133 FKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA 205 (808)
Q Consensus 133 ~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 205 (808)
++.+++.++++...+-.....+.+.+.+++.|+.+.....+.. .++.+.....++.+++.++|.||-.+.+.
T Consensus 21 ~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~D~IIavGGGS 92 (375)
T cd08179 21 LKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEP-DPSVETVLKGAEAMREFEPDWIIALGGGS 92 (375)
T ss_pred hcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCC-CcCHHHHHHHHHHHHhcCCCEEEEeCCcc
Confidence 3458888887654332215678899999999987654333333 44667788888899989999999876553
No 385
>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=41.13 E-value=1.1e+02 Score=30.65 Aligned_cols=78 Identities=14% Similarity=0.156 Sum_probs=48.7
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++.++ +.|.. .+.+.+.+++++.|+++..... .. ...+.....++.+.+.+.|.+++..........++.+.
T Consensus 2 I~vi~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~-~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 77 (270)
T cd01545 2 IGLLYDNPSPGYVS-EIQLGALDACRDTGYQLVIEPC-DS--GSPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLD 77 (270)
T ss_pred EEEEEcCCCcccHH-HHHHHHHHHHHhCCCeEEEEeC-CC--CchHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHH
Confidence 5666654 45666 7888999999999988775432 11 12224455556666678888887643322345566666
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.|.
T Consensus 78 ~~~i 81 (270)
T cd01545 78 EAGV 81 (270)
T ss_pred hcCC
Confidence 6664
No 386
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=40.79 E-value=1.2e+02 Score=30.39 Aligned_cols=100 Identities=9% Similarity=0.042 Sum_probs=59.8
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcC--CcEEEEEE-ecCCCCCChHHHHHHHHHhcCCCCeE
Q 047109 121 SQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDN--DIDIARRI-TISMSSNTDDQVIEKLSMLKSSETKV 197 (808)
Q Consensus 121 ~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~--g~~i~~~~-~~~~~~~~~~~~~~~l~~l~~~~~~v 197 (808)
+...++.+.+..- -++|.++...- +..+.....+++. +..|+... -+-. ..++ ..++++|.+++||+
T Consensus 95 Dl~~~Ll~~a~~~-~~~vfllGgkp-----~V~~~a~~~l~~~~p~l~ivg~h~GYf~---~~e~-~~i~~~I~~s~pdi 164 (253)
T COG1922 95 DLVEALLKRAAEE-GKRVFLLGGKP-----GVAEQAAAKLRAKYPGLKIVGSHDGYFD---PEEE-EAIVERIAASGPDI 164 (253)
T ss_pred HHHHHHHHHhCcc-CceEEEecCCH-----HHHHHHHHHHHHHCCCceEEEecCCCCC---hhhH-HHHHHHHHhcCCCE
Confidence 5566666666554 36777766444 3344444444443 34555543 2211 2334 68999999999999
Q ss_pred EEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCccc
Q 047109 198 FVVHMSHALASHLFLNAKKLGMMSKGYSWIVTASTM 233 (808)
Q Consensus 198 iil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~~~~~ 233 (808)
+++.+..+.-..++.+-++. + +.-++++.++.-
T Consensus 165 l~VgmG~P~QE~wi~~~~~~-~--~~~v~igVGg~f 197 (253)
T COG1922 165 LLVGMGVPRQEIWIARNRQQ-L--PVAVAIGVGGSF 197 (253)
T ss_pred EEEeCCCchhHHHHHHhHHh-c--CCceEEeccceE
Confidence 99998777656666554443 2 456777766643
No 387
>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=40.43 E-value=74 Score=32.10 Aligned_cols=80 Identities=9% Similarity=0.046 Sum_probs=50.7
Q ss_pred EEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHH-HHHHHHH
Q 047109 137 HVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHAL-ASHLFLN 213 (808)
Q Consensus 137 ~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~l~~ 213 (808)
||+++.++ +.|-. .....+.+.++++|+++.....-.. .+.......+.++...+.|.+|+...... ....++.
T Consensus 1 ~Igvi~~~~~~~~~~-~~~~g~~~~~~~~g~~~~~~~~~~~--~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~ 77 (273)
T cd06310 1 KIALVPKGTTSDFWQ-AVKAGAEAAAKELGVKVTFQGPASE--TDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKE 77 (273)
T ss_pred CeEEEecCCCcHHHH-HHHHHHHHHHHHcCCEEEEecCccC--CCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHH
Confidence 46777755 34445 6778888999999998775422111 13334556677777778898888654333 3456777
Q ss_pred HHHcCC
Q 047109 214 AKKLGM 219 (808)
Q Consensus 214 a~~~gl 219 (808)
+.+.|.
T Consensus 78 ~~~~~i 83 (273)
T cd06310 78 AKDAGI 83 (273)
T ss_pred HHHCCC
Confidence 776664
No 388
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=40.40 E-value=4.2e+02 Score=27.11 Aligned_cols=93 Identities=12% Similarity=0.145 Sum_probs=57.8
Q ss_pred CeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-ceeeec---cCC-chhhHHHHHHHH-HHHhcC-----
Q 047109 66 DLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-YSIQID---QDD-EASQSQAKGIAD-LIRVFK----- 134 (808)
Q Consensus 66 ~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~---p~~-~~~~~~~~a~~~-ll~~~~----- 134 (808)
++.-++||. ..+....++.++...++=.+..+.+... .++ ++.|+. |.. .+-...-.++.+ +.+.++
T Consensus 1 ~~itv~g~D-~~GIVA~Vt~~La~~g~NI~d~sq~~~~-~~~~F~mr~~v~~~~~~~~~~~l~~~l~~~~~~~~~l~i~l 78 (280)
T TIGR00655 1 GILLVSCPD-QKGLVAAISTFIAKHGANIISNDQHTDP-ETGRFFMRVEFQLEGFRLEESSLLAAFKSALAEKFEMTWEL 78 (280)
T ss_pred CEEEEECCC-CCChHHHHHHHHHHCCCCEEeeeEEEcC-CCCeEEEEEEEEeCCCCCCHHHHHHHHHHHHHHHhCCEEEE
Confidence 467789999 9999999998888887776766555444 455 555553 221 100133344555 445443
Q ss_pred -----CcEEEEEEecCCccccCcHHHHHHhhhcCC
Q 047109 135 -----WKHVILIYEDNTWGSDNIIPYLFDSLHDND 164 (808)
Q Consensus 135 -----w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g 164 (808)
-++++++.+-.. ..++.+.+..+...
T Consensus 79 ~~~~~~~ki~vl~Sg~g----~nl~~l~~~~~~g~ 109 (280)
T TIGR00655 79 ILADKLKRVAILVSKED----HCLGDLLWRWYSGE 109 (280)
T ss_pred ecCCCCcEEEEEEcCCC----hhHHHHHHHHHcCC
Confidence 358888886653 46677777766544
No 389
>PRK10537 voltage-gated potassium channel; Provisional
Probab=40.14 E-value=96 Score=33.56 Aligned_cols=55 Identities=11% Similarity=0.210 Sum_probs=42.9
Q ss_pred CCcchhhHHHHHHHHhhhcC--ccccccchhhHHHHHHHHHHHHHHHHhhhhhheee
Q 047109 574 PAHQFGMIFWYSFSTLVFSQ--REKLLSNWSKFVVIVWVFVVLILTSSYTATLTSML 628 (808)
Q Consensus 574 ~~~~~~~~~~~~~~~l~~~~--~~~p~s~s~Ril~~~w~~~~lil~~~Y~a~L~s~l 628 (808)
...++.+++|++..++.--+ ...|.+..+|++..+++++++.+..+..+.+...+
T Consensus 165 ~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~ 221 (393)
T PRK10537 165 PIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPV 221 (393)
T ss_pred CCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34578999998888776544 44688999999999999999888777666665544
No 390
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=40.10 E-value=1.5e+02 Score=27.02 Aligned_cols=63 Identities=14% Similarity=0.186 Sum_probs=42.6
Q ss_pred EEEEEEecCC--ccc--cCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC-CCCeEEEEEc
Q 047109 137 HVILIYEDNT--WGS--DNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS-SETKVFVVHM 202 (808)
Q Consensus 137 ~v~ii~~d~~--~g~--~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~ 202 (808)
++++|...|+ .|+ +.....+.+.+++.|..+.....++. +.+++.+.+++..+ +++|+||..+
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~D---d~~~i~~~l~~~~~~~~~DlVittG 69 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVPD---DKDEIREALIEWADEDGVDLILTTG 69 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcCC---CHHHHHHHHHHHHhcCCCCEEEECC
Confidence 5677665552 333 23456788889999998887766655 55677777776654 3789888864
No 391
>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=40.03 E-value=4e+02 Score=26.73 Aligned_cols=69 Identities=7% Similarity=0.079 Sum_probs=45.3
Q ss_pred eHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEec
Q 047109 448 CVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPT 527 (808)
Q Consensus 448 ~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~ 527 (808)
-.+++..+.+... .+++++... ....++..|.+|++|+++..-.. ....+. ..|+....+++++++
T Consensus 99 ~~~~l~~~~~~~p-~v~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~lv~s~ 164 (279)
T TIGR03339 99 VLDLVARFRQRYP-GIEVSVRIG---------NSQEVLQALQSYRVDVAVSSEVV---DDPRLD-RVVLGNDPLVAVVHR 164 (279)
T ss_pred HHHHHHHHHHHCC-CcEEEEEEC---------CHHHHHHHHHcCCCcEEEEeccc---CCCceE-EEEcCCceEEEEECC
Confidence 4567777777664 345655543 45788999999999999853221 122233 357778888888876
Q ss_pred CCC
Q 047109 528 DRN 530 (808)
Q Consensus 528 ~~~ 530 (808)
..+
T Consensus 165 ~~p 167 (279)
T TIGR03339 165 QHP 167 (279)
T ss_pred CCc
Confidence 643
No 392
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=39.90 E-value=1.7e+02 Score=29.67 Aligned_cols=95 Identities=11% Similarity=0.045 Sum_probs=67.4
Q ss_pred ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHH
Q 047109 108 YSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKL 187 (808)
Q Consensus 108 ~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l 187 (808)
++++...+ + ..++++.++.+.+|.+.+.++-+.+ ..+.+.+.|+..|-+.++.+.--. +.++..
T Consensus 163 ~vIQNgan-S---~VG~~ViQlaka~GiktinvVRdR~------~ieel~~~Lk~lGA~~ViTeeel~----~~~~~k-- 226 (354)
T KOG0025|consen 163 SVIQNGAN-S---GVGQAVIQLAKALGIKTINVVRDRP------NIEELKKQLKSLGATEVITEEELR----DRKMKK-- 226 (354)
T ss_pred eeeecCcc-c---HHHHHHHHHHHHhCcceEEEeecCc------cHHHHHHHHHHcCCceEecHHHhc----chhhhh--
Confidence 56666555 3 6789999999999999999997444 567888999999988776543211 112221
Q ss_pred HHhcCCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 047109 188 SMLKSSETKVFVVHMSHALASHLFLNAKKLG 218 (808)
Q Consensus 188 ~~l~~~~~~viil~~~~~~~~~~l~~a~~~g 218 (808)
.+....+++.-+-|..+..+..+.+...+-|
T Consensus 227 ~~~~~~~prLalNcVGGksa~~iar~L~~Gg 257 (354)
T KOG0025|consen 227 FKGDNPRPRLALNCVGGKSATEIARYLERGG 257 (354)
T ss_pred hhccCCCceEEEeccCchhHHHHHHHHhcCc
Confidence 1224467888888888888888888887755
No 393
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=39.88 E-value=4.5e+02 Score=27.31 Aligned_cols=68 Identities=7% Similarity=0.062 Sum_probs=45.6
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-..++..+.+..- +++++.. .++.++..|.+|++|+++.... .....+.+ .++....++++++
T Consensus 131 ~l~~~l~~f~~~~P-~i~i~~~-----------~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~~-~~l~~~~~~lv~~ 194 (317)
T PRK11482 131 VMPVIYQAIKTHYP-QLLLRNI-----------PISDAENQLSQFQTDLIIDTHS---CSNRTIQH-HVLFTDNVVLVCR 194 (317)
T ss_pred HHHHHHHHHHHHCC-CCEEEEe-----------cchhHHHHHHCCCcCEEEeccC---CCCCceEE-EEEecCcEEEEEe
Confidence 45677777777664 3444432 3467899999999999986432 22333443 5778888888888
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
...+
T Consensus 195 ~~hp 198 (317)
T PRK11482 195 QGHP 198 (317)
T ss_pred CCCC
Confidence 7654
No 394
>TIGR02709 branched_ptb branched-chain phosphotransacylase. This model distinguishes branched-chain phosphotransacylases like that of Enterococcus faecalis from closely related subfamilies of phosphate butyryltransferase (EC 2.3.1.19) (TIGR02706) and phosphate acetyltransferase (EC 2.3.1.8) (TIGR00651). Members of this family and of TIGR02706 show considerable crossreactivity, and the occurrence of a member of either family near an apparent leucine dehydrogenase will suggest activity on branched chain-acyl-CoA compounds.
Probab=39.67 E-value=2.4e+02 Score=28.61 Aligned_cols=100 Identities=13% Similarity=0.147 Sum_probs=58.7
Q ss_pred EEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhc----CCCCccEEeccCCCC----c--ccccceee
Q 047109 42 LHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIG----SKAKIPVISLYATLP----S--SLTSYSIQ 111 (808)
Q Consensus 42 ~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~----~~~~iP~is~~~~~~----~--~ls~~~~r 111 (808)
+.+.|. .|+.++.+.+..++...++.+++++. -.+. ..+..+. .....+.+|..+--. . -++|..+.
T Consensus 45 ~~ii~~-~~~~~aa~~av~lv~~G~aD~lmkG~-i~T~-~~lravl~~~~gl~~~~~~S~v~i~~~p~~~~l~~tD~~vn 121 (271)
T TIGR02709 45 WKYVHC-SDEAAVAQEAVSLVATGQAQILLKGI-IQTH-TLLKEMLKSEHQLKNKPILSHVAMVELPAGKTFLLTDCAMN 121 (271)
T ss_pred eeEEEC-CChHHHHHHHHHHHHCCCCCEEEcCC-cCcH-HHHHHHHHHHcCCCCCCeeEEEEEEEecCCCEEEEECCCcc
Confidence 445554 68889999999999999999999876 4333 2222222 223344555322111 1 01223455
Q ss_pred eccCCchhhHHHHHHHHHHHhcCC--cEEEEEEec
Q 047109 112 IDQDDEASQSQAKGIADLIRVFKW--KHVILIYED 144 (808)
Q Consensus 112 ~~p~~~~~~~~~~a~~~ll~~~~w--~~v~ii~~d 144 (808)
..|+..+-...+...+++.+.+|. -+|+++...
T Consensus 122 ~~P~~eqk~~I~~nA~~~ar~lGie~PkVAlLS~s 156 (271)
T TIGR02709 122 IAPTQATLIEIVENAKEVAQKLGLHHPKIALLSAA 156 (271)
T ss_pred CCcCHHHHHHHHHHHHHHHHHcCCCCCeEEEEecc
Confidence 567666222333445567788998 599999644
No 395
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=39.03 E-value=4.8e+02 Score=27.32 Aligned_cols=70 Identities=10% Similarity=0.007 Sum_probs=47.2
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.++++.+.++.- .+++.+... ..+.++..|.+|++|+++..... ....... ..|+.....+++++
T Consensus 107 ~l~~~l~~f~~~~P-~v~i~l~~~---------~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~l~~~ 173 (327)
T PRK12680 107 VLPPAVAQIKQAYP-QVSVHLQQA---------AESAALDLLGQGDADIAIVSTAG--GEPSAGI-AVPLYRWRRLVVVP 173 (327)
T ss_pred hhHHHHHHHHHHCC-CcEEEEEeC---------ChHHHHHHHHCCCCcEEEEecCC--CCCCcce-EEEeeccceEEEEe
Confidence 45688888888775 345665543 45899999999999999853211 1111222 46788888888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
...
T Consensus 174 ~~h 176 (327)
T PRK12680 174 RGH 176 (327)
T ss_pred CCC
Confidence 654
No 396
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=38.79 E-value=1.2e+02 Score=31.84 Aligned_cols=80 Identities=15% Similarity=0.120 Sum_probs=52.6
Q ss_pred CcEEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHH
Q 047109 135 WKHVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFL 212 (808)
Q Consensus 135 w~~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~ 212 (808)
-+.++++..+ +.|.. ...+.+.+++++.|..+..... ..+.+.....++.+.+.+.|.||+..........+.
T Consensus 64 ~~~Igvv~~~~~~~~~~-~i~~gi~~~a~~~g~~~~~~~~----~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 138 (342)
T PRK10014 64 SGVIGLIVRDLSAPFYA-ELTAGLTEALEAQGRMVFLLQG----GKDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLRE 138 (342)
T ss_pred CCEEEEEeCCCccchHH-HHHHHHHHHHHHcCCEEEEEeC----CCCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHH
Confidence 3578888864 34555 6778888999999987654321 123345566777787788998888754333345666
Q ss_pred HHHHcCC
Q 047109 213 NAKKLGM 219 (808)
Q Consensus 213 ~a~~~gl 219 (808)
.+.+.|.
T Consensus 139 ~l~~~~i 145 (342)
T PRK10014 139 MAEEKGI 145 (342)
T ss_pred HHhhcCC
Confidence 6666664
No 397
>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=38.40 E-value=94 Score=32.04 Aligned_cols=78 Identities=6% Similarity=0.044 Sum_probs=51.3
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH-HHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH-ALASHLFLNA 214 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~l~~a 214 (808)
++++..+ +.|-. ...+.+.+.+++.|+++.... +. ..+.+.....++.+.+.++|.||+.... +.....++++
T Consensus 2 I~vi~~~~~~~f~~-~i~~gi~~~a~~~g~~v~~~~--~~-~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~ 77 (298)
T cd06302 2 IAFVPKVTGIPYFN-RMEEGAKEAAKELGVDAIYVG--PT-TADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKA 77 (298)
T ss_pred EEEEEcCCCChHHH-HHHHHHHHHHHHhCCeEEEEC--CC-CCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHH
Confidence 5666643 34555 677888899999998876421 11 2244455677777777889988887533 3345677778
Q ss_pred HHcCC
Q 047109 215 KKLGM 219 (808)
Q Consensus 215 ~~~gl 219 (808)
.+.|.
T Consensus 78 ~~~~i 82 (298)
T cd06302 78 REAGI 82 (298)
T ss_pred HHCCC
Confidence 77764
No 398
>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=38.35 E-value=82 Score=33.26 Aligned_cols=71 Identities=11% Similarity=0.137 Sum_probs=48.1
Q ss_pred HhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH
Q 047109 131 RVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH 204 (808)
Q Consensus 131 ~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 204 (808)
..++.+++.++++...+.. ...+.+.+.+++. +.+.....+.. .++.+.....+..+++.++|.||-.+.+
T Consensus 18 ~~~~~~~~lvv~~~~~~~~-g~~~~v~~~l~~~-~~~~~~~~v~~-~p~~~~v~~~~~~~~~~~~d~IiaiGGG 88 (332)
T cd08180 18 KELKNKRVLIVTDPFMVKS-GMLDKVTDHLDSS-IEVEIFSDVVP-DPPIEVVAKGIKKFLDFKPDIVIALGGG 88 (332)
T ss_pred HHhCCCeEEEEeCchhhhC-ccHHHHHHHHHhc-CcEEEeCCCCC-CcCHHHHHHHHHHHHhcCCCEEEEECCc
Confidence 4455689999986544433 4778888888876 55433223333 3456677788888888899999977654
No 399
>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=38.27 E-value=81 Score=32.02 Aligned_cols=77 Identities=8% Similarity=0.014 Sum_probs=50.4
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHH-HHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHAL-ASHLFLNA 214 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~l~~a 214 (808)
++++..+ +.|.. ...+.+.+.+++.|..+..... ..+.+.-...+..+.+.++|.|++.....+ ....++.+
T Consensus 2 igv~~~~~~~~~~~-~~~~~i~~~~~~~g~~v~~~~~----~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~ 76 (282)
T cd06318 2 IGFSQYTLNSPFFA-ALTEAAKAHAKALGYELISTDA----QGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAA 76 (282)
T ss_pred eeEEeccccCHHHH-HHHHHHHHHHHHcCCEEEEEcC----CCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHH
Confidence 5666654 34445 6778888999999998765322 123344456777788889999988754332 34567777
Q ss_pred HHcCC
Q 047109 215 KKLGM 219 (808)
Q Consensus 215 ~~~gl 219 (808)
.+.|.
T Consensus 77 ~~~~i 81 (282)
T cd06318 77 KAAGV 81 (282)
T ss_pred HHCCC
Confidence 77664
No 400
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=38.12 E-value=1.3e+02 Score=31.50 Aligned_cols=80 Identities=16% Similarity=0.186 Sum_probs=49.8
Q ss_pred CcEEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHH
Q 047109 135 WKHVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFL 212 (808)
Q Consensus 135 w~~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~ 212 (808)
-+.++++.++ +.|-. ...+.+.+.+++.|..+..... ..+...-...++.+.+.+.|.||+..........++
T Consensus 61 ~~~Igvv~~~~~~~~~~-~l~~gi~~~~~~~g~~~~~~~~----~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 135 (328)
T PRK11303 61 TRSIGLIIPDLENTSYA-RIAKYLERQARQRGYQLLIACS----DDQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQ 135 (328)
T ss_pred CceEEEEeCCCCCchHH-HHHHHHHHHHHHcCCEEEEEeC----CCCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHH
Confidence 4578888754 33444 5678888899999998775422 112333445666777778898888653222234556
Q ss_pred HHHHcCC
Q 047109 213 NAKKLGM 219 (808)
Q Consensus 213 ~a~~~gl 219 (808)
++.+.|.
T Consensus 136 ~l~~~~i 142 (328)
T PRK11303 136 RLQNDGL 142 (328)
T ss_pred HHHhcCC
Confidence 6666664
No 401
>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=38.11 E-value=3e+02 Score=27.23 Aligned_cols=118 Identities=18% Similarity=0.159 Sum_probs=62.7
Q ss_pred hhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccE
Q 047109 15 GKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPV 94 (808)
Q Consensus 15 g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~ 94 (808)
|..=..++.-.+.+||.+ .+++.+ +..-++ +...+++.. +...||...++...-..+...|...++|+
T Consensus 63 G~~Kae~~~~~l~~inP~-----~~V~~~--~~~i~~----~~~~~l~~~-~~D~VvdaiD~~~~k~~L~~~c~~~~ip~ 130 (231)
T cd00755 63 GKPKVEVMAERIRDINPE-----CEVDAV--EEFLTP----DNSEDLLGG-DPDFVVDAIDSIRAKVALIAYCRKRKIPV 130 (231)
T ss_pred CCcHHHHHHHHHHHHCCC-----cEEEEe--eeecCH----hHHHHHhcC-CCCEEEEcCCCHHHHHHHHHHHHHhCCCE
Confidence 433334555555566531 344433 332222 233455544 57788877624445566778899999999
Q ss_pred EeccCCCCcccccceeeeccCCc-hhhHHHHHHHHHHHhcCCc-EEEEEEecC
Q 047109 95 ISLYATLPSSLTSYSIQIDQDDE-ASQSQAKGIADLIRVFKWK-HVILIYEDN 145 (808)
Q Consensus 95 is~~~~~~~~ls~~~~r~~p~~~-~~~~~~~a~~~ll~~~~w~-~v~ii~~d~ 145 (808)
|+.....-. +..+-+|+..-.. ..--+++.+-+-+++.+-. .+-.+|++.
T Consensus 131 I~s~g~g~~-~dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E 182 (231)
T cd00755 131 ISSMGAGGK-LDPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTE 182 (231)
T ss_pred EEEeCCcCC-CCCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCC
Confidence 997665544 3332233322111 0003355666666555543 577787655
No 402
>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=37.35 E-value=84 Score=32.08 Aligned_cols=77 Identities=14% Similarity=0.305 Sum_probs=51.6
Q ss_pred EEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH-HHHHHHHHH
Q 047109 137 HVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH-ALASHLFLN 213 (808)
Q Consensus 137 ~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~l~~ 213 (808)
+|+++..+ +.|.. ...+.+.+.+++.|.++... .. . +.+.....++++.+.++|.||+.... +.....+++
T Consensus 1 ~Ig~v~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~---~~-~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~ 74 (289)
T cd01540 1 KIGFIVKQPEEPWFQ-TEWKFAKKAAKEKGFTVVKI---DV-P-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAK 74 (289)
T ss_pred CeeeecCCCCCcHHH-HHHHHHHHHHHHcCCEEEEc---cC-C-CHHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHH
Confidence 36666654 34555 67788889999999887643 22 2 33344557777777889988887543 345667888
Q ss_pred HHHcCC
Q 047109 214 AKKLGM 219 (808)
Q Consensus 214 a~~~gl 219 (808)
+.+.|.
T Consensus 75 ~~~~~i 80 (289)
T cd01540 75 AKAYNM 80 (289)
T ss_pred HHhCCC
Confidence 888774
No 403
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=36.99 E-value=4.9e+02 Score=27.95 Aligned_cols=142 Identities=14% Similarity=0.066 Sum_probs=81.4
Q ss_pred EEecCCChhHHHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCcEEEEEEecCCccc
Q 047109 70 IICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWKHVILIYEDNTWGS 149 (808)
Q Consensus 70 iiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~ii~~d~~~g~ 149 (808)
+++|. ......++ ......+|=+|.|+- .|. +|-.|. ....+..+..+...-++|.++|+ +.||.
T Consensus 195 lm~p~-~~~v~~~l-~~~~~l~i~~IaP~H-G~i------~~~~~~-----~i~~~Y~~W~~~~~~~~V~l~Y~-smyg~ 259 (388)
T COG0426 195 LMAPN-ARLVLWAL-KKIKLLKIEMIAPSH-GPI------WRGNPK-----EIVEAYRDWAEGQPKGKVDLIYD-SMYGN 259 (388)
T ss_pred hhccc-HHHHHHHH-hhhcccCccEEEcCC-Cce------eeCCHH-----HHHHHHHHHHccCCcceEEEEEe-cccCC
Confidence 56666 44333333 344446788888764 444 444333 33555566665554448999995 44554
Q ss_pred -cCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH------HHHHHHHHHHHHcCCCCC
Q 047109 150 -DNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH------ALASHLFLNAKKLGMMSK 222 (808)
Q Consensus 150 -~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~------~~~~~~l~~a~~~gl~~~ 222 (808)
...++.+.+.+.+.|+.+....- ...+...++..+.++ +.+++.... .....++-.........+
T Consensus 260 T~~ma~aiaegl~~~gv~v~~~~~------~~~~~~eI~~~i~~a--~~~vvGsPT~~~~~~p~i~~~l~~v~~~~~~~k 331 (388)
T COG0426 260 TEKMAQAIAEGLMKEGVDVEVINL------EDADPSEIVEEILDA--KGLVVGSPTINGGAHPPIQTALGYVLALAPKNK 331 (388)
T ss_pred HHHHHHHHHHHhhhcCCceEEEEc------ccCCHHHHHHHHhhc--ceEEEecCcccCCCCchHHHHHHHHHhccCcCc
Confidence 15578888999999999875422 223666667676544 456665432 345556655555554333
Q ss_pred CeEEEEeCcccc
Q 047109 223 GYSWIVTASTMN 234 (808)
Q Consensus 223 ~~~~i~~~~~~~ 234 (808)
.-.-+++-+|..
T Consensus 332 ~~~vfgS~GW~g 343 (388)
T COG0426 332 LAGVFGSYGWSG 343 (388)
T ss_pred eEEEEeccCCCC
Confidence 334555555653
No 404
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=36.83 E-value=4.8e+02 Score=26.70 Aligned_cols=72 Identities=11% Similarity=0.230 Sum_probs=43.5
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
++-.+++..+.+..- ++++.+... +...+...|.+|++|+++............+ ...|+....+++++
T Consensus 106 ~~l~~~l~~f~~~~P-~i~l~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~l-~~~~l~~~~~~~~~ 174 (296)
T PRK11062 106 RLVSRVLLTAVPEDE-SIHLRCFES---------THEMLLEQLSQHKLDMILSDCPVDSTQQEGL-FSKKLGECGVSFFC 174 (296)
T ss_pred hhHHHHHHHHHhcCC-ceEEEEEeC---------CHHHHHHHHHcCCCCEEEecCCCccccccch-hhhhhhccCcceEe
Confidence 456677777776553 345554432 5678999999999999885321111112223 23566677777776
Q ss_pred ecC
Q 047109 526 PTD 528 (808)
Q Consensus 526 ~~~ 528 (808)
+++
T Consensus 175 ~~~ 177 (296)
T PRK11062 175 TNP 177 (296)
T ss_pred cCC
Confidence 654
No 405
>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=36.39 E-value=3.5e+02 Score=25.01 Aligned_cols=69 Identities=14% Similarity=0.166 Sum_probs=44.8
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.++.- .+++++... +-..+...+.+|++|+++..... ....+. +.++.....+++++
T Consensus 14 ~l~~~l~~f~~~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~ 79 (196)
T cd08458 14 FMSGVIQTFIADRP-DVSVYLDTV---------PSQTVLELVSLQHYDLGISILAG---DYPGLT-TEPVPSFRAVCLLP 79 (196)
T ss_pred hhHHHHHHHHHHCC-CcEEEEecc---------ChHHHHHHHHcCCCCEEEEeccC---CCCCce-EEEeccCceEEEec
Confidence 35678888888764 345655543 44678899999999999863221 112232 35677777888887
Q ss_pred cCC
Q 047109 527 TDR 529 (808)
Q Consensus 527 ~~~ 529 (808)
...
T Consensus 80 ~~h 82 (196)
T cd08458 80 PGH 82 (196)
T ss_pred CCC
Confidence 653
No 406
>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=36.05 E-value=1.1e+02 Score=30.73 Aligned_cols=77 Identities=12% Similarity=0.104 Sum_probs=49.0
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++.++ +.|-. .+.+.+.+.+++.|..+..... ..+.+.....++.+.+.+.+.+++.........+++.++
T Consensus 2 Igvv~~~~~~~~~~-~~~~~i~~~a~~~g~~~~~~~~----~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (269)
T cd06281 2 IGCLVSDITNPLLA-QLFSGAEDRLRAAGYSLLIANS----LNDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALA 76 (269)
T ss_pred EEEEecCCccccHH-HHHHHHHHHHHHcCCEEEEEeC----CCChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHH
Confidence 5666654 34444 6778888999999988765432 113344556677777778888887654333345666666
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.+.
T Consensus 77 ~~~i 80 (269)
T cd06281 77 SLDL 80 (269)
T ss_pred hCCC
Confidence 6653
No 407
>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=35.99 E-value=1.4e+02 Score=31.59 Aligned_cols=77 Identities=14% Similarity=0.149 Sum_probs=50.9
Q ss_pred HHHHHHHHhcCC-cEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEE-ecCCCCCChHHHHHHHHHhcCCCCeEEEEE
Q 047109 124 KGIADLIRVFKW-KHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRI-TISMSSNTDDQVIEKLSMLKSSETKVFVVH 201 (808)
Q Consensus 124 ~a~~~ll~~~~w-~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~-~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 201 (808)
..+.++++.++. +++.++++...+.. ..+.+.+.+++.|+.+.... .... .++.+.....+..+++ +.|+||-.
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~--~~~~i~~~L~~~~~~~~i~~~~~~~-~p~~~~v~~~~~~~~~-~~d~IIai 87 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKV--AGKEIIERLESNNFTKEVLERDSLL-IPDEYELGEVLIKLDK-DTEFLLGI 87 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHH--HHHHHHHHHHHcCCeEEEEecCCCC-CCCHHHHHHHHHHhhc-CCCEEEEE
Confidence 446667777775 78888886655433 35788888988887654321 1112 2345677778888877 88988887
Q ss_pred cCH
Q 047109 202 MSH 204 (808)
Q Consensus 202 ~~~ 204 (808)
+.+
T Consensus 88 GGG 90 (332)
T cd08549 88 GSG 90 (332)
T ss_pred CCc
Confidence 654
No 408
>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=35.96 E-value=3.6e+02 Score=25.05 Aligned_cols=72 Identities=17% Similarity=0.086 Sum_probs=47.6
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.+..- ++++++... +...+...+.+|++|+++..- .......+. +.++....+++++
T Consensus 13 ~~l~~~l~~f~~~~P-~~~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~--~~~~~~~~~-~~~l~~~~~~~v~ 79 (198)
T cd08443 13 YVLPPVIKGFIERYP-RVSLQMHQG---------SPTQIAEMVSKGLVDFAIATE--ALHDYDDLI-TLPCYHWNRCVVV 79 (198)
T ss_pred eECcHHHHHHHHHCC-CeEEEEEeC---------CHHHHHHHHHCCCccEEEEec--cccccCCce-EeeeeeceEEEEE
Confidence 556788888888764 345655543 457889999999999998532 111122343 3577777888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 80 ~~~hp 84 (198)
T cd08443 80 KRDHP 84 (198)
T ss_pred cCCCc
Confidence 76543
No 409
>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=35.94 E-value=99 Score=30.97 Aligned_cols=99 Identities=13% Similarity=0.157 Sum_probs=58.5
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhh---cCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeE
Q 047109 121 SQAKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLH---DNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKV 197 (808)
Q Consensus 121 ~~~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~---~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 197 (808)
..-++.-++++.||-..+.-++--|.|.. +.-..+.+.+. +-.++.....+ ..+...+.++++|+.++|+
T Consensus 17 d~~r~Ae~l~~~Yg~~~I~h~tyPdnf~~-e~EttIskI~~lAdDp~mKaIVv~q------~vpGt~~af~kIkekRpDI 89 (275)
T PF12683_consen 17 DEYRGAEELIKKYGDVMIKHVTYPDNFMS-EQETTISKIVSLADDPDMKAIVVSQ------AVPGTAEAFRKIKEKRPDI 89 (275)
T ss_dssp HHHHHHHHHHHHHHHHEEEEEE--TTGGG-CHHHHHHHHHGGGG-TTEEEEEEE-------SS---HHHHHHHHHH-TTS
T ss_pred HHHHHHHHHHHHhCcceEEEEeCCCcccc-hHHHHHHHHHHhccCCCccEEEEeC------CCcchHHHHHHHHhcCCCe
Confidence 45566666777787656666555566666 55455555544 56666443222 3346688889999999999
Q ss_pred EEEEcCHH--------------------HHHHHHHHHHHcCCCCCCeEEEE
Q 047109 198 FVVHMSHA--------------------LASHLFLNAKKLGMMSKGYSWIV 228 (808)
Q Consensus 198 iil~~~~~--------------------~~~~~l~~a~~~gl~~~~~~~i~ 228 (808)
+++.+.+. ....+...|.++|- +.++.+.
T Consensus 90 l~ia~~~~EDp~~i~~~aDi~~~~D~~~~G~~i~~~Ak~mGA--ktFVh~s 138 (275)
T PF12683_consen 90 LLIAGEPHEDPEVISSAADIVVNPDEISRGYTIVWAAKKMGA--KTFVHYS 138 (275)
T ss_dssp EEEESS--S-HHHHHHHSSEEEE--HHHHHHHHHHHHHHTT---S-EEEEE
T ss_pred EEEcCCCcCCHHHHhhccCeEeccchhhccHHHHHHHHHcCC--ceEEEEe
Confidence 98877652 45678888999985 6666663
No 410
>PF08803 ydhR: Putative mono-oxygenase ydhR; InterPro: IPR014910 YdhR is a homodimeric protein that comprises of a central four-stranded beta sheet and four surrounding alpha helices []. It shows structural homology to the ActVA-Orf6 and YgiN proteins which indicates it could be a mono-oxygenase. ; PDB: 1WD6_B 2HIQ_B 2ASY_B.
Probab=35.85 E-value=50 Score=27.31 Aligned_cols=32 Identities=6% Similarity=-0.149 Sum_probs=27.3
Q ss_pred EEEecCCcchhhHHHHHHHHHHHHHhcCCCcc
Q 047109 6 VILDMRSWAGKISNSCISMAISDFYALNTHYK 37 (808)
Q Consensus 6 ~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~ 37 (808)
+-||.+||.|..+..++.--.+.||+.+|+.-
T Consensus 4 vdF~~~gPfg~em~~~~~~LA~sI~~ePGliw 35 (97)
T PF08803_consen 4 VDFPYNGPFGEEMSKAFNDLAESINQEPGLIW 35 (97)
T ss_dssp EEEESSSS-HHHHHHHHHHHHHHHTTSTTEEE
T ss_pred EEecCCCCcHHHHHHHHHHHHHHHhhCCCeEE
Confidence 56899999999999999999999999998753
No 411
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=35.72 E-value=5.1e+02 Score=26.72 Aligned_cols=70 Identities=13% Similarity=0.230 Sum_probs=45.9
Q ss_pred eHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEec
Q 047109 448 CVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPT 527 (808)
Q Consensus 448 ~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~ 527 (808)
-.+++..+.+++-- +++.+... +-..+.+.|.+|++|++++.. ........+.+ .++....+++++++
T Consensus 108 l~~~l~~~~~~~P~-i~l~l~~~---------~~~~~~~~l~~g~~D~~i~~~-~~~~~~~~l~~-~~l~~~~~~~v~~~ 175 (308)
T PRK10094 108 VAQLLAWLNERYPF-TQFHISRQ---------IYMGVWDSLLYEGFSLAIGVT-GTEALANTFSL-DPLGSVQWRFVMAA 175 (308)
T ss_pred HHHHHHHHHHhCCC-cEEEEEee---------hhhhHHHHHhCCCccEEEecc-cCccccCCeeE-EEecceeEEEEECC
Confidence 45788888877653 56666543 346888999999999988621 11111233433 57788888888876
Q ss_pred CC
Q 047109 528 DR 529 (808)
Q Consensus 528 ~~ 529 (808)
..
T Consensus 176 ~h 177 (308)
T PRK10094 176 DH 177 (308)
T ss_pred CC
Confidence 54
No 412
>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=35.69 E-value=1.5e+02 Score=29.61 Aligned_cols=76 Identities=11% Similarity=0.197 Sum_probs=48.9
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++..+ +.|-. .+.+.+.+.+++.|+++..... ..........++.+.+.+.|.+++....... ..++.+.
T Consensus 2 i~vi~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~----~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (270)
T cd06296 2 IGLVFPDLDSPWAS-EVLRGVEEAAAAAGYDVVLSES----GRRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALR 75 (270)
T ss_pred eEEEECCCCCccHH-HHHHHHHHHHHHcCCeEEEecC----CCchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHh
Confidence 4566644 45666 7888899999999998765432 1123345566777777888988876543222 3467676
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.+.
T Consensus 76 ~~~i 79 (270)
T cd06296 76 RTGI 79 (270)
T ss_pred cCCC
Confidence 6653
No 413
>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=35.49 E-value=1.4e+02 Score=30.27 Aligned_cols=79 Identities=13% Similarity=0.023 Sum_probs=51.6
Q ss_pred cEEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHH-HHHHHH
Q 047109 136 KHVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHAL-ASHLFL 212 (808)
Q Consensus 136 ~~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~l~ 212 (808)
++++++..+ +.|-. ...+.+.+.+++.|.++..... ..+.+.-...++.+.+.+.|.||+.....+ ....++
T Consensus 1 ~~ig~i~~~~~~~~~~-~~~~gi~~~a~~~gy~~~~~~~----~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~ 75 (280)
T cd06315 1 KNIIFVASDLKNGGIL-GVGEGVREAAKAIGWNLRILDG----RGSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELE 75 (280)
T ss_pred CeEEEEecccCCcHHH-HHHHHHHHHHHHcCcEEEEECC----CCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHH
Confidence 467877765 33444 5778888999999988765321 223445567788888888999988754322 234456
Q ss_pred HHHHcCC
Q 047109 213 NAKKLGM 219 (808)
Q Consensus 213 ~a~~~gl 219 (808)
.+.+.+.
T Consensus 76 ~~~~~~i 82 (280)
T cd06315 76 LAQKAGI 82 (280)
T ss_pred HHHHCCC
Confidence 6666654
No 414
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=35.47 E-value=5e+02 Score=26.47 Aligned_cols=70 Identities=13% Similarity=0.116 Sum_probs=48.8
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+..+++..+.+... .+++.+... +..+++..|.+|++|+++.... .....+.+ .|+....++++++
T Consensus 104 ~l~~~~~~~~~~~p-~v~i~~~~~---------~~~~~~~~l~~~~~D~~i~~~~---~~~~~l~~-~~l~~~~~~~v~~ 169 (296)
T PRK09906 104 LLPKVLPMFRLRHP-DTLIELVSL---------ITTQQEEKLRRGELDVGFMRHP---VYSDEIDY-LELLDEPLVVVLP 169 (296)
T ss_pred HHHHHHHHHHHHCC-CeEEEEEeC---------CcHHHHHHHHcCCeeEEEecCC---CCCCCceE-EEEecccEEEEec
Confidence 35677888887764 355655543 4578999999999999986432 22334444 6888889999988
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 170 ~~~p 173 (296)
T PRK09906 170 VDHP 173 (296)
T ss_pred CCCc
Confidence 7643
No 415
>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=34.99 E-value=1.8e+02 Score=29.07 Aligned_cols=76 Identities=7% Similarity=0.069 Sum_probs=48.9
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++..+ +.|-. .+.+.+.+.+++.|+++..... . .+.+.-...++.+.+.++|.||+....... ..++++.
T Consensus 2 igvi~p~~~~~~~~-~~~~g~~~~a~~~g~~~~~~~~--~--~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~ 75 (268)
T cd06270 2 IGLVVSDLDGPFFG-PLLSGVESVARKAGKHLIITAG--H--HSAEKEREAIEFLLERRCDALILHSKALSD-DELIELA 75 (268)
T ss_pred EEEEEccccCcchH-HHHHHHHHHHHHCCCEEEEEeC--C--CchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 4555543 34555 6778888999999998775322 1 133344567777777889988887643222 2277777
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06270 76 AQVP 79 (268)
T ss_pred hCCC
Confidence 7764
No 416
>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=34.97 E-value=1.2e+02 Score=31.37 Aligned_cols=78 Identities=13% Similarity=0.148 Sum_probs=50.8
Q ss_pred EEEEEEec--CCccccCcHHHHHHhhhc--CCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc-CHHHHHHHH
Q 047109 137 HVILIYED--NTWGSDNIIPYLFDSLHD--NDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM-SHALASHLF 211 (808)
Q Consensus 137 ~v~ii~~d--~~~g~~~~~~~~~~~~~~--~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-~~~~~~~~l 211 (808)
+|+++..+ +.|-. ...+.+.+.+++ .|+++..... ..+.+.-...++++.+.+++.|++.. ++......+
T Consensus 1 ~Igviv~~~~~~~~~-~~~~gi~~~a~~~~~g~~~~~~~~----~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~ 75 (303)
T cd01539 1 KIGVFLYKFDDTFIS-LVRKNLEDIQKENGGKVEFTFYDA----KNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVI 75 (303)
T ss_pred CeEEEeeCCCChHHH-HHHHHHHHHHHhhCCCeeEEEecC----CCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHH
Confidence 46677654 23444 567888888888 7877665322 22334455677778888999888764 333346777
Q ss_pred HHHHHcCC
Q 047109 212 LNAKKLGM 219 (808)
Q Consensus 212 ~~a~~~gl 219 (808)
+++.+.|.
T Consensus 76 ~~~~~~gi 83 (303)
T cd01539 76 NKAKQKNI 83 (303)
T ss_pred HHHHHCCC
Confidence 88877775
No 417
>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=34.96 E-value=94 Score=31.87 Aligned_cols=79 Identities=6% Similarity=0.188 Sum_probs=50.0
Q ss_pred EEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHH-HHHHHHH
Q 047109 137 HVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHAL-ASHLFLN 213 (808)
Q Consensus 137 ~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~l~~ 213 (808)
|++++..+ +.|-. .+...+.+.+++.|+++.... .. ..+.......++.+...++|.|++...... ....+++
T Consensus 1 ~i~~i~~~~~~~~~~-~~~~gi~~~a~~~g~~~~~~~--~~-~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~ 76 (294)
T cd06316 1 KAAIVMHTSGSDWSN-AQVRGAKDEFAKLGIEVVATT--DA-QFDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKK 76 (294)
T ss_pred CeEEEecCCCChHHH-HHHHHHHHHHHHcCCEEEEec--CC-CCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHH
Confidence 46666644 23444 567788888999998876321 11 123344556677776778998888654332 4567788
Q ss_pred HHHcCC
Q 047109 214 AKKLGM 219 (808)
Q Consensus 214 a~~~gl 219 (808)
+.+.|.
T Consensus 77 ~~~~~i 82 (294)
T cd06316 77 VAEAGI 82 (294)
T ss_pred HHHcCC
Confidence 888774
No 418
>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=34.96 E-value=1e+02 Score=30.85 Aligned_cols=77 Identities=8% Similarity=0.058 Sum_probs=50.0
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHH-HHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHAL-ASHLFLNA 214 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~l~~a 214 (808)
++++..+ +.|.. ...+.+.+.+++.|+.+.... . ..+..+....++++.+.+++.+++...... ....++.+
T Consensus 2 I~vv~~~~~~~~~~-~~~~~i~~~~~~~g~~v~~~~---~-~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l 76 (268)
T cd06323 2 IGLSVSTLNNPFFV-TLKDGAQKEAKELGYELTVLD---A-QNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAA 76 (268)
T ss_pred eeEecccccCHHHH-HHHHHHHHHHHHcCceEEecC---C-CCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHH
Confidence 4555543 44555 678889999999998886532 2 224445667777877778998887643332 34567777
Q ss_pred HHcCC
Q 047109 215 KKLGM 219 (808)
Q Consensus 215 ~~~gl 219 (808)
.+.+.
T Consensus 77 ~~~~i 81 (268)
T cd06323 77 NEAGI 81 (268)
T ss_pred HHCCC
Confidence 77664
No 419
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=34.92 E-value=3.9e+02 Score=26.69 Aligned_cols=86 Identities=13% Similarity=0.149 Sum_probs=60.6
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc-
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM- 202 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~- 202 (808)
..+++.....|-.-++++++..-|| +..+.+++.-....+.|.....+-. ..++.+.+..++|+|++..
T Consensus 64 ~~~A~~y~~~GA~aISVlTe~~~F~--Gs~~~l~~v~~~v~~PvL~KDFIid--------~~QI~ea~~~GADavLLI~~ 133 (247)
T PRK13957 64 VQIAKTYETLGASAISVLTDQSYFG--GSLEDLKSVSSELKIPVLRKDFILD--------EIQIREARAFGASAILLIVR 133 (247)
T ss_pred HHHHHHHHHCCCcEEEEEcCCCcCC--CCHHHHHHHHHhcCCCEEeccccCC--------HHHHHHHHHcCCCEEEeEHh
Confidence 4566677788888899988666555 4667777766666777665544322 2234445558999999864
Q ss_pred --CHHHHHHHHHHHHHcCC
Q 047109 203 --SHALASHLFLNAKKLGM 219 (808)
Q Consensus 203 --~~~~~~~~l~~a~~~gl 219 (808)
+.+....++..|.++||
T Consensus 134 ~L~~~~l~~l~~~a~~lGl 152 (247)
T PRK13957 134 ILTPSQIKSFLKHASSLGM 152 (247)
T ss_pred hCCHHHHHHHHHHHHHcCC
Confidence 45678999999999998
No 420
>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=34.85 E-value=1.2e+02 Score=30.23 Aligned_cols=75 Identities=16% Similarity=0.125 Sum_probs=48.8
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
|+++.++ +.|.. ...+.+.+++++.|+++..... ..+.+.....++++.+.+.|.+|+...... ..++..+.
T Consensus 2 igvv~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~----~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~ 75 (259)
T cd01542 2 IGVIVPRLDSFSTS-RTVKGILAALYENGYQMLLMNT----NFSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIK 75 (259)
T ss_pred eEEEecCCccchHH-HHHHHHHHHHHHCCCEEEEEeC----CCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHh
Confidence 4566654 23444 6788888999999998865422 223445566777887789999998754322 34556666
Q ss_pred HcC
Q 047109 216 KLG 218 (808)
Q Consensus 216 ~~g 218 (808)
+.|
T Consensus 76 ~~~ 78 (259)
T cd01542 76 KLN 78 (259)
T ss_pred cCC
Confidence 655
No 421
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=34.68 E-value=1.3e+02 Score=32.80 Aligned_cols=57 Identities=16% Similarity=0.159 Sum_probs=45.7
Q ss_pred EEEEEEecCCCCHHHHHHHHHHhh--hcCCeEEEEecCCChhHHHHHHHhcCCCCccEEe
Q 047109 39 RLVLHSRDSKGDPLHALTTVLNLM--QNVDLQAIICTEMTPTGAHILAEIGSKAKIPVIS 96 (808)
Q Consensus 39 ~l~~~~~d~~~~~~~a~~~a~~li--~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is 96 (808)
.-.+.+.||=|++.+-.+.|..-+ .+-.+..|||+. .|+.+..+..+|...++|..-
T Consensus 335 ~~~~~vfnTIC~ATqeRQdA~~~L~~~~vDlmiVVGG~-NSSNT~~L~eIa~~~g~~sy~ 393 (460)
T PLN02821 335 NDHFMSFNTICDATQERQDAMYKLVEEKLDLMLVVGGW-NSSNTSHLQEIAEHKGIPSYW 393 (460)
T ss_pred CccccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCC-CCccHHHHHHHHHHhCCCEEE
Confidence 355677899899998877665544 345788999999 999999999999999988533
No 422
>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=34.54 E-value=3.7e+02 Score=24.67 Aligned_cols=72 Identities=10% Similarity=-0.019 Sum_probs=46.8
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-..++..+.++.- ++++++... .....+..|.+|++|+++...... .+...+. ..++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~ 80 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHEL---------SPEAQKAALLSKRIDLGFVRFADT-LNDPPLA-SELLWREPMVVAL 80 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEEC---------CHHHHHHHHhCCCccEEEeccccc-CCCCCce-EEEEEEeeEEEEe
Confidence 345678888888764 356666543 467889999999999998533211 0122333 3567788888888
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 81 ~~~~ 84 (197)
T cd08449 81 PEEH 84 (197)
T ss_pred cCCC
Confidence 7653
No 423
>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=34.34 E-value=2.8e+02 Score=26.67 Aligned_cols=88 Identities=9% Similarity=-0.092 Sum_probs=53.3
Q ss_pred EEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC----HHHHHHHHH
Q 047109 137 HVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS----HALASHLFL 212 (808)
Q Consensus 137 ~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~----~~~~~~~l~ 212 (808)
++.+....++.-. -...-+...++.+|+++.+-- . +... ...++.+++.++|+|.+.+. ......+++
T Consensus 86 ~vv~~t~~gd~H~-lG~~~v~~~l~~~G~~vi~LG---~-~vp~---e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~ 157 (197)
T TIGR02370 86 KVVCGVAEGDVHD-IGKNIVVTMLRANGFDVIDLG---R-DVPI---DTVVEKVKKEKPLMLTGSALMTTTMYGQKDIND 157 (197)
T ss_pred eEEEEeCCCchhH-HHHHHHHHHHHhCCcEEEECC---C-CCCH---HHHHHHHHHcCCCEEEEccccccCHHHHHHHHH
Confidence 5555554444333 345777778888999987532 1 2233 34445555678898888643 356778888
Q ss_pred HHHHcCCCCCCeEEEEeCcc
Q 047109 213 NAKKLGMMSKGYSWIVTAST 232 (808)
Q Consensus 213 ~a~~~gl~~~~~~~i~~~~~ 232 (808)
+.++.|....-.+++++...
T Consensus 158 ~l~~~~~~~~v~i~vGG~~~ 177 (197)
T TIGR02370 158 KLKEEGYRDSVKFMVGGAPV 177 (197)
T ss_pred HHHHcCCCCCCEEEEEChhc
Confidence 88888763333455555443
No 424
>PLN02245 ATP phosphoribosyl transferase
Probab=33.98 E-value=3.4e+02 Score=29.21 Aligned_cols=94 Identities=15% Similarity=0.128 Sum_probs=48.9
Q ss_pred CceeeecCCcHHHhhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEec-ccccccc
Q 047109 639 DNIGSQLGSFVPGALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIA-PNYTTTS 717 (808)
Q Consensus 639 ~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~ 717 (808)
++|++..-.....|+.+.+....++......-|. +-..|- .|+++.--.+..-+-++ +|++++ +.+. ..
T Consensus 197 ~RIATkYp~ltr~ff~~~Gv~~v~Iv~l~GAvE~--AP~lGl----ADaIvDIVsTGtTLraN---gLk~i~~~~Il-~S 266 (403)
T PLN02245 197 LRVVTGFTYLGPKFMKDNGFKHVTFSTADGALEA--APAMGI----ADAILDLVSSGTTLREN---NLKEIEGGVVL-ES 266 (403)
T ss_pred eEEEeCCHHHHHHHHHHcCCCeEEEEECcCceec--ccccCc----hhhhcchhccHHHHHHC---CCEEccCceEE-EE
Confidence 5677666666677887766643344433332222 122222 34433322223222222 688885 5555 66
Q ss_pred ceEEEEeCCCC-----ChHHHHHHHHhhhh
Q 047109 718 GFGFVFQKGSP-----LVHDISRAIAKLRE 742 (808)
Q Consensus 718 ~~~~~~~k~sp-----~~~~~~~~i~~l~e 742 (808)
...+..+|++. -.+.++..+.+|+.
T Consensus 267 ~A~LIan~~sl~~~~~~~~~i~~ll~rl~~ 296 (403)
T PLN02245 267 QAVLVASRRALLERKGALEVVHEILERLEA 296 (403)
T ss_pred EEEEEEecchhhcchhHHHHHHHHHHHHHH
Confidence 67777788754 23366666666653
No 425
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=33.52 E-value=1.7e+02 Score=31.38 Aligned_cols=72 Identities=19% Similarity=0.190 Sum_probs=52.8
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
|+-.+.++...+-++|++|..| .|-. +..++++.+.+-.|+.+.... +..++...+..+++. |+|++.+
T Consensus 221 AKLAar~~~~~~~~kVaiITtD-tYRI-GA~EQLk~Ya~im~vp~~vv~-------~~~el~~ai~~l~~~--d~ILVDT 289 (407)
T COG1419 221 AKLAARYVMLKKKKKVAIITTD-TYRI-GAVEQLKTYADIMGVPLEVVY-------SPKELAEAIEALRDC--DVILVDT 289 (407)
T ss_pred HHHHHHHHhhccCcceEEEEec-cchh-hHHHHHHHHHHHhCCceEEec-------CHHHHHHHHHHhhcC--CEEEEeC
Confidence 3333333434567899999855 4777 889999999999998876431 457899889888754 8999986
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 290 aGr 292 (407)
T COG1419 290 AGR 292 (407)
T ss_pred CCC
Confidence 554
No 426
>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=33.38 E-value=1.4e+02 Score=30.15 Aligned_cols=78 Identities=13% Similarity=0.118 Sum_probs=46.9
Q ss_pred CCcEEEEEEec---------CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH
Q 047109 134 KWKHVILIYED---------NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH 204 (808)
Q Consensus 134 ~w~~v~ii~~d---------~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 204 (808)
..+.++++.++ +.|.. ...+.+.+.+++.|+.+..... .. . +.....+.+.+.++|.|++....
T Consensus 2 ~s~~i~vi~p~~~~~~~~~~~~~~~-~~~~gi~~~~~~~g~~~~v~~~-~~---~--~~~~~~~~l~~~~~dgiii~~~~ 74 (275)
T cd06295 2 RTDTIALVVPEPHERDQSFSDPFFL-SLLGGIADALAERGYDLLLSFV-SS---P--DRDWLARYLASGRADGVILIGQH 74 (275)
T ss_pred CceEEEEEecCccccccccCCchHH-HHHHHHHHHHHHcCCEEEEEeC-Cc---h--hHHHHHHHHHhCCCCEEEEeCCC
Confidence 35678888864 12333 4567788888899988765321 11 1 23334445556788988876433
Q ss_pred HHHHHHHHHHHHcCC
Q 047109 205 ALASHLFLNAKKLGM 219 (808)
Q Consensus 205 ~~~~~~l~~a~~~gl 219 (808)
.. ...++.+.+.|.
T Consensus 75 ~~-~~~~~~~~~~~i 88 (275)
T cd06295 75 DQ-DPLPERLAETGL 88 (275)
T ss_pred CC-hHHHHHHHhCCC
Confidence 22 244677777764
No 427
>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=33.36 E-value=3.9e+02 Score=24.62 Aligned_cols=69 Identities=12% Similarity=0.114 Sum_probs=44.3
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.- .+++++... .-..+...|.+|++|+++... +.....+. ..++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~~---------~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~~~ 78 (196)
T cd08457 13 GFLPRFLAAFLRLRP-NLHLSLMGL---------SSSQVLEAVASGRADLGIADG---PLEERQGF-LIETRSLPAVVAV 78 (196)
T ss_pred cccHHHHHHHHHHCC-CeEEEEEec---------CcHHHHHHHHcCCccEEEecc---CCCCCCcE-EEEeccCCeEEEe
Confidence 445688888888764 345555542 236788899999999998532 22222232 2466677777777
Q ss_pred ecC
Q 047109 526 PTD 528 (808)
Q Consensus 526 ~~~ 528 (808)
++.
T Consensus 79 ~~~ 81 (196)
T cd08457 79 PMG 81 (196)
T ss_pred eCC
Confidence 664
No 428
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=33.23 E-value=1.5e+02 Score=31.62 Aligned_cols=78 Identities=10% Similarity=0.126 Sum_probs=51.2
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEE--ecCCCCCChHHHHHHHHHhcCCCC---eEE
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRI--TISMSSNTDDQVIEKLSMLKSSET---KVF 198 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~--~~~~~~~~~~~~~~~l~~l~~~~~---~vi 198 (808)
..+.+.++.++++++.++++... .. .+.+.+.+.+++.|+.+.... .... ..+.+.....++.+++.+. |.|
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~-~~-~~~~~v~~~L~~~gi~~~~~~~~~~e~-~~~~~~v~~~~~~~~~~~~~r~d~I 96 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETV-AP-LYLEKLRASLEAAGFEVDVVVLPDGEQ-YKSLETLEKIYDALLEAGLDRSDTL 96 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCch-HH-HHHHHHHHHHHhcCCceEEEEeCCCCC-CCCHHHHHHHHHHHHHcCCCCCCEE
Confidence 45666677778899999985544 33 577888888988887655311 1112 2345677777777776544 888
Q ss_pred EEEcCH
Q 047109 199 VVHMSH 204 (808)
Q Consensus 199 il~~~~ 204 (808)
|-.+.+
T Consensus 97 IavGGG 102 (358)
T PRK00002 97 IALGGG 102 (358)
T ss_pred EEEcCc
Confidence 877655
No 429
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=33.14 E-value=1.9e+02 Score=29.69 Aligned_cols=80 Identities=9% Similarity=0.093 Sum_probs=53.1
Q ss_pred CcEEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH-HHHHHH
Q 047109 135 WKHVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA-LASHLF 211 (808)
Q Consensus 135 w~~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~l 211 (808)
-+.++++.++ +.|-. ...+.+.+.+++.|+++..... ..+.+.....++++.+.+.+.+++..... .....+
T Consensus 26 ~~~I~vi~~~~~~~f~~-~~~~~i~~~~~~~G~~~~~~~~----~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l 100 (295)
T PRK10653 26 KDTIALVVSTLNNPFFV-SLKDGAQKEADKLGYNLVVLDS----QNNPAKELANVQDLTVRGTKILLINPTDSDAVGNAV 100 (295)
T ss_pred CCeEEEEecCCCChHHH-HHHHHHHHHHHHcCCeEEEecC----CCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHH
Confidence 5688988864 34455 6788889999999998765321 11334455677777777888777765433 334567
Q ss_pred HHHHHcCC
Q 047109 212 LNAKKLGM 219 (808)
Q Consensus 212 ~~a~~~gl 219 (808)
+.+.+.|.
T Consensus 101 ~~~~~~~i 108 (295)
T PRK10653 101 KMANQANI 108 (295)
T ss_pred HHHHHCCC
Confidence 77777664
No 430
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=33.09 E-value=5.7e+02 Score=26.45 Aligned_cols=172 Identities=12% Similarity=0.093 Sum_probs=94.5
Q ss_pred cCCCCHHHHHHHHHHhhhcCCeEE-EEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHH
Q 047109 46 DSKGDPLHALTTVLNLMQNVDLQA-IICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQA 123 (808)
Q Consensus 46 d~~~~~~~a~~~a~~li~~~~v~a-iiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~ 123 (808)
+-.++...-+.....++++ |+.+ ||++. ++.+...+...+...+||+|+|.---.. .+ .|+-+--+..-++.|+
T Consensus 62 ~A~~~~~~Q~~qien~i~q-g~~vlvi~a~-d~~~l~~~i~~A~~~gikViaYDRlI~n--~dvd~YvsFDN~~VG~lQa 137 (341)
T COG4213 62 SADGDEEKQLAQIENMINQ-GVKVLVIGAI-DGGVLSNAVEKAKSEGIKVIAYDRLINN--ADVDFYVSFDNEKVGELQA 137 (341)
T ss_pred hhccChhHHHHHHHHHHhc-CCCEEEEEec-cchhHHHHHHHHHHcCCeEEEeeccccc--CCccEEEEecchhHHHHHH
Confidence 4456777788888899988 6655 55899 8888888888999999999998532111 11 1222222211144777
Q ss_pred HHHHHHHHhcC---CcEEEEEEec--CCccc---cCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcC---
Q 047109 124 KGIADLIRVFK---WKHVILIYED--NTWGS---DNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKS--- 192 (808)
Q Consensus 124 ~a~~~ll~~~~---w~~v~ii~~d--~~~g~---~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~--- 192 (808)
.++.+-++... -..+.++... |.-.. ....+-++..+..-.+.++.....+. . ..+.-...+.++..
T Consensus 138 ~~l~~~lk~k~~~~~gn~~l~~GSp~DnNA~lf~~G~m~VLkp~idsGkik~~Ge~~~d~-W-~ps~Aq~~men~lta~~ 215 (341)
T COG4213 138 KALVKGLKLKPLTSEGNYVLLGGSPDDNNAKLFFAGAMKVLKPLIDSGKIKVVGEQWTDG-W-LPSNAQQIMENLLTANY 215 (341)
T ss_pred HHHHHHhccCCCCCCCCEEEecCCCCCcchHHHHhcHHHHHHHHhhCCceEEeeeccccc-c-CHHHHHHHHHHHHhccc
Confidence 77766665443 3345555422 21111 01223333333333455544333332 2 23333334443332
Q ss_pred CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 047109 193 SETKVFVVHMSHALASHLFLNAKKLGMMSKGYSW 226 (808)
Q Consensus 193 ~~~~viil~~~~~~~~~~l~~a~~~gl~~~~~~~ 226 (808)
.+-+.|+-.-+ ..+.-.+.+....|+. +.+.
T Consensus 216 ~~vdaVvA~nD-gtagGaI~aL~a~Gl~--g~vp 246 (341)
T COG4213 216 NDIDAVVAPND-GTAGGAIAALKAQGLA--GKVP 246 (341)
T ss_pred CceeEEEcCCC-chhHHHHHHHHhcccC--CCCc
Confidence 23444444433 5677888889999984 4444
No 431
>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=33.05 E-value=1.2e+02 Score=30.45 Aligned_cols=77 Identities=5% Similarity=0.069 Sum_probs=50.5
Q ss_pred EEEEEec---CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH-HHHHHHHH
Q 047109 138 VILIYED---NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA-LASHLFLN 213 (808)
Q Consensus 138 v~ii~~d---~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~l~~ 213 (808)
|+++.++ +.|.. ...+.+.+.+++.|+.+..... ..+.+.....++.+.+.++|.|++..... .....++.
T Consensus 2 i~vi~p~~~~~~~~~-~~~~g~~~~~~~~g~~~~~~~~----~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~ 76 (275)
T cd06317 2 IGYTQNNVGSHSYQT-TYNKAFQAAAEEDGVEVIVLDA----NGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRK 76 (275)
T ss_pred eEEEecccCCCHHHH-HHHHHHHHHHHhcCCEEEEEcC----CcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHH
Confidence 5566643 35666 7788888889999988765322 22344455667777777899888865433 23456677
Q ss_pred HHHcCC
Q 047109 214 AKKLGM 219 (808)
Q Consensus 214 a~~~gl 219 (808)
+.+.|.
T Consensus 77 ~~~~~i 82 (275)
T cd06317 77 AKQAGI 82 (275)
T ss_pred HHHCCC
Confidence 777664
No 432
>PLN00125 Succinyl-CoA ligase [GDP-forming] subunit alpha
Probab=33.05 E-value=4.3e+02 Score=27.32 Aligned_cols=143 Identities=13% Similarity=0.136 Sum_probs=81.2
Q ss_pred HHHHHHHHHHhhhcCCeEEEEe--cCCChhH--HHHHHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHH
Q 047109 51 PLHALTTVLNLMQNVDLQAIIC--TEMTPTG--AHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGI 126 (808)
Q Consensus 51 ~~~a~~~a~~li~~~~v~aiiG--~~~~s~~--~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~ 126 (808)
+.....++.++... ++.+++- .. .++. -..+..+++.+++.++.|.+..-.+....+..+.+. .
T Consensus 79 a~~v~~al~e~~~~-Gvk~~vIisaG-f~e~g~~~~~~~~ar~~girviGPNc~Gii~~~~~~~~~~~~-----~----- 146 (300)
T PLN00125 79 PPFAAAAILEAMEA-ELDLVVCITEG-IPQHDMVRVKAALNRQSKTRLIGPNCPGIIKPGECKIGIMPG-----Y----- 146 (300)
T ss_pred HHHHHHHHHHHHHc-CCCEEEEECCC-CCcccHHHHHHHHHhhcCCEEECCCCceeecccccceeecCC-----C-----
Confidence 34455566666665 6654432 21 1221 233344678899999998775433000011111111 1
Q ss_pred HHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCC-CChHHHHHHHHHhc-CCCCeEEEEEcCH
Q 047109 127 ADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSS-NTDDQVIEKLSMLK-SSETKVFVVHMSH 204 (808)
Q Consensus 127 ~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~-~~~~~~~~~l~~l~-~~~~~viil~~~~ 204 (808)
+ .+--+++++.++.. +...+...+.+.|+-+.....+-. . ..+-++...|+-+. +.++++|+++...
T Consensus 147 ---~--~~~G~ValiSQSG~-----l~~~l~~~~~~~giG~S~~VS~Gn-~~~adv~~~d~L~yl~~Dp~T~~I~ly~E~ 215 (300)
T PLN00125 147 ---I--HKPGRIGIVSRSGT-----LTYEAVFQTTAVGLGQSTCVGIGG-DPFNGTNFVDCLEKFVKDPQTEGIILIGEI 215 (300)
T ss_pred ---C--CCCCcEEEEeCCcc-----HHHHHHHHHHHcCCCeEEEEEeCC-CCCCCCCHHHHHHHHhhCCCCcEEEEEecc
Confidence 1 22346999887774 444566777777777666544433 1 01235666666664 4788999999884
Q ss_pred -----HHHHHHHHHHHH
Q 047109 205 -----ALASHLFLNAKK 216 (808)
Q Consensus 205 -----~~~~~~l~~a~~ 216 (808)
.+.+.|++++++
T Consensus 216 ~G~~~~d~~~f~~aa~~ 232 (300)
T PLN00125 216 GGTAEEDAAAFIKESGT 232 (300)
T ss_pred CCchHHHHHHHHHHhcC
Confidence 578999988764
No 433
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=32.93 E-value=5e+02 Score=25.78 Aligned_cols=69 Identities=12% Similarity=0.084 Sum_probs=44.7
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+..+++..+.+... ++++++... .-.+++..|.+|++|+++..... .....+. ..++....++++++
T Consensus 81 ~~~~~l~~~~~~~p-~i~l~i~~~---------~~~~~~~~l~~~~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~ 147 (269)
T PRK11716 81 HLPPILDRFRAEHP-LVEIKLTTG---------DAADAVEKVQSGEADLAIAAKPE--TLPASVA-FSPIDEIPLVLIAP 147 (269)
T ss_pred HHHHHHHHHHHHCC-CeEEEEEEC---------CHHHHHHHHHCCCccEEEEecCC--CCCcceE-EEEcccceEEEEEc
Confidence 45678888888775 355665543 44688999999999999853221 1112233 25666777777776
Q ss_pred cC
Q 047109 527 TD 528 (808)
Q Consensus 527 ~~ 528 (808)
+.
T Consensus 148 ~~ 149 (269)
T PRK11716 148 AL 149 (269)
T ss_pred CC
Confidence 54
No 434
>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=32.71 E-value=2e+02 Score=30.04 Aligned_cols=81 Identities=12% Similarity=0.133 Sum_probs=50.9
Q ss_pred CCcEEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHH
Q 047109 134 KWKHVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLF 211 (808)
Q Consensus 134 ~w~~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l 211 (808)
.-+.++++..+ +.|.. ...+.+.+.+.+.|..+..... . .+.......++.+.+.+.|.+|+..........+
T Consensus 59 ~~~~Igvi~~~~~~~~~~-~~~~~i~~~~~~~gy~~~i~~~-~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~ 133 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYA-RIAKELEQQCREAGYQLLIACS-D---DNPDQEKVVIENLLARQVDALIVASCMPPEDAYY 133 (327)
T ss_pred CCceEEEEeCCCCCccHH-HHHHHHHHHHHHCCCEEEEEeC-C---CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHH
Confidence 34678888864 34444 6788889999999998765422 1 1333445567777777888888765332123445
Q ss_pred HHHHHcCC
Q 047109 212 LNAKKLGM 219 (808)
Q Consensus 212 ~~a~~~gl 219 (808)
+.+.+.+.
T Consensus 134 ~~l~~~~i 141 (327)
T TIGR02417 134 QKLQNEGL 141 (327)
T ss_pred HHHHhcCC
Confidence 66666653
No 435
>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=32.59 E-value=1.1e+02 Score=31.52 Aligned_cols=77 Identities=9% Similarity=0.209 Sum_probs=49.6
Q ss_pred EEEEEec---CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCC--CCeEEEEEcCHHHHHHHHH
Q 047109 138 VILIYED---NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSS--ETKVFVVHMSHALASHLFL 212 (808)
Q Consensus 138 v~ii~~d---~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~l~ 212 (808)
|+++..+ +.|.. ...+.+.+.+++.|.++..... ..+.+.-...++.+.+. ++|.||+..........++
T Consensus 2 Igvi~~~~~~~~~~~-~~~~gi~~~~~~~g~~v~~~~~----~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~ 76 (305)
T cd06324 2 VVFLNPGKSDEPFWN-SVARFMQAAADDLGIELEVLYA----ERDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLR 76 (305)
T ss_pred eEEecCCCCCCcHHH-HHHHHHHHHHHhcCCeEEEEeC----CCCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHH
Confidence 5666643 33444 5678888889999998765422 22334455677777777 8999888654333445667
Q ss_pred HHHHcCC
Q 047109 213 NAKKLGM 219 (808)
Q Consensus 213 ~a~~~gl 219 (808)
.+.+.|.
T Consensus 77 ~~~~~gi 83 (305)
T cd06324 77 LAEGAGV 83 (305)
T ss_pred HHHhCCC
Confidence 7777764
No 436
>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=32.32 E-value=1.2e+02 Score=32.19 Aligned_cols=78 Identities=6% Similarity=0.011 Sum_probs=52.7
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+.+.++.++.+++.++++...+ . ...+.+.+.+++.+..+ +. .+.. .++.+.....++.+++.++|.||-.+
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~-~-~~~~~v~~~l~~~~~~~-~~-~~~~-~p~~~~v~~~~~~~~~~~~d~IIaiG 85 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLA-T-KLAERVASALGDRVAGT-FD-GAVM-HTPVEVTEAAVAAAREAGADGIVAIG 85 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHH-H-HHHHHHHHHhccCCcEE-eC-CCCC-CCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 3567778888999999998754432 2 25567777787765432 22 2222 34566788888888888999998876
Q ss_pred CHH
Q 047109 203 SHA 205 (808)
Q Consensus 203 ~~~ 205 (808)
.+.
T Consensus 86 GGs 88 (337)
T cd08177 86 GGS 88 (337)
T ss_pred CcH
Confidence 553
No 437
>cd08446 PBP2_Chlorocatechol The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of LysR-type regulators CbnR, ClcR and TfdR, which are involved in the regulation of chlorocatechol breakdown. The chlorocatechol-degradative pathway is often found in bacteria that can use chlorinated aromatic compounds as carbon and energy sources. CbnR is found in the 3-chlorobenzoate degradative bacterium Ralstonia eutropha NH9 and forms a tetramer. CbnR activates the expression of the cbnABCD genes, which are responsible for the degradation of chlorocatechol converted from 3-chlorobenzoate and are transcribed divergently from cbnR. In soil bacterium Pseudomonas putida, the 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR for activation. TfdR is involved in the activation of tf
Probab=32.21 E-value=1.9e+02 Score=26.80 Aligned_cols=70 Identities=9% Similarity=0.096 Sum_probs=46.6
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.++.- .+++++... .+..+...|.+|++|+++.... .....+. +.++....++++++
T Consensus 15 ~l~~~i~~~~~~~P-~v~l~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~ 80 (198)
T cd08446 15 TVPRLLRAFLTARP-DVTVSLHNM---------TKDEQIEALRAGRIHIGFGRFY---PVEPDIA-VENVAQERLYLAVP 80 (198)
T ss_pred HHHHHHHHHHHHCC-CeEEEEeeC---------CHHHHHHHHHCCCccEEEEecC---CCCCCce-eEEeeeccEEEEEe
Confidence 44677888887764 356665543 5678999999999999985321 1222232 45677888888888
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 81 ~~~p 84 (198)
T cd08446 81 KSHP 84 (198)
T ss_pred CCCC
Confidence 7643
No 438
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=32.20 E-value=5.7e+02 Score=26.17 Aligned_cols=71 Identities=11% Similarity=0.070 Sum_probs=44.6
Q ss_pred eHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEec
Q 047109 448 CVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVPT 527 (808)
Q Consensus 448 ~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~~ 527 (808)
..+++..+.++.- .+++.+... +...++..|.+|++|++++.... ......+. ..++....+++++++
T Consensus 107 l~~~l~~~~~~~p-~i~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~l~-~~~l~~~~~~~v~~~ 174 (300)
T PRK11074 107 TRQLIVDFYRHFD-DVELIIRQE---------VFNGVWDALADGRVDIAIGATRA-IPVGGRFA-FRDMGMLSWACVVSS 174 (300)
T ss_pred HHHHHHHHHHhCC-CceEEEEeh---------hhhHHHHHHHCCCCCEEEecCcc-CCcccccc-eeecccceEEEEEcC
Confidence 4577777777665 245555442 44788999999999999863211 11112233 356777788888876
Q ss_pred CCC
Q 047109 528 DRN 530 (808)
Q Consensus 528 ~~~ 530 (808)
..+
T Consensus 175 ~hp 177 (300)
T PRK11074 175 DHP 177 (300)
T ss_pred CCc
Confidence 643
No 439
>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=32.07 E-value=2e+02 Score=25.50 Aligned_cols=61 Identities=11% Similarity=-0.009 Sum_probs=40.2
Q ss_pred CcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC-HHHHHHHHHHHH
Q 047109 151 NIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS-HALASHLFLNAK 215 (808)
Q Consensus 151 ~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~~l~~a~ 215 (808)
.....+...+++.|.++.....++. +...+.+.+++..+. +|+|+..+. +....++..++.
T Consensus 19 ~n~~~l~~~l~~~G~~v~~~~~v~D---d~~~i~~~i~~~~~~-~DlvittGG~g~g~~D~t~~ai 80 (133)
T cd00758 19 TNGPALEALLEDLGCEVIYAGVVPD---DADSIRAALIEASRE-ADLVLTTGGTGVGRRDVTPEAL 80 (133)
T ss_pred chHHHHHHHHHHCCCEEEEeeecCC---CHHHHHHHHHHHHhc-CCEEEECCCCCCCCCcchHHHH
Confidence 4566778889999998877655544 556788888777644 898888643 333444444444
No 440
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=31.70 E-value=1.7e+02 Score=30.73 Aligned_cols=80 Identities=9% Similarity=0.083 Sum_probs=55.4
Q ss_pred CcEEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHH-HHHHH
Q 047109 135 WKHVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHAL-ASHLF 211 (808)
Q Consensus 135 w~~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~l 211 (808)
-.+++++..+ +.|.. ...+.+.+++++.|+.+..... ..+.......++.+.+.++|.+|+...... ....+
T Consensus 25 ~~~Ig~i~~~~~~~f~~-~~~~gi~~~a~~~g~~l~i~~~----~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l 99 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQ-KDRDIFVKKAESLGAKVFVQSA----NGNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVI 99 (330)
T ss_pred CceEEEEecCCCchHHH-HHHHHHHHHHHHcCCEEEEECC----CCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHH
Confidence 4678888753 45666 7888999999999999775422 224455667788888889999998764332 34556
Q ss_pred HHHHHcCC
Q 047109 212 LNAKKLGM 219 (808)
Q Consensus 212 ~~a~~~gl 219 (808)
+.+.+.+.
T Consensus 100 ~~~~~~~i 107 (330)
T PRK10355 100 KEAKQEGI 107 (330)
T ss_pred HHHHHCCC
Confidence 67766663
No 441
>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=31.60 E-value=1.3e+02 Score=30.22 Aligned_cols=80 Identities=11% Similarity=0.131 Sum_probs=49.9
Q ss_pred EEEEEEecC--CccccCcHHHHHHhhhcC---CcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH-HHHHH
Q 047109 137 HVILIYEDN--TWGSDNIIPYLFDSLHDN---DIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA-LASHL 210 (808)
Q Consensus 137 ~v~ii~~d~--~~g~~~~~~~~~~~~~~~---g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~ 210 (808)
||+++..+. .|-. ...+.+.+.+++. |..+.... ... ..+.+.....++++...+.|.||+..... .....
T Consensus 1 ~Ig~i~~~~~~~~~~-~~~~~i~~~~~~~~~~g~~~~l~i-~~~-~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRA-QMLDEFKAQAKELKKAGLISEFIV-TSA-DGDVAQQIADIRNLIAQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHH-HHHHHHHHHHHhhhccCCeeEEEE-ecC-CCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHH
Confidence 466666442 3444 5677888888888 87432221 122 22445567788888878999999976443 33446
Q ss_pred HHHHHHcCC
Q 047109 211 FLNAKKLGM 219 (808)
Q Consensus 211 l~~a~~~gl 219 (808)
+..+.+.|.
T Consensus 78 l~~~~~~~i 86 (272)
T cd06300 78 IEEACEAGI 86 (272)
T ss_pred HHHHHHCCC
Confidence 677777664
No 442
>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=31.53 E-value=1.7e+02 Score=29.12 Aligned_cols=75 Identities=15% Similarity=0.157 Sum_probs=48.3
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++.++ +.|-. ...+.+.+.+++.|+.+..... .... +....++++.+.+.|.+++....... ..++.+.
T Consensus 2 I~~i~~~~~~~~~~-~~~~~i~~~~~~~g~~~~~~~~----~~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~ 74 (266)
T cd06278 2 IGVVVADLDNPFYS-ELLEALSRALQARGYQPLLINT----DDDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECR 74 (266)
T ss_pred EEEEeCCCCCchHH-HHHHHHHHHHHHCCCeEEEEcC----CCCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 4555543 34555 6778888999999998765422 1122 56667777777889988886543222 3477777
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.|.
T Consensus 75 ~~~i 78 (266)
T cd06278 75 RNGI 78 (266)
T ss_pred hcCC
Confidence 7664
No 443
>cd08452 PBP2_AlsR The C-terminal substrate binding domain of LysR-type trnascriptional regulator AlsR, which regulates acetoin formation under stationary phase growth conditions; contains the type 2 periplasmic binding fold. AlsR is responsible for activating the expression of the acetoin operon (alsSD) in response to inducing signals such as glucose and acetate. Like many other LysR family proteins, AlsR is transcribed divergently from the alsSD operon. The alsS gene encodes acetolactate synthase, an enzyme involved in the production of acetoin in cells of stationary-phase. AlsS catalyzes the conversion of two pyruvate molecules to acetolactate and carbon dioxide. Acetolactate is then converted to acetoin at low pH by acetolactate decarboxylase which encoded by the alsD gene. Acetoin is an important physiological metabolite excreted by many microorganisms grown on glucose or other fermentable carbon sources. This substrate-binding domain shows significant homology to the type 2 perip
Probab=31.28 E-value=2.2e+02 Score=26.49 Aligned_cols=70 Identities=10% Similarity=0.097 Sum_probs=46.0
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEEe
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIVP 526 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv~ 526 (808)
+-.+++..+.++.- ++++++... ....+...|.+|++|+++.. .......+. +.++....+.++++
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~---~~~~~~~~~-~~~l~~~~~~lv~~ 79 (197)
T cd08452 14 FLPPIVREYRKKFP-SVKVELREL---------SSPDQVEELLKGRIDIGFLH---PPIQHTALH-IETVQSSPCVLALP 79 (197)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEec---------ChHHHHHHHHCCCccEEEee---CCCCCCCee-EEEeeeccEEEEEe
Confidence 34578888877764 345555543 45789999999999999853 222223343 35677778888887
Q ss_pred cCCC
Q 047109 527 TDRN 530 (808)
Q Consensus 527 ~~~~ 530 (808)
+..+
T Consensus 80 ~~hp 83 (197)
T cd08452 80 KQHP 83 (197)
T ss_pred CCCc
Confidence 6543
No 444
>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=31.10 E-value=1.6e+02 Score=29.41 Aligned_cols=76 Identities=8% Similarity=0.086 Sum_probs=49.2
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
|+++.++ +.|-. .+.+.+.+.+++.|.++.... . ..+.....+.++.+.+.++|.|++....... ..++++.
T Consensus 2 igvi~p~~~~~~~~-~~~~gi~~~~~~~~~~~~~~~---~-~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (265)
T cd06285 2 IGVLVPRLTDTVMA-TMYEGIEEAAAERGYSTFVAN---T-GDNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELT 75 (265)
T ss_pred EEEEeCCCCCccHH-HHHHHHHHHHHHCCCEEEEEe---C-CCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHH
Confidence 5666654 34555 677888999999998875432 1 2233455567777888889988886543332 3467777
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.+.
T Consensus 76 ~~~i 79 (265)
T cd06285 76 RRGV 79 (265)
T ss_pred HcCC
Confidence 7664
No 445
>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=31.03 E-value=5.4e+02 Score=25.56 Aligned_cols=127 Identities=10% Similarity=0.045 Sum_probs=67.0
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 3 HVGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 3 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
+||.+.+........-..|+.-|+++.+. +.+.......+..+...+.+.+.++++. +..+|++.. + ..+..
T Consensus 122 ~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~ai~~~~-d-~~A~g 193 (260)
T cd06304 122 KVGFVGGMPIPEVNRFINGFAAGAKSVNP-----DITVLVIYTGSFFDPAKGKEAALALIDQ-GADVIFAAA-G-GTGPG 193 (260)
T ss_pred ceEEEeccccHHHHHHHHHHHHHHHHhCC-----CcEEEEEEecCccCcHHHHHHHHHHHhC-CCCEEEEcC-C-CCchH
Confidence 46777543222233345677888776542 2222223333333456677888888876 458888865 3 34444
Q ss_pred HHHhcCCCCccEEeccCCCCccccc-ceeeeccCCchhhHHHHHHHHHHHhcCCcEEEE
Q 047109 83 LAEIGSKAKIPVISLYATLPSSLTS-YSIQIDQDDEASQSQAKGIADLIRVFKWKHVIL 140 (808)
Q Consensus 83 ~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~p~~~~~~~~~~a~~~ll~~~~w~~v~i 140 (808)
+...+.+.++-++++..+....... .+.....+.. ..+..+++.+..-.|+..--
T Consensus 194 v~~al~~~gv~vigfD~~~~~~~~~p~lttv~~~~~---~~~~~~~~~~~~~~~~~~~~ 249 (260)
T cd06304 194 VIQAAKEAGVYAIGVDSDQSALAPDAVLTSAVKNVD---VAVYDAIKAVLDGTWKGGVY 249 (260)
T ss_pred HHHHHHHcCCEEEeecCchhhhcCccEEEEEEeccH---HHHHHHHHHHHcCCCCCcce
Confidence 4444445567777765432110111 2233334444 56666666666666654433
No 446
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=31.01 E-value=3.9e+02 Score=23.89 Aligned_cols=70 Identities=9% Similarity=0.060 Sum_probs=45.2
Q ss_pred cHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc----CHHHHHHHHHHHHHcCCCCCCeEEE
Q 047109 152 IIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM----SHALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~----~~~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
....+...++.+|+.+.+--. ....+++ +..+.+.++++|.+.+ ....+..++++.++.+. ++..++
T Consensus 19 G~~iv~~~lr~~G~eVi~LG~----~vp~e~i---~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~~L~~~~~--~~~~i~ 89 (137)
T PRK02261 19 GNKILDRALTEAGFEVINLGV----MTSQEEF---IDAAIETDADAILVSSLYGHGEIDCRGLREKCIEAGL--GDILLY 89 (137)
T ss_pred HHHHHHHHHHHCCCEEEECCC----CCCHHHH---HHHHHHcCCCEEEEcCccccCHHHHHHHHHHHHhcCC--CCCeEE
Confidence 456777888999999876321 1233344 4455557899988864 33467888888888876 334444
Q ss_pred EeC
Q 047109 228 VTA 230 (808)
Q Consensus 228 ~~~ 230 (808)
+++
T Consensus 90 vGG 92 (137)
T PRK02261 90 VGG 92 (137)
T ss_pred EEC
Confidence 443
No 447
>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=30.90 E-value=1.2e+02 Score=27.64 Aligned_cols=82 Identities=13% Similarity=0.173 Sum_probs=60.1
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
++.+...+++++-+++.++- |..-.. .+.+.+.+.+.-.|+++... +.++....+.+....+.++++++-
T Consensus 14 GQV~~~W~~~~~~~~IiVvd-D~~A~D-~~~k~~l~ma~P~gvk~~i~--------sv~~a~~~l~~~~~~~~~v~ii~k 83 (151)
T PF03830_consen 14 GQVATAWVKKLNANRIIVVD-DEVAND-PFQKMILKMAAPAGVKLSIF--------SVEEAIEKLKKPEYSKKRVLIIVK 83 (151)
T ss_dssp TTHHHHHHHHHTTSEEEEE--HHHHHS-HHHHHHHHHTSHTTSEEEEE---------HHHHHHHHCGGGGTTEEEEEEES
T ss_pred eeeeEEEhhhcccCEEEEEC-HHHhcC-HHHHHHHHHhhcCCCceEEE--------EHHHHHHHHHhcccCCceEEEEEC
Confidence 45677888999999998863 433333 67777777777789887653 345777777777767889999999
Q ss_pred CHHHHHHHHHHH
Q 047109 203 SHALASHLFLNA 214 (808)
Q Consensus 203 ~~~~~~~~l~~a 214 (808)
++.++..++++-
T Consensus 84 ~~~d~~~l~~~g 95 (151)
T PF03830_consen 84 SPEDALRLVEAG 95 (151)
T ss_dssp SHHHHHHHHHTT
T ss_pred CHHHHHHHHhcC
Confidence 999988887643
No 448
>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=30.87 E-value=1.5e+02 Score=29.57 Aligned_cols=76 Identities=16% Similarity=0.148 Sum_probs=48.1
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++..+ +.|-. .+.+.+.+.+++.|..+..... ..+.+.....+..+...+.|.|++.....+.. .++.+.
T Consensus 2 igvi~~~~~~~~~~-~~~~~~~~~~~~~g~~~~~~~~----~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~-~~~~~~ 75 (264)
T cd06274 2 IGLIIPDLENRSFA-RIAKRLEALARERGYQLLIACS----DDDPETERETVETLIARQVDALIVAGSLPPDD-PYYLCQ 75 (264)
T ss_pred EEEEeccccCchHH-HHHHHHHHHHHHCCCEEEEEeC----CCCHHHHHHHHHHHHHcCCCEEEEcCCCCchH-HHHHHH
Confidence 4555544 34444 5678888889999988765422 12334455677778888899888875433222 266666
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.|.
T Consensus 76 ~~~i 79 (264)
T cd06274 76 KAGL 79 (264)
T ss_pred hcCC
Confidence 6664
No 449
>PRK09701 D-allose transporter subunit; Provisional
Probab=30.82 E-value=1.7e+02 Score=30.45 Aligned_cols=84 Identities=10% Similarity=0.027 Sum_probs=55.4
Q ss_pred cCCcEEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH-HHHH
Q 047109 133 FKWKHVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA-LASH 209 (808)
Q Consensus 133 ~~w~~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~ 209 (808)
+--+.++++..+ +.|-. ...+.+.+.+++.|+++..... +. ..+.+.-...++++.+.++|.||+..... ....
T Consensus 22 ~~~~~Igvi~~~~~~~f~~-~~~~gi~~~a~~~g~~v~~~~~-~~-~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 98 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFWV-DMKKGIEDEAKTLGVSVDIFAS-PS-EGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVM 98 (311)
T ss_pred ccCCeEEEEeCCCCCHHHH-HHHHHHHHHHHHcCCeEEEecC-CC-CCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHH
Confidence 445699999965 34555 6788888999999988765321 11 11334556677777778899998876443 2334
Q ss_pred HHHHHHHcCC
Q 047109 210 LFLNAKKLGM 219 (808)
Q Consensus 210 ~l~~a~~~gl 219 (808)
.+.++.+.|+
T Consensus 99 ~l~~~~~~gi 108 (311)
T PRK09701 99 PVARAWKKGI 108 (311)
T ss_pred HHHHHHHCCC
Confidence 4666777664
No 450
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=30.77 E-value=41 Score=36.48 Aligned_cols=62 Identities=13% Similarity=0.221 Sum_probs=46.2
Q ss_pred HHHhhheeeecccCCCCCCCCCcchhhHHHHHHHHhhhcC--ccccccchhhHHHHHHHHHHHHHHHH
Q 047109 554 LTGFVVWIIERPINDEFQGSPAHQFGMIFWYSFSTLVFSQ--REKLLSNWSKFVVIVWVFVVLILTSS 619 (808)
Q Consensus 554 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~p~s~s~Ril~~~w~~~~lil~~~ 619 (808)
+.+.++++.++-.+.. ...++.-++|+...+|.--| ...|++..+|++...=+++++++.+.
T Consensus 358 iFStlvY~~Ek~~~~~----~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlAl 421 (477)
T KOG3713|consen 358 IFSTLVYFAEKDEPDT----KFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLAL 421 (477)
T ss_pred HHHHHHHHhhhcCCCC----CCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhhc
Confidence 4445566666654332 25688899999998887655 44799999999999999998887654
No 451
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=30.65 E-value=2e+02 Score=26.92 Aligned_cols=47 Identities=15% Similarity=0.283 Sum_probs=28.8
Q ss_pred CcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEE
Q 047109 151 NIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVH 201 (808)
Q Consensus 151 ~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 201 (808)
.....+...+.+.|+++.....++. +.+.+...+.++.+ .+|+||..
T Consensus 19 ~n~~~l~~~L~~~G~~v~~~~~v~D---d~~~I~~~l~~~~~-~~dlVItt 65 (170)
T cd00885 19 TNAAFLAKELAELGIEVYRVTVVGD---DEDRIAEALRRASE-RADLVITT 65 (170)
T ss_pred hHHHHHHHHHHHCCCEEEEEEEeCC---CHHHHHHHHHHHHh-CCCEEEEC
Confidence 3455666777777777766555543 44556666666553 46666664
No 452
>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=30.64 E-value=2.1e+02 Score=26.78 Aligned_cols=71 Identities=6% Similarity=0.046 Sum_probs=46.8
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.+++- ++++++... +.+.++..|.+|++|+++... ......++ +.+.....+.+++
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~~---------~~~~l~~~l~~g~~D~~~~~~---~~~~~~~~-~~~l~~~~~~lv~ 79 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTHM---------TKDEQVEGLLAGTIHVGFSRF---FPRHPGIE-IVNIAQEDLYLAV 79 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEEC---------CHHHHHHHHHcCCceEEEecC---CCCCCceE-EEEEeeccEEEEe
Confidence 345677788877763 345555443 568999999999999998532 11222333 3567778888888
Q ss_pred ecCCC
Q 047109 526 PTDRN 530 (808)
Q Consensus 526 ~~~~~ 530 (808)
++..+
T Consensus 80 ~~~h~ 84 (198)
T cd08486 80 HRSQS 84 (198)
T ss_pred cCCCc
Confidence 86543
No 453
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=30.32 E-value=5.3e+02 Score=25.20 Aligned_cols=94 Identities=17% Similarity=0.165 Sum_probs=53.1
Q ss_pred cCCceeeecCCcHHHhhhccCCCcccccccCCHHHHHHHHhcCCCCCceEEEEechhhHHHHHhcCCCceEEeccccccc
Q 047109 637 SRDNIGSQLGSFVPGALSNLNFKDSRLKKYNSAEEFANALSKGSKNGGISAIIDEIPYIKAFLAKYSTDYTMIAPNYTTT 716 (808)
Q Consensus 637 ~~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 716 (808)
.+.+|++..-.....|+.+.+.+ .+++.....-|. +-..|- .|+++.--.+..-+-++ +|.++...+ .
T Consensus 114 ~~~rIATkYp~it~~yf~~~gv~-~~iv~l~GsvE~--aP~~Gl----AD~IvDivsTG~TLr~N---gL~~ie~Il--~ 181 (215)
T PRK01686 114 PRLRVATKYPNIARRYFAEKGEQ-VEIIKLYGSVEL--APLVGL----ADAIVDIVETGNTLRAN---GLVEVEEIM--D 181 (215)
T ss_pred CCCEEEeCCHHHHHHHHHHcCCe-EEEEECcCceee--ccccCC----ccEEEEeecChHHHHHC---cCEEeeEEE--e
Confidence 46677776666667788766653 344433333232 122233 56665544444444333 567775444 5
Q ss_pred cceEEEEeCCCC--ChHHHHHHHHhhhh
Q 047109 717 SGFGFVFQKGSP--LVHDISRAIAKLRE 742 (808)
Q Consensus 717 ~~~~~~~~k~sp--~~~~~~~~i~~l~e 742 (808)
....+..++.+. -.+.++..+.+|++
T Consensus 182 s~A~LI~n~~s~~~k~~~i~~l~~~l~~ 209 (215)
T PRK01686 182 ISARLIVNRASLKLKREEIRPLIEKLRE 209 (215)
T ss_pred eEEEEEEecccchhhHHHHHHHHHHHHH
Confidence 666777788765 33667777777754
No 454
>cd03522 MoeA_like MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is unknown.
Probab=30.27 E-value=2.6e+02 Score=29.16 Aligned_cols=103 Identities=13% Similarity=0.159 Sum_probs=64.1
Q ss_pred ceeeeccCCchhhHHHHHHHHHHH--------hcCCcEEEEEEecCCc--cc--cCcHHHHHHhhhcCCcEEEEEEecCC
Q 047109 108 YSIQIDQDDEASQSQAKGIADLIR--------VFKWKHVILIYEDNTW--GS--DNIIPYLFDSLHDNDIDIARRITISM 175 (808)
Q Consensus 108 ~~~r~~p~~~~~~~~~~a~~~ll~--------~~~w~~v~ii~~d~~~--g~--~~~~~~~~~~~~~~g~~i~~~~~~~~ 175 (808)
--+|..|-.- |+...+....++. -|.-.+++++...++- |. +.....+...+++.|..+.....++.
T Consensus 125 A~~riiPl~v-~~~~~~~a~~~~~~~gi~~V~v~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~D 203 (312)
T cd03522 125 ATVKIIPLAV-PEALVERAEALARDGPLLRVAPFRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVPH 203 (312)
T ss_pred EEEEEeeeec-CHHHHHHHHHHHHhCCCcEEEecCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcCC
Confidence 4477777543 1122333333332 3556689999865532 22 24566788889999999888777665
Q ss_pred CCCChHHHHHHHHHhcCCCCeEEEEEcCH-HHHHHHHHHH
Q 047109 176 SSNTDDQVIEKLSMLKSSETKVFVVHMSH-ALASHLFLNA 214 (808)
Q Consensus 176 ~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~l~~a 214 (808)
+.+.+...+.++.+.++|+||+.+.. .+...+..+|
T Consensus 204 ---d~~~I~~ai~~~~~~g~DlIItTGGtsvg~~D~tp~A 240 (312)
T cd03522 204 ---DEAAIAAAIAEALEAGAELLILTGGASVDPDDVTPAA 240 (312)
T ss_pred ---CHHHHHHHHHHHhcCCCCEEEEeCCcccCCcchHHHH
Confidence 56678888888776668998886433 3344444444
No 455
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=30.20 E-value=1.6e+02 Score=31.20 Aligned_cols=81 Identities=4% Similarity=-0.031 Sum_probs=52.6
Q ss_pred CcEEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHH-HHHHH
Q 047109 135 WKHVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHAL-ASHLF 211 (808)
Q Consensus 135 w~~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~l 211 (808)
-+.++++..+ +.|.. ...+.+.+.+++.|.++.....-.. .+.......++.+.+.++|.||+.....+ ....+
T Consensus 46 t~~Igvv~p~~~~~f~~-~~~~gi~~aa~~~G~~l~i~~~~~~--~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l 122 (343)
T PRK10936 46 AWKLCALYPHLKDSYWL-SVNYGMVEEAKRLGVDLKVLEAGGY--YNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL 122 (343)
T ss_pred CeEEEEEecCCCchHHH-HHHHHHHHHHHHhCCEEEEEcCCCC--CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH
Confidence 4688888865 34444 5778888999999988776432111 12334456777777788998888764433 33445
Q ss_pred HHHHHcCC
Q 047109 212 LNAKKLGM 219 (808)
Q Consensus 212 ~~a~~~gl 219 (808)
++.+.|.
T Consensus 123 -~~~~~gi 129 (343)
T PRK10936 123 -ELQAANI 129 (343)
T ss_pred -HHHHCCC
Confidence 6677664
No 456
>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=29.91 E-value=2.5e+02 Score=28.16 Aligned_cols=77 Identities=14% Similarity=0.031 Sum_probs=49.2
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC-HHH---HHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS-HAL---ASHLF 211 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~---~~~~l 211 (808)
++++..+ +.|-. .+.+.+.+.+++.|..+..... ..+.+...+.++.+.+.++|.+++... ..+ ....+
T Consensus 2 Igvi~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~----~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i 76 (273)
T cd06292 2 VGLLVPELSNPIFP-AFAEAIEAALAQYGYTVLLCNT----YRGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHY 76 (273)
T ss_pred EEEEeCCCcCchHH-HHHHHHHHHHHHCCCEEEEEeC----CCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHH
Confidence 4566543 34555 6788999999999988764321 223445567788888888998888642 222 23445
Q ss_pred HHHHHcCC
Q 047109 212 LNAKKLGM 219 (808)
Q Consensus 212 ~~a~~~gl 219 (808)
.++.+.|.
T Consensus 77 ~~~~~~~i 84 (273)
T cd06292 77 ERLAERGL 84 (273)
T ss_pred HHHHhCCC
Confidence 66666664
No 457
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=29.88 E-value=3.5e+02 Score=26.37 Aligned_cols=88 Identities=16% Similarity=0.164 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHhc--CCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEE
Q 047109 121 SQAKGIADLIRVF--KWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVF 198 (808)
Q Consensus 121 ~~~~a~~~ll~~~--~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 198 (808)
.-++.+++++... .-.++.++. +. .....+.+.+.+.|..+.....+.. .... +.....+.+.....+ +
T Consensus 106 ~~~~~L~~~i~~~~~~~~~il~~~--g~----~~~~~l~~~L~~~g~~v~~~~~Y~~-~~~~-~~~~~~~~l~~~~~~-~ 176 (239)
T cd06578 106 GDSEGLLELLELQDGKGKRILRPR--GG----RAREDLAEALRERGAEVDEVEVYRT-VPPD-LDAELLELLEEGAID-A 176 (239)
T ss_pred cCHHHHHHHHHhcCCCCCEEEEEc--Cc----chhHHHHHHHHHCCCEEEEEEEEEE-ECCC-CcHHHHHHHHcCCCc-E
Confidence 3467888888664 334444443 32 3346788888888988776544433 1111 112233334433333 6
Q ss_pred EEEcCHHHHHHHHHHHHHc
Q 047109 199 VVHMSHALASHLFLNAKKL 217 (808)
Q Consensus 199 il~~~~~~~~~~l~~a~~~ 217 (808)
+++.++..+..++....+.
T Consensus 177 iiftS~~~v~~f~~~~~~~ 195 (239)
T cd06578 177 VLFTSPSTVRNLLELLGKE 195 (239)
T ss_pred EEEeCHHHHHHHHHHHhhh
Confidence 7888888889998888764
No 458
>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=29.64 E-value=1.4e+02 Score=29.98 Aligned_cols=77 Identities=13% Similarity=0.075 Sum_probs=48.8
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHH-HHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHAL-ASHLFLNA 214 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~l~~a 214 (808)
++++.++ +.|-. ...+.+.+.+++.|+++... .. ..+.+.-...++++.+.++|.||+.....+ ....++.+
T Consensus 2 i~vi~~~~~~~~~~-~~~~~i~~~~~~~g~~~~~~---~~-~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~ 76 (277)
T cd06319 2 IAYIVSDLRIPFWQ-IMGRGVKSKAKALGYDAVEL---SA-ENSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLA 76 (277)
T ss_pred eEEEeCCCCchHHH-HHHHHHHHHHHhcCCeEEEe---cC-CCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHH
Confidence 5666643 34545 67788888899999887643 21 123334456677777788998887654333 34566777
Q ss_pred HHcCC
Q 047109 215 KKLGM 219 (808)
Q Consensus 215 ~~~gl 219 (808)
.+.|.
T Consensus 77 ~~~~i 81 (277)
T cd06319 77 AQAKI 81 (277)
T ss_pred HHCCC
Confidence 77664
No 459
>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=29.53 E-value=1.4e+02 Score=30.10 Aligned_cols=80 Identities=8% Similarity=-0.044 Sum_probs=49.3
Q ss_pred EEEEEEecC--CccccCcHHHHHHhhhcCCcEEEEEEec-CCCCCChHHHHHHHHHhcCCCCeEEEEEcCH-HHHHHHHH
Q 047109 137 HVILIYEDN--TWGSDNIIPYLFDSLHDNDIDIARRITI-SMSSNTDDQVIEKLSMLKSSETKVFVVHMSH-ALASHLFL 212 (808)
Q Consensus 137 ~v~ii~~d~--~~g~~~~~~~~~~~~~~~g~~i~~~~~~-~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~l~ 212 (808)
+++++..+. .|-. ...+.+.+++++.|.++...... +. ..+.......++.+.+ +.|.+++.... ......++
T Consensus 1 ~ig~v~~~~~~~~~~-~~~~~i~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~ 77 (275)
T cd06307 1 RLGFLLPKGSNAFYR-ELAAALEAAAAAFPDARIRVRIHFVE-SFDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVA 77 (275)
T ss_pred CeEEEeCCCCChHHH-HHHHHHHHHHhhhhccCceEEEEEcc-CCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHH
Confidence 467777653 3444 56788888888887654432221 11 1133445567777777 89988876544 33456788
Q ss_pred HHHHcCC
Q 047109 213 NAKKLGM 219 (808)
Q Consensus 213 ~a~~~gl 219 (808)
++.+.|.
T Consensus 78 ~~~~~~i 84 (275)
T cd06307 78 RLAAAGV 84 (275)
T ss_pred HHHHCCC
Confidence 8888764
No 460
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=29.46 E-value=2e+02 Score=30.68 Aligned_cols=75 Identities=15% Similarity=0.074 Sum_probs=51.1
Q ss_pred HHHHHHHHhcCC-cEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 124 KGIADLIRVFKW-KHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 124 ~a~~~ll~~~~w-~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
..+.++++.++. +++.++++...+. ...+.+.+.+++.| .+... +.. ..+.+.....++.+++.++|+||-.+
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~~--~~~~~l~~~l~~~~-~~~~~--~~~-~~t~~~v~~~~~~~~~~~~d~IIaiG 95 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTKK--IAGDRVEENLEDAG-DVEVV--IVD-EATMEEVEKVEEKAKDVNAGFLIGVG 95 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHHH--HHHHHHHHHHHhcC-CeeEE--eCC-CCCHHHHHHHHHHhhccCCCEEEEeC
Confidence 456667777775 7888888665543 24567888888777 44322 323 34667788888888888899988776
Q ss_pred CH
Q 047109 203 SH 204 (808)
Q Consensus 203 ~~ 204 (808)
.+
T Consensus 96 GG 97 (350)
T PRK00843 96 GG 97 (350)
T ss_pred Cc
Confidence 54
No 461
>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=29.35 E-value=1.6e+02 Score=30.32 Aligned_cols=77 Identities=13% Similarity=0.058 Sum_probs=47.7
Q ss_pred EEEEec--CCccccCcHHHHHHhhhcCCc-EEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH-HHHHHHHHHH
Q 047109 139 ILIYED--NTWGSDNIIPYLFDSLHDNDI-DIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH-ALASHLFLNA 214 (808)
Q Consensus 139 ~ii~~d--~~~g~~~~~~~~~~~~~~~g~-~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~l~~a 214 (808)
+++..+ +.|-. ...+.+.+.+++.|. .+.... +. ..+.......++.+.+.++|.|++.... +.....++++
T Consensus 2 gvi~~~~~~~f~~-~~~~gi~~~a~~~g~~~~i~~~--~~-~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~ 77 (302)
T TIGR02637 2 GLVVKSLGNPFFE-AANKGAEEAAKELGSVYIIYTG--PT-GTTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKA 77 (302)
T ss_pred EEEeccCCCHHHH-HHHHHHHHHHHHhCCeeEEEEC--CC-CCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHH
Confidence 444433 34444 567888888999994 343321 11 1233455567788877889988887643 3445677888
Q ss_pred HHcCC
Q 047109 215 KKLGM 219 (808)
Q Consensus 215 ~~~gl 219 (808)
.+.|.
T Consensus 78 ~~~gi 82 (302)
T TIGR02637 78 MKRGI 82 (302)
T ss_pred HHCCC
Confidence 88774
No 462
>PRK10481 hypothetical protein; Provisional
Probab=29.22 E-value=4e+02 Score=26.23 Aligned_cols=67 Identities=9% Similarity=-0.045 Sum_probs=44.4
Q ss_pred CcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHH
Q 047109 135 WKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALA 207 (808)
Q Consensus 135 w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~ 207 (808)
-++++++....+. ..+..++.... |..+.....-|+ ....+.+....+.++..++|+|++.|.+-..
T Consensus 129 g~riGVitP~~~q----i~~~~~kw~~~-G~~v~~~~aspy-~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~ 195 (224)
T PRK10481 129 GHQVGVIVPVEEQ----LAQQAQKWQVL-QKPPVFALASPY-HGSEEELIDAGKELLDQGADVIVLDCLGYHQ 195 (224)
T ss_pred CCeEEEEEeCHHH----HHHHHHHHHhc-CCceeEeecCCC-CCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH
Confidence 4899999976642 33444444444 877665443333 3345578888888888999999998866543
No 463
>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=28.91 E-value=1.7e+02 Score=29.25 Aligned_cols=76 Identities=11% Similarity=0.007 Sum_probs=48.0
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++.++ +.|.. .+.+.+.+.+++.|.++.... . ..+.......++++.+.+.|.+++...... ...++.+.
T Consensus 2 i~vv~p~~~~~~~~-~~~~~i~~~~~~~g~~~~~~~---~-~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~l~ 75 (268)
T cd06273 2 IGAIVPTLDNAIFA-RVIQAFQETLAAHGYTLLVAS---S-GYDLDREYAQARKLLERGVDGLALIGLDHS-PALLDLLA 75 (268)
T ss_pred eEEEeCCCCCchHH-HHHHHHHHHHHHCCCEEEEec---C-CCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHH
Confidence 5666653 34445 677888899999998877531 1 223444556777777778888887644322 24455666
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06273 76 RRGV 79 (268)
T ss_pred hCCC
Confidence 6653
No 464
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=28.50 E-value=1.4e+02 Score=29.87 Aligned_cols=49 Identities=24% Similarity=0.374 Sum_probs=40.2
Q ss_pred cCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 150 DNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 150 ~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
+..++.+.+.|.+.|+++.....++. +.+++.+.++.+.+. +|+||+.+
T Consensus 20 dtNa~~la~~L~~~G~~v~~~~~VgD---~~~~I~~~l~~a~~r-~D~vI~tG 68 (255)
T COG1058 20 DTNAAFLADELTELGVDLARITTVGD---NPDRIVEALREASER-ADVVITTG 68 (255)
T ss_pred cchHHHHHHHHHhcCceEEEEEecCC---CHHHHHHHHHHHHhC-CCEEEECC
Confidence 46789999999999999998877765 667888888887765 99999853
No 465
>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=28.42 E-value=2.2e+02 Score=30.14 Aligned_cols=75 Identities=15% Similarity=0.085 Sum_probs=50.9
Q ss_pred HHHHHHHH-hcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 124 KGIADLIR-VFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 124 ~a~~~ll~-~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
..+.++++ ..+.+++.++++... .. ...+.+.+.+++.| .+... +.. ..+.+.....++.+++.++|+||-.+
T Consensus 13 ~~l~~~l~~~~~~~~~liv~d~~~-~~-~~~~~v~~~l~~~~-~~~~~--~~~-~~~~~~v~~~~~~~~~~~~d~iIaiG 86 (339)
T cd08173 13 EKIPNVLRDLLLGGRVLVVTGPTT-KS-IAGKKVEALLEDEG-EVDVV--IVE-DATYEEVEKVESSARDIGADFVIGVG 86 (339)
T ss_pred HHHHHHHHHhCCCCeEEEEECCch-HH-HHHHHHHHHHHhcC-CeEEE--EeC-CCCHHHHHHHHHHhhhcCCCEEEEeC
Confidence 34566676 456789999885443 23 46678888888887 44322 222 34667788888888888999988776
Q ss_pred CH
Q 047109 203 SH 204 (808)
Q Consensus 203 ~~ 204 (808)
.+
T Consensus 87 GG 88 (339)
T cd08173 87 GG 88 (339)
T ss_pred Cc
Confidence 54
No 466
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=28.37 E-value=6.7e+02 Score=25.77 Aligned_cols=98 Identities=11% Similarity=0.153 Sum_probs=59.7
Q ss_pred CeEEEEecCCChhHHHHHHHhcCCCCccEEeccCCCCccccc-ceeeec----cCCchhhHHHHHHHHHHHhc-------
Q 047109 66 DLQAIICTEMTPTGAHILAEIGSKAKIPVISLYATLPSSLTS-YSIQID----QDDEASQSQAKGIADLIRVF------- 133 (808)
Q Consensus 66 ~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~~~~~~~~ls~-~~~r~~----p~~~~~~~~~~a~~~ll~~~------- 133 (808)
-+.-++|+. ..+....++.++...++=....+.+... +++ +..++. |....-..+-.++.++.+.+
T Consensus 7 ~vitv~G~D-rpGIVa~Vt~~La~~g~NI~d~s~~~~~-~~g~F~m~i~v~~~~~~~~~~~L~~~L~~l~~~l~l~i~l~ 84 (286)
T PRK06027 7 YVLTLSCPD-RPGIVAAVSNFLYEHGGNIVDADQFVDP-ETGRFFMRVEFEGDGLIFNLETLRADFAALAEEFEMDWRLL 84 (286)
T ss_pred EEEEEECCC-CCcHHHHHHHHHHHCCCCEEEceeEEcC-CCCeEEEEEEEEeCCCCCCHHHHHHHHHHHHHHhCCEEEEc
Confidence 467788998 9999999999998888877776655443 444 333321 22220003334444444443
Q ss_pred ---CCcEEEEEEecCCccccCcHHHHHHhhhcC--CcEEEE
Q 047109 134 ---KWKHVILIYEDNTWGSDNIIPYLFDSLHDN--DIDIAR 169 (808)
Q Consensus 134 ---~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~--g~~i~~ 169 (808)
..++++++.+-. | ..++.+.+..+.. +.+|+.
T Consensus 85 ~~~~~~ri~vl~Sg~--g--snl~al~~~~~~~~~~~~i~~ 121 (286)
T PRK06027 85 DSAERKRVVILVSKE--D--HCLGDLLWRWRSGELPVEIAA 121 (286)
T ss_pred ccccCcEEEEEEcCC--C--CCHHHHHHHHHcCCCCcEEEE
Confidence 477999998666 4 4677777776664 344443
No 467
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=28.33 E-value=2.1e+02 Score=28.43 Aligned_cols=114 Identities=10% Similarity=0.090 Sum_probs=61.8
Q ss_pred CccEEeccCCCCcccccceee-eccCCchhhHHHHHHHHHHHhc--CCcEEEEEEecCCccccCcHHHHHHhhhcCCcEE
Q 047109 91 KIPVISLYATLPSSLTSYSIQ-IDQDDEASQSQAKGIADLIRVF--KWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDI 167 (808)
Q Consensus 91 ~iP~is~~~~~~~~ls~~~~r-~~p~~~~~~~~~~a~~~ll~~~--~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i 167 (808)
++|+++.+......+..+-++ ..|. . ..++.+++++... .-+++.++..+ ...+.+.+.+++.|..+
T Consensus 75 ~~~~~aVG~~Ta~~l~~~G~~~~~~~-~---~~~e~L~~~~~~~~~~~~~vL~~rg~------~~r~~l~~~L~~~G~~v 144 (240)
T PRK09189 75 ALPLFAVGEATAEAARELGFRHVIEG-G---GDGVRLAETVAAALAPTARLLYLAGR------PRAPVFEDRLAAAGIPF 144 (240)
T ss_pred CCeEEEEcHHHHHHHHHcCCCCCcCC-C---CCHHHHHHHHHHhcCCCCcEEEeccC------cccchhHHHHHhCCCee
Confidence 556666544333213332222 2333 3 4477888877542 44566666532 33367888999999887
Q ss_pred EEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHH
Q 047109 168 ARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKK 216 (808)
Q Consensus 168 ~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~ 216 (808)
.....|.. .....+-......+++.+.++| ++.++..+..|++....
T Consensus 145 ~~~~vY~~-~~~~~~~~~~~~~l~~~~~d~i-~f~S~~~~~~f~~~~~~ 191 (240)
T PRK09189 145 RVAECYDM-LPVMYSPATLSAILGGAPFDAV-LLYSRVAARRFFALMRL 191 (240)
T ss_pred EEEEEEEe-ecCCCChHHHHHHHhcCCCCEE-EEeCHHHHHHHHHHHhh
Confidence 66544432 1111122233444555556654 55557778888887754
No 468
>PF08173 YbgT_YccB: Membrane bound YbgT-like protein; InterPro: IPR012994 This family contains a set of membrane proteins, typically 33 amino acids long. The family has no known function, but the protein is found in the operon CydAB in Escherichia coli. Members have a consensus motif (MWYFXW), which is rich in aromatic residues. The protein forms a single membrane-spanning helix. This family seems to be restricted to proteobacteria [].
Probab=28.24 E-value=1.5e+02 Score=18.33 Aligned_cols=22 Identities=9% Similarity=0.046 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 047109 783 FLITGISSTLALVAFLVSSIHK 804 (808)
Q Consensus 783 f~ll~~g~~la~~vf~~E~~~~ 804 (808)
++.++.|+++|+.+-++--++.
T Consensus 3 YfaWilG~~lA~~~~i~~a~wl 24 (28)
T PF08173_consen 3 YFAWILGVLLACAFGILNAMWL 24 (28)
T ss_pred hHHHHHHHHHHHHHHHHHHHHh
Confidence 3566777777777766655554
No 469
>TIGR00670 asp_carb_tr aspartate carbamoyltransferase. Ornithine carbamoyltransferases are in the same superfamily and form an outgroup.
Probab=28.24 E-value=6.9e+02 Score=25.90 Aligned_cols=134 Identities=13% Similarity=0.099 Sum_probs=69.4
Q ss_pred EEEEEecCCcchhhHHHHHHHHHHHHHhcCCCcceEEEEEE-ecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHH
Q 047109 4 VGVILDMRSWAGKISNSCISMAISDFYALNTHYKTRLVLHS-RDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHI 82 (808)
Q Consensus 4 IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~-~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~ 82 (808)
|+.+|...+. .-+..++.|+.++... .+.+-. .++.-.--+.++-+.+.++.. +.+|+-=. . ....
T Consensus 42 v~~lF~~pST---RTR~SFe~A~~~LGg~------~i~l~~~~~s~~~kgEsi~Dta~vls~y-~D~iviR~-~--~~~~ 108 (301)
T TIGR00670 42 LANLFFEPST---RTRLSFETAMKRLGGD------VVNFSDSETSSVAKGETLADTIKTLSGY-SDAIVIRH-P--LEGA 108 (301)
T ss_pred EEEEeccCCc---hhHhHHHHHHHHcCCc------EEEcCCCCcccCCCCcCHHHHHHHHHHh-CCEEEEEC-C--chhH
Confidence 6667766554 3467788887766432 222222 122111122333333444432 33443322 1 1223
Q ss_pred HHHhcCCCCccEEeccCCCCcccccceeeeccCCchhhHHHHHHHHHH---HhcC---CcEEEEEEecCCccccCcHHHH
Q 047109 83 LAEIGSKAKIPVISLYATLPSSLTSYSIQIDQDDEASQSQAKGIADLI---RVFK---WKHVILIYEDNTWGSDNIIPYL 156 (808)
Q Consensus 83 ~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll---~~~~---w~~v~ii~~d~~~g~~~~~~~~ 156 (808)
+..++....||+|.-+.++.. +-.+++++++ +++| -.+|+++. |...+ .....+
T Consensus 109 ~~~~a~~s~vPVINa~~g~~~-----------------HPtQ~LaDl~Ti~e~~g~l~g~~va~vG-D~~~~--~v~~Sl 168 (301)
T TIGR00670 109 ARLAAEVSEVPVINAGDGSNQ-----------------HPTQTLLDLYTIYEEFGRLDGLKIALVG-DLKYG--RTVHSL 168 (301)
T ss_pred HHHHHhhCCCCEEeCCCCCCC-----------------CcHHHHHHHHHHHHHhCCCCCCEEEEEc-cCCCC--cHHHHH
Confidence 445666678998885542212 3345666654 3454 35888876 33223 366777
Q ss_pred HHhhhcCCcEEEEE
Q 047109 157 FDSLHDNDIDIARR 170 (808)
Q Consensus 157 ~~~~~~~g~~i~~~ 170 (808)
...+...|..+...
T Consensus 169 ~~~~a~~g~~v~~~ 182 (301)
T TIGR00670 169 AEALTRFGVEVYLI 182 (301)
T ss_pred HHHHHHcCCEEEEE
Confidence 77788888776653
No 470
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=27.96 E-value=69 Score=32.98 Aligned_cols=52 Identities=15% Similarity=0.227 Sum_probs=41.7
Q ss_pred EecCCCCHHHHHHHH-HHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEe
Q 047109 44 SRDSKGDPLHALTTV-LNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVIS 96 (808)
Q Consensus 44 ~~d~~~~~~~a~~~a-~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is 96 (808)
..||=|++..-.+.+ .+|..+-.+..|||+. .|+.+..+..+|...+.|..-
T Consensus 189 ~~nTIC~aT~~RQ~a~~~La~~vD~miVVGg~-~SsNT~kL~~i~~~~~~~t~~ 241 (298)
T PRK01045 189 PKDDICYATQNRQEAVKELAPQADLVIVVGSK-NSSNSNRLREVAEEAGAPAYL 241 (298)
T ss_pred CCCCcchhhHHHHHHHHHHHhhCCEEEEECCC-CCccHHHHHHHHHHHCCCEEE
Confidence 378888888877764 4566566788899999 999999999999998877443
No 471
>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=27.91 E-value=1.7e+02 Score=29.50 Aligned_cols=80 Identities=8% Similarity=0.015 Sum_probs=49.5
Q ss_pred EEEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH-HHHHHHHHH
Q 047109 137 HVILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH-ALASHLFLN 213 (808)
Q Consensus 137 ~v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~l~~ 213 (808)
+++++..+ +.|-. .+.+.+.+++++.|+.+..... +. ..+...-...++++.+.+.+.|++.... ......++.
T Consensus 1 ~igvi~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~-~~-~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~ 77 (275)
T cd06320 1 KYGVVLKTLSNEFWR-SLKEGYENEAKKLGVSVDIQAA-PS-EGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVER 77 (275)
T ss_pred CeeEEEecCCCHHHH-HHHHHHHHHHHHhCCeEEEEcc-CC-CCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHH
Confidence 35666653 34445 6778888999999988765322 11 1133344566777777788988776533 333455677
Q ss_pred HHHcCC
Q 047109 214 AKKLGM 219 (808)
Q Consensus 214 a~~~gl 219 (808)
+.+.|.
T Consensus 78 ~~~~~i 83 (275)
T cd06320 78 AKKKGI 83 (275)
T ss_pred HHHCCC
Confidence 777664
No 472
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=27.84 E-value=1.1e+02 Score=24.03 Aligned_cols=40 Identities=20% Similarity=0.352 Sum_probs=32.4
Q ss_pred HHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEE
Q 047109 127 ADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIA 168 (808)
Q Consensus 127 ~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~ 168 (808)
.++++.+ -+++.+.+++|.-|. ...+.+.+.+.+.|..+.
T Consensus 36 ~~~L~~~-~~~vii~~D~D~aG~-~a~~~~~~~l~~~g~~~~ 75 (79)
T cd03364 36 AELLKRL-AKEVILAFDGDEAGQ-KAALRALELLLKLGLNVR 75 (79)
T ss_pred HHHHHhc-CCeEEEEECCCHHHH-HHHHHHHHHHHHCCCeEE
Confidence 4555544 589999999999898 888999999999987754
No 473
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=27.83 E-value=5.1e+02 Score=26.14 Aligned_cols=87 Identities=11% Similarity=0.139 Sum_probs=61.6
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+++.....|-.=+.++++...|+. ..+.+...-+..++.|.....+. . .+ ++......++|+|.+.+
T Consensus 72 ~~~~A~~~~~~GA~aisvlte~~~f~g--~~~~l~~v~~~v~iPvl~kdfi~----~--~~--qi~~a~~~GAD~VlLi~ 141 (260)
T PRK00278 72 PVEIAKAYEAGGAACLSVLTDERFFQG--SLEYLRAARAAVSLPVLRKDFII----D--PY--QIYEARAAGADAILLIV 141 (260)
T ss_pred HHHHHHHHHhCCCeEEEEecccccCCC--CHHHHHHHHHhcCCCEEeeeecC----C--HH--HHHHHHHcCCCEEEEEe
Confidence 356777777788888888887666664 56666666555677776533221 1 22 56777789999999976
Q ss_pred CH---HHHHHHHHHHHHcCC
Q 047109 203 SH---ALASHLFLNAKKLGM 219 (808)
Q Consensus 203 ~~---~~~~~~l~~a~~~gl 219 (808)
.. +....+++.+.+.|+
T Consensus 142 ~~l~~~~l~~li~~a~~lGl 161 (260)
T PRK00278 142 AALDDEQLKELLDYAHSLGL 161 (260)
T ss_pred ccCCHHHHHHHHHHHHHcCC
Confidence 44 578899999999987
No 474
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=27.69 E-value=2.8e+02 Score=24.60 Aligned_cols=99 Identities=13% Similarity=0.128 Sum_probs=48.7
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEec-----CCCCCChHHHH-HHHHHhcCCCCe
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITI-----SMSSNTDDQVI-EKLSMLKSSETK 196 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~-----~~~~~~~~~~~-~~l~~l~~~~~~ 196 (808)
...+.+.+...+.-.....|.+ +.. .....+...+...|+.+...... .. ..-+..+. ..+..+.+...+
T Consensus 22 ~~~l~~~i~~~~~~~~~~~y~~--~~~-~~~~~~~~~L~~~g~~v~~~~~~~~~~~~k-~~~D~~l~~d~~~~~~~~~~d 97 (146)
T PF01936_consen 22 FERLLEEIRKYGPLVRIRAYGN--WDD-PNQKSFQEALQRAGIKVRHFPLRKRGGGGK-KGVDVALAVDILELAYENPPD 97 (146)
T ss_dssp HHHHHHHHTTTEEEEEEEEEE-------HHHHHHHHHHHHHT-EEEE------S---S----HHHHHHHHHHHG--GG-S
T ss_pred HHHHHHHHHhcCCeEEEEEEee--ccc-cchhhHHHHHHhCeeeEEeeeccccccccc-CCcHHHHHHHHHHHhhccCCC
Confidence 3455555555443323444444 222 34577788899999976543221 11 11122232 333333334458
Q ss_pred EEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 047109 197 VFVVHMSHALASHLFLNAKKLGMMSKGYSWIVT 229 (808)
Q Consensus 197 viil~~~~~~~~~~l~~a~~~gl~~~~~~~i~~ 229 (808)
.+++.+...+...+++.+++.|. .++++.
T Consensus 98 ~ivLvSgD~Df~~~v~~l~~~g~----~V~v~~ 126 (146)
T PF01936_consen 98 TIVLVSGDSDFAPLVRKLRERGK----RVIVVG 126 (146)
T ss_dssp EEEEE---GGGHHHHHHHHHH------EEEEEE
T ss_pred EEEEEECcHHHHHHHHHHHHcCC----EEEEEE
Confidence 88888888999999999999873 566665
No 475
>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=27.59 E-value=1.7e+02 Score=29.33 Aligned_cols=77 Identities=5% Similarity=0.075 Sum_probs=48.7
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhc--CCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHH-HHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHD--NDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHAL-ASHLFL 212 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~--~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~l~ 212 (808)
|+++.++ +.|-. ...+.+.+.+++ .|.++..... ..+.+.....++.+.+.++|.+|+...... ....++
T Consensus 2 Ig~v~~~~~~~~~~-~~~~gi~~~~~~~~~~~~~~~~~~----~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~ 76 (271)
T cd06321 2 IGVSVGDLGNPFFV-ALAKGAEAAAKKLNPGVKVTVVSA----DYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVK 76 (271)
T ss_pred eEEEecccCCHHHH-HHHHHHHHHHHHhCCCeEEEEccC----CCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHH
Confidence 5667654 34555 678888899999 6766654311 123334556677777778898888654332 356677
Q ss_pred HHHHcCC
Q 047109 213 NAKKLGM 219 (808)
Q Consensus 213 ~a~~~gl 219 (808)
.+.+.|.
T Consensus 77 ~~~~~~i 83 (271)
T cd06321 77 RAQAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7777664
No 476
>PRK15138 aldehyde reductase; Provisional
Probab=27.48 E-value=2.3e+02 Score=30.69 Aligned_cols=77 Identities=12% Similarity=0.280 Sum_probs=49.2
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
..+.++++. + +++.+++++...-.....+.+.+.++ |+.+.....+.. .++.++.....+..++.++|+||-.+.
T Consensus 20 ~~l~~~l~~-~-~~~livt~~~~~~~~g~~~~v~~~L~--~~~~~~f~~v~~-~p~~~~v~~~~~~~~~~~~D~IIaiGG 94 (387)
T PRK15138 20 AGLREQIPA-D-ARVLITYGGGSVKKTGVLDQVLDALK--GMDVLEFGGIEP-NPTYETLMKAVKLVREEKITFLLAVGG 94 (387)
T ss_pred HHHHHHHhc-C-CeEEEECCCchHHhcCcHHHHHHHhc--CCeEEEECCccC-CCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 445566665 4 88888875432221155677888885 555443323433 446678888888888899999997765
Q ss_pred HH
Q 047109 204 HA 205 (808)
Q Consensus 204 ~~ 205 (808)
+.
T Consensus 95 GS 96 (387)
T PRK15138 95 GS 96 (387)
T ss_pred hH
Confidence 43
No 477
>cd08205 RuBisCO_IV_RLP Ribulose bisphosphate carboxylase like proteins, Rubisco-Form IV. Ribulose bisphosphate carboxylase (Rubisco) plays an important role in the Calvin reductive pentose phosphate pathway. It catalyzes the primary CO2 fixation step. Rubisco is activated by carbamylation of an active site lysine, stabilized by a divalent cation, which then catalyzes the proton abstraction from the substrate ribulose 1,5 bisphosphate (RuBP) and leads to the formation of two molecules of 3-phosphoglycerate. Members of the Rubisco family can be divided into 4 subgroups, Form I-IV, which differ in their taxonomic distribution and subunit composition. Form I-III have Rubisco activity, while Form IV, also called Rubisco-like proteins (RLP), are missing critical active site residues and therefore do not catalyze CO2 fixation. They are believed to utilize a related enzymatic mechanism, but have divergent functions, like for example 2,3-diketo-5-methylthiopentyl-1-phosphate enolase or 5-methyl
Probab=27.44 E-value=7.3e+02 Score=26.59 Aligned_cols=104 Identities=14% Similarity=0.147 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHHHhcCCCcceEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEec
Q 047109 18 SNSCISMAISDFYALNTHYKTRLVLHSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISL 97 (808)
Q Consensus 18 ~~~a~~~Av~~iN~~~~~l~~~l~~~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~ 97 (808)
-...++.|+++.|+..|- + .+.+.+..++..++++.+....+. |+.+++=.. -..-..+...+....++|++.+
T Consensus 180 R~~~v~~av~~a~~~TG~---~-~~y~~nit~~~~e~i~~a~~a~~~-Gad~vmv~~-~~~g~~~~~~l~~~~~lpi~~H 253 (367)
T cd08205 180 RVRACMEAVRRANEETGR---K-TLYAPNITGDPDELRRRADRAVEA-GANALLINP-NLVGLDALRALAEDPDLPIMAH 253 (367)
T ss_pred HHHHHHHHHHHHHHhhCC---c-ceEEEEcCCCHHHHHHHHHHHHHc-CCCEEEEec-ccccccHHHHHHhcCCCeEEEc
Confidence 456778888888876542 1 223333334557777777777654 555444322 1122222334445558888886
Q ss_pred cCCCCcccccceeeeccCCchhhHHHHHHHHHHHhcCCc
Q 047109 98 YATLPSSLTSYSIQIDQDDEASQSQAKGIADLIRVFKWK 136 (808)
Q Consensus 98 ~~~~~~~ls~~~~r~~p~~~~~~~~~~a~~~ll~~~~w~ 136 (808)
-+..-. + .| .|..- .-...+.++.+..|-.
T Consensus 254 ~a~~ga-~----~~-~~~~g---~~~~~~~kl~RlaGad 283 (367)
T cd08205 254 PAFAGA-L----SR-SPDYG---SHFLLLGKLMRLAGAD 283 (367)
T ss_pred cCcccc-c----cc-CCCCc---CCHHHHHHHHHHcCCC
Confidence 554433 1 22 33323 3356777877776644
No 478
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=27.35 E-value=1.9e+02 Score=28.92 Aligned_cols=86 Identities=13% Similarity=0.069 Sum_probs=64.2
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEE--
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVH-- 201 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~-- 201 (808)
..+++..+++|-.-++++++.. |-. +..+.++..-....+.|-....+.. ..++...+..++|+|++.
T Consensus 69 ~~ia~~Ye~~GAa~iSVLTd~~-~F~-Gs~e~L~~v~~~v~~PvL~KDFiiD--------~yQI~~Ar~~GADavLLI~~ 138 (254)
T COG0134 69 VEIAKAYEEGGAAAISVLTDPK-YFQ-GSFEDLRAVRAAVDLPVLRKDFIID--------PYQIYEARAAGADAVLLIVA 138 (254)
T ss_pred HHHHHHHHHhCCeEEEEecCcc-ccC-CCHHHHHHHHHhcCCCeeeccCCCC--------HHHHHHHHHcCcccHHHHHH
Confidence 3477888889999999998544 555 6788888777788888766544322 234555566799998885
Q ss_pred -cCHHHHHHHHHHHHHcCC
Q 047109 202 -MSHALASHLFLNAKKLGM 219 (808)
Q Consensus 202 -~~~~~~~~~l~~a~~~gl 219 (808)
.+.+....++..|.++||
T Consensus 139 ~L~~~~l~el~~~A~~LGm 157 (254)
T COG0134 139 ALDDEQLEELVDRAHELGM 157 (254)
T ss_pred hcCHHHHHHHHHHHHHcCC
Confidence 456779999999999998
No 479
>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=27.21 E-value=1.5e+02 Score=29.97 Aligned_cols=71 Identities=11% Similarity=0.198 Sum_probs=49.0
Q ss_pred cCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHH-HHHHHHHHHHcCC
Q 047109 144 DNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHAL-ASHLFLNAKKLGM 219 (808)
Q Consensus 144 d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~l~~a~~~gl 219 (808)
++.|-. ...+.+.+.+++.|+++..... ..+.+.....++++.+.++|.||+.....+ ....++++.+.|.
T Consensus 10 ~~~~~~-~~~~~~~~~a~~~g~~~~~~~~----~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~i 81 (273)
T cd06309 10 ESPWRT-AETKSIKDAAEKRGFDLKFADA----QQKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGI 81 (273)
T ss_pred CCHHHH-HHHHHHHHHHHhcCCEEEEeCC----CCCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCC
Confidence 345555 6889999999999999876422 123445567788888888998888654333 2456777877774
No 480
>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=27.17 E-value=1.8e+02 Score=30.10 Aligned_cols=70 Identities=11% Similarity=0.095 Sum_probs=48.5
Q ss_pred CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCH-HHHHHHHHHHHHcCC
Q 047109 145 NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSH-ALASHLFLNAKKLGM 219 (808)
Q Consensus 145 ~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~l~~a~~~gl 219 (808)
++|.. ...+.+.+.+++.|.++..... ..+...-...++.+.+.++|.|++.... ......++.+.+.|.
T Consensus 10 ~~~~~-~~~~~i~~~a~~~g~~v~~~~~----~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~i 80 (302)
T TIGR02634 10 LERWQ-KDRDIFVAAAESLGAKVFVQSA----NGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGI 80 (302)
T ss_pred hhhHH-HHHHHHHHHHHhcCCEEEEEeC----CCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCC
Confidence 44555 6788899999999998865321 2234445578888888899988887643 334567777777764
No 481
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=26.96 E-value=3.8e+02 Score=23.93 Aligned_cols=71 Identities=10% Similarity=0.054 Sum_probs=47.4
Q ss_pred cHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc----CHHHHHHHHHHHHHcCCCCCCeEEE
Q 047109 152 IIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM----SHALASHLFLNAKKLGMMSKGYSWI 227 (808)
Q Consensus 152 ~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~----~~~~~~~~l~~a~~~gl~~~~~~~i 227 (808)
....+...++++|+.|..--. . ......++..++.++++|-+.. .......+++..++.|+ .+..|+
T Consensus 17 Gk~iv~~~l~~~GfeVi~LG~----~---v~~e~~v~aa~~~~adiVglS~l~~~~~~~~~~~~~~l~~~gl--~~~~vi 87 (134)
T TIGR01501 17 GNKILDHAFTNAGFNVVNLGV----L---SPQEEFIKAAIETKADAILVSSLYGHGEIDCKGLRQKCDEAGL--EGILLY 87 (134)
T ss_pred hHHHHHHHHHHCCCEEEECCC----C---CCHHHHHHHHHHcCCCEEEEecccccCHHHHHHHHHHHHHCCC--CCCEEE
Confidence 446777888999999875321 1 2234555666668899988753 33457788888889997 445665
Q ss_pred EeCc
Q 047109 228 VTAS 231 (808)
Q Consensus 228 ~~~~ 231 (808)
++..
T Consensus 88 vGG~ 91 (134)
T TIGR01501 88 VGGN 91 (134)
T ss_pred ecCC
Confidence 5554
No 482
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=26.93 E-value=3e+02 Score=24.77 Aligned_cols=61 Identities=15% Similarity=0.103 Sum_probs=40.8
Q ss_pred CcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC-HHHHHHHHHHHH
Q 047109 151 NIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS-HALASHLFLNAK 215 (808)
Q Consensus 151 ~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~~l~~a~ 215 (808)
.....+...+++.|.++.....++. +.+++.+.++++.+ ++|+||..+. +....++..++.
T Consensus 27 ~n~~~l~~~l~~~G~~v~~~~~v~D---d~~~i~~~l~~~~~-~~DliIttGG~g~g~~D~t~~ai 88 (144)
T TIGR00177 27 SNGPLLAALLEEAGFNVSRLGIVPD---DPEEIREILRKAVD-EADVVLTTGGTGVGPRDVTPEAL 88 (144)
T ss_pred CcHHHHHHHHHHCCCeEEEEeecCC---CHHHHHHHHHHHHh-CCCEEEECCCCCCCCCccHHHHH
Confidence 4566888889999999887666654 55677887777653 6899888643 223344444443
No 483
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=26.89 E-value=6.2e+02 Score=25.70 Aligned_cols=81 Identities=14% Similarity=0.166 Sum_probs=50.2
Q ss_pred HHhhhcCCeEEEEecCCCh-hHHHHHHHhcCCCCccEEeccCCCCcccccceeeecc----CCchhhHHHHHHHHHHHh-
Q 047109 59 LNLMQNVDLQAIICTEMTP-TGAHILAEIGSKAKIPVISLYATLPSSLTSYSIQIDQ----DDEASQSQAKGIADLIRV- 132 (808)
Q Consensus 59 ~~li~~~~v~aiiG~~~~s-~~~~~~~~~~~~~~iP~is~~~~~~~~ls~~~~r~~p----~~~~~~~~~~a~~~ll~~- 132 (808)
.+++.. +...||-.. ++ ..-..+...|...++|+|+.+...-. +..+-+++.- ... -+++.+-+.+++
T Consensus 115 ~~ll~~-~~D~VIdai-D~~~~k~~L~~~c~~~~ip~I~~gGag~k-~dp~~~~~~di~~t~~~---pla~~~R~~lr~~ 188 (268)
T PRK15116 115 AEYMSA-GFSYVIDAI-DSVRPKAALIAYCRRNKIPLVTTGGAGGQ-IDPTQIQVVDLAKTIQD---PLAAKLRERLKSD 188 (268)
T ss_pred HHHhcC-CCCEEEEcC-CCHHHHHHHHHHHHHcCCCEEEECCcccC-CCCCeEEEEeeecccCC---hHHHHHHHHHHHh
Confidence 344433 577788776 54 55666788999999999987766555 4443333321 112 456667777765
Q ss_pred cCCc-------EEEEEEecC
Q 047109 133 FKWK-------HVILIYEDN 145 (808)
Q Consensus 133 ~~w~-------~v~ii~~d~ 145 (808)
+|.+ .+-++|++.
T Consensus 189 ~~~~~~~~~~~~~~~v~S~E 208 (268)
T PRK15116 189 FGVVKNSKGKLGVDCVFSTE 208 (268)
T ss_pred hCCCcccCccCCeEEEeCCC
Confidence 6654 377777655
No 484
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=26.75 E-value=88 Score=33.33 Aligned_cols=55 Identities=18% Similarity=0.195 Sum_probs=43.9
Q ss_pred EEEEecCCCCHHHHHHHHHHhh-h-cCCeEEEEecCCChhHHHHHHHhcCCCCccEEe
Q 047109 41 VLHSRDSKGDPLHALTTVLNLM-Q-NVDLQAIICTEMTPTGAHILAEIGSKAKIPVIS 96 (808)
Q Consensus 41 ~~~~~d~~~~~~~a~~~a~~li-~-~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is 96 (808)
++.+.||=|++..-.+.+..-+ . .-.+..|||+. .|+.+..+..+|...+.|..-
T Consensus 263 ~~~v~nTIC~AT~~RQ~A~~~La~~~vD~miVVGG~-nSSNT~rL~eia~~~g~~ty~ 319 (387)
T PRK13371 263 HFLSFNTICDATQERQDAMFSLVEEPLDLMVVIGGY-NSSNTTHLQEIAIERGIPSYH 319 (387)
T ss_pred cccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCC-CCccHHHHHHHHHhcCCCEEE
Confidence 4557798899988877766655 3 35788999999 999999999999998877444
No 485
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=26.68 E-value=2.3e+02 Score=27.77 Aligned_cols=115 Identities=20% Similarity=0.278 Sum_probs=66.6
Q ss_pred CccEEeccCCCCcccccceeee--ccCCchhhHHHHHHHHHHH-hcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEE
Q 047109 91 KIPVISLYATLPSSLTSYSIQI--DQDDEASQSQAKGIADLIR-VFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDI 167 (808)
Q Consensus 91 ~iP~is~~~~~~~~ls~~~~r~--~p~~~~~~~~~~a~~~ll~-~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i 167 (808)
++++++.+......+..+-++. .|+.. .-++.+++.+. ...-+++.++..+. ....+.+.+++.|..+
T Consensus 73 ~~~i~avG~~Ta~~l~~~G~~~~~~~~~~---~~s~~L~~~l~~~~~~~~vl~~~g~~------~~~~l~~~L~~~g~~v 143 (231)
T PF02602_consen 73 NIKIFAVGPKTAEALREYGFQPDFVPSSE---GSSEGLAELLKEQLRGKRVLILRGEG------GRPDLPEKLREAGIEV 143 (231)
T ss_dssp HSEEEESSHHHHHHHHHTT-EECEE-TTS---SSHHHHHGGHHHCCTTEEEEEEESSS------SCHHHHHHHHHTTEEE
T ss_pred CCeEEEEcHHHHHHHHHcCCCccccCCCC---CCHHHHHHHHHhhCCCCeEEEEcCCC------ccHHHHHHHHHCCCeE
Confidence 5566655432222122222333 56544 45788888776 44447877765333 3467889999999988
Q ss_pred EEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHHHc
Q 047109 168 ARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAKKL 217 (808)
Q Consensus 168 ~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~~~ 217 (808)
.....+.. ............+...+.+ +|++.++..+..+++...+.
T Consensus 144 ~~~~vY~~--~~~~~~~~~~~~l~~~~~~-~v~ftS~~~~~~~~~~~~~~ 190 (231)
T PF02602_consen 144 TEVIVYET--PPEELSPELKEALDRGEID-AVVFTSPSAVRAFLELLKKN 190 (231)
T ss_dssp EEEECEEE--EEHHHHHHHHHHHHHTTTS-EEEESSHHHHHHHHHHSSGH
T ss_pred EEEEEeec--ccccchHHHHHHHHcCCCC-EEEECCHHHHHHHHHHhHhh
Confidence 76554432 0122333444455545555 56777788888888877654
No 486
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=26.51 E-value=71 Score=32.56 Aligned_cols=52 Identities=13% Similarity=0.086 Sum_probs=40.6
Q ss_pred EEecCCCCHHHHHHH-HHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEE
Q 047109 43 HSRDSKGDPLHALTT-VLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVI 95 (808)
Q Consensus 43 ~~~d~~~~~~~a~~~-a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~i 95 (808)
.+.||=|++..-.+. +.+|..+-.+..|+|+. .|+.+..+..+|...+.|..
T Consensus 187 ~v~~TIC~aT~~RQ~a~~~La~~vD~miVVGg~-~SsNT~rL~eia~~~~~~t~ 239 (281)
T PRK12360 187 VFFNTICSATKKRQESAKELSKEVDVMIVIGGK-HSSNTQKLVKICEKNCPNTF 239 (281)
T ss_pred ccCCCcchhhhhHHHHHHHHHHhCCEEEEecCC-CCccHHHHHHHHHHHCCCEE
Confidence 346887888877766 45565556788899999 99999999999998876643
No 487
>cd08172 GlyDH-like1 Glycerol dehydrogenases-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=26.36 E-value=1.7e+02 Score=31.00 Aligned_cols=75 Identities=15% Similarity=0.282 Sum_probs=49.9
Q ss_pred HHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcC
Q 047109 124 KGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMS 203 (808)
Q Consensus 124 ~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 203 (808)
..+.++++.++ +++.++++...+. ...+.+.+.+++.++.+. .+.- .++.++....+..+++.++|+||-.+.
T Consensus 13 ~~l~~~~~~~~-~~~liv~d~~~~~--~~~~~l~~~L~~~~~~~~---~~~~-~p~~~~v~~~~~~~~~~~~D~iIavGG 85 (347)
T cd08172 13 DELGELLKRFG-KRPLIVTGPRSWA--AAKPYLPESLAAGEAFVL---RYDG-ECSEENIERLAAQAKENGADVIIGIGG 85 (347)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH--HHHHHHHHHHhcCeEEEE---EeCC-CCCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 44556676665 8998988665542 466777777765555432 2222 235677888888888889999887765
Q ss_pred HH
Q 047109 204 HA 205 (808)
Q Consensus 204 ~~ 205 (808)
+.
T Consensus 86 Gs 87 (347)
T cd08172 86 GK 87 (347)
T ss_pred cH
Confidence 53
No 488
>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=26.35 E-value=50 Score=23.35 Aligned_cols=26 Identities=19% Similarity=0.388 Sum_probs=20.9
Q ss_pred hHHHHHHHHHHHHHhhheeeecccCC
Q 047109 543 NLWLTTAALFVLTGFVVWIIERPIND 568 (808)
Q Consensus 543 ~vW~~i~~~~~~~~~~~~~~~~~~~~ 568 (808)
++|.++...++.+++++|.+....++
T Consensus 12 ~~~~l~~~~~~Figiv~wa~~p~~k~ 37 (48)
T cd01324 12 DSWGLLYLALFFLGVVVWAFRPGRKK 37 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCcch
Confidence 57888888889999999998765443
No 489
>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=26.31 E-value=2.1e+02 Score=28.55 Aligned_cols=76 Identities=17% Similarity=0.162 Sum_probs=47.8
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++..+ +.|-. ...+.+.+++++.|+.+.... . ..+.+.....++++.+.+.|.|++.....+. ..++++.
T Consensus 2 igvi~~~~~~~~~~-~~~~~i~~~a~~~g~~~~~~~---~-~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~-~~l~~~~ 75 (267)
T cd06283 2 IGVIVADITNPFSS-LVLKGIEDVCRAHGYQVLVCN---S-DNDPEKEKEYLESLLAYQVDGLIVNPTGNNK-ELYQRLA 75 (267)
T ss_pred EEEEecCCccccHH-HHHHHHHHHHHHcCCEEEEEc---C-CCCHHHHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHh
Confidence 4555543 34555 678889999999998876432 1 2233445567777877888988886543332 2356666
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.|.
T Consensus 76 ~~~i 79 (267)
T cd06283 76 KNGK 79 (267)
T ss_pred cCCC
Confidence 6653
No 490
>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=26.30 E-value=94 Score=32.10 Aligned_cols=67 Identities=13% Similarity=0.100 Sum_probs=39.9
Q ss_pred EEEEEEecCCccccCcHHHHHHhhhcCCcEE---EEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHH
Q 047109 137 HVILIYEDNTWGSDNIIPYLFDSLHDNDIDI---ARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHA 205 (808)
Q Consensus 137 ~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i---~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 205 (808)
+|+|+-.-+.-...+..+.|++.|++.|+.. .+... .. ..+.+.....++++++.++|+|+..++..
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g~~~~~~~~~~~-~a-~~d~~~~~~~~~~l~~~~~DlIi~~gt~a 70 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELGYDEKNVEIEYK-NA-EGDPEKLRQIARKLKAQKPDLIIAIGTPA 70 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT--CCCEEEEEE-E--TT-HHHHHHHHHHHCCTS-SEEEEESHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcCCccccEEEEEe-cC-CCCHHHHHHHHHHHhcCCCCEEEEeCcHH
Confidence 4566654332111256789999999988764 33222 22 33556788888999999999888876544
No 491
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=26.07 E-value=6.3e+02 Score=25.60 Aligned_cols=39 Identities=18% Similarity=0.428 Sum_probs=29.5
Q ss_pred HHHhhhcCCeEEEEecCCChhHHHHHHHhcCCCCccEEec
Q 047109 58 VLNLMQNVDLQAIICTEMTPTGAHILAEIGSKAKIPVISL 97 (808)
Q Consensus 58 a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~~~~iP~is~ 97 (808)
+++.+.++++.+++=.. .+.++.++..+=.++++|+|..
T Consensus 59 i~~~l~~~~ik~lVIAC-NTASa~al~~LR~~~~iPVvGv 97 (269)
T COG0796 59 IVDFLLERGIKALVIAC-NTASAVALEDLREKFDIPVVGV 97 (269)
T ss_pred HHHHHHHcCCCEEEEec-chHHHHHHHHHHHhCCCCEEEe
Confidence 33444445788888777 7778888888889999999984
No 492
>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=25.76 E-value=5.2e+02 Score=23.64 Aligned_cols=71 Identities=15% Similarity=0.135 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccccceeeccccceeccEEEEE
Q 047109 446 GFCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANRSLYVDFTLPYTDMGIGMIV 525 (808)
Q Consensus 446 G~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~dfs~p~~~~~~~~lv 525 (808)
.+-.+++..+.++.. .+++++... ++..++..|.+|++|+++..... .....+. ..++....+.+++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~l~-~~~l~~~~~~~~~ 79 (199)
T cd08430 13 SFLPPILERFRAQHP-QVEIKLHTG---------DPADAIDKVLNGEADIAIAARPD--KLPARLA-FLPLATSPLVFIA 79 (199)
T ss_pred eeccHHHHHHHHHCC-CceEEEEeC---------CHHHHHHHHHCCCCCEEEEecCC--CCCcccE-EEeeccceEEEEE
Confidence 456688899998874 346665543 56788999999999999853211 1112233 3566677777777
Q ss_pred ecCC
Q 047109 526 PTDR 529 (808)
Q Consensus 526 ~~~~ 529 (808)
++..
T Consensus 80 ~~~~ 83 (199)
T cd08430 80 PNIA 83 (199)
T ss_pred eCCc
Confidence 7653
No 493
>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=25.73 E-value=1.9e+02 Score=28.92 Aligned_cols=76 Identities=13% Similarity=0.087 Sum_probs=47.0
Q ss_pred EEEEEec--CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHHHHHH
Q 047109 138 VILIYED--NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLFLNAK 215 (808)
Q Consensus 138 v~ii~~d--~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l~~a~ 215 (808)
++++..+ +.|-. ...+.+.+++++.|+++..... . .+.......++++.+.++|.|++...... ...+..+.
T Consensus 2 Ig~i~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~-~---~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~ 75 (268)
T cd01575 2 VAVLVPSLSNSVFA-DVLQGISDVLEAAGYQLLLGNT-G---YSPEREEELLRTLLSRRPAGLILTGLEHT-ERTRQLLR 75 (268)
T ss_pred EEEEeCCCcchhHH-HHHHHHHHHHHHcCCEEEEecC-C---CCchhHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHH
Confidence 5666654 33444 5678888899999988765322 1 13345566777777788898888654322 23455555
Q ss_pred HcCC
Q 047109 216 KLGM 219 (808)
Q Consensus 216 ~~gl 219 (808)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd01575 76 AAGI 79 (268)
T ss_pred hcCC
Confidence 5553
No 494
>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=25.57 E-value=1.9e+02 Score=28.91 Aligned_cols=76 Identities=9% Similarity=0.090 Sum_probs=42.4
Q ss_pred EEEEEec------CCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEcCHHHHHHHH
Q 047109 138 VILIYED------NTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHMSHALASHLF 211 (808)
Q Consensus 138 v~ii~~d------~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~l 211 (808)
|+++.++ +.|.. .+.+.+.+.+++.|+.+..... .. .........+.+.+.+.|.||+....... ..+
T Consensus 2 igvi~p~~~~~~~~~~~~-~~~~~i~~~~~~~g~~~~~~~~-~~---~~~~~~~~~~~~~~~~vdgiii~~~~~~~-~~~ 75 (268)
T cd06271 2 IGLVLPTGEREEGDPFFA-EFLSGLSEALAEHGYDLVLLPV-DP---DEDPLEVYRRLVESGLVDGVIISRTRPDD-PRV 75 (268)
T ss_pred eEEEeCCcccccCCccHH-HHHHHHHHHHHHCCceEEEecC-CC---cHHHHHHHHHHHHcCCCCEEEEecCCCCC-hHH
Confidence 4556554 45555 6778888889999988765432 11 22222333333445578888876433221 234
Q ss_pred HHHHHcCC
Q 047109 212 LNAKKLGM 219 (808)
Q Consensus 212 ~~a~~~gl 219 (808)
+.+.+.+.
T Consensus 76 ~~~~~~~i 83 (268)
T cd06271 76 ALLLERGF 83 (268)
T ss_pred HHHHhcCC
Confidence 55555553
No 495
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=25.54 E-value=4.3e+02 Score=26.56 Aligned_cols=87 Identities=15% Similarity=0.116 Sum_probs=56.5
Q ss_pred HHHHHHHHHhcCCcEEEEEEecCCccccCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc
Q 047109 123 AKGIADLIRVFKWKHVILIYEDNTWGSDNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM 202 (808)
Q Consensus 123 ~~a~~~ll~~~~w~~v~ii~~d~~~g~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 202 (808)
...+++.....|-.=++++++..-|+ +..+.+...-+..++.+-....+-. .-++...+..++|.|++..
T Consensus 70 ~~~~a~~y~~~GA~aiSVlTe~~~F~--Gs~~dL~~v~~~~~~PvL~KDFIid--------~~QI~eA~~~GADaVLLI~ 139 (254)
T PF00218_consen 70 PAEIAKAYEEAGAAAISVLTEPKFFG--GSLEDLRAVRKAVDLPVLRKDFIID--------PYQIYEARAAGADAVLLIA 139 (254)
T ss_dssp HHHHHHHHHHTT-SEEEEE--SCCCH--HHHHHHHHHHHHSSS-EEEES---S--------HHHHHHHHHTT-SEEEEEG
T ss_pred HHHHHHHHHhcCCCEEEEECCCCCCC--CCHHHHHHHHHHhCCCcccccCCCC--------HHHHHHHHHcCCCEeehhH
Confidence 45677777888999999998666554 4667777666667777766544322 2345556668999999974
Q ss_pred ---CHHHHHHHHHHHHHcCC
Q 047109 203 ---SHALASHLFLNAKKLGM 219 (808)
Q Consensus 203 ---~~~~~~~~l~~a~~~gl 219 (808)
..+....++..|.++||
T Consensus 140 ~~L~~~~l~~l~~~a~~lGl 159 (254)
T PF00218_consen 140 AILSDDQLEELLELAHSLGL 159 (254)
T ss_dssp GGSGHHHHHHHHHHHHHTT-
T ss_pred HhCCHHHHHHHHHHHHHcCC
Confidence 44556899999999998
No 496
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=25.50 E-value=2.8e+02 Score=22.90 Aligned_cols=58 Identities=16% Similarity=0.268 Sum_probs=37.3
Q ss_pred CcHHHHHHhhhcCCc-EEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEEEEc--CHHHHHHHHHHHHHcC
Q 047109 151 NIIPYLFDSLHDNDI-DIARRITISMSSNTDDQVIEKLSMLKSSETKVFVVHM--SHALASHLFLNAKKLG 218 (808)
Q Consensus 151 ~~~~~~~~~~~~~g~-~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~--~~~~~~~~l~~a~~~g 218 (808)
...+.+.+.++..|. .+.. .. +. ...++.+++..++++++.. ...+...++++.++.+
T Consensus 9 ~~~~~l~~~l~~~~~~~v~~---~~----~~---~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~ 69 (112)
T PF00072_consen 9 EIRELLEKLLERAGYEEVTT---AS----SG---EEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQIN 69 (112)
T ss_dssp HHHHHHHHHHHHTTEEEEEE---ES----SH---HHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHhCCCCEEEE---EC----CH---HHHHHHhcccCceEEEEEeeecccccccccccccccc
Confidence 456777888887887 4332 11 22 3344445556689999874 4445778888888877
No 497
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=25.43 E-value=1.1e+02 Score=23.23 Aligned_cols=23 Identities=13% Similarity=0.277 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcC
Q 047109 785 ITGISSTLALVAFLVSSIHKKRP 807 (808)
Q Consensus 785 ll~~g~~la~~vf~~E~~~~~~~ 807 (808)
+++++++++++++++.-+|.|++
T Consensus 5 ~iLi~ICVaii~lIlY~iYnr~~ 27 (68)
T PF05961_consen 5 FILIIICVAIIGLILYGIYNRKK 27 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHhccc
Confidence 45567778888888888887764
No 498
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=25.32 E-value=5.4e+02 Score=25.01 Aligned_cols=100 Identities=14% Similarity=0.103 Sum_probs=58.2
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEecCCccc-cCcHHHHHHhhhcCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEEE
Q 047109 121 SQAKGIADLIRVFKWKHVILIYEDNTWGS-DNIIPYLFDSLHDNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVFV 199 (808)
Q Consensus 121 ~~~~a~~~ll~~~~w~~v~ii~~d~~~g~-~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 199 (808)
..-.-+.+.++.. -++|++|=.-+.... ..+.+.+++.+++.|..+..-..... ..+++.+.|. .+|+|+
T Consensus 19 ~~~~~i~n~l~g~-~~~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg~~v~~L~l~~~---~~~~Ie~~l~-----~~d~Iy 89 (224)
T COG3340 19 HFLPFIANFLQGK-RKTIAFIPTASVDSEDDFYVEKVRNALAKLGLEVSELHLSKP---PLAAIENKLM-----KADIIY 89 (224)
T ss_pred hhhHHHHHHhcCC-CceEEEEecCccccchHHHHHHHHHHHHHcCCeeeeeeccCC---CHHHHHHhhh-----hccEEE
Confidence 3344555555555 468888754332111 14789999999999998876433222 3444554443 356666
Q ss_pred EEcCHHHHHHHHHHHHHcCCC-------CCCeEEEEeCc
Q 047109 200 VHMSHALASHLFLNAKKLGMM-------SKGYSWIVTAS 231 (808)
Q Consensus 200 l~~~~~~~~~~l~~a~~~gl~-------~~~~~~i~~~~ 231 (808)
+.+. ....++++.++.|+. ..+.++|+.+.
T Consensus 90 VgGG--NTF~LL~~lke~gld~iIr~~vk~G~~YiG~SA 126 (224)
T COG3340 90 VGGG--NTFNLLQELKETGLDDIIRERVKAGTPYIGWSA 126 (224)
T ss_pred ECCc--hHHHHHHHHHHhCcHHHHHHHHHcCCceEEecc
Confidence 6543 446777777777762 23445665444
No 499
>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=25.21 E-value=96 Score=31.92 Aligned_cols=72 Identities=8% Similarity=-0.015 Sum_probs=46.5
Q ss_pred EeHHHHHHHHHHCCCceeEEEEecCCCCCCCCCCHHHHHHHHHcCcccEEEeceeeeccc-------cceeeccccceec
Q 047109 447 FCVDVFKAAIDSLTFEVPYEFIPFEDPNGRMPGSYNDLIDQVYFQKFDAVVGETTITANR-------SLYVDFTLPYTDM 519 (808)
Q Consensus 447 ~~~dl~~~ia~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r-------~~~~dfs~p~~~~ 519 (808)
+-.+++..+.++.. .+++++... ....++..|.+|++|+++..-...++. ...+. ..|+...
T Consensus 49 ~lp~~l~~f~~~~P-~i~v~i~~~---------~s~~l~~~L~~G~iDlai~~~~~~~~~~~~~~~~~~~l~-~~~l~~~ 117 (287)
T TIGR02136 49 LAEAAAEEFQKIHP-GVSVTVQGA---------GSGTGIKALINGTVDIGNSSRPIKDEELQKDKQKGIKLI-EHKVAVD 117 (287)
T ss_pred HHHHHHHHHHhhCC-CceEEEccC---------CchHHHHHHHcCCCchhhccCCCCHHHHHHHhhcCCCce-EEEEEEe
Confidence 34567777777764 245555443 568999999999999987532222211 00122 3588888
Q ss_pred cEEEEEecCC
Q 047109 520 GIGMIVPTDR 529 (808)
Q Consensus 520 ~~~~lv~~~~ 529 (808)
.+++++++..
T Consensus 118 ~l~lvv~~~h 127 (287)
T TIGR02136 118 GLAVVVNKKN 127 (287)
T ss_pred eEEEEECCCC
Confidence 9999998765
No 500
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=25.12 E-value=8e+02 Score=26.55 Aligned_cols=165 Identities=12% Similarity=0.122 Sum_probs=0.0
Q ss_pred EEecCCCCHHHHHHHHHHhhhcCCeEEEEecCCChhHHHHHHHhcC-CCCccEEeccCCCCcccccceeeeccCCchhhH
Q 047109 43 HSRDSKGDPLHALTTVLNLMQNVDLQAIICTEMTPTGAHILAEIGS-KAKIPVISLYATLPSSLTSYSIQIDQDDEASQS 121 (808)
Q Consensus 43 ~~~d~~~~~~~a~~~a~~li~~~~v~aiiG~~~~s~~~~~~~~~~~-~~~iP~is~~~~~~~~ls~~~~r~~p~~~~~~~ 121 (808)
.++|+..+.......+.+.... |++|. +.....++..+.. ...+=+|.|+-..-. ..... .
T Consensus 172 ~~~~d~~~~~~~~~~~~~y~~~-----i~~p~-~~~v~~~l~~l~~~~l~~~~i~p~HG~i~---------~~~~~---~ 233 (394)
T PRK11921 172 LMYNDLVDQGELYQEAIKYYAN-----ILTPF-SPLVIKKIEEILSLNLPVDMICPSHGVIW---------RDNPL---Q 233 (394)
T ss_pred ccccccccchhHHHHHHHHHHH-----HHhhh-HHHHHHHHHHHHhcCCCCCEEEcCCccEE---------eCCHH---H
Q ss_pred HHHHHHHHHHhcCCcEEEEEEecCCccc-cCcHHHHHHhhh--cCCcEEEEEEecCCCCCChHHHHHHHHHhcCCCCeEE
Q 047109 122 QAKGIADLIRVFKWKHVILIYEDNTWGS-DNIIPYLFDSLH--DNDIDIARRITISMSSNTDDQVIEKLSMLKSSETKVF 198 (808)
Q Consensus 122 ~~~a~~~ll~~~~w~~v~ii~~d~~~g~-~~~~~~~~~~~~--~~g~~i~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 198 (808)
..+.-.+..+...-+++.|+| .+.||. ...++.+.+.++ +.|+.+..... ...+...++..+.+...=++
T Consensus 234 ~~~~Y~~~~~~~~~~kv~IvY-~S~~GnTe~mA~~ia~g~~~~~~g~~v~~~~~------~~~~~~~i~~~~~~~d~ii~ 306 (394)
T PRK11921 234 IVEKYLEWAANYQENQVTILY-DTMWNSTRRMAEAIAEGIKKANKDVTVKLYNS------AKSDKNDIITEVFKSKAILV 306 (394)
T ss_pred HHHHHHHHhhcCCcCcEEEEE-ECCchHHHHHHHHHHHHHhhcCCCCeEEEEEC------CCCCHHHHHHHHHhCCEEEE
Q ss_pred EEEcCHHH----HHHHHHHHHHcCCCCCCeEEEEeCcc
Q 047109 199 VVHMSHAL----ASHLFLNAKKLGMMSKGYSWIVTAST 232 (808)
Q Consensus 199 il~~~~~~----~~~~l~~a~~~gl~~~~~~~i~~~~~ 232 (808)
-..+.... ...++......++.++...-+++-+|
T Consensus 307 GspT~~~~~~~~~~~~l~~l~~~~~~~K~~a~FGsygw 344 (394)
T PRK11921 307 GSSTINRGILSSTAAILEEIKGLGFKNKKAAAFGSYGW 344 (394)
T ss_pred ECCCcCccccHHHHHHHHHhhccCcCCCEEEEEecCCC
Done!