Query 043468
Match_columns 720
No_of_seqs 297 out of 3340
Neff 10.3
Searched_HMMs 46136
Date Fri Mar 29 05:22:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043468.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043468hhsearch_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 4.7E-81 1E-85 615.8 45.9 675 6-716 88-849 (897)
2 KOG4440 NMDA selective glutama 100.0 1.1E-72 2.4E-77 559.2 24.7 652 2-717 90-862 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 1.7E-69 3.7E-74 556.4 47.9 643 3-708 95-852 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 1.6E-55 3.4E-60 495.3 51.4 555 125-717 5-629 (656)
5 cd06361 PBP1_GPC6A_like Ligand 100.0 1.8E-34 3.8E-39 303.9 28.4 274 7-305 102-395 (403)
6 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 3.1E-34 6.8E-39 299.0 29.5 291 3-308 53-369 (370)
7 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 4.8E-34 1.1E-38 295.1 30.2 290 3-307 52-363 (364)
8 cd06380 PBP1_iGluR_AMPA N-term 100.0 6E-34 1.3E-38 301.3 30.4 295 2-307 57-381 (382)
9 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 2.2E-33 4.8E-38 291.7 30.1 290 3-308 59-370 (371)
10 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 2.8E-33 6.1E-38 295.2 29.2 262 2-304 75-364 (377)
11 cd06366 PBP1_GABAb_receptor Li 100.0 2.1E-33 4.6E-38 293.9 27.8 283 1-308 59-347 (350)
12 cd06393 PBP1_iGluR_Kainate_Glu 100.0 4.1E-33 8.8E-38 294.0 29.7 292 7-308 71-382 (384)
13 cd06367 PBP1_iGluR_NMDA N-term 100.0 4.2E-33 9.1E-38 292.6 29.0 266 3-303 58-351 (362)
14 cd06386 PBP1_NPR_C_like Ligand 100.0 7.6E-33 1.6E-37 291.7 31.0 291 6-304 65-379 (387)
15 cd06375 PBP1_mGluR_groupII Lig 100.0 2.2E-32 4.7E-37 293.0 31.8 291 6-303 103-454 (458)
16 cd06365 PBP1_Pheromone_recepto 100.0 1.3E-32 2.8E-37 296.1 30.0 292 7-304 102-453 (469)
17 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 2.2E-32 4.8E-37 281.7 29.8 288 3-307 59-371 (372)
18 cd06385 PBP1_NPR_A Ligand-bind 100.0 1.8E-32 3.8E-37 292.1 29.6 294 6-304 72-391 (405)
19 cd06373 PBP1_NPR_like Ligand b 100.0 1.5E-32 3.2E-37 292.0 27.7 299 2-305 67-390 (396)
20 cd06363 PBP1_Taste_receptor Li 100.0 1.9E-32 4E-37 291.7 27.4 274 6-304 105-396 (410)
21 cd06376 PBP1_mGluR_groupIII Li 100.0 4E-32 8.7E-37 293.4 30.4 292 7-303 102-452 (463)
22 cd06362 PBP1_mGluR Ligand bind 100.0 4.3E-32 9.2E-37 293.5 30.3 296 7-307 102-450 (452)
23 cd06352 PBP1_NPR_GC_like Ligan 100.0 9.7E-32 2.1E-36 285.7 30.5 300 2-306 62-384 (389)
24 cd06374 PBP1_mGluR_groupI Liga 100.0 9.4E-32 2E-36 290.9 30.8 292 6-303 115-464 (472)
25 cd06364 PBP1_CaSR Ligand-bindi 100.0 1.2E-31 2.7E-36 290.1 31.3 293 7-304 117-494 (510)
26 cd06372 PBP1_GC_G_like Ligand- 100.0 1.5E-31 3.3E-36 283.7 30.6 300 2-304 62-386 (391)
27 cd06384 PBP1_NPR_B Ligand-bind 100.0 1.8E-31 4E-36 283.2 30.5 292 7-305 72-393 (399)
28 cd06371 PBP1_sensory_GC_DEF_li 100.0 2E-30 4.3E-35 272.6 29.2 286 6-302 64-370 (382)
29 cd06392 PBP1_iGluR_delta_1 N-t 100.0 2.9E-30 6.4E-35 266.5 29.4 292 2-308 57-399 (400)
30 cd06370 PBP1_Speract_GC_like L 100.0 2.1E-30 4.6E-35 275.3 27.6 288 2-297 64-388 (404)
31 cd06391 PBP1_iGluR_delta_2 N-t 100.0 9.8E-30 2.1E-34 265.9 30.3 298 2-308 57-399 (400)
32 cd06382 PBP1_iGluR_Kainate N-t 100.0 2.1E-30 4.6E-35 268.4 24.7 268 1-307 57-326 (327)
33 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 7.8E-30 1.7E-34 265.7 25.8 273 1-290 60-334 (334)
34 PRK15404 leucine ABC transport 100.0 8.3E-30 1.8E-34 266.6 26.0 276 1-293 86-362 (369)
35 cd06338 PBP1_ABC_ligand_bindin 100.0 6E-30 1.3E-34 267.5 23.5 274 1-290 64-345 (345)
36 PF01094 ANF_receptor: Recepto 100.0 1.4E-29 3.1E-34 265.7 24.0 283 5-291 48-348 (348)
37 cd06345 PBP1_ABC_ligand_bindin 100.0 3E-29 6.5E-34 261.7 24.0 268 1-283 60-339 (344)
38 cd06394 PBP1_iGluR_Kainate_KA1 100.0 4.3E-29 9.3E-34 253.3 22.2 267 3-308 61-332 (333)
39 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 2.7E-28 5.9E-33 251.8 27.4 268 2-304 56-351 (362)
40 cd06381 PBP1_iGluR_delta_like 100.0 6.4E-28 1.4E-32 249.5 29.5 281 2-307 57-362 (363)
41 KOG1056 Glutamate-gated metabo 100.0 2.6E-28 5.6E-33 262.2 27.0 316 7-342 124-495 (878)
42 cd06346 PBP1_ABC_ligand_bindin 100.0 1.6E-28 3.5E-33 252.2 22.9 248 1-286 60-309 (312)
43 cd06368 PBP1_iGluR_non_NMDA_li 100.0 2.2E-28 4.7E-33 253.4 23.5 267 2-307 57-323 (324)
44 cd06355 PBP1_FmdD_like Peripla 100.0 3.7E-28 8E-33 253.1 23.9 283 1-298 60-345 (348)
45 cd06340 PBP1_ABC_ligand_bindin 100.0 2E-28 4.4E-33 255.3 22.0 270 1-284 63-343 (347)
46 cd06348 PBP1_ABC_ligand_bindin 100.0 1.7E-27 3.6E-32 248.7 25.7 270 1-287 60-343 (344)
47 cd06344 PBP1_ABC_ligand_bindin 100.0 7.5E-28 1.6E-32 249.7 22.8 264 1-282 59-326 (332)
48 cd06327 PBP1_SBP_like_1 Peripl 100.0 7.4E-28 1.6E-32 250.2 21.3 268 1-283 59-330 (334)
49 TIGR03669 urea_ABC_arch urea A 100.0 1.9E-27 4.1E-32 248.0 23.7 286 1-302 61-349 (374)
50 cd06343 PBP1_ABC_ligand_bindin 100.0 4.3E-27 9.2E-32 247.5 25.5 283 1-295 67-362 (362)
51 cd06360 PBP1_alkylbenzenes_lik 100.0 4.8E-27 1E-31 244.8 24.9 270 1-284 58-331 (336)
52 COG0683 LivK ABC-type branched 100.0 4E-27 8.6E-32 245.8 23.7 278 1-293 71-355 (366)
53 cd06349 PBP1_ABC_ligand_bindin 100.0 1E-26 2.2E-31 242.3 26.3 276 1-294 60-339 (340)
54 cd06329 PBP1_SBP_like_3 Peripl 100.0 3.2E-27 7E-32 245.9 22.2 261 1-279 60-333 (342)
55 cd06328 PBP1_SBP_like_2 Peripl 100.0 6E-27 1.3E-31 242.6 23.4 263 1-280 61-325 (333)
56 cd06359 PBP1_Nba_like Type I p 100.0 6.2E-27 1.4E-31 242.9 23.0 271 1-289 58-332 (333)
57 cd06336 PBP1_ABC_ligand_bindin 100.0 4.6E-27 1E-31 245.1 21.1 269 1-285 64-344 (347)
58 cd06331 PBP1_AmiC_like Type I 100.0 6.7E-27 1.5E-31 242.8 21.9 270 1-285 60-330 (333)
59 TIGR03407 urea_ABC_UrtA urea A 100.0 1.3E-26 2.8E-31 242.4 23.6 282 1-297 61-345 (359)
60 cd06347 PBP1_ABC_ligand_bindin 99.9 3.4E-26 7.3E-31 238.4 26.2 266 1-283 60-329 (334)
61 cd06357 PBP1_AmiC Periplasmic 99.9 4.2E-26 9.1E-31 238.6 25.1 284 1-299 60-347 (360)
62 cd06350 PBP1_GPCR_family_C_lik 99.9 4.3E-26 9.2E-31 238.9 22.8 245 7-304 90-340 (348)
63 PF13458 Peripla_BP_6: Peripla 99.9 3E-26 6.4E-31 239.8 21.4 278 1-293 62-342 (343)
64 cd06330 PBP1_Arsenic_SBP_like 99.9 5.6E-26 1.2E-30 237.6 21.1 269 1-284 60-340 (346)
65 cd06356 PBP1_Amide_Urea_BP_lik 99.9 8E-26 1.7E-30 234.3 21.4 266 1-281 60-327 (334)
66 cd06337 PBP1_ABC_ligand_bindin 99.9 8.4E-26 1.8E-30 236.3 20.8 276 1-295 62-357 (357)
67 cd06335 PBP1_ABC_ligand_bindin 99.9 2.4E-25 5.1E-30 232.3 23.7 270 1-280 60-338 (347)
68 cd06332 PBP1_aromatic_compound 99.9 2.6E-25 5.7E-30 231.6 24.0 270 1-288 58-331 (333)
69 cd06334 PBP1_ABC_ligand_bindin 99.9 5.6E-25 1.2E-29 228.5 21.5 270 1-281 60-349 (351)
70 cd06358 PBP1_NHase Type I peri 99.9 5.9E-25 1.3E-29 228.2 20.7 262 1-279 60-324 (333)
71 cd06383 PBP1_iGluR_AMPA_Like N 99.9 2.2E-25 4.7E-30 231.1 15.7 265 3-283 61-353 (368)
72 cd06351 PBP1_iGluR_N_LIVBP_lik 99.9 4.2E-24 9.1E-29 222.1 25.3 261 2-303 57-322 (328)
73 TIGR03863 PQQ_ABC_bind ABC tra 99.9 3E-24 6.5E-29 220.5 17.9 256 1-291 53-316 (347)
74 PF13433 Peripla_BP_5: Peripla 99.9 4.4E-24 9.5E-29 210.8 16.8 287 1-304 61-350 (363)
75 cd06339 PBP1_YraM_LppC_lipopro 99.9 1.6E-23 3.5E-28 216.8 16.9 253 2-281 54-330 (336)
76 cd06326 PBP1_STKc_like Type I 99.9 3.2E-22 7E-27 208.5 22.7 264 2-280 62-330 (336)
77 cd06377 PBP1_iGluR_NMDA_NR3 N- 99.9 2.1E-21 4.5E-26 196.9 26.4 253 6-304 79-371 (382)
78 KOG1055 GABA-B ion channel rec 99.9 6.1E-22 1.3E-26 206.0 12.9 306 9-341 114-452 (865)
79 cd06341 PBP1_ABC_ligand_bindin 99.9 1.2E-20 2.6E-25 196.8 19.7 265 1-281 60-332 (341)
80 cd06269 PBP1_glutamate_recepto 99.9 1.4E-20 2.9E-25 192.8 19.4 220 7-303 70-291 (298)
81 PRK09495 glnH glutamine ABC tr 99.8 9.5E-20 2E-24 180.3 18.1 222 345-661 23-245 (247)
82 PRK10797 glutamate and asparta 99.8 9E-20 1.9E-24 184.4 18.0 225 345-661 38-273 (302)
83 cd06369 PBP1_GC_C_enterotoxin_ 99.8 1.5E-18 3.3E-23 170.9 23.3 276 6-308 79-369 (380)
84 PF00497 SBP_bac_3: Bacterial 99.8 1.1E-19 2.5E-24 177.6 14.4 221 349-660 1-225 (225)
85 PRK11260 cystine transporter s 99.8 4.1E-19 8.8E-24 177.7 18.1 225 342-661 36-263 (266)
86 cd06333 PBP1_ABC-type_HAAT_lik 99.8 9.7E-19 2.1E-23 180.0 20.9 224 2-242 60-293 (312)
87 PRK15010 ABC transporter lysin 99.8 1.4E-18 3.1E-23 173.1 18.5 225 344-661 23-256 (260)
88 cd04509 PBP1_ABC_transporter_G 99.8 1.5E-18 3.3E-23 177.7 19.1 225 2-240 61-290 (299)
89 PRK15007 putative ABC transpor 99.8 5.8E-18 1.3E-22 167.4 18.7 218 345-659 19-242 (243)
90 PRK11917 bifunctional adhesin/ 99.8 9.3E-18 2E-22 166.3 18.7 222 344-658 35-258 (259)
91 TIGR01096 3A0103s03R lysine-ar 99.8 1E-17 2.2E-22 166.5 17.6 219 347-658 24-250 (250)
92 cd06268 PBP1_ABC_transporter_L 99.8 3.1E-17 6.8E-22 167.8 20.4 224 2-242 61-287 (298)
93 PRK15437 histidine ABC transpo 99.8 2.1E-17 4.5E-22 164.7 18.4 226 344-661 23-256 (259)
94 TIGR02995 ectoine_ehuB ectoine 99.8 1.4E-17 3E-22 167.3 17.0 222 344-660 30-262 (275)
95 PRK10859 membrane-bound lytic 99.7 6.8E-17 1.5E-21 174.2 16.0 224 343-661 39-268 (482)
96 PRK09959 hybrid sensory histid 99.7 1.4E-15 3E-20 185.1 22.0 218 344-661 299-522 (1197)
97 TIGR03870 ABC_MoxJ methanol ox 99.7 6.8E-16 1.5E-20 152.1 14.6 220 348-657 1-241 (246)
98 TIGR02285 conserved hypothetic 99.7 9.2E-16 2E-20 153.6 14.9 232 345-661 16-263 (268)
99 PF00060 Lig_chan: Ligand-gate 99.7 3.6E-17 7.8E-22 147.9 4.1 103 467-569 1-115 (148)
100 PRK09959 hybrid sensory histid 99.6 3E-14 6.5E-19 173.5 16.4 222 342-661 51-279 (1197)
101 COG0834 HisJ ABC-type amino ac 99.6 1E-13 2.2E-18 140.1 17.3 227 345-661 32-266 (275)
102 TIGR03871 ABC_peri_MoxJ_2 quin 99.5 1.3E-13 2.8E-18 135.2 16.0 219 348-658 1-228 (232)
103 cd00134 PBPb Bacterial peripla 99.5 2.6E-13 5.7E-18 131.4 17.7 214 349-658 1-218 (218)
104 smart00062 PBPb Bacterial peri 99.5 2.1E-13 4.4E-18 132.1 16.4 216 348-658 1-219 (219)
105 COG4623 Predicted soluble lyti 99.4 1.1E-12 2.4E-17 126.3 8.3 226 341-661 17-249 (473)
106 cd01391 Periplasmic_Binding_Pr 99.2 3E-10 6.5E-15 113.8 16.5 164 6-173 56-221 (269)
107 smart00079 PBPe Eukaryotic hom 99.0 2.7E-09 5.8E-14 94.4 9.5 80 578-659 54-133 (134)
108 PF10613 Lig_chan-Glu_bd: Liga 98.9 3.9E-10 8.6E-15 82.1 1.8 55 361-415 1-65 (65)
109 PF04348 LppC: LppC putative l 98.8 3.5E-07 7.5E-12 99.2 18.5 256 6-292 276-535 (536)
110 TIGR01098 3A0109s03R phosphate 98.7 8.8E-08 1.9E-12 95.2 12.6 211 345-644 30-254 (254)
111 PRK00489 hisG ATP phosphoribos 98.3 3.3E-06 7.2E-11 84.7 10.6 163 405-661 52-221 (287)
112 cd01537 PBP1_Repressors_Sugar_ 98.0 5.1E-05 1.1E-09 75.7 12.1 149 3-159 51-203 (264)
113 TIGR03431 PhnD phosphonate ABC 98.0 0.0001 2.2E-09 74.7 13.5 78 578-655 177-260 (288)
114 cd01536 PBP1_ABC_sugar_binding 97.8 0.00036 7.8E-09 69.7 14.6 157 3-169 51-215 (267)
115 cd06267 PBP1_LacI_sugar_bindin 97.7 0.00044 9.6E-09 68.9 13.2 147 3-159 51-202 (264)
116 cd06320 PBP1_allose_binding Pe 97.6 0.0012 2.6E-08 66.4 13.8 156 6-169 55-216 (275)
117 cd06300 PBP1_ABC_sugar_binding 97.5 0.00079 1.7E-08 67.6 11.3 144 6-159 58-209 (272)
118 COG3107 LppC Putative lipoprot 97.3 0.0066 1.4E-07 62.8 14.8 257 5-298 316-603 (604)
119 cd06282 PBP1_GntR_like_2 Ligan 97.3 0.0031 6.8E-08 62.9 12.1 145 6-160 53-202 (266)
120 cd06323 PBP1_ribose_binding Pe 97.2 0.0057 1.2E-07 61.1 13.4 156 6-170 53-215 (268)
121 cd06319 PBP1_ABC_sugar_binding 97.2 0.0078 1.7E-07 60.5 14.2 158 6-170 53-220 (277)
122 cd06325 PBP1_ABC_uncharacteriz 97.1 0.0039 8.5E-08 62.8 10.6 147 2-158 55-208 (281)
123 PF12974 Phosphonate-bd: ABC t 96.9 0.012 2.6E-07 57.8 12.1 84 574-657 142-230 (243)
124 cd06273 PBP1_GntR_like_1 This 96.8 0.015 3.3E-07 58.0 12.1 146 6-160 53-204 (268)
125 cd06301 PBP1_rhizopine_binding 96.8 0.03 6.4E-07 56.1 14.1 159 6-170 54-219 (272)
126 cd01545 PBP1_SalR Ligand-bindi 96.7 0.018 3.8E-07 57.6 12.2 160 4-170 52-216 (270)
127 PF13407 Peripla_BP_4: Peripla 96.7 0.017 3.8E-07 57.2 11.9 151 6-161 53-209 (257)
128 cd06312 PBP1_ABC_sugar_binding 96.7 0.025 5.3E-07 56.6 12.9 158 6-170 55-218 (271)
129 PRK11553 alkanesulfonate trans 96.6 0.0092 2E-07 61.2 9.5 70 381-454 43-119 (314)
130 cd06298 PBP1_CcpA_like Ligand- 96.5 0.039 8.5E-07 55.0 12.9 157 6-170 53-214 (268)
131 cd06305 PBP1_methylthioribose_ 96.5 0.05 1.1E-06 54.4 13.6 157 6-170 53-218 (273)
132 PRK10653 D-ribose transporter 96.5 0.065 1.4E-06 54.4 14.4 157 6-170 80-241 (295)
133 cd06317 PBP1_ABC_sugar_binding 96.4 0.049 1.1E-06 54.5 12.8 159 6-170 54-222 (275)
134 cd06310 PBP1_ABC_sugar_binding 96.4 0.095 2.1E-06 52.4 14.8 157 6-170 55-218 (273)
135 cd06322 PBP1_ABC_sugar_binding 96.3 0.1 2.2E-06 51.9 14.9 154 6-169 53-212 (267)
136 cd06303 PBP1_LuxPQ_Quorum_Sens 96.3 0.14 3E-06 51.5 15.8 162 6-170 58-225 (280)
137 TIGR01481 ccpA catabolite cont 96.3 0.075 1.6E-06 54.9 13.7 155 6-169 113-272 (329)
138 cd06309 PBP1_YtfQ_like Peripla 96.2 0.093 2E-06 52.5 14.0 161 6-170 53-222 (273)
139 cd06289 PBP1_MalI_like Ligand- 96.2 0.052 1.1E-06 54.1 12.0 157 6-169 53-214 (268)
140 COG2984 ABC-type uncharacteriz 96.2 0.18 4E-06 49.6 14.6 149 2-158 83-240 (322)
141 cd06271 PBP1_AglR_RafR_like Li 96.2 0.057 1.2E-06 53.8 11.9 160 3-170 54-218 (268)
142 PF00532 Peripla_BP_1: Peripla 96.1 0.057 1.2E-06 54.2 11.4 154 4-164 52-211 (279)
143 COG1609 PurR Transcriptional r 96.0 0.13 2.9E-06 53.0 13.7 155 4-167 110-271 (333)
144 cd06295 PBP1_CelR Ligand bindi 95.8 0.12 2.6E-06 51.8 12.5 147 4-159 60-211 (275)
145 cd06278 PBP1_LacI_like_2 Ligan 95.8 0.11 2.4E-06 51.6 12.1 143 6-157 52-197 (266)
146 cd06311 PBP1_ABC_sugar_binding 95.8 0.23 5E-06 49.6 14.4 155 6-167 58-217 (274)
147 cd01575 PBP1_GntR Ligand-bindi 95.8 0.15 3.2E-06 50.8 12.8 156 6-169 53-213 (268)
148 cd06284 PBP1_LacI_like_6 Ligan 95.7 0.13 2.8E-06 51.1 12.2 156 4-169 51-212 (267)
149 cd06313 PBP1_ABC_sugar_binding 95.7 0.4 8.7E-06 47.9 15.7 158 6-170 53-217 (272)
150 cd01542 PBP1_TreR_like Ligand- 95.5 0.16 3.5E-06 50.2 12.1 149 6-167 53-206 (259)
151 cd06308 PBP1_sensor_kinase_lik 95.5 0.4 8.6E-06 47.8 14.9 157 6-170 54-217 (270)
152 TIGR01729 taurine_ABC_bnd taur 95.4 0.071 1.5E-06 54.3 9.1 66 386-454 20-90 (300)
153 TIGR02990 ectoine_eutA ectoine 95.4 0.23 5.1E-06 47.9 12.0 142 22-171 61-215 (239)
154 COG3221 PhnD ABC-type phosphat 95.4 0.24 5.3E-06 49.5 12.3 76 571-646 179-260 (299)
155 cd01574 PBP1_LacI Ligand-bindi 95.4 0.32 7E-06 48.2 13.6 143 6-159 54-199 (264)
156 PRK11303 DNA-binding transcrip 95.4 0.39 8.4E-06 49.6 14.6 147 6-161 115-265 (328)
157 PF13379 NMT1_2: NMT1-like fam 95.3 0.074 1.6E-06 52.5 8.5 88 345-453 4-99 (252)
158 cd06287 PBP1_LacI_like_8 Ligan 95.2 0.43 9.3E-06 47.6 14.0 152 4-162 52-206 (269)
159 cd06321 PBP1_ABC_sugar_binding 95.1 0.55 1.2E-05 46.8 14.5 155 6-170 55-215 (271)
160 cd06283 PBP1_RegR_EndR_KdgR_li 95.1 0.3 6.6E-06 48.5 12.6 148 6-161 53-205 (267)
161 cd06288 PBP1_sucrose_transcrip 95.0 0.2 4.3E-06 49.9 11.0 145 6-160 54-203 (269)
162 cd06294 PBP1_ycjW_transcriptio 95.0 0.24 5.3E-06 49.3 11.4 159 3-169 55-219 (270)
163 cd06306 PBP1_TorT-like TorT-li 94.9 0.46 9.9E-06 47.4 13.2 152 6-167 55-215 (268)
164 cd06281 PBP1_LacI_like_5 Ligan 94.9 0.26 5.6E-06 49.1 11.4 156 6-169 53-212 (269)
165 cd06270 PBP1_GalS_like Ligand 94.9 0.39 8.4E-06 47.8 12.6 157 6-170 53-214 (268)
166 cd06299 PBP1_LacI_like_13 Liga 94.9 0.36 7.7E-06 47.9 12.2 147 6-160 53-201 (265)
167 cd06293 PBP1_LacI_like_11 Liga 94.9 0.5 1.1E-05 47.0 13.3 149 5-161 52-204 (269)
168 PRK10014 DNA-binding transcrip 94.9 0.45 9.7E-06 49.4 13.4 148 6-160 118-269 (342)
169 cd06324 PBP1_ABC_sugar_binding 94.9 0.57 1.2E-05 47.8 13.9 160 8-170 58-239 (305)
170 cd06316 PBP1_ABC_sugar_binding 94.8 1.1 2.5E-05 45.2 15.9 161 6-170 54-220 (294)
171 cd06274 PBP1_FruR Ligand bindi 94.8 0.74 1.6E-05 45.6 14.2 147 6-160 53-204 (264)
172 cd06291 PBP1_Qymf_like Ligand 94.7 0.53 1.1E-05 46.7 13.0 141 6-159 53-198 (265)
173 cd01540 PBP1_arabinose_binding 94.7 1.4 2.9E-05 44.4 16.1 164 6-170 52-230 (289)
174 COG1879 RbsB ABC-type sugar tr 94.6 0.66 1.4E-05 47.7 13.8 159 6-170 89-254 (322)
175 cd06275 PBP1_PurR Ligand-bindi 94.6 0.34 7.3E-06 48.2 11.4 148 6-160 53-204 (269)
176 cd01543 PBP1_XylR Ligand-bindi 94.6 0.63 1.4E-05 46.2 13.1 156 5-170 47-208 (265)
177 cd06280 PBP1_LacI_like_4 Ligan 94.5 0.32 7E-06 48.2 10.9 144 6-161 53-199 (263)
178 PRK14987 gluconate operon tran 94.5 0.61 1.3E-05 48.2 13.3 147 6-161 117-266 (331)
179 cd06277 PBP1_LacI_like_1 Ligan 94.5 0.42 9E-06 47.6 11.6 154 6-169 56-213 (268)
180 TIGR02417 fruct_sucro_rep D-fr 94.4 0.62 1.3E-05 48.0 13.2 153 6-169 114-273 (327)
181 cd01541 PBP1_AraR Ligand-bindi 94.4 0.38 8.2E-06 48.0 11.2 148 6-161 53-210 (273)
182 cd01538 PBP1_ABC_xylose_bindin 94.3 1.3 2.7E-05 44.8 14.8 149 6-160 53-216 (288)
183 cd01539 PBP1_GGBP Periplasmic 94.2 1.6 3.4E-05 44.5 15.4 155 6-161 55-228 (303)
184 cd01544 PBP1_GalR Ligand-bindi 94.2 1.1 2.3E-05 44.7 14.0 153 6-169 50-215 (270)
185 cd06307 PBP1_uncharacterized_s 94.2 1.6 3.5E-05 43.5 15.3 155 8-170 58-220 (275)
186 cd06297 PBP1_LacI_like_12 Liga 94.1 0.57 1.2E-05 46.7 11.7 148 4-162 51-208 (269)
187 cd06314 PBP1_tmGBP Periplasmic 93.9 2.1 4.6E-05 42.5 15.5 156 6-170 53-214 (271)
188 cd06272 PBP1_hexuronate_repres 93.8 0.77 1.7E-05 45.4 11.9 156 6-170 49-209 (261)
189 COG3473 Maleate cis-trans isom 93.7 1.9 4.1E-05 39.5 12.5 140 21-170 56-212 (238)
190 PRK09526 lacI lac repressor; R 93.6 1.4 3.1E-05 45.6 14.1 144 6-161 118-267 (342)
191 PRK09701 D-allose transporter 93.6 2.3 5E-05 43.4 15.3 162 6-170 80-251 (311)
192 cd06285 PBP1_LacI_like_7 Ligan 93.6 0.92 2E-05 45.0 12.1 152 6-169 53-211 (265)
193 cd06292 PBP1_LacI_like_10 Liga 93.5 1.2 2.5E-05 44.4 12.7 149 6-160 53-207 (273)
194 cd06296 PBP1_CatR_like Ligand- 93.3 0.8 1.7E-05 45.5 11.2 156 6-169 53-214 (270)
195 cd06279 PBP1_LacI_like_3 Ligan 93.3 1.2 2.7E-05 44.6 12.6 155 6-169 54-231 (283)
196 PRK10703 DNA-binding transcrip 93.3 1.1 2.4E-05 46.4 12.6 147 6-159 113-264 (341)
197 PRK10936 TMAO reductase system 93.2 2.2 4.9E-05 44.2 14.6 145 6-159 102-255 (343)
198 cd06318 PBP1_ABC_sugar_binding 93.1 3.8 8.3E-05 40.9 15.9 154 6-167 53-222 (282)
199 cd06302 PBP1_LsrB_Quorum_Sensi 93.1 2.6 5.7E-05 42.6 14.7 155 6-167 54-217 (298)
200 PF04392 ABC_sub_bind: ABC tra 93.0 0.8 1.7E-05 46.3 10.6 131 6-144 57-195 (294)
201 PRK10423 transcriptional repre 93.0 1.9 4.1E-05 44.4 13.6 146 6-160 110-261 (327)
202 PRK15408 autoinducer 2-binding 92.9 1.9 4.1E-05 44.5 13.4 149 3-159 76-234 (336)
203 cd06290 PBP1_LacI_like_9 Ligan 92.8 1.4 2.9E-05 43.7 12.0 145 6-160 53-202 (265)
204 PRK09492 treR trehalose repres 92.6 2.2 4.7E-05 43.6 13.4 145 6-167 116-263 (315)
205 cd06354 PBP1_BmpA_PnrA_like Pe 92.5 1.4 3E-05 43.8 11.5 145 6-157 55-206 (265)
206 PRK10339 DNA-binding transcrip 92.3 2.3 5E-05 43.7 13.2 153 6-169 112-270 (327)
207 PF03808 Glyco_tran_WecB: Glyc 92.2 1.9 4.1E-05 39.5 10.9 99 63-171 36-136 (172)
208 PRK10727 DNA-binding transcrip 92.1 2 4.4E-05 44.6 12.5 146 6-160 113-263 (343)
209 TIGR02955 TMAO_TorT TMAO reduc 92.0 4.1 8.9E-05 41.2 14.4 144 6-159 55-208 (295)
210 PRK10401 DNA-binding transcrip 91.3 3.1 6.8E-05 43.2 13.0 147 6-161 113-264 (346)
211 TIGR03427 ABC_peri_uca ABC tra 91.2 1.2 2.5E-05 45.7 9.3 60 347-422 2-61 (328)
212 PF03466 LysR_substrate: LysR 91.2 5.1 0.00011 37.4 13.4 69 378-454 19-88 (209)
213 cd06286 PBP1_CcpB_like Ligand- 91.1 3.9 8.4E-05 40.3 12.9 143 6-159 53-200 (260)
214 TIGR02405 trehalos_R_Ecol treh 91.0 3.7 8.1E-05 41.8 13.0 147 6-169 113-262 (311)
215 TIGR02122 TRAP_TAXI TRAP trans 90.7 0.82 1.8E-05 46.9 7.8 71 381-454 48-131 (320)
216 TIGR01728 SsuA_fam ABC transpo 90.3 1.8 3.9E-05 43.4 9.8 31 577-607 136-166 (288)
217 TIGR02634 xylF D-xylose ABC tr 90.2 8.7 0.00019 38.9 14.8 148 6-159 52-209 (302)
218 cd06533 Glyco_transf_WecG_TagA 89.9 3.9 8.4E-05 37.4 10.6 99 62-170 33-133 (171)
219 PF07885 Ion_trans_2: Ion chan 89.6 0.83 1.8E-05 35.5 5.2 50 502-551 23-78 (79)
220 PRK10355 xylF D-xylose transpo 89.2 8.1 0.00018 39.8 13.7 147 6-159 79-236 (330)
221 cd06304 PBP1_BmpA_like Peripla 89.0 5.7 0.00012 39.2 12.1 145 6-157 54-202 (260)
222 PRK15395 methyl-galactoside AB 88.8 10 0.00023 39.0 14.2 151 6-158 79-249 (330)
223 PF13531 SBP_bac_11: Bacterial 88.7 3.2 7E-05 40.1 9.9 204 378-656 11-226 (230)
224 PF13377 Peripla_BP_3: Peripla 88.6 1.8 3.8E-05 39.0 7.5 101 68-169 1-104 (160)
225 PRK11041 DNA-binding transcrip 88.4 5.4 0.00012 40.5 11.8 103 56-159 132-238 (309)
226 PRK05452 anaerobic nitric oxid 88.3 7.8 0.00017 42.1 13.2 142 12-171 198-348 (479)
227 PF09084 NMT1: NMT1/THI5 like; 88.2 2.6 5.7E-05 40.2 8.8 65 387-454 15-83 (216)
228 PF12727 PBP_like: PBP superfa 87.4 5.3 0.00011 37.3 9.9 59 578-643 133-191 (193)
229 TIGR00035 asp_race aspartate r 86.8 2.1 4.5E-05 41.4 7.1 42 65-110 106-147 (229)
230 TIGR02637 RhaS rhamnose ABC tr 86.5 26 0.00056 35.4 15.5 147 6-159 54-210 (302)
231 cd06276 PBP1_FucR_like Ligand- 84.8 18 0.00039 35.4 12.8 135 6-161 50-189 (247)
232 PF13685 Fe-ADH_2: Iron-contai 84.7 4.3 9.4E-05 39.5 8.0 98 66-168 9-107 (250)
233 TIGR00696 wecB_tagA_cpsF bacte 83.2 15 0.00032 33.7 10.5 86 62-155 35-122 (177)
234 PF14503 YhfZ_C: YhfZ C-termin 83.1 1.7 3.8E-05 41.2 4.5 76 375-454 25-107 (232)
235 cd05466 PBP2_LTTR_substrate Th 82.2 36 0.00077 30.7 13.3 69 378-454 13-82 (197)
236 TIGR01256 modA molybdenum ABC 82.1 12 0.00025 35.7 10.1 68 577-646 137-205 (216)
237 PRK09860 putative alcohol dehy 81.7 7.1 0.00015 41.1 8.9 87 65-152 20-109 (383)
238 cd02071 MM_CoA_mut_B12_BD meth 81.5 15 0.00032 31.3 9.3 70 84-159 7-80 (122)
239 PRK11063 metQ DL-methionine tr 81.5 17 0.00038 36.0 11.1 94 560-657 165-263 (271)
240 KOG1419 Voltage-gated K+ chann 81.0 2.5 5.4E-05 44.6 5.0 83 468-550 234-322 (654)
241 TIGR00640 acid_CoA_mut_C methy 81.0 20 0.00044 31.0 10.0 83 79-169 5-91 (132)
242 PRK03692 putative UDP-N-acetyl 81.0 17 0.00036 35.4 10.4 88 62-156 92-180 (243)
243 TIGR02370 pyl_corrinoid methyl 80.5 45 0.00097 31.3 13.0 89 77-171 85-177 (197)
244 PF07287 DUF1446: Protein of u 80.3 16 0.00035 37.7 10.5 137 2-162 17-189 (362)
245 TIGR00363 lipoprotein, YaeC fa 80.2 38 0.00083 33.3 12.8 96 560-657 152-250 (258)
246 PRK11480 tauA taurine transpor 80.1 12 0.00026 38.3 9.9 34 387-423 45-78 (320)
247 cd06315 PBP1_ABC_sugar_binding 79.7 28 0.00061 34.7 12.3 154 6-161 54-216 (280)
248 cd08421 PBP2_LTTR_like_1 The C 79.6 38 0.00083 30.9 12.6 69 378-454 13-82 (198)
249 PF13380 CoA_binding_2: CoA bi 79.3 4.2 9E-05 34.4 5.1 86 77-170 1-89 (116)
250 cd08192 Fe-ADH7 Iron-containin 79.2 17 0.00037 38.1 10.9 88 65-153 13-103 (370)
251 cd08194 Fe-ADH6 Iron-containin 78.9 10 0.00022 39.9 9.0 86 65-151 12-100 (375)
252 COG1454 EutG Alcohol dehydroge 78.9 20 0.00043 37.2 10.7 91 65-156 18-111 (377)
253 PRK15454 ethanol dehydrogenase 78.6 11 0.00023 39.9 9.1 86 65-151 38-126 (395)
254 cd08181 PPD-like 1,3-propanedi 78.6 9.8 0.00021 39.7 8.7 86 65-151 15-103 (357)
255 PRK10200 putative racemase; Pr 78.6 5.5 0.00012 38.4 6.4 40 66-109 107-147 (230)
256 COG1910 Periplasmic molybdate- 78.2 18 0.00038 33.8 8.9 63 579-649 140-202 (223)
257 cd08189 Fe-ADH5 Iron-containin 78.1 19 0.00042 37.7 10.8 90 64-154 14-106 (374)
258 cd08190 HOT Hydroxyacid-oxoaci 77.9 10 0.00023 40.3 8.8 87 64-151 11-100 (414)
259 cd08551 Fe-ADH iron-containing 77.8 12 0.00026 39.2 9.2 88 65-153 12-102 (370)
260 PF06506 PrpR_N: Propionate ca 77.2 10 0.00022 34.9 7.4 107 35-158 38-144 (176)
261 COG0426 FpaA Uncharacterized f 76.6 69 0.0015 33.3 13.6 134 22-173 204-343 (388)
262 PRK09861 cytoplasmic membrane 76.4 26 0.00056 34.8 10.5 94 559-657 165-264 (272)
263 cd08185 Fe-ADH1 Iron-containin 76.1 12 0.00026 39.4 8.6 88 65-153 15-105 (380)
264 PF00465 Fe-ADH: Iron-containi 75.9 8.2 0.00018 40.4 7.3 88 65-155 12-102 (366)
265 PRK10624 L-1,2-propanediol oxi 75.6 15 0.00032 38.7 9.2 87 64-151 18-107 (382)
266 cd08193 HVD 5-hydroxyvalerate 75.3 15 0.00032 38.7 9.0 88 65-153 15-105 (376)
267 KOG3857 Alcohol dehydrogenase, 75.3 23 0.00049 35.5 9.3 93 48-141 38-135 (465)
268 TIGR00787 dctP tripartite ATP- 74.7 40 0.00086 33.2 11.5 45 382-426 17-63 (257)
269 cd08186 Fe-ADH8 Iron-containin 74.6 13 0.00028 39.2 8.4 89 65-153 12-106 (383)
270 cd08187 BDH Butanol dehydrogen 74.5 13 0.00028 39.2 8.3 96 51-150 7-105 (382)
271 PRK02261 methylaspartate mutas 74.5 58 0.0013 28.4 12.3 87 77-170 4-94 (137)
272 TIGR01501 MthylAspMutase methy 74.5 53 0.0012 28.4 10.5 72 91-170 16-91 (134)
273 PF07302 AroM: AroM protein; 73.7 53 0.0011 31.2 11.1 74 76-154 125-201 (221)
274 TIGR02638 lactal_redase lactal 73.2 18 0.00038 38.1 9.0 88 64-152 17-107 (379)
275 PRK11921 metallo-beta-lactamas 73.2 42 0.0009 35.6 11.8 104 62-171 233-344 (394)
276 cd02067 B12-binding B12 bindin 73.0 56 0.0012 27.5 10.7 79 85-170 8-90 (119)
277 CHL00180 rbcR LysR transcripti 72.6 86 0.0019 31.7 13.8 72 378-454 108-180 (305)
278 COG1794 RacX Aspartate racemas 72.1 12 0.00026 35.2 6.3 44 64-111 105-148 (230)
279 PF13407 Peripla_BP_4: Peripla 72.0 7.6 0.00016 38.1 5.7 79 79-158 1-81 (257)
280 PRK11242 DNA-binding transcrip 71.8 67 0.0014 32.2 12.8 70 378-454 104-173 (296)
281 cd06353 PBP1_BmpA_Med_like Per 71.8 23 0.0005 34.9 9.0 86 78-170 1-89 (258)
282 cd06353 PBP1_BmpA_Med_like Per 71.8 38 0.00083 33.3 10.5 144 2-158 52-201 (258)
283 PF03480 SBP_bac_7: Bacterial 71.7 48 0.001 33.2 11.5 49 381-429 16-66 (286)
284 PF12683 DUF3798: Protein of u 71.6 77 0.0017 30.9 11.7 154 3-158 57-224 (275)
285 cd08462 PBP2_NodD The C-termin 71.3 74 0.0016 29.2 12.2 68 378-454 13-81 (200)
286 cd06578 HemD Uroporphyrinogen- 71.1 34 0.00074 32.9 10.1 118 30-157 76-196 (239)
287 PRK05569 flavodoxin; Provision 70.3 31 0.00067 30.2 8.6 86 77-172 2-95 (141)
288 cd08468 PBP2_Pa0477 The C-term 70.1 90 0.0019 28.7 14.3 72 378-454 13-85 (202)
289 cd08170 GlyDH Glycerol dehydro 70.0 13 0.00029 38.6 7.1 83 65-151 12-97 (351)
290 cd08463 PBP2_DntR_like_4 The C 70.0 92 0.002 28.8 13.7 70 378-454 13-83 (203)
291 PRK09423 gldA glycerol dehydro 69.7 41 0.00088 35.2 10.7 83 65-151 19-104 (366)
292 cd08188 Fe-ADH4 Iron-containin 69.6 26 0.00056 36.9 9.2 87 64-151 16-105 (377)
293 cd08176 LPO Lactadehyde:propan 68.8 21 0.00046 37.5 8.4 86 65-151 17-105 (377)
294 PRK12679 cbl transcriptional r 68.4 1.1E+02 0.0025 31.0 13.6 85 346-454 92-176 (316)
295 KOG3713 Voltage-gated K+ chann 68.3 7 0.00015 41.0 4.5 67 476-546 354-426 (477)
296 TIGR00288 conserved hypothetic 68.2 90 0.002 28.0 12.0 85 64-158 43-130 (160)
297 cd08420 PBP2_CysL_like C-termi 68.1 94 0.002 28.1 13.4 69 378-454 13-82 (201)
298 PRK12684 transcriptional regul 68.1 78 0.0017 32.2 12.3 85 345-454 91-176 (313)
299 cd08459 PBP2_DntR_NahR_LinR_li 68.1 83 0.0018 28.7 11.8 69 378-454 13-82 (201)
300 cd02072 Glm_B12_BD B12 binding 68.0 72 0.0016 27.4 9.8 72 91-170 14-89 (128)
301 PF04273 DUF442: Putative phos 67.9 56 0.0012 27.2 9.0 85 70-155 22-108 (110)
302 cd06310 PBP1_ABC_sugar_binding 67.8 20 0.00044 35.4 7.8 81 78-158 1-83 (273)
303 cd07766 DHQ_Fe-ADH Dehydroquin 67.8 57 0.0012 33.6 11.3 98 65-168 12-112 (332)
304 cd08433 PBP2_Nac The C-teminal 67.7 97 0.0021 28.1 14.0 69 378-454 13-82 (198)
305 cd08442 PBP2_YofA_SoxR_like Th 67.6 95 0.0021 28.0 12.7 69 378-454 13-82 (193)
306 PRK11151 DNA-binding transcrip 67.5 1.1E+02 0.0023 30.9 13.2 70 378-454 104-173 (305)
307 cd08417 PBP2_Nitroaromatics_li 67.1 84 0.0018 28.6 11.6 69 378-454 13-82 (200)
308 COG2358 Imp TRAP-type uncharac 67.0 9.5 0.00021 38.4 4.9 46 375-423 38-84 (321)
309 PRK10837 putative DNA-binding 66.9 1.4E+02 0.003 29.7 14.5 69 378-454 102-171 (290)
310 cd08191 HHD 6-hydroxyhexanoate 66.1 29 0.00064 36.6 8.8 87 65-153 12-101 (386)
311 PRK11233 nitrogen assimilation 65.6 77 0.0017 32.0 11.7 68 378-453 105-173 (305)
312 cd08418 PBP2_TdcA The C-termin 65.4 1.1E+02 0.0023 27.8 12.6 71 378-454 13-84 (201)
313 PF06305 DUF1049: Protein of u 65.0 12 0.00025 28.0 4.1 33 685-717 24-56 (68)
314 cd01569 PBEF_like pre-B-cell c 64.7 41 0.00089 35.2 9.1 108 61-170 238-364 (407)
315 COG0563 Adk Adenylate kinase a 64.6 15 0.00033 33.7 5.6 30 10-39 3-32 (178)
316 cd02069 methionine_synthase_B1 64.3 82 0.0018 29.9 10.6 87 77-171 89-179 (213)
317 PF04392 ABC_sub_bind: ABC tra 63.2 22 0.00048 35.8 7.1 65 78-142 1-68 (294)
318 PF02310 B12-binding: B12 bind 62.5 70 0.0015 26.8 9.1 60 91-156 15-78 (121)
319 PRK05928 hemD uroporphyrinogen 62.4 46 0.00099 32.3 9.1 87 65-158 112-201 (249)
320 cd06305 PBP1_methylthioribose_ 62.2 33 0.00071 33.8 8.1 78 78-158 1-81 (273)
321 PRK00865 glutamate racemase; P 62.0 27 0.00058 34.5 7.2 111 6-145 65-189 (261)
322 cd08171 GlyDH-like2 Glycerol d 62.0 30 0.00064 35.9 7.8 85 65-152 12-99 (345)
323 cd08182 HEPD Hydroxyethylphosp 61.9 37 0.00079 35.6 8.6 85 65-153 12-99 (367)
324 cd06312 PBP1_ABC_sugar_binding 61.8 28 0.0006 34.4 7.5 80 78-158 1-83 (271)
325 cd08183 Fe-ADH2 Iron-containin 61.6 29 0.00063 36.4 7.8 82 65-152 12-96 (374)
326 COG1638 DctP TRAP-type C4-dica 61.5 57 0.0012 33.4 9.6 50 381-430 47-98 (332)
327 cd02070 corrinoid_protein_B12- 61.4 1.4E+02 0.0031 27.9 13.6 89 77-171 83-175 (201)
328 cd06300 PBP1_ABC_sugar_binding 60.6 40 0.00086 33.2 8.4 81 78-158 1-86 (272)
329 PF04971 Lysis_S: Lysis protei 60.5 16 0.00034 26.9 3.7 32 684-715 33-64 (68)
330 PRK09271 flavodoxin; Provision 60.5 64 0.0014 29.0 8.8 86 78-169 2-94 (160)
331 PRK15408 autoinducer 2-binding 60.3 46 0.001 34.3 8.9 81 75-158 22-106 (336)
332 cd06282 PBP1_GntR_like_2 Ligan 60.0 33 0.00071 33.6 7.6 78 79-158 2-80 (266)
333 cd06320 PBP1_allose_binding Pe 59.9 39 0.00084 33.4 8.2 81 78-158 1-83 (275)
334 cd08415 PBP2_LysR_opines_like 59.7 37 0.00079 30.9 7.5 69 378-454 13-82 (196)
335 cd08460 PBP2_DntR_like_1 The C 59.3 1.4E+02 0.003 27.3 11.5 69 378-454 13-81 (200)
336 PRK10537 voltage-gated potassi 59.1 18 0.00039 38.0 5.6 49 502-550 167-221 (393)
337 PRK11482 putative DNA-binding 59.0 2E+02 0.0042 29.3 13.3 68 378-454 130-197 (317)
338 cd08550 GlyDH-like Glycerol_de 58.7 81 0.0017 32.7 10.4 83 65-151 12-97 (349)
339 PRK06756 flavodoxin; Provision 58.3 68 0.0015 28.3 8.6 83 77-168 2-91 (148)
340 cd06306 PBP1_TorT-like TorT-li 58.3 36 0.00078 33.6 7.6 80 78-158 1-82 (268)
341 cd06316 PBP1_ABC_sugar_binding 58.1 30 0.00065 34.7 7.1 80 78-158 1-82 (294)
342 PF10087 DUF2325: Uncharacteri 58.0 99 0.0021 24.9 9.5 62 94-158 12-76 (97)
343 cd06302 PBP1_LsrB_Quorum_Sensi 57.7 40 0.00087 33.9 7.9 80 78-158 1-82 (298)
344 TIGR01753 flav_short flavodoxi 57.4 60 0.0013 28.1 8.1 84 79-172 1-92 (140)
345 PRK12682 transcriptional regul 57.4 1.2E+02 0.0026 30.6 11.4 70 378-454 106-176 (309)
346 TIGR02667 moaB_proteo molybden 57.4 58 0.0013 29.4 7.9 81 76-158 4-93 (163)
347 cd06303 PBP1_LuxPQ_Quorum_Sens 57.2 36 0.00079 33.8 7.4 80 78-158 1-85 (280)
348 cd06301 PBP1_rhizopine_binding 57.2 34 0.00074 33.7 7.2 79 78-158 1-82 (272)
349 PRK08105 flavodoxin; Provision 57.0 54 0.0012 29.1 7.5 83 77-169 2-93 (149)
350 COG4213 XylF ABC-type xylose t 56.8 1.7E+02 0.0036 29.3 11.1 154 2-161 76-244 (341)
351 COG1587 HemD Uroporphyrinogen- 56.6 88 0.0019 30.6 9.7 91 61-158 106-199 (248)
352 cd08411 PBP2_OxyR The C-termin 56.4 1.6E+02 0.0034 26.8 11.9 69 378-454 14-83 (200)
353 cd06267 PBP1_LacI_sugar_bindin 56.2 30 0.00064 33.7 6.6 76 79-158 2-79 (264)
354 PF14981 FAM165: FAM165 family 56.2 33 0.00071 22.8 4.2 33 679-711 3-35 (51)
355 cd06277 PBP1_LacI_like_1 Ligan 56.2 62 0.0013 31.8 8.9 76 79-158 2-81 (268)
356 COG4588 AcfC Accessory coloniz 56.2 1.5E+02 0.0033 27.5 9.9 71 379-454 34-111 (252)
357 cd08425 PBP2_CynR The C-termin 56.1 31 0.00068 31.5 6.4 70 378-454 14-83 (197)
358 cd06289 PBP1_MalI_like Ligand- 56.1 45 0.00098 32.6 7.9 77 79-158 2-80 (268)
359 PRK08811 uroporphyrinogen-III 55.9 50 0.0011 32.7 7.9 115 32-155 95-211 (266)
360 cd01545 PBP1_SalR Ligand-bindi 55.4 54 0.0012 32.2 8.3 78 79-158 2-81 (270)
361 COG2185 Sbm Methylmalonyl-CoA 55.4 1.4E+02 0.0031 26.1 9.8 77 77-159 13-93 (143)
362 PF02602 HEM4: Uroporphyrinoge 55.4 28 0.00061 33.5 6.0 116 31-156 72-190 (231)
363 cd08426 PBP2_LTTR_like_5 The C 55.2 1.6E+02 0.0035 26.6 12.9 69 378-454 13-82 (199)
364 cd01391 Periplasmic_Binding_Pr 55.1 40 0.00088 32.5 7.4 78 78-158 1-83 (269)
365 cd01538 PBP1_ABC_xylose_bindin 55.1 50 0.0011 33.0 8.0 78 79-158 2-81 (288)
366 cd01536 PBP1_ABC_sugar_binding 55.0 43 0.00093 32.7 7.5 79 78-158 1-81 (267)
367 cd01537 PBP1_Repressors_Sugar_ 54.9 30 0.00065 33.6 6.4 78 78-158 1-80 (264)
368 PRK11074 putative DNA-binding 54.9 2.3E+02 0.0051 28.3 13.3 85 346-454 91-176 (300)
369 PRK06703 flavodoxin; Provision 53.3 84 0.0018 27.8 8.3 83 78-170 3-92 (151)
370 cd08179 NADPH_BDH NADPH-depend 53.1 46 0.001 34.9 7.6 77 75-151 22-101 (375)
371 cd08197 DOIS 2-deoxy-scyllo-in 52.8 1.5E+02 0.0031 30.9 11.0 98 65-168 12-118 (355)
372 PRK05568 flavodoxin; Provision 52.8 93 0.002 27.1 8.5 84 77-171 2-93 (142)
373 cd06281 PBP1_LacI_like_5 Ligan 52.7 57 0.0012 32.1 7.9 78 79-158 2-80 (269)
374 PRK10936 TMAO reductase system 52.6 55 0.0012 33.8 8.1 82 76-158 46-129 (343)
375 cd08440 PBP2_LTTR_like_4 TThe 52.4 40 0.00086 30.6 6.4 69 378-454 13-82 (197)
376 cd06299 PBP1_LacI_like_13 Liga 52.4 61 0.0013 31.7 8.1 76 79-158 2-79 (265)
377 PRK09189 uroporphyrinogen-III 52.1 1.2E+02 0.0027 29.3 10.0 113 32-155 75-191 (240)
378 cd08467 PBP2_SyrM The C-termin 51.9 1.9E+02 0.0041 26.4 12.6 69 378-454 13-82 (200)
379 PRK00002 aroB 3-dehydroquinate 51.9 1.3E+02 0.0027 31.4 10.5 102 51-158 9-119 (358)
380 TIGR00067 glut_race glutamate 51.8 1.1E+02 0.0023 30.1 9.3 32 6-37 59-90 (251)
381 cd08461 PBP2_DntR_like_3 The C 50.8 1.9E+02 0.0041 26.1 12.3 69 378-454 13-82 (198)
382 PF13155 Toprim_2: Toprim-like 50.8 32 0.00069 27.6 4.7 42 63-105 34-75 (96)
383 PRK11070 ssDNA exonuclease Rec 50.6 1.2E+02 0.0025 33.9 10.4 89 75-170 68-159 (575)
384 cd08173 Gro1PDH Sn-glycerol-1- 50.5 1.2E+02 0.0026 31.3 10.0 82 66-151 14-98 (339)
385 cd06318 PBP1_ABC_sugar_binding 50.2 46 0.001 33.0 6.9 79 78-158 1-81 (282)
386 COG1832 Predicted CoA-binding 50.1 1.7E+02 0.0037 25.3 10.7 99 65-171 7-108 (140)
387 PF03401 TctC: Tripartite tric 50.0 93 0.002 31.0 8.8 102 556-657 87-242 (274)
388 cd06314 PBP1_tmGBP Periplasmic 50.0 51 0.0011 32.5 7.1 78 79-158 2-80 (271)
389 cd06322 PBP1_ABC_sugar_binding 49.9 62 0.0013 31.7 7.7 78 79-158 2-81 (267)
390 PF01745 IPT: Isopentenyl tran 49.8 12 0.00025 35.2 2.1 32 8-39 2-33 (233)
391 cd08419 PBP2_CbbR_RubisCO_like 49.7 1.9E+02 0.0042 25.9 13.9 69 378-454 12-81 (197)
392 PRK09701 D-allose transporter 49.5 89 0.0019 31.7 8.9 85 74-158 22-108 (311)
393 cd01540 PBP1_arabinose_binding 49.5 49 0.0011 33.0 7.0 78 78-158 1-80 (289)
394 cd08464 PBP2_DntR_like_2 The C 49.4 2E+02 0.0044 26.0 13.0 69 378-454 13-82 (200)
395 COG0371 GldA Glycerol dehydrog 49.1 92 0.002 32.1 8.5 91 65-158 19-109 (360)
396 cd08430 PBP2_IlvY The C-termin 48.9 85 0.0018 28.5 8.2 70 378-454 13-83 (199)
397 cd08438 PBP2_CidR The C-termin 48.7 53 0.0011 29.8 6.7 70 378-454 13-82 (197)
398 PRK11303 DNA-binding transcrip 48.7 78 0.0017 32.3 8.5 80 76-158 61-142 (328)
399 PRK13010 purU formyltetrahydro 48.6 3E+02 0.0064 27.7 14.4 96 9-111 11-126 (289)
400 COG0608 RecJ Single-stranded D 48.5 1.4E+02 0.0031 32.6 10.7 88 74-170 34-121 (491)
401 PRK10481 hypothetical protein; 48.4 85 0.0018 30.0 7.7 67 75-146 128-195 (224)
402 PRK07377 hypothetical protein; 48.2 28 0.00061 31.5 4.1 44 377-423 92-135 (184)
403 PF13362 Toprim_3: Toprim doma 48.1 47 0.001 26.7 5.3 53 74-129 39-93 (96)
404 cd06270 PBP1_GalS_like Ligand 48.0 88 0.0019 30.6 8.5 76 79-158 2-79 (268)
405 CHL00073 chlN photochlorophyll 47.9 92 0.002 33.5 8.7 150 8-170 194-347 (457)
406 cd06315 PBP1_ABC_sugar_binding 47.7 79 0.0017 31.4 8.1 80 77-158 1-82 (280)
407 TIGR00646 MG010 DNA primase-re 47.6 65 0.0014 30.5 6.6 63 64-129 142-204 (218)
408 cd06295 PBP1_CelR Ligand bindi 47.0 1E+02 0.0022 30.3 8.8 78 76-158 3-88 (275)
409 cd06292 PBP1_LacI_like_10 Liga 46.6 97 0.0021 30.4 8.6 78 79-158 2-84 (273)
410 TIGR02329 propionate_PrpR prop 46.6 2.1E+02 0.0046 31.6 11.5 140 9-168 32-171 (526)
411 PRK10653 D-ribose transporter 46.5 79 0.0017 31.7 7.9 82 75-158 25-108 (295)
412 cd08485 PBP2_ClcR The C-termin 46.3 52 0.0011 30.2 6.2 69 378-454 14-83 (198)
413 cd08175 G1PDH Glycerol-1-phosp 46.2 1.6E+02 0.0034 30.6 10.2 84 65-151 12-100 (348)
414 PRK07308 flavodoxin; Validated 46.2 1.3E+02 0.0028 26.4 8.3 81 78-168 3-90 (146)
415 PF02608 Bmp: Basic membrane p 46.2 56 0.0012 33.2 6.7 88 77-170 2-93 (306)
416 cd03364 TOPRIM_DnaG_primases T 46.0 43 0.00093 25.8 4.6 40 68-109 36-75 (79)
417 cd08177 MAR Maleylacetate redu 46.0 29 0.00062 35.8 4.6 85 64-152 11-98 (337)
418 cd08412 PBP2_PAO1_like The C-t 46.0 60 0.0013 29.5 6.6 70 377-454 12-82 (198)
419 cd06296 PBP1_CatR_like Ligand- 45.8 82 0.0018 30.8 7.9 77 79-158 2-79 (270)
420 PRK09426 methylmalonyl-CoA mut 45.7 1.8E+02 0.0039 33.5 11.0 84 78-169 584-671 (714)
421 cd06317 PBP1_ABC_sugar_binding 45.7 67 0.0015 31.6 7.2 78 79-158 2-82 (275)
422 KOG0780 Signal recognition par 45.6 2.2E+02 0.0048 29.6 10.3 103 63-170 117-223 (483)
423 PRK00843 egsA NAD(P)-dependent 45.5 1.6E+02 0.0034 30.6 10.0 94 51-151 11-107 (350)
424 cd00886 MogA_MoaB MogA_MoaB fa 45.2 99 0.0021 27.5 7.4 63 78-141 2-69 (152)
425 PF02608 Bmp: Basic membrane p 45.2 1.6E+02 0.0034 29.9 9.8 145 6-158 59-212 (306)
426 cd06324 PBP1_ABC_sugar_binding 45.1 69 0.0015 32.3 7.3 78 79-158 2-83 (305)
427 PRK09508 leuO leucine transcri 44.9 1.6E+02 0.0036 29.7 10.1 69 378-454 125-194 (314)
428 cd00758 MoCF_BD MoCF_BD: molyb 44.9 79 0.0017 27.3 6.6 46 94-141 21-66 (133)
429 PRK05723 flavodoxin; Provision 44.9 1.2E+02 0.0025 27.1 7.7 80 78-167 2-91 (151)
430 cd08178 AAD_C C-terminal alcoh 44.9 60 0.0013 34.4 6.9 78 74-152 19-99 (398)
431 PRK07239 bifunctional uroporph 44.6 1.5E+02 0.0033 31.1 9.9 123 31-158 97-225 (381)
432 COG0715 TauA ABC-type nitrate/ 44.6 64 0.0014 33.1 7.1 42 378-422 45-87 (335)
433 cd01539 PBP1_GGBP Periplasmic 44.4 81 0.0018 31.8 7.7 79 78-158 1-83 (303)
434 PF13607 Succ_CoA_lig: Succiny 43.8 1.4E+02 0.003 26.1 7.8 77 78-159 3-81 (138)
435 COG3340 PepE Peptidase E [Amin 43.7 1.3E+02 0.0028 28.3 7.8 85 65-158 22-107 (224)
436 cd01542 PBP1_TreR_like Ligand- 43.6 93 0.002 30.2 7.8 77 79-158 2-79 (259)
437 TIGR02637 RhaS rhamnose ABC tr 43.1 88 0.0019 31.4 7.7 66 92-158 15-82 (302)
438 PRK14722 flhF flagellar biosyn 43.0 1.6E+02 0.0034 30.8 9.3 26 4-29 134-159 (374)
439 COG1922 WecG Teichoic acid bio 43.0 62 0.0013 31.5 5.9 97 63-170 96-195 (253)
440 cd01980 Chlide_reductase_Y Chl 43.0 1.5E+02 0.0033 31.6 9.6 150 8-169 160-312 (416)
441 cd01575 PBP1_GntR Ligand-bindi 42.6 1E+02 0.0022 30.1 8.0 77 79-158 2-79 (268)
442 cd08466 PBP2_LeuO The C-termin 42.5 70 0.0015 29.2 6.5 69 378-454 13-82 (200)
443 TIGR02717 AcCoA-syn-alpha acet 42.3 1.3E+02 0.0029 32.4 9.1 93 74-173 5-101 (447)
444 PRK06975 bifunctional uroporph 42.0 2.4E+02 0.0051 32.3 11.4 118 31-155 80-214 (656)
445 PRK10014 DNA-binding transcrip 42.0 1.2E+02 0.0026 31.1 8.6 80 76-158 64-145 (342)
446 cd06274 PBP1_FruR Ligand bindi 41.8 98 0.0021 30.2 7.7 77 79-158 2-79 (264)
447 PF00448 SRP54: SRP54-type pro 41.7 68 0.0015 30.0 6.0 65 76-143 29-93 (196)
448 cd01574 PBP1_LacI Ligand-bindi 41.2 1.3E+02 0.0028 29.3 8.5 78 79-158 2-80 (264)
449 PF06679 DUF1180: Protein of u 41.1 31 0.00066 30.9 3.3 28 681-708 93-120 (163)
450 cd06354 PBP1_BmpA_PnrA_like Pe 41.1 1.1E+02 0.0023 30.2 7.8 62 78-142 1-66 (265)
451 PRK09004 FMN-binding protein M 41.1 1.3E+02 0.0028 26.5 7.4 80 77-168 2-90 (146)
452 PF00072 Response_reg: Respons 41.0 1.2E+02 0.0027 24.5 7.1 56 94-157 11-69 (112)
453 PLN03192 Voltage-dependent pot 41.0 33 0.00071 40.5 4.6 48 505-552 252-305 (823)
454 cd06285 PBP1_LacI_like_7 Ligan 40.9 1.1E+02 0.0024 29.9 7.9 77 79-158 2-79 (265)
455 PRK05752 uroporphyrinogen-III 40.3 1.4E+02 0.003 29.3 8.3 111 33-153 84-201 (255)
456 cd01972 Nitrogenase_VnfE_like 40.2 1.3E+02 0.0028 32.2 8.7 152 8-168 162-325 (426)
457 PRK10355 xylF D-xylose transpo 40.0 1.2E+02 0.0027 31.0 8.3 80 76-158 25-107 (330)
458 PRK14723 flhF flagellar biosyn 39.9 2.2E+02 0.0049 32.8 10.6 26 6-31 184-209 (767)
459 cd00338 Ser_Recombinase Serine 39.7 2.4E+02 0.0052 24.1 9.4 38 121-158 53-96 (137)
460 PRK13054 lipid kinase; Reviewe 39.7 1.8E+02 0.0038 29.4 9.2 76 77-156 4-79 (300)
461 COG0503 Apt Adenine/guanine ph 39.6 47 0.001 30.6 4.5 103 5-114 50-152 (179)
462 cd06319 PBP1_ABC_sugar_binding 39.6 91 0.002 30.7 7.1 78 79-158 2-81 (277)
463 cd08465 PBP2_ToxR The C-termin 39.6 72 0.0016 29.3 6.0 70 378-454 13-82 (200)
464 TIGR02417 fruct_sucro_rep D-fr 39.5 1.7E+02 0.0036 29.8 9.3 80 76-158 60-141 (327)
465 PHA02594 nadV nicotinamide pho 39.5 4.4E+02 0.0095 28.5 12.0 106 61-169 246-371 (470)
466 PRK07475 hypothetical protein; 39.3 1E+02 0.0022 30.1 7.0 26 75-107 121-146 (245)
467 cd06321 PBP1_ABC_sugar_binding 38.8 1.2E+02 0.0025 29.8 7.7 78 79-158 2-83 (271)
468 PRK15395 methyl-galactoside AB 38.7 2E+02 0.0043 29.4 9.6 83 74-158 22-107 (330)
469 cd06307 PBP1_uncharacterized_s 38.7 1.2E+02 0.0027 29.7 7.9 80 78-158 1-84 (275)
470 cd06283 PBP1_RegR_EndR_KdgR_li 38.6 1.1E+02 0.0025 29.7 7.6 77 79-158 2-79 (267)
471 cd03770 SR_TndX_transposase Se 38.5 2.7E+02 0.0058 24.3 9.0 38 121-158 56-100 (140)
472 cd06323 PBP1_ribose_binding Pe 38.4 96 0.0021 30.2 7.0 78 79-158 2-81 (268)
473 cd08169 DHQ-like Dehydroquinat 38.0 2.7E+02 0.0059 28.7 10.3 100 65-169 12-118 (344)
474 cd06167 LabA_like LabA_like pr 38.0 2.8E+02 0.006 24.3 11.5 91 65-158 27-124 (149)
475 cd08446 PBP2_Chlorocatechol Th 37.9 89 0.0019 28.4 6.4 69 378-454 14-83 (198)
476 cd08413 PBP2_CysB_like The C-t 37.9 95 0.0021 28.4 6.6 70 378-454 13-83 (198)
477 PRK12359 flavodoxin FldB; Prov 37.8 97 0.0021 28.3 6.2 78 78-167 2-86 (172)
478 PRK09791 putative DNA-binding 37.7 73 0.0016 32.1 6.1 86 346-454 94-179 (302)
479 TIGR00177 molyb_syn molybdenum 37.6 1.4E+02 0.003 26.3 7.0 46 94-141 29-74 (144)
480 PF00731 AIRC: AIR carboxylase 37.5 85 0.0018 27.8 5.4 71 78-150 2-73 (150)
481 cd06309 PBP1_YtfQ_like Peripla 37.4 1.1E+02 0.0024 30.1 7.3 66 91-158 15-81 (273)
482 PRK15138 aldehyde reductase; P 37.4 1.1E+02 0.0024 32.2 7.5 83 65-151 20-105 (387)
483 cd08451 PBP2_BudR The C-termin 37.3 90 0.002 28.3 6.3 70 378-454 14-84 (199)
484 PF14316 DUF4381: Domain of un 37.0 82 0.0018 27.8 5.5 40 670-709 7-46 (146)
485 COG1879 RbsB ABC-type sugar tr 36.5 1.9E+02 0.004 29.5 8.9 81 77-158 34-117 (322)
486 PF13662 Toprim_4: Toprim doma 36.4 46 0.001 25.7 3.4 33 76-109 46-78 (81)
487 cd06313 PBP1_ABC_sugar_binding 36.3 1.1E+02 0.0023 30.2 7.0 65 92-158 16-81 (272)
488 PF02502 LacAB_rpiB: Ribose/Ga 36.3 1.5E+02 0.0033 25.9 6.9 57 92-149 12-72 (140)
489 KOG2670 Enolase [Carbohydrate 36.3 2.8E+02 0.006 27.8 9.0 128 25-158 232-367 (433)
490 PF00558 Vpu: Vpu protein; In 36.2 51 0.0011 25.5 3.3 31 686-718 9-39 (81)
491 PF08357 SEFIR: SEFIR domain; 36.1 73 0.0016 28.1 5.1 76 77-153 1-78 (150)
492 PF13167 GTP-bdg_N: GTP-bindin 36.0 2.3E+02 0.005 22.8 7.4 56 94-149 10-75 (95)
493 PRK10586 putative oxidoreducta 35.9 2.3E+02 0.0051 29.5 9.5 73 64-142 22-95 (362)
494 cd08448 PBP2_LTTR_aromatics_li 35.7 1.1E+02 0.0024 27.6 6.6 69 378-454 13-82 (197)
495 cd06286 PBP1_CcpB_like Ligand- 35.5 1.1E+02 0.0023 29.9 6.7 75 79-156 2-77 (260)
496 cd08456 PBP2_LysR The C-termin 35.5 89 0.0019 28.3 6.0 69 378-454 13-82 (196)
497 cd03522 MoeA_like MoeA_like. T 35.4 1.6E+02 0.0035 29.9 7.9 79 74-153 157-240 (312)
498 PF00532 Peripla_BP_1: Peripla 35.2 67 0.0015 32.0 5.2 78 77-158 2-80 (279)
499 cd08443 PBP2_CysB The C-termin 35.2 1.6E+02 0.0036 26.8 7.8 71 377-454 12-83 (198)
500 cd03146 GAT1_Peptidase_E Type 35.1 2E+02 0.0043 27.3 8.2 82 65-157 18-102 (212)
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=4.7e-81 Score=615.80 Aligned_cols=675 Identities=19% Similarity=0.272 Sum_probs=560.8
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+++|.||+|-+.-.....+..++...++|+|+++... +..+++..++.|+-. .++++++.+++|.++.++|+.
T Consensus 88 s~Gv~Aifg~yd~ks~~~ltsfc~aLh~~~vtpsfp~----~~~~~Fviq~RP~l~---~al~s~i~hy~W~~fv~lyD~ 160 (897)
T KOG1054|consen 88 SRGVYAIFGFYDKKSVNTLTSFCGALHVSFVTPSFPT----DGDNQFVIQMRPALK---GALLSLIDHYKWEKFVYLYDT 160 (897)
T ss_pred hhhHhhheecccccchhhhhhhccceeeeeecccCCc----CCCceEEEEeCchHH---HHHHHHHHhcccceEEEEEcc
Confidence 4789999999999999999999999999999987632 345689999999864 899999999999999999998
Q ss_pred CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 043468 86 IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKDYIW 165 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~~~ 165 (720)
+.+ ...++.+-+.+.+++++|.....-...+..+|..+++.+...+.+-|++.|..+....++.++-+.+...++|++
T Consensus 161 ~rg--~s~Lqai~~~a~~~nw~VtA~~v~~~~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHY 238 (897)
T KOG1054|consen 161 DRG--LSILQAIMEAAAQNNWQVTAINVGNINDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHY 238 (897)
T ss_pred cch--HHHHHHHHHHHHhcCceEEEEEcCCcccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEE
Confidence 765 334888888999999998777654444433699999999888888899999999999999999988887789999
Q ss_pred EEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHHHHHHHH
Q 043468 166 ITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVWSVALAM 245 (720)
Q Consensus 166 i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~~~a~al 245 (720)
+.++..-.+.+.. .......++.++...... +|..++|+++|+.....+++.... +++...++.+|||+.+.++|+
T Consensus 239 vlaNl~f~d~dl~--~f~~g~aNitgFqivn~~-~~~~~k~~~~~~~l~~~~~~g~~~-~~~k~tsAlthDailV~~eaf 314 (897)
T KOG1054|consen 239 VLANLGFTDIDLE--RFQHGGANITGFQIVNKN-NPMVKKFIQRWKELDEREYPGASN-DPIKYTSALTHDAILVMAEAF 314 (897)
T ss_pred EEeeCCCchhhHH--HHhcCCcceeEEEEecCC-ChHHHHHHHHHhhhcccccCCCCC-CCcchhhhhhhhHHHHHHHHH
Confidence 9988744332111 112334467777654433 589999999998766555555443 377788999999999999999
Q ss_pred HHHHH----------------------HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCceEEEEEEec
Q 043468 246 EQKSE----------------------KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSYRELGFWTY 303 (720)
Q Consensus 246 ~~~~~----------------------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~v~~w~~ 303 (720)
+.+.. ..|..+..+++++.++|++|.++||..|.|.|...+|+++..++.+++++|+.
T Consensus 315 ~~~~~q~~~~~rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e 394 (897)
T KOG1054|consen 315 RSLRRQRIDISRRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNE 394 (897)
T ss_pred HHHHHhhhchhccCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeecc
Confidence 97753 24678999999999999999999999999999999999999888999999999
Q ss_pred CCCccccccCCCCccCcccccCceeeCCCCCCCCcccccCCCCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHH
Q 043468 304 GLGFSDTIIDPKYNCSSMKDLGQVFWPGAPWYTPKGWTLPAKDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIEL 383 (720)
Q Consensus 304 ~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~~~~~~~~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl 383 (720)
..++.+..+... .+ +. ....+.++..|.+....||..+-.. ...+.|+.++.|+|+||
T Consensus 395 ~~~fv~~~t~a~-~~-------------~d-------~~~~~n~tvvvttiL~spyvm~kkn-~~~~egn~ryEGyCvdL 452 (897)
T KOG1054|consen 395 GEGFVPGSTVAQ-SR-------------ND-------QASKENRTVVVTTILESPYVMLKKN-HEQLEGNERYEGYCVDL 452 (897)
T ss_pred cCceeecccccc-cc-------------cc-------ccccccceEEEEEecCCchhHHHhh-HHHhcCCcccceeHHHH
Confidence 988875443211 00 00 0123456777777776776543221 23357888999999999
Q ss_pred HHHHHHhCCCccceEEecC--------CCC-HHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 384 FKALVEKLPFYLPYNFIPF--------NGS-YDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 384 ~~~la~~l~~~~~~~~~~~--------~~~-~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
+.+||++.+.+|++..+++ +++ |+||++.|..|++|++++++++|.+|++.+|||.|++..+++++++||.
T Consensus 453 a~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIKKPq 532 (897)
T KOG1054|consen 453 AAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIKKPQ 532 (897)
T ss_pred HHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEeCcc
Confidence 9999999999988887743 355 9999999999999999999999999999999999999999999999998
Q ss_pred -CCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCcc------Ccc-----cc--ccchhhhhhh---hccCC
Q 043468 455 -SGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELT------GSA-----LH--QTGTFFWLSF---NLHGE 517 (720)
Q Consensus 455 -~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~------~~~-----~~--~~~~~~~~~~---~~~g~ 517 (720)
..+..|+|+.|....+|+||+.+++-++++++++.|++|.+++ |.. .+ ++.+++|+++ .+||+
T Consensus 533 Ksk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFMQQG~ 612 (897)
T KOG1054|consen 533 KSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFMQQGC 612 (897)
T ss_pred cCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHHhcCC
Confidence 8899999999999999999999999999999999999987753 221 12 3668999999 66787
Q ss_pred c--ccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhh-cCCeEEEecC-----------------
Q 043468 518 K--LHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQS-SNAIIGYSRC----------------- 577 (720)
Q Consensus 518 ~--~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~-~~~~~~~~~~----------------- 577 (720)
. ||+.|+|++..+||+|++||+++|||||++|||.+++.+||+|.+||.+ ..+.+|+..+
T Consensus 613 DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr~Skiavy~k 692 (897)
T KOG1054|consen 613 DISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRRSKIAVYEK 692 (897)
T ss_pred CCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHhhhhHHHHHH
Confidence 6 7999999999999999999999999999999999999999999999997 4578888776
Q ss_pred ----------------cchHHHHHhcCcccEEEechhHHHHHHH-hc-CCCcEeeCCeeecCceeeEecCCCCChHHHHH
Q 043468 578 ----------------LGDYASDLKSRKTGAVFLEVAEAKIFLA-KY-CKGFTVAGPTYKVGGLGFAFPKGSPLLPSVIE 639 (720)
Q Consensus 578 ----------------~~~~~~~l~~~~~~~~~~~~~~~~~~~~-~~-~~~l~~~~~~~~~~~~~~~~~k~s~~~~~in~ 639 (720)
..|.++++++.+..++++-+..++.|.. +. |+ -..++..+.+..|+++.||+|.|+..+|.
T Consensus 693 MW~yM~SaepsVFv~t~aeGv~rVRksKGkyAfLLEsTmNey~eqRkPCD-TMKVGgNLds~GYGiATp~Gsslr~~vNL 771 (897)
T KOG1054|consen 693 MWTYMKSAEPSVFVRTTAEGVARVRKSKGKYAFLLESTMNEYIEQRKPCD-TMKVGGNLDSKGYGIATPKGSSLRNAVNL 771 (897)
T ss_pred HHHHHhcCCcceeeehhhhHHHHHHhcCCceEeehHhhhhhhhhccCCcc-ceecccccCCcceeecCCCCcccccchhh
Confidence 6678888888766666554444454444 44 98 56688889999999999999999999999
Q ss_pred HHhcccccCcHHHHHHHhcCCC-CCCCCCCCCCCCCCCcccccchhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 043468 640 ALLKVSESGKLRELETSMIASE-KCMEVNLHDDDDISSLSPSGFWVLFVLSGGISTIALVIFLWRCNWKINENLLVNK 716 (720)
Q Consensus 640 ~i~~~~~~G~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~l~~~~~~f~il~~g~~ls~~v~~~E~~~~~~~~~~~~~ 716 (720)
+++.|.|.|+++++++||+.+. +|.....+..+....|+|..++|+||||..|+++|.++.++|++++++..+++++
T Consensus 772 AvLkL~E~G~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr~Eakr~k 849 (897)
T KOG1054|consen 772 AVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAKRMK 849 (897)
T ss_pred hhhhhcccchHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhhHHHHhhh
Confidence 9999999999999999999987 9988655666677899999999999999999999999999999999887766655
No 2
>KOG4440 consensus NMDA selective glutamate-gated ion channel receptor subunit GRIN1 [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1.1e-72 Score=559.24 Aligned_cols=652 Identities=22% Similarity=0.329 Sum_probs=538.6
Q ss_pred cccccCCeEEEE-CCCCCh----hhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCC
Q 043468 2 DLMDSQKVEAIL-GPQTSE----ETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWE 75 (720)
Q Consensus 2 ~Li~~~~v~aii-Gp~~s~----~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~ 75 (720)
+|| +++|.+|+ .|.-++ +..+++-.+..+++|+++....+..++ ++-++.+.|+.|+.+.|+.+..+.|..+.
T Consensus 90 ~li-~~~vyav~vSh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~ 168 (993)
T KOG4440|consen 90 DLI-SSQVYAVLVSHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYS 168 (993)
T ss_pred HHH-hhheeEEEecCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhHHHHHHHHHhh
Confidence 567 46666665 332221 234556677889999999988888888 46789999999999999999999999999
Q ss_pred CeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 76 WHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 76 ~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
|++|.++.+||..|... ..+++..+++...++.....+.++.. ++.+.+-+.|..+++++++..+.+|+..++++|..
T Consensus 169 y~~vi~l~s~d~~gra~-~~r~qt~~e~~~~~~e~v~~f~p~~~-~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~ 246 (993)
T KOG4440|consen 169 YNHVILLVSDDHEGRAA-QKRLQTLLEERESKAEKVLQFDPGTK-NVTALLMEAKELEARVIILSASEDDAATIFRAAGM 246 (993)
T ss_pred cceEEEEEcccccchhH-HhHHHHHHHHHhhhhhhheecCcccc-hHHHHHhhhhhhhheeEEeecccchHHHHHHhhhh
Confidence 99999999999988766 77888888877777777777777776 99999999999999999999999999999999999
Q ss_pred cCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHh
Q 043468 156 MKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTY 235 (720)
Q Consensus 156 ~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y 235 (720)
++|++.+++|+++...... ....+|++|......-. ..+..-
T Consensus 247 lnmTG~G~VWiV~E~a~~~--------nn~PdG~LGlqL~~~~~------------------------------~~~hir 288 (993)
T KOG4440|consen 247 LNMTGSGYVWIVGERAISG--------NNLPDGILGLQLINGKN------------------------------ESAHIR 288 (993)
T ss_pred hcccCceEEEEEecccccc--------CCCCCceeeeEeecCcc------------------------------ccceeh
Confidence 9999999999999875432 24567888876432211 123455
Q ss_pred hHHHHHHHHHHHHHH------------------HhHHHHHHHHHcc-cccCceeeEEEecCCcCCCCeEEEEEee-cCce
Q 043468 236 DAVWSVALAMEQKSE------------------KLNQKLLRRILLS-DFDGLTGKVEFMNQKVAPAHTYQIINLM-GKSY 295 (720)
Q Consensus 236 dav~~~a~al~~~~~------------------~~~~~l~~~l~~~-~~~g~~G~v~f~~~g~~~~~~~~i~~~~-~~~~ 295 (720)
|++.+++.|++.... .++..+...+... ..+|.+|+|.||++|+|.-..|+|+++. +.+.
T Consensus 289 Dsv~vlasAv~e~~~~e~I~~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~ 368 (993)
T KOG4440|consen 289 DSVGVLASAVHELLEKENITDPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKL 368 (993)
T ss_pred hhHHHHHHHHHHHHhhccCCCCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhh
Confidence 888889999888764 2455566666654 5578999999999999998999999994 4444
Q ss_pred EEEEEEecCCCccccccCCCCccCcccccCceeeCCCCCCCCcccccCCCCCCeEEeecCCCccccceEe-ee-------
Q 043468 296 RELGFWTYGLGFSDTIIDPKYNCSSMKDLGQVFWPGAPWYTPKGWTLPAKDQPLRIGVPIGSEFQQYVNV-EY------- 367 (720)
Q Consensus 296 ~~v~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~~~~~~~~~~~l~v~~~~~~p~~p~~~~-~~------- 367 (720)
+.++.++... . ..+-+.|.||++....|.++..| .+|||.+.+++||+ |+.. -.
T Consensus 369 Vg~~~yd~~r--~------------~~nd~~IiWpGg~~~KP~gi~~p---thLrivTi~~~PFV-Yv~p~~sd~~c~ee 430 (993)
T KOG4440|consen 369 VGVGIYDGTR--V------------IPNDRKIIWPGGETEKPRGIQMP---THLRIVTIHQEPFV-YVKPTLSDGTCKEE 430 (993)
T ss_pred hhhcccccee--e------------ccCCceeecCCCCcCCCcccccc---ceeEEEEeccCCeE-EEecCCCCcchhhh
Confidence 4444444421 1 11236699999999999998877 58999999999985 2220 00
Q ss_pred -----c--------------cCC----CceeEEEEeHHHHHHHHHhCCCccceEEecC----------------CCCHHH
Q 043468 368 -----D--------------ELR----NFTYFGGFSIELFKALVEKLPFYLPYNFIPF----------------NGSYDD 408 (720)
Q Consensus 368 -----~--------------~~~----~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~----------------~~~~~~ 408 (720)
| +.. -..|+.|+++|++-.+++.+||+|+..+++. ..+|+|
T Consensus 431 f~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~G 510 (993)
T KOG4440|consen 431 FTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWNG 510 (993)
T ss_pred ccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccceehh
Confidence 1 000 1358899999999999999999998877753 126999
Q ss_pred HHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeee
Q 043468 409 LVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLI 488 (720)
Q Consensus 409 ~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~ 488 (720)
+|++|.+|++||+++++++++||.++++||.|+...++.++.+++...+.+-+|++||+..+|+++++++.+++++++++
T Consensus 511 ~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYlL 590 (993)
T KOG4440|consen 511 MIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYLL 590 (993)
T ss_pred hhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999998889999999999999999999999999999999
Q ss_pred ecccCCCc-c-------Cccccccchhhhhhh---hcc--CC-cccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccc
Q 043468 489 ERNHWPEL-T-------GSALHQTGTFFWLSF---NLH--GE-KLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARG 554 (720)
Q Consensus 489 ~r~~~~~~-~-------~~~~~~~~~~~~~~~---~~~--g~-~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~ 554 (720)
+|+++.+- + ......++.++|++| +.. |+ .||+.+.|++.++|+-|++|++++|+|||++||...+
T Consensus 591 DrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdr 670 (993)
T KOG4440|consen 591 DRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDR 670 (993)
T ss_pred HhcCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeecC
Confidence 99987542 1 113446889999999 222 33 4899999999999999999999999999999999999
Q ss_pred cCCCCCChHHhh--h--cCCeEEEecC---------------------------cchHHHHHhcCcccEEEechhHHHHH
Q 043468 555 LEPTVNNIETLQ--S--SNAIIGYSRC---------------------------LGDYASDLKSRKTGAVFLEVAEAKIF 603 (720)
Q Consensus 555 ~~~~i~s~~dl~--~--~~~~~~~~~~---------------------------~~~~~~~l~~~~~~~~~~~~~~~~~~ 603 (720)
.+..++.+.|-. + .++.++++.+ .+|+++.+++|+.++++.|+.-+++.
T Consensus 671 Pe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~gkL~AFIWDS~rLEfE 750 (993)
T KOG4440|consen 671 PEERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDGKLHAFIWDSARLEFE 750 (993)
T ss_pred ccccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHcCceeEEEeecceeeeh
Confidence 999998888753 3 3466777665 66788889999999999999999999
Q ss_pred HHhcCCCcEeeCCeeecCceeeEecCCCCChHHHHHHHhcccccCcHHHHHHHhcCCC---CCCCCCCCCCCCCCCcccc
Q 043468 604 LAKYCKGFTVAGPTYKVGGLGFAFPKGSPLLPSVIEALLKVSESGKLRELETSMIASE---KCMEVNLHDDDDISSLSPS 680 (720)
Q Consensus 604 ~~~~~~~l~~~~~~~~~~~~~~~~~k~s~~~~~in~~i~~~~~~G~~~~~~~~~~~~~---~~~~~~~~~~~~~~~l~l~ 680 (720)
.++.|. +...++.|.-+.||+.++|+|||.+.+..+|+++.|+|+++++.++|...+ .|.. ....+..|+++
T Consensus 751 As~~Ce-LvT~GeLFgRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~----~~k~PatLgl~ 825 (993)
T KOG4440|consen 751 ASQKCE-LVTTGELFGRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECDS----RSKAPATLGLE 825 (993)
T ss_pred hhcccc-eEeccccccccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhhh----hccCccccccc
Confidence 999999 899999999999999999999999999999999999999999999998774 5544 45678899999
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhc
Q 043468 681 GFWVLFVLSGGISTIALVIFLWRCNWKINENLLVNKK 717 (720)
Q Consensus 681 ~~~~~f~il~~g~~ls~~v~~~E~~~~~~~~~~~~~k 717 (720)
+++|+|++.+.|+++++.+.++|..+++++-++++|.
T Consensus 826 NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~k~kr~ 862 (993)
T KOG4440|consen 826 NMAGVFILVAGGIAAGIFLIFIEVAYKRHKDAKRKRM 862 (993)
T ss_pred ccccEEEEEecchhheeeEEEEeehhhhhhhhhhHHH
Confidence 9999999999999999999999999988776665543
No 3
>KOG1053 consensus Glutamate-gated NMDA-type ion channel receptor subunit GRIN2A and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1.7e-69 Score=556.38 Aligned_cols=643 Identities=21% Similarity=0.339 Sum_probs=514.8
Q ss_pred ccccCCeEEEECCCCChh--hHHHHH-hhccCCCcEEecccCCcc-cc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCe
Q 043468 3 LMDSQKVEAILGPQTSEE--TSSVAE-IASKKQIPVLSFADATPN-WA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWH 77 (720)
Q Consensus 3 Li~~~~v~aiiGp~~s~~--~~~~~~-~~~~~~ip~is~~~~~~~-l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~ 77 (720)
|+...+|.+|+--..|.+ ..++.+ +..+..||+|+..+.+.- ++ ++....++++.|+.++|+++|+++|+.++|.
T Consensus 95 lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieqqa~Vml~iL~~ydW~ 174 (1258)
T KOG1053|consen 95 LVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQQAQVMLKILEEYDWY 174 (1258)
T ss_pred hhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHHHHHHHHHHHHHcCcc
Confidence 566788888876555552 222222 446789999999866544 44 3344679999999999999999999999999
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHH--cCcEEEEEEecCCCCcccHHH-HHHHhhcCCCeEEEEEcCHHHHHHHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALRE--AGAEIIHVLALPHFPSSRLSE-ELEKLKGGQCRVFVVHLSLELAVHLFEKAN 154 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~d~~~-~l~~i~~~~~~vvil~~~~~~~~~~l~~a~ 154 (720)
.++++...-++...+ ...+++..+. .|+++........+.. |..+ ...+++.-++.||+++|+.+++..++..|.
T Consensus 175 ~Fs~vtt~~pg~~~f-~~~ir~~~d~s~vgwe~i~v~~l~~s~~-d~~a~~q~qLkki~a~VillyC~~eea~~IF~~A~ 252 (1258)
T KOG1053|consen 175 NFSLVTTQFPGNRTF-VSLIRQTNDNSHVGWEMINVLTLDPSTD-DLLAKLQAQLKKIQAPVILLYCSREEAERIFEEAE 252 (1258)
T ss_pred eeEEEEeecCchHHH-HHHHHHhhhhccccceeeeeeecCCCCC-chHHHHHHHHHhcCCcEEEEEecHHHHHHHHHHHH
Confidence 999999988876555 7777776665 6888888877766665 4333 333455557999999999999999999999
Q ss_pred HcCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhH
Q 043468 155 KMKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQT 234 (720)
Q Consensus 155 ~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (720)
++|+.+++|.||++...... ... ......|.+.+...... ..+....
T Consensus 253 q~Gl~g~~y~Wi~pqlv~g~-~~~---pa~~P~GLisv~~~~w~-----------------------------~~l~~rV 299 (1258)
T KOG1053|consen 253 QAGLTGPGYVWIVPQLVEGL-EPR---PAEFPLGLISVSYDTWR-----------------------------YSLEARV 299 (1258)
T ss_pred hcCCcCCceEEEeehhccCC-CCC---CccCccceeeeeccchh-----------------------------hhHHHHH
Confidence 99999999999997765542 111 12345566655421110 1122345
Q ss_pred hhHHHHHHHHHHHHHH--------------------HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEee-cC
Q 043468 235 YDAVWSVALAMEQKSE--------------------KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLM-GK 293 (720)
Q Consensus 235 Ydav~~~a~al~~~~~--------------------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~-~~ 293 (720)
-|+|-+++.|...+.. ..++.+...|.|++|+| +.++|+++|...++...++..+ +.
T Consensus 300 rdgvaiva~aa~s~~~~~~~lp~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf~~~g~~v~p~lvvI~l~~~r 377 (1258)
T KOG1053|consen 300 RDGVAIVARAASSMLRIHGFLPEPKMDCREQEETRLTSGETLHRFLANVTWDG--RDLSFNEDGYLVHPNLVVIDLNRDR 377 (1258)
T ss_pred hhhHHHHHHHHHHHHhhcccCCCcccccccccCccccchhhhhhhhheeeecc--cceeecCCceeeccceEEEecCCCc
Confidence 5777788777776643 14678999999999998 7799999999988888877775 46
Q ss_pred ceEEEEEEecCCCccccccCCCCccCcccccCceeeCCCCCCCCcccccCCCCCCeEEeecCCCccccceEeeeccC---
Q 043468 294 SYRELGFWTYGLGFSDTIIDPKYNCSSMKDLGQVFWPGAPWYTPKGWTLPAKDQPLRIGVPIGSEFQQYVNVEYDEL--- 370 (720)
Q Consensus 294 ~~~~v~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~~~~~~~~~~~l~v~~~~~~p~~p~~~~~~~~~--- 370 (720)
.|.+||.|..+. +. .+...||+.... ++ +. ....||+|++.+++||+.-... ||.
T Consensus 378 ~We~VG~We~~~-L~---------------M~y~vWPr~~~~-~q--~~-~d~~HL~VvTLeE~PFVive~v--DP~t~~ 435 (1258)
T KOG1053|consen 378 TWERVGSWENGT-LV---------------MKYPVWPRYHKF-LQ--PV-PDKLHLTVVTLEERPFVIVEDV--DPLTQT 435 (1258)
T ss_pred chheeceecCCe-EE---------------EeccccccccCc-cC--CC-CCcceeEEEEeccCCeEEEecC--CCCcCc
Confidence 899999999864 11 244678865431 11 11 1346999999999998632111 110
Q ss_pred ------------------------CCceeEEEEeHHHHHHHHHhCCCccceEEecC-------CCCHHHHHHHHHhCCcc
Q 043468 371 ------------------------RNFTYFGGFSIELFKALVEKLPFYLPYNFIPF-------NGSYDDLVKQLYLNNFA 419 (720)
Q Consensus 371 ------------------------~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~-------~~~~~~~~~~l~~g~~D 419 (720)
+-+.|++|||+||+++||+.+||+|++..+.+ ||.|+||+++|..+++|
T Consensus 436 C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~FtYDLYlVtnGKhGkk~ng~WnGmIGev~~~rA~ 515 (1258)
T KOG1053|consen 436 CVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFTYDLYLVTNGKHGKKINGVWNGMIGEVVYQRAD 515 (1258)
T ss_pred CCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcceEEEEecCCcccceecCcchhhHHHHHhhhhh
Confidence 11468999999999999999999999988864 68899999999999999
Q ss_pred EEeeeeeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhh-heeeeecccCCCccC
Q 043468 420 GVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGF-VVWLIERNHWPELTG 498 (720)
Q Consensus 420 i~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~-~~~~~~r~~~~~~~~ 498 (720)
|+++++++++||.+.+|||.|+.+.+++++|+..+...+.-+|+.||++.+|+.+++++++++. .+++++.+++..+..
T Consensus 516 MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWVmmFVm~livaai~vFlFEy~SPvgyn~ 595 (1258)
T KOG1053|consen 516 MAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWVMMFVMCLIVAAITVFLFEYFSPVGYNR 595 (1258)
T ss_pred eeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHHHHHHHHHHHHHHHHHHHhhcCcccccc
Confidence 9999999999999999999999999999999999977777899999999999999999888855 567899988877643
Q ss_pred cc---------ccccchhhhhhh---hcc---CCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChH
Q 043468 499 SA---------LHQTGTFFWLSF---NLH---GEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIE 563 (720)
Q Consensus 499 ~~---------~~~~~~~~~~~~---~~~---g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~ 563 (720)
.. .-.++.++|..| +.. -.+||...+|++..+|.+|++++.++|||||++||..+++..+++.+.
T Consensus 596 ~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAfFavifLAsYTANLAAfMIqE~~~d~vSGls 675 (1258)
T KOG1053|consen 596 NLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAFFAVIFLASYTANLAAFMIQEEYYDTVSGLS 675 (1258)
T ss_pred cccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccC
Confidence 22 235778999999 332 455799999999999999999999999999999999999999999988
Q ss_pred Hhhh-------cCCeEEEecC-------------------------cchHHHHHhcCcccEEEechhHHHHHHHhc--CC
Q 043468 564 TLQS-------SNAIIGYSRC-------------------------LGDYASDLKSRKTGAVFLEVAEAKIFLAKY--CK 609 (720)
Q Consensus 564 dl~~-------~~~~~~~~~~-------------------------~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~--~~ 609 (720)
|-.- ..+++|++.+ +++.++.|++|+.|+++.|...++|...++ |+
T Consensus 676 D~KfqrP~dq~PpFRFGTVpngSTE~niR~Nyp~MHeYM~kyNq~~v~dal~sLK~gKLDAFIyDaAVLnY~agkDegCK 755 (1258)
T KOG1053|consen 676 DPKFQRPHDQYPPFRFGTVPNGSTERNIRSNYPEMHEYMVKYNQPGVEDALESLKNGKLDAFIYDAAVLNYMAGKDEGCK 755 (1258)
T ss_pred cccccCccccCCCcccccCCCCchhhhHHhccHHHHHHHHHhccCchHHHHHHHhcccchhHHHHHHHHHHhhccCCCce
Confidence 8541 2578998887 888999999999999999999999999876 98
Q ss_pred CcEeeC--CeeecCceeeEecCCCCChHHHHHHHhcccccCcHHHHHHHhcCCCCCCCCCCCCCCCCCCcccccchhHHH
Q 043468 610 GFTVAG--PTYKVGGLGFAFPKGSPLLPSVIEALLKVSESGKLRELETSMIASEKCMEVNLHDDDDISSLSPSGFWVLFV 687 (720)
Q Consensus 610 ~l~~~~--~~~~~~~~~~~~~k~s~~~~~in~~i~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~~~~~~f~ 687 (720)
|..++ ..|.+..||++++||||++..||.+|++...+|.++++...|+.. .|.+ +.......+|+++++.|+||
T Consensus 756 -LvTIGsgKvFAttGYGIal~k~Spwkr~IdlallQy~gdGeme~Le~~Wltg-ic~n--~k~evmSsqLdIdnmaGvFy 831 (1258)
T KOG1053|consen 756 -LVTIGSGKVFATTGYGIALPKNSPWKRQIDLALLQYLGDGEMEMLETLWLTG-ICHN--SKNEVMSSQLDIDNMAGVFY 831 (1258)
T ss_pred -EEEecCCceeeecceeeecCCCCcchhhHHHHHHHHhccchHHHHHHHHhhc-cccc--chhhhhhcccChhhhhhHHH
Confidence 77777 999999999999999999999999999999999999999999886 5655 56777889999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 043468 688 LSGGISTIALVIFLWRCNWKI 708 (720)
Q Consensus 688 il~~g~~ls~~v~~~E~~~~~ 708 (720)
+|++|++||+++|++|-++.+
T Consensus 832 mL~~amgLSllvfi~EHlvYw 852 (1258)
T KOG1053|consen 832 MLAVAMGLSLLVFIWEHLVYW 852 (1258)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999966443
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=1.6e-55 Score=495.34 Aligned_cols=555 Identities=30% Similarity=0.512 Sum_probs=454.1
Q ss_pred HHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEeCcccccccccC-cchhhhccccEEEEecCCCCChhH
Q 043468 125 ELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKDYIWITTDAFTSLVHSIN-TSSISSMQGILGVRSHFPEDKPKF 203 (720)
Q Consensus 125 ~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~ 203 (720)
...+.+....+++++++.+..+..++.++.++|+....+.|+.++......+... ....+...|.+....+.+. +...
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-s~~~ 83 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDELYSLIDVMNGVLGLRGHIPR-SELL 83 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhcccccccchhheeeEEeeccCCCc-cHHH
Confidence 3445555688899999999999999999999999999999999987654333222 2334555566665544433 3556
Q ss_pred HHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHHHHHHHHHHHHH--------------HhHHHHHHHHHccccc---
Q 043468 204 QDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVWSVALAMEQKSE--------------KLNQKLLRRILLSDFD--- 266 (720)
Q Consensus 204 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~~~a~al~~~~~--------------~~~~~l~~~l~~~~~~--- 266 (720)
++|..++... .. .....+..+||++++++.|++.... .++..+.+.+......
T Consensus 84 ~~~~~~~~~~-~~---------~~~~~~~~~~D~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 153 (656)
T KOG1052|consen 84 QNFVTRWQTS-NV---------ELLVYALWAYDAIQALARAVESLLNIGNLSLSCGRNNSWLDALGVFNFGKKLLVVNLS 153 (656)
T ss_pred HHHHHHHhhc-cc---------cccchhhHHHHHHHHHHHHHHHhhcCCCCceecCCCCcccchhHHHHHHHhhhhhccc
Confidence 6666665543 11 4667789999999999999998762 1345566666665333
Q ss_pred CceeeEEEecCCcCCCCeEEEEEeecCceEEEEEEecCCCccccccCCCCccCcccccCceeeCCCCCCCCcccccCCCC
Q 043468 267 GLTGKVEFMNQKVAPAHTYQIINLMGKSYRELGFWTYGLGFSDTIIDPKYNCSSMKDLGQVFWPGAPWYTPKGWTLPAKD 346 (720)
Q Consensus 267 g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~v~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~~~~~~~~~ 346 (720)
|..|.+.++.++.+....+++++..+..-..+|.|++..+ .++.||+.....|+++..+.++
T Consensus 154 ~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~------------------~~i~~~~~~~~~~~~~~~~~~~ 215 (656)
T KOG1052|consen 154 GVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG------------------ENISWPGKDYFVPKGWFFPTNG 215 (656)
T ss_pred cceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC------------------ceeeccCCcccCcCCccccCCC
Confidence 4567777877888888999999998877777999999754 3578889888899999988899
Q ss_pred CCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCC-------CCHHHHHHHHHhCCcc
Q 043468 347 QPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFN-------GSYDDLVKQLYLNNFA 419 (720)
Q Consensus 347 ~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~-------~~~~~~~~~l~~g~~D 419 (720)
++++|++...+||..+.... ....++.++.|+++|+++++++.+||++++..++.. |+|+|++++|.+|++|
T Consensus 216 ~~l~v~~~~~~P~~~~~~~~-~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~g~v~~l~~~~ad 294 (656)
T KOG1052|consen 216 KPLRVGVVTEPPFVDLVEDL-AILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWDGLVGQLVDGEAD 294 (656)
T ss_pred ceEEEEEeccCCceeeeecc-cccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChhHHHHHHhcCccc
Confidence 99999999888875433321 133456799999999999999999999999888752 6899999999999999
Q ss_pred EEeeeeeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCc
Q 043468 420 GVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGS 499 (720)
Q Consensus 420 i~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~ 499 (720)
++ ++++++++|.+++|||.||...+.++++++++..+..|.|+.||++.+|++++++++++++++|++.|..+.++...
T Consensus 295 vg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~~~~~~~~~~~~~ 373 (656)
T KOG1052|consen 295 VG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWILERLSPYELPPR 373 (656)
T ss_pred cc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHHHhccccccCCcc
Confidence 99 99999999999999999999999999999998555589999999999999999999999999999999887777111
Q ss_pred ----cccccchhhhhhh---hccC--CcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhh-hcC
Q 043468 500 ----ALHQTGTFFWLSF---NLHG--EKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQ-SSN 569 (720)
Q Consensus 500 ----~~~~~~~~~~~~~---~~~g--~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~-~~~ 569 (720)
......+++|.++ +.|| ..|++.++|++.++||+++++++++|||+|+++||.+++.++|++++||. +++
T Consensus 374 ~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~~i~~~~dL~~~~~ 453 (656)
T KOG1052|consen 374 QIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRSPIDSLDDLADQSN 453 (656)
T ss_pred ccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCcccCHHHHHHhcC
Confidence 0112334667777 5566 67899999999999999999999999999999999999999999999999 488
Q ss_pred CeEEEecC---------------------------cchHHHHHhcCc--ccEEEechhHHHHHHHhc--CCCcEeeCCee
Q 043468 570 AIIGYSRC---------------------------LGDYASDLKSRK--TGAVFLEVAEAKIFLAKY--CKGFTVAGPTY 618 (720)
Q Consensus 570 ~~~~~~~~---------------------------~~~~~~~l~~~~--~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~ 618 (720)
+++|...+ .+++.+++++|. ..+++.+...+.+....+ |+ ++.+++.+
T Consensus 454 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~c~-~~~v~~~~ 532 (656)
T KOG1052|consen 454 IPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPSGGYAFASDELYLAYLFLRDEICD-LTEVGEPF 532 (656)
T ss_pred CeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCCCceEEEeccHHHHHHHhhcCCCc-eEEeCCcc
Confidence 88888765 567788888886 567777777777777765 76 99999999
Q ss_pred ecCceeeEecCCCCChHHHHHHHhcccccCcHHHHHHHhcCCC----CCCCCCCCCCCCCCCcccccchhHHHHHHHHHH
Q 043468 619 KVGGLGFAFPKGSPLLPSVIEALLKVSESGKLRELETSMIASE----KCMEVNLHDDDDISSLSPSGFWVLFVLSGGIST 694 (720)
Q Consensus 619 ~~~~~~~~~~k~s~~~~~in~~i~~~~~~G~~~~~~~~~~~~~----~~~~~~~~~~~~~~~l~l~~~~~~f~il~~g~~ 694 (720)
...+++ +++|||||++.++++|+++.|.|.+++++++|+... .|.. .. +.+.|+++++.|+|+++++|++
T Consensus 533 ~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~----~~-~~~~l~~~~~~g~F~i~~~g~~ 606 (656)
T KOG1052|consen 533 LYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQ----TE-KTKALDLESFWGLFLILLVGYL 606 (656)
T ss_pred cCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCC----cc-cccccchhhHHHHHHHHHHHHH
Confidence 999999 999999999999999999999999999999999975 3433 11 6788999999999999999999
Q ss_pred HHHHHHHHHHHHhhhhhhhhhhc
Q 043468 695 IALVIFLWRCNWKINENLLVNKK 717 (720)
Q Consensus 695 ls~~v~~~E~~~~~~~~~~~~~k 717 (720)
+|+++|++|++|++++...+.++
T Consensus 607 lal~vfi~E~~~~~~~~~~~~~~ 629 (656)
T KOG1052|consen 607 LALLVFILELLYSRRRTLLRERL 629 (656)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhc
Confidence 99999999999988887654443
No 5
>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=1.8e-34 Score=303.87 Aligned_cols=274 Identities=18% Similarity=0.245 Sum_probs=233.4
Q ss_pred CCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 7 QKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 7 ~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
++|.|||||.+|..+.+++++++.++||+||++++++.++ ..+|||+||+.|+|..+++++++++++++|++|++|+++
T Consensus 102 ~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~ 181 (403)
T cd06361 102 PRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITD 181 (403)
T ss_pred CCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEec
Confidence 6899999999999999999999999999999999999998 468899999999999999999999999999999999999
Q ss_pred CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc------ccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 86 IDSSATGILPHLSDALREAGAEIIHVLALPHFPS------SRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~------~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
+++|+.. .+.+++.+++.|+||+..+.++.+.. .++..+++.++++++|+||+.+...++..++++|+++|+
T Consensus 182 d~yG~~~-~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~- 259 (403)
T cd06361 182 DDYGRSA-LETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI- 259 (403)
T ss_pred CchHHHH-HHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC-
Confidence 9999777 99999999999999999998876532 155666677888999999999999999999999999999
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVW 239 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~ 239 (720)
+++|++++.|................|++++.... +..+.|.+.+++.+ ...+||||+
T Consensus 260 --~~~wigs~~w~~~~~~~~~~~~~~~~g~ig~~~~~----~~~~~F~~~~~~~~----------------~~~v~~AVy 317 (403)
T cd06361 260 --NKVWIASDNWSTAKKILTDPNVKKIGKVVGFTFKS----GNISSFHQFLKNLL----------------IHSIQLAVF 317 (403)
T ss_pred --CeEEEEECcccCccccccCCcccccceEEEEEecC----CccchHHHHHHHhh----------------HHHHHHHHH
Confidence 68999999997643333222234566778776543 44455555555543 345799999
Q ss_pred HHHHHHHHHH---------HHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecC----ceEEEEEEecCC
Q 043468 240 SVALAMEQKS---------EKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGK----SYRELGFWTYGL 305 (720)
Q Consensus 240 ~~a~al~~~~---------~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~----~~~~v~~w~~~~ 305 (720)
++|+||++++ ..++++|+++|++++|+|++|++.||++|+. ...|+|++|+++ .+++||.|++..
T Consensus 318 aiA~Al~~~~~~~~c~~~~~~~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~ 395 (403)
T cd06361 318 ALAHAIRDLCQERQCQNPNAFQPWELLGQLKNVTFEDGGNMYHFDANGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQN 395 (403)
T ss_pred HHHHHHHHhccCCCCCCCCCcCHHHHHHHHheeEEecCCceEEECCCCCC-CcceEEEEeEecCCcEEEEEEEEEeCCC
Confidence 9999999987 4589999999999999999889999999997 478999999853 379999998864
No 6
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=3.1e-34 Score=299.04 Aligned_cols=291 Identities=15% Similarity=0.236 Sum_probs=235.8
Q ss_pred ccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEE
Q 043468 3 LMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVI 82 (720)
Q Consensus 3 Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii 82 (720)
|+ +++|.||+||.+|..+.+++++|+.++||+|+++++. +..++|.+++.|+ ...++++++++++|++|+++
T Consensus 53 ~~-~~GV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vail 124 (370)
T cd06389 53 QF-SRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPT----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYL 124 (370)
T ss_pred Hh-hcCcEEEEecCCHHHHHHHHHhhccCCCCeeeecCCC----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEE
Confidence 45 6899999999999999999999999999999987652 3467888899988 57999999999999999999
Q ss_pred EEcCCCcccCcHHHHHHHHHHcCcEEEEEE----ecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 83 YEDIDSSATGILPHLSDALREAGAEIIHVL----ALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 83 ~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~----~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
|++ ++|... ++.+.+.+++.|++|+... .++.+.. |+.+++++|++.++++||+.|+.+++..++++|.++||
T Consensus 125 Yds-d~gl~~-lq~l~~~~~~~g~~V~~~~~~~i~~~~~~~-d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm 201 (370)
T cd06389 125 YDS-DRGLST-LQAVLDSAAEKKWQVTAINVGNINNDRKDE-AYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGK 201 (370)
T ss_pred ecC-chHHHH-HHHHHHhhccCCceEEEEEeecCCCccchH-HHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCc
Confidence 984 466555 8899999999998877544 2233333 99999999999999999999999999999999999999
Q ss_pred CCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 159 MEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
.++.|+|+.++.......... ......++.++....+. +|..++|.++|++.....++..... .|+..++.+||||
T Consensus 202 ~~~~y~~il~~~~~~~~~l~~--~~~~~~nitg~~~~~~~-~~~v~~f~~~~~~~~~~~~~~~~~~-~~~~~aAl~yDAV 277 (370)
T cd06389 202 HVKGYHYIIANLGFTDGDLSK--IQFGGANVSGFQIVDYD-DPLVSKFIQRWSTLEEKEYPGAHTK-TIKYTSALTYDAV 277 (370)
T ss_pred cccceEEEEccCCccccchhh--hccCCcceEEEEEecCC-CchHHHHHHHHHhcCccccCCCCCc-CcchHHHHHHHHH
Confidence 999999998875322211101 11123356666654443 5889999999986332222221112 6778999999999
Q ss_pred HHHHHHHHHHHH----------------------HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCceE
Q 043468 239 WSVALAMEQKSE----------------------KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSYR 296 (720)
Q Consensus 239 ~~~a~al~~~~~----------------------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~ 296 (720)
+++++|++++.. .+|..|.++|++++|+|++|+++||++|+|.+..++|+++++++++
T Consensus 278 ~v~a~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~ 357 (370)
T cd06389 278 QVMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPR 357 (370)
T ss_pred HHHHHHHHHHHHcCCCcccCCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcce
Confidence 999999998753 2678999999999999999999999999999889999999999999
Q ss_pred EEEEEecCCCcc
Q 043468 297 ELGFWTYGLGFS 308 (720)
Q Consensus 297 ~v~~w~~~~~~~ 308 (720)
+||.|++..|+.
T Consensus 358 kvG~W~~~~~~~ 369 (370)
T cd06389 358 KIGYWSEVDKMV 369 (370)
T ss_pred EEEEEcCCCCcc
Confidence 999999987764
No 7
>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=4.8e-34 Score=295.13 Aligned_cols=290 Identities=18% Similarity=0.240 Sum_probs=243.8
Q ss_pred ccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEE
Q 043468 3 LMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVI 82 (720)
Q Consensus 3 Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii 82 (720)
|+ +++|.||+||.++.++..++++|+..+||+|+++. +.. ...+|+.++.|+ +++|+++++++++|++|++|
T Consensus 52 ~~-~~gV~AI~Gp~s~~~a~~v~sic~~~~vP~i~~~~--~~~--~~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iI 123 (364)
T cd06390 52 QF-SKGVYAIFGFYDRKTVNMLTSFCGALHVCFITPSF--PVD--TSNQFVLQLRPE---LQDALISVIEHYKWQKFVYI 123 (364)
T ss_pred Hh-hcCceEEEccCChhHHHHHHHhhcCCCCCceecCC--CCC--CCCceEEEeChh---HHHHHHHHHHHcCCcEEEEE
Confidence 55 58999999999999999999999999999999754 222 334679999998 78999999999999999999
Q ss_pred EEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 043468 83 YEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKD 162 (720)
Q Consensus 83 ~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~ 162 (720)
|+++ +|... ++.+.+.+++.|++|.....++.... ++.+.|+++++.++++||++|+.+.+..+++++.+.++.+.+
T Consensus 124 Yd~d-~g~~~-lq~l~~~~~~~~~~I~~~~~~~~~~~-d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~g 200 (364)
T cd06390 124 YDAD-RGLSV-LQKVLDTAAEKNWQVTAVNILTTTEE-GYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIG 200 (364)
T ss_pred EeCC-ccHHH-HHHHHHhhhccCceeeEEEeecCChH-HHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCc
Confidence 9766 77666 89999999999999988777665444 999999999999999999999999999999999888888999
Q ss_pred eEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHHHHH
Q 043468 163 YIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVWSVA 242 (720)
Q Consensus 163 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~~~a 242 (720)
|+||.|+....+.. .........|+++++.+.+. ++..++|.++|++......+..... .++.+++.+||||+++|
T Consensus 201 y~wI~t~l~~~~~~--~~~~~~~~~nitg~r~~~~~-~~~~~~~~~~w~~~~~~~~~~~~~~-~~~~~~~l~yDaV~~~A 276 (364)
T cd06390 201 YHYILANLGFMDID--LTKFRESGANVTGFQLVNYT-DTTVSRIMQQWKNFDARDLPRVDWK-RPKYTSALTYDGVRVMA 276 (364)
T ss_pred eEEEecCCCccccc--HHHHhcCCcCceEEEEecCC-CHHHHHHHHHHHhhccccCCCCCcC-CcchHHHHHHHHHHHHH
Confidence 99999984322211 11233467799999988765 4889999999987665444433322 57788999999999999
Q ss_pred HHHHHHHH----------------------HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCceEEEEE
Q 043468 243 LAMEQKSE----------------------KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSYRELGF 300 (720)
Q Consensus 243 ~al~~~~~----------------------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~v~~ 300 (720)
+|++++.. ..|..|.++|++++|+|++|++.|+++|++.+..++|+++.+.++++||.
T Consensus 277 ~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~ 356 (364)
T cd06390 277 EAFQNLRKQRIDISRRGNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGY 356 (364)
T ss_pred HHHHHHHHcCCCcccCCCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEE
Confidence 99997532 24779999999999999999999999999999999999999989999999
Q ss_pred EecCCCc
Q 043468 301 WTYGLGF 307 (720)
Q Consensus 301 w~~~~~~ 307 (720)
|++..|+
T Consensus 357 W~~~~g~ 363 (364)
T cd06390 357 WNEDEKL 363 (364)
T ss_pred ECCCCCc
Confidence 9998765
No 8
>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=6e-34 Score=301.29 Aligned_cols=295 Identities=20% Similarity=0.273 Sum_probs=236.3
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTV 81 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~i 81 (720)
+|+ +++|.|||||.+|..+.+++++++.++||+|+++++.+.++ ..++|+||+.|+. ..++++++++++|++|++
T Consensus 57 ~ll-~~~V~aiiGp~~s~~~~~~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vai 131 (382)
T cd06380 57 SQL-SRGVFAIFGSYDKSSVNTLTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVY 131 (382)
T ss_pred HHH-hcCcEEEEecCcHHHHHHHHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEE
Confidence 567 46999999999999999999999999999999999888774 4679999999964 458889999999999999
Q ss_pred EEEcCCCcccCcHHHHHHHHHHcC--cEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 82 IYEDIDSSATGILPHLSDALREAG--AEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 82 i~~~~~~g~~~~~~~~~~~~~~~g--~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
+|++++ |... .+.+.+.+++.| ++|............|+.++|.+||+.++|+||+.++.+++..++++|+++||.
T Consensus 132 i~~~~~-~~~~-~~~~~~~~~~~g~~i~v~~~~~~~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~ 209 (382)
T cd06380 132 LYDSDR-GLLR-LQQLLDYLREKDNKWQVTARRVDNVTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKN 209 (382)
T ss_pred EECCCc-chHH-HHHHHHHHhccCCceEEEEEEecCCCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhc
Confidence 998776 4444 677888888888 666543322211112899999999999999999999999999999999999999
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVW 239 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~ 239 (720)
+++|+|+.++......... .......++.++....+ ..+..++|.++|++.++...+... ...++.+++.+||||+
T Consensus 210 ~~~y~~i~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~-~~~~~~~aa~aYDav~ 285 (382)
T cd06380 210 RKGYHYILANLGFDDIDLS--KFLFGGVNITGFQLVDN-TNPTVQKFLQRWKKLDPREWPGAG-TSPIKYTAALAHDAVL 285 (382)
T ss_pred ccceEEEEccCCcccccHH--HhccCceeeEEEeccCC-CCHHHHHHHHHHHhcCccccCcCC-cCCcchHHHHHHHHHH
Confidence 9999999887643322110 01112223455543333 358899999999988764333221 1256778999999999
Q ss_pred HHHHHHHHHHH----------------------------HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEee
Q 043468 240 SVALAMEQKSE----------------------------KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLM 291 (720)
Q Consensus 240 ~~a~al~~~~~----------------------------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~ 291 (720)
++++|+++++. .+|..+.++|++++|+|++|+++||++|++.+..++|++++
T Consensus 286 ~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~ 365 (382)
T cd06380 286 VMAEAFRSLRRQRGSGRHRIDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELK 365 (382)
T ss_pred HHHHHHHHHHHhccccccccccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEec
Confidence 99999999864 35889999999999999999999999999988889999999
Q ss_pred cCceEEEEEEecCCCc
Q 043468 292 GKSYRELGFWTYGLGF 307 (720)
Q Consensus 292 ~~~~~~v~~w~~~~~~ 307 (720)
++++++||.|++..|+
T Consensus 366 ~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 366 TRGLRKVGYWNEDDGL 381 (382)
T ss_pred CCCceEEEEECCCcCc
Confidence 8899999999998765
No 9
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=2.2e-33 Score=291.74 Aligned_cols=290 Identities=18% Similarity=0.262 Sum_probs=232.1
Q ss_pred ccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEE
Q 043468 3 LMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVI 82 (720)
Q Consensus 3 Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii 82 (720)
|+ +++|.||+||.+|..+.+++++++..+||+|+++.+ +...+.+.+++.|+ +..++++++++++|++++++
T Consensus 59 ~~-~~gV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~----~~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaii 130 (371)
T cd06388 59 QY-SRGVFAIFGLYDKRSVHTLTSFCSALHISLITPSFP----TEGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFL 130 (371)
T ss_pred HH-hCCceEEEecCCHHHHHHHHHHhhCCCCCeeecCcc----ccCCCceEEEeChh---hhhHHHHHHHhcCceEEEEE
Confidence 45 689999999999999999999999999999998754 22334455555555 46888889999999999999
Q ss_pred EEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 043468 83 YEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKD 162 (720)
Q Consensus 83 ~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~ 162 (720)
|+++++. +.++.+.+.+++.|++|+.....+.++. |+.++|++|++.++++||+.|+.+.+..+++||+++||..++
T Consensus 131 Yd~~~~~--~~lq~l~~~~~~~g~~v~~~~~~~~~~~-d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~ 207 (371)
T cd06388 131 YDTDRGY--SILQAIMEKAGQNGWQVSAICVENFNDA-SYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKG 207 (371)
T ss_pred ecCCccH--HHHHHHHHhhHhcCCeeeeEEeccCCcH-HHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccc
Confidence 9755532 3388999999999999887665544444 999999999999999999999999999999999999999999
Q ss_pred eEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHHHHH
Q 043468 163 YIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVWSVA 242 (720)
Q Consensus 163 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~~~a 242 (720)
|+|+.++........ .+......++.++...... +|..++|.++|.+.+...+++.. +.|...++.+||||++++
T Consensus 208 y~~il~~~~~~~~~l--~~~~~g~~nitg~~~~~~~-~~~v~~~~~~~~~~~~~~~~~~~--~~~~~~aAl~YDaV~l~a 282 (371)
T cd06388 208 YHYIIANLGFKDISL--ERFMHGGANVTGFQLVDFN-TPMVTKLMQRWKKLDQREYPGSE--SPPKYTSALTYDGVLVMA 282 (371)
T ss_pred eEEEEccCccccccH--HHHhccCCceEEEEeecCC-ChhHHHHHHHHHhcCccccCCCC--CCccchHHHHHHHHHHHH
Confidence 999998753222111 0011223336666655433 58899999999876654443221 267788999999999999
Q ss_pred HHHHHHHH----------------------HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCceEEEEE
Q 043468 243 LAMEQKSE----------------------KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSYRELGF 300 (720)
Q Consensus 243 ~al~~~~~----------------------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~v~~ 300 (720)
+|++++.. ..|..|.++|++++|+|++|+++||++|++.+..++|++++++++++||+
T Consensus 283 ~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~ 362 (371)
T cd06388 283 EAFRNLRRQKIDISRRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGY 362 (371)
T ss_pred HHHHHHHhcCCCcccCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEE
Confidence 99998641 12477999999999999999999999999998899999999989999999
Q ss_pred EecCCCcc
Q 043468 301 WTYGLGFS 308 (720)
Q Consensus 301 w~~~~~~~ 308 (720)
|++..|+.
T Consensus 363 W~~~~g~~ 370 (371)
T cd06388 363 WNDMDKLV 370 (371)
T ss_pred EcCCCCcc
Confidence 99988764
No 10
>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=2.8e-33 Score=295.17 Aligned_cols=262 Identities=20% Similarity=0.306 Sum_probs=226.7
Q ss_pred cccccCCeEEEEC-CC-CCh---hhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCC
Q 043468 2 DLMDSQKVEAILG-PQ-TSE---ETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWE 75 (720)
Q Consensus 2 ~Li~~~~v~aiiG-p~-~s~---~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~ 75 (720)
+|++ ++|.||+| +. +|. .+.+++.+++.++||+|+++++++.+++ ..|+|+||+.|++..++.++++++++++
T Consensus 75 ~Li~-~~V~aii~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~ 153 (377)
T cd06379 75 QLIS-NQVYAVIVSHPPTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFK 153 (377)
T ss_pred HHhh-cceEEEEEeCCCCCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcC
Confidence 5775 69999973 33 333 3667788999999999999988888874 4689999999999999999999999999
Q ss_pred CeEEEEEEEcCCCcccCcHHHHHHHHHHcCc----EEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHH
Q 043468 76 WHQVTVIYEDIDSSATGILPHLSDALREAGA----EIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFE 151 (720)
Q Consensus 76 ~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~----~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~ 151 (720)
|++|+++|+++++|... .+.+++.+++.|+ +++..+.++.++. |+.++++++++.++|+|++.++.+++..+++
T Consensus 154 w~~vaii~~~~~~g~~~-~~~~~~~~~~~g~~~~~~v~~~~~~~~~~~-d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~ 231 (377)
T cd06379 154 WNKVILLVSDDHEGRAA-QKRFETLLEEREIEFKIKVEKVVEFEPGEK-NVTSLLQEAKELTSRVILLSASEDDAAVIYR 231 (377)
T ss_pred CeEEEEEEEcCcchhHH-HHHHHHHHHhcCCccceeeeEEEecCCchh-hHHHHHHHHhhcCCeEEEEEcCHHHHHHHHH
Confidence 99999999999988666 9999999999999 8888888876665 9999999999999999999999999999999
Q ss_pred HHHHcCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchh
Q 043468 152 KANKMKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALA 231 (720)
Q Consensus 152 ~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~ 231 (720)
+++++|+.+++++|+.++.+... .....|+++++.... ..++
T Consensus 232 qa~~~g~~~~~~~wi~t~~~~~~--------~~~~~g~~g~~~~~~------------------------------~~~~ 273 (377)
T cd06379 232 NAGMLNMTGEGYVWIVSEQAGAA--------RNAPDGVLGLQLING------------------------------KNES 273 (377)
T ss_pred HHHHcCCCCCCEEEEEecccccc--------ccCCCceEEEEECCC------------------------------CCHH
Confidence 99999999888999999987432 234568888775321 1236
Q ss_pred hhHhhHHHHHHHHHHHHHH------------------HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecC
Q 043468 232 VQTYDAVWSVALAMEQKSE------------------KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGK 293 (720)
Q Consensus 232 ~~~Ydav~~~a~al~~~~~------------------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~ 293 (720)
+.+||||+++|+|++++.. .++..+.++|++++|+|++|++.||++|++....|+|+++++.
T Consensus 274 ~~~yDAV~~~A~Al~~~~~~~~~~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~ 353 (377)
T cd06379 274 SHIRDAVAVLASAIQELFEKENITEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNR 353 (377)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCCCCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCC
Confidence 7899999999999998742 2567899999999999999999999999998789999999999
Q ss_pred ceEEEEEEecC
Q 043468 294 SYRELGFWTYG 304 (720)
Q Consensus 294 ~~~~v~~w~~~ 304 (720)
++++||.|++.
T Consensus 354 ~~~~VG~w~~~ 364 (377)
T cd06379 354 KLVQVGLYNGD 364 (377)
T ss_pred CceEeeEEcCc
Confidence 99999999874
No 11
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=100.00 E-value=2.1e-33 Score=293.94 Aligned_cols=283 Identities=41% Similarity=0.733 Sum_probs=245.1
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v 79 (720)
++|+++++|.+||||.+|..+.+++++++.+++|+|+++++++.++ ...+||+||+.|++..++.++++++++++|+++
T Consensus 59 ~~l~~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v 138 (350)
T cd06366 59 LDLLENKPVVAIIGPQCSSVAEFVAEVANEWNVPVLSFAATSPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRV 138 (350)
T ss_pred HHHhccCCceEEECCCcHHHHHHHHHHhhcCCeeEEeccCCCccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEE
Confidence 4688888999999999999999999999999999999999988885 567899999999999999999999999999999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCC-cccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFP-SSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~-~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
++++.++++|... .+.+++.+++.|++|+....++.++ ..|+.+++++++++++|+|++.+.+.++..++++++++|+
T Consensus 139 ~ii~~~~~~g~~~-~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~ 217 (350)
T cd06366 139 ATIYEDDDYGSGG-LPDLVDALQEAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGM 217 (350)
T ss_pred EEEEEcCcccchh-HHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCC
Confidence 9999999988665 8999999999999999999888762 2299999999999999999999999999999999999999
Q ss_pred CCCCeEEEEeCcccccc----cccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhH
Q 043468 159 MEKDYIWITTDAFTSLV----HSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQT 234 (720)
Q Consensus 159 ~~~~~~~i~~~~~~~~~----~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (720)
.++.++|+.++.+.... ...........+|++++..+.+..+|..++|.++|+++++...+. ...|+.+++.+
T Consensus 218 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~---~~~p~~~a~~~ 294 (350)
T cd06366 218 MGKGYVWILTDWLSSNWWSSSDCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE---LTEPSIYALYA 294 (350)
T ss_pred cCCCEEEEECcchhhhhccCCCCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcC---cCCCCcccchh
Confidence 88789999987655432 122233456788999888776553688999999999998753111 11477889999
Q ss_pred hhHHHHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCceEEEEEEecCCCcc
Q 043468 235 YDAVWSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSYRELGFWTYGLGFS 308 (720)
Q Consensus 235 Ydav~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~v~~w~~~~~~~ 308 (720)
||++++ +.+|+|++|+++||++|++.+..+.++++.++++++||.|++..++.
T Consensus 295 YDav~~---------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~ 347 (350)
T cd06366 295 YDAVWA---------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLS 347 (350)
T ss_pred hhheee---------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCcc
Confidence 999999 56899999999999999997899999999999999999999987765
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=4.1e-33 Score=293.99 Aligned_cols=292 Identities=21% Similarity=0.312 Sum_probs=236.8
Q ss_pred CCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEcC
Q 043468 7 QKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYEDI 86 (720)
Q Consensus 7 ~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~~ 86 (720)
++|.|||||.+|..+.+++++++.++||+|+++++++.+++. .++++|+.|++..+..++++++++++|++|+++|+++
T Consensus 71 ~~V~AiiGp~~S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~ 149 (384)
T cd06393 71 LGVVAIFGPSQGSCTNAVQSICNALEVPHIQLRWKHHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDS 149 (384)
T ss_pred cCcEEEECCCChHHHHHHHHHHhccCCCeEeccCCCcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCc
Confidence 799999999999999999999999999999999998888743 3678888899989999999999999999999999876
Q ss_pred CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEE
Q 043468 87 DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKDYIWI 166 (720)
Q Consensus 87 ~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~~~i 166 (720)
. |... ++.+.+.+++.|++|+. +.++.++. |+.+++++||+.++++||+.++.+++..+++||+++||..+.|.|+
T Consensus 150 ~-g~~~-l~~~~~~~~~~g~~v~~-~~~~~~~~-d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~ 225 (384)
T cd06393 150 T-GLIR-LQELIMAPSRYNIRLKI-RQLPTDSD-DARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFI 225 (384)
T ss_pred h-hHHH-HHHHHHhhhccCceEEE-EECCCCch-HHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEE
Confidence 5 4333 46788888889999886 44665555 9999999999999999999999999999999999999999999999
Q ss_pred EeCcccccccccCcchhhhccc--cEEEEecCCCCChhHHHHHHHHHHH-hcccC-CCCCC-CCCCCchhhhHhhHHHHH
Q 043468 167 TTDAFTSLVHSINTSSISSMQG--ILGVRSHFPEDKPKFQDFCKRFRKR-FGAEY-PEEDN-NHEPGALAVQTYDAVWSV 241 (720)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~g--~~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~-~~~~~-~~~~~~~~~~~Ydav~~~ 241 (720)
.++..... .+.+.. ...| ++++...... ++..++|.++|+++ ++... +.... ...++..++.+||||+++
T Consensus 226 ~~~~~~~~---~~~~~~-~~~~~~it~~~~~~~~-~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~ 300 (384)
T cd06393 226 FTTLDLYA---LDLEPY-RYSGVNLTGFRILNVD-NPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMV 300 (384)
T ss_pred EccCcccc---ccchhh-hcCcceEEEEEecCCC-cHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHH
Confidence 87763322 111111 1233 3555554444 68899999999854 54421 11110 002356799999999999
Q ss_pred HHHHHHHHHH--------------hHHHHHHHHHcccccCceeeEEEec-CCcCCCCeEEEEEeecCceEEEEEEecCCC
Q 043468 242 ALAMEQKSEK--------------LNQKLLRRILLSDFDGLTGKVEFMN-QKVAPAHTYQIINLMGKSYRELGFWTYGLG 306 (720)
Q Consensus 242 a~al~~~~~~--------------~~~~l~~~l~~~~~~g~~G~v~f~~-~g~~~~~~~~i~~~~~~~~~~v~~w~~~~~ 306 (720)
++|+++++.. .|..|.++|++++|+|++|+++||+ +|+|.+..++|+++.+++++++|.|++..|
T Consensus 301 a~A~~~~~~~~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W~~~~g 380 (384)
T cd06393 301 SVCYQRAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVWNPNTG 380 (384)
T ss_pred HHHHhhhhhcCCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEEcCCCC
Confidence 9999987543 2478999999999999999999995 788999999999999999999999999888
Q ss_pred cc
Q 043468 307 FS 308 (720)
Q Consensus 307 ~~ 308 (720)
+.
T Consensus 381 ~~ 382 (384)
T cd06393 381 LN 382 (384)
T ss_pred cC
Confidence 75
No 13
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=100.00 E-value=4.2e-33 Score=292.55 Aligned_cols=266 Identities=24% Similarity=0.300 Sum_probs=231.3
Q ss_pred ccccCCeEEEECCCCChh---hHHHHHhhccCCCcEEecccCCccc-c-cCCCCeEEEeecChHHHHHHHHHHHHhCCCe
Q 043468 3 LMDSQKVEAILGPQTSEE---TSSVAEIASKKQIPVLSFADATPNW-A-TERWPFLLQASQNQLAQMKAIAAIVQSWEWH 77 (720)
Q Consensus 3 Li~~~~v~aiiGp~~s~~---~~~~~~~~~~~~ip~is~~~~~~~l-~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~ 77 (720)
++.+++|.+|+||.+|+. +.+++++++.++||+|+++++++.+ + ...|+|+||+.|++..+++++++++++++|+
T Consensus 58 ~l~~~~v~~iig~~~s~~~~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~ 137 (362)
T cd06367 58 LLVVQVVAGVVFSDPTDEEAVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWH 137 (362)
T ss_pred HhcccceEEEEecCCCCccchhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCe
Confidence 444679999999999998 9999999999999999999998888 6 4689999999999999999999999999999
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcE--EEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAE--IIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~--v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
+|++||+++++|... .+.+++.+++.|++ ++....++..+..++...+.++++.++|+|++.|+..++..++++|.+
T Consensus 138 ~vaii~~~~~~g~~~-~~~l~~~l~~~g~~~~i~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~ 216 (362)
T cd06367 138 QFSVVTSRDPGYRDF-LDRVETTLEESFVGWEFQLVLTLDLSDDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAAS 216 (362)
T ss_pred EEEEEEEcCcccHHH-HHHHHHHHHhcccceeeeeeEEeccCCCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHH
Confidence 999999999988655 99999999999998 777777765443378999999999999999999999999999999999
Q ss_pred cCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHh
Q 043468 156 MKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTY 235 (720)
Q Consensus 156 ~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y 235 (720)
+|+.+++++||+++.+..... ...+...|+++++.... ..+.+..|
T Consensus 217 ~g~~~~~~~wI~~~~~~~~~~----~~~~~~~G~~g~~~~~~------------------------------~~~~~~~~ 262 (362)
T cd06367 217 LGLTGPGYVWIVGELALGSGL----APEGLPVGLLGVGLDTW------------------------------YSLEARVR 262 (362)
T ss_pred cCCCCCCcEEEECcccccccC----CccCCCCeeEEEEeccc------------------------------ccHHHHHH
Confidence 999988899999999864211 12356678888875321 12367899
Q ss_pred hHHHHHHHHHHHHHH--------------------HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEee-cCc
Q 043468 236 DAVWSVALAMEQKSE--------------------KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLM-GKS 294 (720)
Q Consensus 236 dav~~~a~al~~~~~--------------------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~-~~~ 294 (720)
|||+++++|++++.. .+|..+.++|++++|+|.+|++.||++|++.++.|+|++++ +.+
T Consensus 263 Dav~~~a~Al~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~ 342 (362)
T cd06367 263 DAVAIVARAAESLLRDKGALPEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRK 342 (362)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCc
Confidence 999999999998743 35568999999999999999999999999988899999999 789
Q ss_pred eEEEEEEec
Q 043468 295 YRELGFWTY 303 (720)
Q Consensus 295 ~~~v~~w~~ 303 (720)
|++||.|++
T Consensus 343 ~~~VG~W~~ 351 (362)
T cd06367 343 WERVGSWEN 351 (362)
T ss_pred ceEEEEEcC
Confidence 999999985
No 14
>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=7.6e-33 Score=291.71 Aligned_cols=291 Identities=18% Similarity=0.308 Sum_probs=239.6
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc--CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT--ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIY 83 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~--~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~ 83 (720)
+++|.|||||.||..+.+++++++.+++|+|+++++++.+++ ..||++||+.|++..++.++++++++++|++|++||
T Consensus 65 ~~~v~aiiGp~~s~~~~~va~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy 144 (387)
T cd06386 65 ARKPDLILGPVCEYAAAPVARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVY 144 (387)
T ss_pred hhCCCEEECCCCccHHHHHHHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEE
Confidence 369999999999999999999999999999999998888874 468899999999999999999999999999999999
Q ss_pred EcCCCcccC--cHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 84 EDIDSSATG--ILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 84 ~~~~~g~~~--~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
++++++... ..+.+.+.+++.|++|+....++..+. ++.++++++++.+ ++||++++.+++..++++|+++||.++
T Consensus 145 ~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~~~~~-d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~ 222 (387)
T cd06386 145 EDDKQERNCYFTLEGVHHVFQEEGYHMSIYPFDETKDL-DLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSG 222 (387)
T ss_pred EcCCCCccceehHHHHHHHHHhcCceEEEEecCCCCcc-cHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCC
Confidence 988876443 278999999999999988766655554 9999999999888 999999999999999999999999999
Q ss_pred CeEEEEeCccccc-c--------cccC---cchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCc
Q 043468 162 DYIWITTDAFTSL-V--------HSIN---TSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGA 229 (720)
Q Consensus 162 ~~~~i~~~~~~~~-~--------~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~ 229 (720)
+|+|+..+...+. . ...+ ....+..+|+.++.++ .|..++|.+++++++... +.+.....++.
T Consensus 223 ~yv~i~~d~~~~~~~~~~~w~~~~~~~~~~~~a~~~~~~v~~~~~~----~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~ 297 (387)
T cd06386 223 DYIFFNIELFNSSSYGDGSWKRGDKHDFEAKQAYSSLNTVTLLRTV----KPEFEKFSMEVKSSVEKA-GDLNDCDYVNM 297 (387)
T ss_pred CEEEEEEecccccccCCCCCccCCCcCHHHHHHHHhheEEeccCCC----ChHHHHHHHHHHHHHHhC-CCCcccccchH
Confidence 9999999765311 0 0112 1123444455544332 478889999988665432 22211114668
Q ss_pred hhhhHhhHHHHHHHHHHHH---H--HHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeec---CceEEEEEE
Q 043468 230 LAVQTYDAVWSVALAMEQK---S--EKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMG---KSYRELGFW 301 (720)
Q Consensus 230 ~~~~~Ydav~~~a~al~~~---~--~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~---~~~~~v~~w 301 (720)
+++.+|||++++|+|++++ + +.+|..|.++|++++|+|++|.++||++|++. ..+.++.+++ ++++.||.|
T Consensus 298 ~aa~~yDav~l~A~Al~~~~~~g~~~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~~~~~~~~ 376 (387)
T cd06386 298 FVEGFHDAILLYALALHEVLKNGYSKKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGTYEVVGNY 376 (387)
T ss_pred HHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCccEEEEeEE
Confidence 8999999999999999998 4 46789999999999999999999999999996 6899999964 689999999
Q ss_pred ecC
Q 043468 302 TYG 304 (720)
Q Consensus 302 ~~~ 304 (720)
...
T Consensus 377 ~~~ 379 (387)
T cd06386 377 FGK 379 (387)
T ss_pred ccc
Confidence 853
No 15
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=2.2e-32 Score=293.03 Aligned_cols=291 Identities=20% Similarity=0.317 Sum_probs=235.0
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+++|.|||||.+|+.+.+++++++.++||+|+++++++.++ ..+|||+||+.|++..++.++++++++++|++|+++|+
T Consensus 103 ~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~psd~~qa~ai~~ll~~~~W~~Vaii~~ 182 (458)
T cd06375 103 PLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVPPDFYQAKAMAEILRFFNWTYVSTVAS 182 (458)
T ss_pred CCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCChhhcccccCCCeEEecCCcHHHHHHHHHHHHHCCCeEEEEEEe
Confidence 46899999999999999999999999999999999999998 46799999999999999999999999999999999999
Q ss_pred cCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhc-CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 043468 85 DIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKG-GQCRVFVVHLSLELAVHLFEKANKMKMMEKD 162 (720)
Q Consensus 85 ~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~-~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~ 162 (720)
++++|... .+.+++.+++.|+||+..+.++.... .|+.++++++++ +++|+||+.+...++..++++|+++|+ .
T Consensus 183 ~~~yG~~~-~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a~~~g~---~ 258 (458)
T cd06375 183 EGDYGETG-IEAFEQEARLRNICIATSEKVGRSADRKSYDSVIRKLLQKPNARVVVLFTRSEDARELLAAAKRLNA---S 258 (458)
T ss_pred CchHHHHH-HHHHHHHHHHCCeeEEEEEEecCCCCHHHHHHHHHHHhccCCCEEEEEecChHHHHHHHHHHHHcCC---c
Confidence 99988766 99999999999999999888865432 299999999875 699999999999999999999999999 4
Q ss_pred eEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHH----------HHHhcccCCCCC--------CC
Q 043468 163 YIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRF----------RKRFGAEYPEED--------NN 224 (720)
Q Consensus 163 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~----------~~~~~~~~~~~~--------~~ 224 (720)
.+|+++++|........ ......+|++++...... .|.+++|.+.. -.+++.....|. ..
T Consensus 259 ~~wigs~~~~~~~~~~~-~~~~~~~G~i~~~~~~~~-i~~f~~yl~~l~p~~~~~n~w~~e~w~~~f~c~~~~~~~~~~~ 336 (458)
T cd06375 259 FTWVASDGWGAQESIVK-GSEDVAEGAITIELASHP-IPDFDRYFQSLTPETNTRNPWFKDFWEQKFQCSLQNRDCANTT 336 (458)
T ss_pred EEEEEeccccccchhhh-ccchhhceEEEEEecccc-chhHHHHHHhCCcCcCCCCcHHHHHHHHHcCCCCCCCCccCCC
Confidence 79999999864322111 234678899988765433 36666665441 122221111110 11
Q ss_pred C------------CCCchhhhHhhHHHHHHHHHHHHHH---------------HhHHHHH-HHHHccccc-----Ccee-
Q 043468 225 H------------EPGALAVQTYDAVWSVALAMEQKSE---------------KLNQKLL-RRILLSDFD-----GLTG- 270 (720)
Q Consensus 225 ~------------~~~~~~~~~Ydav~~~a~al~~~~~---------------~~~~~l~-~~l~~~~~~-----g~~G- 270 (720)
| .....+...||||+++|+|||++.. .+++.+. ..|++++|. |.+|
T Consensus 337 C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~~~~c~~~~~~~~~~l~~~~L~~v~F~~~~~~~~~g~ 416 (458)
T cd06375 337 TNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNTTKLCDAMKPLDGKKLYKEYLLNVSFTAPFRPDLADS 416 (458)
T ss_pred CCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCHHHHHHHHHHhccccccccCCCCCC
Confidence 2 1234677899999999999999863 2567888 599999999 8888
Q ss_pred eEEEecCCcCCCCeEEEEEeec--C----ceEEEEEEec
Q 043468 271 KVEFMNQKVAPAHTYQIINLMG--K----SYRELGFWTY 303 (720)
Q Consensus 271 ~v~f~~~g~~~~~~~~i~~~~~--~----~~~~v~~w~~ 303 (720)
.|.||++|+.. ..|+|++|+. + .++.||.|+.
T Consensus 417 ~v~Fd~nGd~~-~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 417 EVKFDSQGDGL-GRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred eeEECCCCCCC-cceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 89999999985 7999999983 2 2688999965
No 16
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=1.3e-32 Score=296.07 Aligned_cols=292 Identities=17% Similarity=0.272 Sum_probs=236.1
Q ss_pred CCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 7 QKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 7 ~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+++.|+|||.+|..+.++++++..++||+|+++++++.++ +..|||+||+.|++..++.++++++++++|++|++|+.|
T Consensus 102 ~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~~ai~~li~~f~W~~Vaiv~~d 181 (469)
T cd06365 102 RKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLPLGMVSLMLHFSWTWVGLVISD 181 (469)
T ss_pred CceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHHHHHHHHHHhcCCeEEEEEEec
Confidence 6899999999999999999999999999999999999898 467899999999999999999999999999999999999
Q ss_pred CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcc---cHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 043468 86 IDSSATGILPHLSDALREAGAEIIHVLALPHFPSS---RLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKD 162 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~---d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~ 162 (720)
+++|... .+.+.+.+++.|+||+..+.++..... ++..++++++++++|+||+++..+++..++.++.+.+.. +
T Consensus 182 ~~yg~~~-~~~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~~~~~~~l~~~~~~~~~~--~ 258 (469)
T cd06365 182 DDRGEQF-LSDLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGDTDSLLEVSFRLWQYLLI--G 258 (469)
T ss_pred ChhHHHH-HHHHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcCcHHHHHHHHHHHHhccC--c
Confidence 9999877 999999999999999999988766532 678899999999999999999988887776666655554 6
Q ss_pred eEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHH----------HHhcccCCCCC---------C
Q 043468 163 YIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFR----------KRFGAEYPEED---------N 223 (720)
Q Consensus 163 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~----------~~~~~~~~~~~---------~ 223 (720)
++|++++.|...... .....+..+|++++.+.... .|.+++|.++.. .+++.....|. .
T Consensus 259 ~~wi~s~~w~~~~~~-~~~~~~~~~G~lg~~~~~~~-~~~f~~fl~~l~~~~~~~npw~~efwe~~f~c~~~~~~~~~~~ 336 (469)
T cd06365 259 KVWITTSQWDVTTSP-KDFTLNSFHGTLIFSHHHSE-IPGFKDFLQTVNPSKYPEDIFLEKLWWIYFNCSLSKSSCKTLK 336 (469)
T ss_pred eEEEeeccccccccc-cccccceeeEEEEEEeccCc-CcchHHHhhccCcccCCCccHHHhhHhHhcCcccCcCCccccC
Confidence 799999998654322 22345788999999876554 377777765521 22222111110 0
Q ss_pred CCC----------------CCchhhhHhhHHHHHHHHHHHHHH---------------HhHHHHHHHHHcccccCcee-e
Q 043468 224 NHE----------------PGALAVQTYDAVWSVALAMEQKSE---------------KLNQKLLRRILLSDFDGLTG-K 271 (720)
Q Consensus 224 ~~~----------------~~~~~~~~Ydav~~~a~al~~~~~---------------~~~~~l~~~l~~~~~~g~~G-~ 271 (720)
.|. ....+...||||+++|+|||++.. .++..|.+.|++++|.|.+| +
T Consensus 337 ~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~~~~~~~~~~~~~~~l~~~l~~v~F~~~~g~~ 416 (469)
T cd06365 337 NCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQSENNGKRLIFLPWQLHSFLKNIQFKNPAGDE 416 (469)
T ss_pred CCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCCCcCCCCCCCccHHHHHHHHHhccccCCCCCE
Confidence 121 123467899999999999998864 24678999999999999988 7
Q ss_pred EEEecCCcCCCCeEEEEEeec-----CceEEEEEEecC
Q 043468 272 VEFMNQKVAPAHTYQIINLMG-----KSYRELGFWTYG 304 (720)
Q Consensus 272 v~f~~~g~~~~~~~~i~~~~~-----~~~~~v~~w~~~ 304 (720)
|.||++|+.. ..|+|++|+. ..+++||.|+..
T Consensus 417 v~Fd~nGd~~-~~YdI~n~q~~~~~~~~~~~VG~~~~~ 453 (469)
T cd06365 417 VNLNQKRKLD-TEYDILNYWNFPQGLGLKVKVGEFSPQ 453 (469)
T ss_pred EEecCCCCcC-ceeeEEEEEECCCCCEEEEEEEEEeCC
Confidence 9999999985 7999999972 247999999863
No 17
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=2.2e-32 Score=281.70 Aligned_cols=288 Identities=16% Similarity=0.240 Sum_probs=236.9
Q ss_pred ccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEE
Q 043468 3 LMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVI 82 (720)
Q Consensus 3 Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii 82 (720)
|+ +++|.||+||.++.++..++++|+..+||+|.+.... ....++.+++.|+ ..+|+++++++++|+++++|
T Consensus 59 l~-~~GV~AIfGp~~~~s~~~v~s~c~~~~iP~i~~~~~~----~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~i 130 (372)
T cd06387 59 QF-SRGVYAIFGFYDQMSMNTLTSFCGALHTSFITPSFPT----DADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYL 130 (372)
T ss_pred Hh-hcccEEEEecCCHhHHHHHHHhhccccCCeeeeCCCC----CCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEE
Confidence 55 6899999999999999999999999999999874431 2445788999999 68999999999999999999
Q ss_pred EEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 043468 83 YEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKD 162 (720)
Q Consensus 83 ~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~ 162 (720)
|++ ++|... ++.+.+.+...+..|......+..+..++...++++++.+.++||++|+++.+..++++|.++||.+++
T Consensus 131 Yd~-d~gl~~-Lq~L~~~~~~~~~~V~~~~v~~~~~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~ 208 (372)
T cd06387 131 YDT-ERGFSI-LQAIMEAAVQNNWQVTARSVGNIKDVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRG 208 (372)
T ss_pred ecC-chhHHH-HHHHHHhhccCCceEEEEEeccCCchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccc
Confidence 954 555444 777777888888887665443333223899999999999999999999999999999999999999999
Q ss_pred eEEEEeCcccccccccCcchhhhccc---cEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHH
Q 043468 163 YIWITTDAFTSLVHSINTSSISSMQG---ILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVW 239 (720)
Q Consensus 163 ~~~i~~~~~~~~~~~~~~~~~~~~~g---~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~ 239 (720)
|+||.++....... ..+...| +++++.+.+. ++..++|.++|++.....+++.... ++..+++.+||||+
T Consensus 209 y~~ilt~ld~~~~d-----l~~~~~g~~NItg~rl~~~~-~~~~~~f~~~w~~~~~~~~~~~~~~-~l~~~~al~yDaV~ 281 (372)
T cd06387 209 YHYMLANLGFTDIS-----LERVMHGGANITGFQIVNNE-NPMVQQFLQRWVRLDEREFPEAKNS-PLKYTSALTHDAIL 281 (372)
T ss_pred eEEEEecCCccccc-----HHHhccCCcceeEEEEecCC-CchHHHHHHHHHhCCcccCCCCCCC-CcchHHHHHHHHHH
Confidence 99999985433221 1233334 8999987765 4889999999987665544433322 56678999999999
Q ss_pred HHHHHHHHHHH----------------------HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCceEE
Q 043468 240 SVALAMEQKSE----------------------KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSYRE 297 (720)
Q Consensus 240 ~~a~al~~~~~----------------------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~ 297 (720)
++|+|++++.. ..|..|.++|++++|+|++|+++|+++|+|.+..++|+++.+.++++
T Consensus 282 ~~A~A~~~l~~~~~~~~~~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~k 361 (372)
T cd06387 282 VIAEAFRYLRRQRVDVSRRGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRK 361 (372)
T ss_pred HHHHHHHHHHhcCCCcccCCCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCcee
Confidence 99999997531 35778999999999999999999999999999999999999999999
Q ss_pred EEEEecCCCc
Q 043468 298 LGFWTYGLGF 307 (720)
Q Consensus 298 v~~w~~~~~~ 307 (720)
+|.|++..|+
T Consensus 362 IG~W~~~~g~ 371 (372)
T cd06387 362 AGYWNEYERF 371 (372)
T ss_pred EEEECCCCCc
Confidence 9999998775
No 18
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=100.00 E-value=1.8e-32 Score=292.07 Aligned_cols=294 Identities=14% Similarity=0.230 Sum_probs=236.5
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE-EEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT-VIY 83 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~-ii~ 83 (720)
.++|.+||||.||.++.+++++++.+++|+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++++ ++|
T Consensus 72 ~~~v~aiiGp~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~ 151 (405)
T cd06385 72 THNPWAFIGPGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIY 151 (405)
T ss_pred hcCCcEEECCCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEE
Confidence 578999999999999999999999999999999999888884 679999999999999999999999999999988 566
Q ss_pred EcCCCc-ccC--cHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 84 EDIDSS-ATG--ILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 84 ~~~~~g-~~~--~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
.++..+ ... ..+.+.+.+++.|++|+..+..+.++. |+.++++++++.. |+|+++++..++..++++|.++|+.+
T Consensus 152 ~~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~~~~~-d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g~~~ 229 (405)
T cd06385 152 SDNKVDDRPCYFAMEGLYMELKKNNITVVDLVFEEDDLI-NYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREGLPS 229 (405)
T ss_pred ecCcccccchHHHHHHHHHHHHhCCeEEEEeeccCCchh-hHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcCCCC
Confidence 655432 221 258889999999999998764434444 9999999998754 99999999999999999999999999
Q ss_pred CCeEEEEeCcccccccc------------cCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCC-CCCCC
Q 043468 161 KDYIWITTDAFTSLVHS------------INTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEED-NNHEP 227 (720)
Q Consensus 161 ~~~~~i~~~~~~~~~~~------------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~-~~~~~ 227 (720)
++|+|+.++.+...... .+.....+.++++..... ...++..++|.++|+++.... ..+. ..|.|
T Consensus 230 ~~y~~i~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~-~~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~ 307 (405)
T cd06385 230 EDYVFFYIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYK-EPQNPEYKEFLSDLKTDAKEM-FNFTVEDSLM 307 (405)
T ss_pred CcEEEEEeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCC-CCCChhHHHHHHHHHHHhhcc-CCCccchhhH
Confidence 99999998664322110 112234566788766433 333588899999998864221 1111 11246
Q ss_pred CchhhhHhhHHHHHHHHHHHH----HH-HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEe---ecCceEEEE
Q 043468 228 GALAVQTYDAVWSVALAMEQK----SE-KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINL---MGKSYRELG 299 (720)
Q Consensus 228 ~~~~~~~Ydav~~~a~al~~~----~~-~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~---~~~~~~~v~ 299 (720)
+.+++.+||||+++++|++++ ++ .+++.+.++|++++|+|++|.+.||++|+|. ..+.++++ ++++++.++
T Consensus 308 ~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~-~~~~~~~~~~~~~g~~~~v~ 386 (405)
T cd06385 308 NIIAGGFYDGVMLYAHALNETMAKGGTRPPGTAITQRMWNRTFYGVTGFVKIDDNGDRE-TDFALWDMTDTESGDFQVVS 386 (405)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHhhCceEeeceeEEEEcCCCCEe-ceeEEEEccCCCCCcEEEEE
Confidence 788999999999999999997 33 4789999999999999999999999999996 67777754 678999999
Q ss_pred EEecC
Q 043468 300 FWTYG 304 (720)
Q Consensus 300 ~w~~~ 304 (720)
.|+..
T Consensus 387 ~~~~~ 391 (405)
T cd06385 387 VYNGT 391 (405)
T ss_pred EEccc
Confidence 99864
No 19
>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=1.5e-32 Score=291.99 Aligned_cols=299 Identities=17% Similarity=0.319 Sum_probs=240.4
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
+|+.+++|.|||||.||..+.+++++++.+++|+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++++
T Consensus 67 ~~~~~~~v~aiiGp~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~va 146 (396)
T cd06373 67 DLYFQHKPDAFLGPGCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAA 146 (396)
T ss_pred HHHhccCCeEEECCCccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEE
Confidence 3555679999999999999999999999999999999999998884 678999999999999999999999999999999
Q ss_pred EEEEcCCCcc---cCcHHHHHHHHHHcCcEEEEEEecCCCC--cccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 81 VIYEDIDSSA---TGILPHLSDALREAGAEIIHVLALPHFP--SSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 81 ii~~~~~~g~---~~~~~~~~~~~~~~g~~v~~~~~~~~~~--~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
++|++++++. ....+.+.+.+++.|++|+... +.... . |+.++++++++.+ |+|++++...++..+++++++
T Consensus 147 ii~~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~-d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~ 223 (396)
T cd06373 147 LLYHDDKNDDRPCYFTLEGVYTVLKEENITVSDFP-FDEDKELD-DYKELLRDISKKG-RVVIMCASPDTVREIMLAAHR 223 (396)
T ss_pred EEEECCCCCcchHHHHHHHHHHHHhhcCceeeEEe-ecCCcccc-CHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHH
Confidence 9999887641 2236888899999999987554 54442 4 9999999999866 999999999999999999999
Q ss_pred cCCCCCCeEEEEeCcccccc-----------cccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCC
Q 043468 156 MKMMEKDYIWITTDAFTSLV-----------HSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNN 224 (720)
Q Consensus 156 ~g~~~~~~~~i~~~~~~~~~-----------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~ 224 (720)
+|+...+|+|+..+...... .........+.+|++.+..... .++..++|.++|+++....+..+...
T Consensus 224 ~g~~~~~yv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~-~~~~~~~F~~~~~~~~~~~~~~~~~~ 302 (396)
T cd06373 224 LGLTSGEYVFFNIDLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREP-DNPEYKEFSLEVKERAKKKFNTTSDD 302 (396)
T ss_pred cCCCCCcEEEEEEccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCC-CChHHHHHHHHHHHHhhhcCCCCcch
Confidence 99998899999876542211 0011123345667877664443 45888999999988643221111111
Q ss_pred CCCCchhhhHhhHHHHHHHHHHHH----HH-HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEe---ecCceE
Q 043468 225 HEPGALAVQTYDAVWSVALAMEQK----SE-KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINL---MGKSYR 296 (720)
Q Consensus 225 ~~~~~~~~~~Ydav~~~a~al~~~----~~-~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~---~~~~~~ 296 (720)
..|+.+++.+||||+++++|++++ ++ .+++.|.++|++++|+|++|++.||++|++. ..+.++.+ ++++++
T Consensus 303 ~~~~~~a~~~YDav~~~a~Al~~~~~~~~~~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~~-~~~~v~~~~~~~~g~~~ 381 (396)
T cd06373 303 SLVNFFAGAFYDAVLLYALALNETLAEGGDPRDGTNITRRMWNRTFEGITGNVSIDENGDRE-SDFSLWDMTDTETGTFE 381 (396)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHhcCCceecccCceEeecCCccc-ceeeeeeccCCCCceEE
Confidence 146678899999999999999987 33 6789999999999999999999999999986 67777654 678999
Q ss_pred EEEEEecCC
Q 043468 297 ELGFWTYGL 305 (720)
Q Consensus 297 ~v~~w~~~~ 305 (720)
.++.++...
T Consensus 382 ~~~~~~~~~ 390 (396)
T cd06373 382 VVANYNGSN 390 (396)
T ss_pred EEeeccccc
Confidence 999998853
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=1.9e-32 Score=291.65 Aligned_cols=274 Identities=23% Similarity=0.365 Sum_probs=228.5
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+++|.|||||.+|+.+.+++++++.+++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|+++++
T Consensus 105 ~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~~~~~~al~~~l~~~~~k~vaii~~ 184 (410)
T cd06363 105 QPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSDKDQIEAMVQLLQEFGWNWVAFLGS 184 (410)
T ss_pred CCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccccCCCeeEecCCcHHHHHHHHHHHHHCCCcEEEEEEe
Confidence 489999999999999999999999999999999999988884 6789999999999999999999999999999999999
Q ss_pred cCCCcccCcHHHHHHHHHHcCcEEEEEEecCCC--CcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 043468 85 DIDSSATGILPHLSDALREAGAEIIHVLALPHF--PSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKD 162 (720)
Q Consensus 85 ~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~ 162 (720)
++++|... .+.+++.+++.|++++..+.++.. ...|+.+++++|+++++|+|++.+.++++..++++++++|+.++
T Consensus 185 ~~~~g~~~-~~~~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~~~~~dvIil~~~~~~~~~il~qa~~~g~~~~- 262 (410)
T cd06363 185 DDEYGRDG-LQLFSELIANTGICIAYQGLIPLDTDPETDYQQILKQINQTKVNVIVVFASRQPAEAFFNSVIQQNLTGK- 262 (410)
T ss_pred CChhHHHH-HHHHHHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHhcCCCeEEEEEcChHHHHHHHHHHHhcCCCCC-
Confidence 99888665 899999999999999998887653 12299999999999999999999999999999999999999754
Q ss_pred eEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHHHHH
Q 043468 163 YIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVWSVA 242 (720)
Q Consensus 163 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~~~a 242 (720)
.|++++.|................+++++.... ...|..++|.++ +++.+||||++++
T Consensus 263 -~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~f~~~--------------------~~~~~YDaV~~~a 320 (410)
T cd06363 263 -VWIASEAWSLNDELPSLPGIRNIGTVLGVAQQT-VTIPGFSDFIYS--------------------FAFSVYAAVYAVA 320 (410)
T ss_pred -EEEEeCcccccccccCCccceeeccEEEEEeCC-CCCccHHHHHHH--------------------HHHHHHHHHHHHH
Confidence 889887765321111111122333556554433 335777777766 2467999999999
Q ss_pred HHHHHH-----------HHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecC----ceEEEEEEecC
Q 043468 243 LAMEQK-----------SEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGK----SYRELGFWTYG 304 (720)
Q Consensus 243 ~al~~~-----------~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~----~~~~v~~w~~~ 304 (720)
+|++++ ++.+++.|.++|++++|+|++|++.||++|+.. ..+.|++++.. ++++||+|++.
T Consensus 321 ~Al~~a~~~~~~~~~~~~~~~~~~l~~~L~~~~~~g~~g~i~fd~~G~~~-~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 321 HALHNVLQCGSGGCPKRVPVYPWQLLEELKKVNFTLLGQTVRFDENGDPN-FGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred HHHHHHhCCCCCCCCCCCCCCHHHHHHHHhccEEecCCcEEEeCCCCCCc-cceEEEEEEEcCCceeEEEEEEEECC
Confidence 999998 334688999999999999999999999999975 67888888532 58999999874
No 21
>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=4e-32 Score=293.36 Aligned_cols=292 Identities=22% Similarity=0.401 Sum_probs=231.3
Q ss_pred CCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 7 QKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 7 ~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..+++++++++++++|++|++||++
T Consensus 102 ~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~~ai~~~i~~~~w~~Vaii~~~ 181 (463)
T cd06376 102 EKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQAQAMVDIVKALGWNYVSTLASE 181 (463)
T ss_pred CCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHHHHHHHHHHHcCCeEEEEEEeC
Confidence 68999999999999999999999999999999999999984 67899999999999999999999999999999999998
Q ss_pred CCCcccCcHHHHHHHHHHcC-cEEEEEEecCCCCc-ccHHHHHHHhhc-CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 043468 86 IDSSATGILPHLSDALREAG-AEIIHVLALPHFPS-SRLSEELEKLKG-GQCRVFVVHLSLELAVHLFEKANKMKMMEKD 162 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~-~d~~~~l~~i~~-~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~ 162 (720)
+++|... .+.+++.+++.| ++|...+.++.... .|+.+++++|++ +++|+||+.+...++..++++|+++|+.+ .
T Consensus 182 ~~yg~~~-~~~~~~~~~~~g~~~v~~~~~i~~~~~~~d~~~~l~~ik~~~~~~vIvl~~~~~~~~~ll~~a~~~~~~g-~ 259 (463)
T cd06376 182 GNYGESG-VEAFTQISREAGGVCIAQSIKIPREPRPGEFDKIIKRLLETPNARAVIIFANEDDIRRVLEAAKRANQVG-H 259 (463)
T ss_pred ChHHHHH-HHHHHHHHHHcCCceEEEEEecCCCCCHHHHHHHHHHHhccCCCeEEEEecChHHHHHHHHHHHhcCCcC-c
Confidence 8888776 899999999875 67766555433222 299999999986 69999999999999999999999999875 5
Q ss_pred eEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHH---------------HHHHHhcccCC----C-C-
Q 043468 163 YIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCK---------------RFRKRFGAEYP----E-E- 221 (720)
Q Consensus 163 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~---------------~~~~~~~~~~~----~-~- 221 (720)
++|++++.|......... ......|.+++.+.... .+.+++|.. .|+..+.-... . .
T Consensus 260 ~~wig~d~~~~~~~~~~~-~~~~~~G~~~~~~~~~~-~~~F~~~~~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~ 337 (463)
T cd06376 260 FLWVGSDSWGAKISPILQ-QEDVAEGAITILPKRAS-IEGFDAYFTSRTLENNRRNVWFAEFWEENFNCKLTISGSKKED 337 (463)
T ss_pred eEEEEecccccccccccc-CcceeeeEEEEEecccc-chhHHHHHHhCCcccCCCCcHHHHHHHHhCCCcccCCCCcccc
Confidence 899999998754322221 23567888888654333 355555443 23332210000 0 0
Q ss_pred -CCCC------------CCCchhhhHhhHHHHHHHHHHHHHH---------------HhHHHHHHHHHcccccCcee-eE
Q 043468 222 -DNNH------------EPGALAVQTYDAVWSVALAMEQKSE---------------KLNQKLLRRILLSDFDGLTG-KV 272 (720)
Q Consensus 222 -~~~~------------~~~~~~~~~Ydav~~~a~al~~~~~---------------~~~~~l~~~l~~~~~~g~~G-~v 272 (720)
...| .....+++.||||+++|+||+++.. .++..|.++|++++|+|.+| +|
T Consensus 338 ~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~~~~~C~~~~~~~~~~l~~~L~~v~F~g~tg~~v 417 (463)
T cd06376 338 TDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPGYTGVCPEMEPADGKKLLKYIRAVNFNGSAGTPV 417 (463)
T ss_pred ccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCccCCCCCHHHHHHHHHhCCccCCCCCeE
Confidence 0012 1123677999999999999998852 25778999999999999999 89
Q ss_pred EEecCCcCCCCeEEEEEeec-----CceEEEEEEec
Q 043468 273 EFMNQKVAPAHTYQIINLMG-----KSYRELGFWTY 303 (720)
Q Consensus 273 ~f~~~g~~~~~~~~i~~~~~-----~~~~~v~~w~~ 303 (720)
.||++|++. ..|+|.+++. ..+++||.|++
T Consensus 418 ~Fd~~G~~~-~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 418 MFNENGDAP-GRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred EeCCCCCCC-CceEEEEEEecCCCceeEEEEEEECC
Confidence 999999996 6899999882 36899999975
No 22
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=100.00 E-value=4.3e-32 Score=293.54 Aligned_cols=296 Identities=20% Similarity=0.333 Sum_probs=235.6
Q ss_pred CCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 7 QKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 7 ~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
++|.|||||.+|+++.++++++..+++|+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|++|+++
T Consensus 102 ~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~~a~~~~l~~~~w~~vaii~~~ 181 (452)
T cd06362 102 KPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQAQAMVDIVKAFNWTYVSTVASE 181 (452)
T ss_pred CCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHHHHHHHHHHHCCCcEEEEEEeC
Confidence 68999999999999999999999999999999999999884 68899999999999999999999999999999999999
Q ss_pred CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhc-CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCe
Q 043468 86 IDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKG-GQCRVFVVHLSLELAVHLFEKANKMKMMEKDY 163 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~-~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~ 163 (720)
+++|... .+.+.+.+++.|++|+..+.++.... .|+.+++++|++ +++|+|++.+...++..++++|+++|+. +++
T Consensus 182 ~~~G~~~-~~~~~~~~~~~gi~i~~~~~~~~~~~~~d~~~~l~~l~~~~~a~viil~~~~~~~~~~~~~a~~~g~~-~~~ 259 (452)
T cd06362 182 GNYGEKG-IEAFEKLAAERGICIAGSEKIPSSATEEEFDNIIRKLLSKPNARVVVLFCREDDIRGLLAAAKRLNAE-GHF 259 (452)
T ss_pred CHHHHHH-HHHHHHHHHHCCeeEEEEEEcCCCCCHHHHHHHHHHHhhcCCCeEEEEEcChHHHHHHHHHHHHcCCc-Cce
Confidence 9988665 99999999999999998888865322 299999999987 5899999999999999999999999997 468
Q ss_pred EEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHH----------HHHHhcccCC--------------
Q 043468 164 IWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKR----------FRKRFGAEYP-------------- 219 (720)
Q Consensus 164 ~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~----------~~~~~~~~~~-------------- 219 (720)
+|++++.|....... .......+|++++....... +.+++|++. |.++++....
T Consensus 260 ~~i~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~i-~~f~~~l~~l~~~~~~~~~~~~~~w~~~~~c~~~~~~~~~~~~ 337 (452)
T cd06362 260 QWIASDGWGARNSVV-EGLEDVAEGAITIELQSAEV-PGFDEYFLSLTPENNSRNPWFREFWEQKFNCKLTGNGSTKDNT 337 (452)
T ss_pred EEEEeccccccchhh-cccccccceEEEEEeccccc-ccHHHHhhhCCcCcCCCChHHHHHHHHhcCCCcCCCCccccCC
Confidence 999999886542211 22346678888766543321 333333211 1111111000
Q ss_pred CCCCC------CCCCchhhhHhhHHHHHHHHHHHHHH---------------HhHHHHHHHHHcccccCcee-eEEEecC
Q 043468 220 EEDNN------HEPGALAVQTYDAVWSVALAMEQKSE---------------KLNQKLLRRILLSDFDGLTG-KVEFMNQ 277 (720)
Q Consensus 220 ~~~~~------~~~~~~~~~~Ydav~~~a~al~~~~~---------------~~~~~l~~~l~~~~~~g~~G-~v~f~~~ 277 (720)
.|... .....++++.||||+++|+||+++.. .++..|.++|++++|.|++| .|.||++
T Consensus 338 ~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~~~~c~~~~~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~ 417 (452)
T cd06362 338 CCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGTTGLCDAMKPIDGRKLLFYLRNVSFSGLAGGPVRFDAN 417 (452)
T ss_pred CCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCccCCCHHHHHHHHHhCCcCCCCCceEEECCC
Confidence 01000 01244778999999999999998752 26778999999999999998 8999999
Q ss_pred CcCCCCeEEEEEeec----CceEEEEEEecCCCc
Q 043468 278 KVAPAHTYQIINLMG----KSYRELGFWTYGLGF 307 (720)
Q Consensus 278 g~~~~~~~~i~~~~~----~~~~~v~~w~~~~~~ 307 (720)
|++. ..|+|++++. ..+++||.|++..++
T Consensus 418 G~~~-~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 418 GDGP-GRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CCCC-CceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 9996 6899999983 358999999987654
No 23
>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=9.7e-32 Score=285.72 Aligned_cols=300 Identities=22% Similarity=0.334 Sum_probs=253.9
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
+|+.+++|.+||||.+|+.+.+++++++.+++|+|+++++++.++ +..++|+||+.|++..++.++++++++++|++++
T Consensus 62 ~l~~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~Is~~~~~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ 141 (389)
T cd06352 62 DLYWEHNVDAFIGPGCPYACAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAV 141 (389)
T ss_pred HHHhhcCCcEEECCCChhHHHHHHHHHhcCCCCEecccccccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEE
Confidence 577788999999999999999999999999999999999888887 4578999999999999999999999999999999
Q ss_pred EEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCC--CcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 81 VIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHF--PSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 81 ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
++++++. +|... .+.+++.+++.|++|+....++.+ .. |+..+++++++.+ |+|++++.+.++..++++++++|
T Consensus 142 ii~~~~~~~g~~~-~~~~~~~~~~~G~~v~~~~~~~~~~~~~-d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g 218 (389)
T cd06352 142 VVYSDDSENCFFT-LEALEAALREFNLTVSHVVFMEDNSGAE-DLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLG 218 (389)
T ss_pred EEEecCCccHHHH-HHHHHHHHHhcCCeEEEEEEecCCccch-hHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcC
Confidence 9999888 66555 899999999999999999988876 34 9999999999887 99999999999999999999999
Q ss_pred CCCCCeEEEEeCccccccc-----------ccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCC-CCC
Q 043468 158 MMEKDYIWITTDAFTSLVH-----------SINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEED-NNH 225 (720)
Q Consensus 158 ~~~~~~~~i~~~~~~~~~~-----------~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~-~~~ 225 (720)
+.+++++|+.++.+..... .......+..+|++++..... .+|..++|.++|+++++.....|. ...
T Consensus 219 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 297 (389)
T cd06352 219 LTSGDYVFILIDLFNYSLPYQNSYPWERGDGDDEKAKEAYDAVLTITLRPP-DNPEYEEFSEEVKEAAKRPPFNTDAEPE 297 (389)
T ss_pred CCCCcEEEEEEehhccccccCCCCCcccCCcccHHHHHHHHhheEEEecCC-CCchHHHHHHHHHHHHhcccCccCCCcc
Confidence 9877899999877654321 112223466788887766555 568899999999999865322221 111
Q ss_pred CCCchhhhHhhHHHHHHHHHHHHHHH-----hHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeec--CceEEE
Q 043468 226 EPGALAVQTYDAVWSVALAMEQKSEK-----LNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMG--KSYREL 298 (720)
Q Consensus 226 ~~~~~~~~~Ydav~~~a~al~~~~~~-----~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~--~~~~~v 298 (720)
.|+.++..+||||+++++|++++... ++..+.++|++++|.|++|+++||++|++. ..+.|+++++ +.+..+
T Consensus 298 ~~~~~a~~~YDav~~~a~Al~~~~~~~~~~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~-~~~~v~~~~~~~~~~~~~ 376 (389)
T cd06352 298 QVSPYAGYLYDAVLLYAHALNETLAEGGDYNGGLIITRRMWNRTFSGITGPVTIDENGDRE-GDYSLLDLDSTGGQLEVV 376 (389)
T ss_pred ccchhhhhHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHhcCcEEEeeeeeEEEcCCCCee-eeEEEEEecCCCceEEEE
Confidence 56788999999999999999999653 577899999999999999999999999996 7899999985 678888
Q ss_pred EEEecCCC
Q 043468 299 GFWTYGLG 306 (720)
Q Consensus 299 ~~w~~~~~ 306 (720)
+.++...+
T Consensus 377 ~~~~~~~~ 384 (389)
T cd06352 377 YLYDTSSG 384 (389)
T ss_pred Eeccccce
Confidence 88877543
No 24
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=9.4e-32 Score=290.94 Aligned_cols=292 Identities=18% Similarity=0.339 Sum_probs=231.7
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+++|.|||||.+|.++.+++++++.+++|+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|++||+
T Consensus 115 ~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~fRt~p~d~~~~~al~~l~~~~~W~~Vaii~~ 194 (472)
T cd06374 115 KKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFLRVVPSDTLQARAMLDIVKRYNWTYVSAVHT 194 (472)
T ss_pred CCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCceEEcCCChHHHHHHHHHHHHHCCCcEEEEEEe
Confidence 468999999999999999999999999999999999998884 5899999999999999999999999999999999999
Q ss_pred cCCCcccCcHHHHHHHHHHcCcEEEEEEecCC--CCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 85 DIDSSATGILPHLSDALREAGAEIIHVLALPH--FPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 85 ~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~--~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
++++|... .+.+++.+++.|++|+..+.++. +.. |+.+++.+|++. ++++|++++.+.++..++++++++|+.+
T Consensus 195 ~~~yg~~~-~~~~~~~~~~~gi~i~~~~~i~~~~~~~-d~~~~l~~lk~~~~da~vvv~~~~~~~~~~~l~~a~~~g~~~ 272 (472)
T cd06374 195 EGNYGESG-MEAFKELAAHEGLCIAHSDKIYSNAGEQ-SFDRLLRKLRSRLPKARVVVCFCEGMTVRGLLMAMRRLGVGG 272 (472)
T ss_pred cchHHHHH-HHHHHHHHHHCCeeEEEEEEecCCCchH-HHHHHHHHHHhcCCCcEEEEEEechHHHHHHHHHHHHhcCCC
Confidence 99988666 99999999999999998887643 333 999999999976 4556677788889999999999999963
Q ss_pred CCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHH---------------HHHHhcccC---C---
Q 043468 161 KDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKR---------------FRKRFGAEY---P--- 219 (720)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~---------------~~~~~~~~~---~--- 219 (720)
+++|++++.|........ ......+|++++...... .+.+++|.+. |+..+.-.. .
T Consensus 273 -~~~wi~s~~~~~~~~~~~-~~~~~~~G~l~~~~~~~~-~~~F~~~l~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~ 349 (472)
T cd06374 273 -EFQLIGSDGWADRDDVVE-GYEEEAEGGITIKLQSPE-VPSFDDYYLKLRPETNTRNPWFREFWQHRFQCRLPGHPQEN 349 (472)
T ss_pred -ceEEEEecccccchHhhh-cchhhhheeEEEEecCCC-CccHHHHHHhCCcccCCCChHHHHHHHHhcCCCcCCccCcC
Confidence 579999999875322222 235677899988755433 2444444322 222221000 0
Q ss_pred -CCCCCCC----------CCchhhhHhhHHHHHHHHHHHHHH---------------HhHHHHHHHHHcccccCcee-eE
Q 043468 220 -EEDNNHE----------PGALAVQTYDAVWSVALAMEQKSE---------------KLNQKLLRRILLSDFDGLTG-KV 272 (720)
Q Consensus 220 -~~~~~~~----------~~~~~~~~Ydav~~~a~al~~~~~---------------~~~~~l~~~l~~~~~~g~~G-~v 272 (720)
.....|. ...++..+||||+++|+||+++.. .++..|.++|++++|+|++| +|
T Consensus 350 ~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~~~~~c~~~~~~~~~~l~~~l~~v~F~g~tG~~v 429 (472)
T cd06374 350 PNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPGHVGLCDAMKPIDGRKLLEYLLKTSFSGVSGEEV 429 (472)
T ss_pred CccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCCCCCCHHHHHHHHHhCcccCCCCCeE
Confidence 0001121 124556899999999999998752 24778999999999999999 89
Q ss_pred EEecCCcCCCCeEEEEEeec-----CceEEEEEEec
Q 043468 273 EFMNQKVAPAHTYQIINLMG-----KSYRELGFWTY 303 (720)
Q Consensus 273 ~f~~~g~~~~~~~~i~~~~~-----~~~~~v~~w~~ 303 (720)
.||++|++. ..|+|++++. ..+++||.|++
T Consensus 430 ~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~~ 464 (472)
T cd06374 430 YFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWHE 464 (472)
T ss_pred EEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEeC
Confidence 999999996 6899999994 35899999975
No 25
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=100.00 E-value=1.2e-31 Score=290.13 Aligned_cols=293 Identities=19% Similarity=0.294 Sum_probs=233.9
Q ss_pred CCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 7 QKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 7 ~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
.+|.|||||.+|.++.++++++..+++|+|+++++++.+++ ..|||+||+.|++..+++++++++++++|++|++|+.|
T Consensus 117 ~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt~psd~~q~~Ai~~l~~~f~wk~VaiI~~d 196 (510)
T cd06364 117 PSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRTIPNDEHQATAMADIIEYFRWNWVGTIAAD 196 (510)
T ss_pred CceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeEcCCChHHHHHHHHHHHHHcCCeEEEEEEec
Confidence 45789999999999999999999999999999999988884 68999999999999999999999999999999999999
Q ss_pred CCCcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeE
Q 043468 86 IDSSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKDYI 164 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~~ 164 (720)
+++|... .+.+++.+++.|+||+..+.++.. ...|+.+++.+++++++|+||+.+...++..++++++++|+.+ .+
T Consensus 197 d~yG~~~-~~~~~~~~~~~Gi~I~~~~~i~~~~~~~d~~~~l~klk~~~a~vVvl~~~~~~~~~ll~qa~~~g~~~--~i 273 (510)
T cd06364 197 DDYGRPG-IEKFREEAEERDICIDFSELISQYSDEEEIQRVVEVIQNSTAKVIVVFSSGPDLEPLIKEIVRRNITG--KI 273 (510)
T ss_pred CcchHHH-HHHHHHHHHHCCcEEEEEEEeCCCCCHHHHHHHHHHHHhcCCeEEEEEeCcHHHHHHHHHHHHhCCCC--cE
Confidence 9999777 999999999999999988877653 2239999999999999999999999999999999999999975 49
Q ss_pred EEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHH---------------HHHHhccc--C--CC-----
Q 043468 165 WITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKR---------------FRKRFGAE--Y--PE----- 220 (720)
Q Consensus 165 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~---------------~~~~~~~~--~--~~----- 220 (720)
|++++.|................|++++.....+ .+.+++|+++ |++.++=. . ..
T Consensus 274 wI~s~~w~~~~~~~~~~~~~~~gg~lg~~~~~~~-i~~f~~~l~~l~p~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~ 352 (510)
T cd06364 274 WLASEAWASSSLIAMPEYFDVMGGTIGFALKAGQ-IPGFREFLQKVHPKKSSHNGFAKEFWEETFNCYLEDSPKNALPVD 352 (510)
T ss_pred EEEEchhhcccccccCCccceeeEEEEEEECCCc-CccHHHHHHhCCcccCCCChHHHHHHHHhcCCCCCCCcccccccc
Confidence 9999988754333222334677788887754432 2444444333 22222200 0 00
Q ss_pred ---------------C---CCCCC----------------CCchhhhHhhHHHHHHHHHHHHHH----------------
Q 043468 221 ---------------E---DNNHE----------------PGALAVQTYDAVWSVALAMEQKSE---------------- 250 (720)
Q Consensus 221 ---------------~---~~~~~----------------~~~~~~~~Ydav~~~a~al~~~~~---------------- 250 (720)
+ ...|. ...+++..||||+++|+|||++..
T Consensus 353 ~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~~AVyAvAhaLh~~~~c~~~~~~~~~~~c~~~ 432 (510)
T cd06364 353 TFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVYLAVYSIAHALQDIYTCTPGKGLFTNGSCADI 432 (510)
T ss_pred cccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHHHHHHHHHHHHHHHhcCCCCCCCccCCCCCCC
Confidence 0 01221 123356799999999999998852
Q ss_pred --HhHHHHHHHHHcccccCcee-eEEEecCCcCCCCeEEEEEeec----C--ceEEEEEEecC
Q 043468 251 --KLNQKLLRRILLSDFDGLTG-KVEFMNQKVAPAHTYQIINLMG----K--SYRELGFWTYG 304 (720)
Q Consensus 251 --~~~~~l~~~l~~~~~~g~~G-~v~f~~~g~~~~~~~~i~~~~~----~--~~~~v~~w~~~ 304 (720)
.+++.|.+.|++++|.|.+| .|.||++|+.. ..|+|++|+. + .+++||.|++.
T Consensus 433 ~~~~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~~-~~YdI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 433 KKVEAWQVLKHLRHLNFTDNMGEQVRFDEGGDLV-GNYSIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred CCCCHHHHHHHHHhcEEecCCCCEEEEecCCCCc-cceeEEEeeecCCCCcEEEEEEEEEcCC
Confidence 14788999999999999988 89999999985 8999999983 2 36899999763
No 26
>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-31 Score=283.73 Aligned_cols=300 Identities=14% Similarity=0.199 Sum_probs=235.3
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
+|+.+++|.+||||.||+.+.+++++++.+++|+|+++++++.++ +..||+++|+.|++..++.++++++++++|++|+
T Consensus 62 ~l~~~~~v~aiiGp~~S~~~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~va 141 (391)
T cd06372 62 DQVQKEHISALFGPACPEAAEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIG 141 (391)
T ss_pred HHHHhcCceEEECCCCCcHHHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEE
Confidence 466678999999999999999999999999999999999999998 4678999999999999999999999999999999
Q ss_pred EEEEcCCC---cc-cCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 81 VIYEDIDS---SA-TGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 81 ii~~~~~~---g~-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
++|+++.. +. ....+.+.+.++ .+++++..+.++.++. ++.+.+.+.+.+++|+|++++..+++..++++|.++
T Consensus 142 ii~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~~~~-d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~ 219 (391)
T cd06372 142 LFGGSSRDSSWDEVDELWKAVENQLK-FHFNITATVRYSSSNP-DLLQEKLRYISSVARVIILICSSEDAKAILQAAEKL 219 (391)
T ss_pred EEEeccccchhhhHHHHHHHHHHHHh-hCEEEEEEEecCCCCh-HHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHc
Confidence 99975432 11 111334445553 6889999888877665 888777777778999999999999999999999999
Q ss_pred CCCCCCeEEEEeCc-----ccccccc-cCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCC--CCCCCCCC
Q 043468 157 KMMEKDYIWITTDA-----FTSLVHS-INTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPE--EDNNHEPG 228 (720)
Q Consensus 157 g~~~~~~~~i~~~~-----~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~~ 228 (720)
||.+++++|+.+.. |...... .........+|++++........+...+|.++|++++...... +......+
T Consensus 220 g~~~~~y~~i~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~ 299 (391)
T cd06372 220 GLMKGKFVFFLLQQFEDNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVS 299 (391)
T ss_pred CCCCCCEEEEEehhhcCccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccch
Confidence 99887899999533 2221110 1111334667888776554433566778999988887542111 11111346
Q ss_pred chhhhHhhHHHHHHHHHHHHHH-----HhHHHHHHHHH---cccccCceeeEEEecCCcCCCCeEEEEEeec----CceE
Q 043468 229 ALAVQTYDAVWSVALAMEQKSE-----KLNQKLLRRIL---LSDFDGLTGKVEFMNQKVAPAHTYQIINLMG----KSYR 296 (720)
Q Consensus 229 ~~~~~~Ydav~~~a~al~~~~~-----~~~~~l~~~l~---~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~----~~~~ 296 (720)
.+++++||||+++++|++++.. .++..+.++|+ +++|+|++|++.||++|++. +.|.|+++++ ..++
T Consensus 300 ~~a~~~yDav~~~A~Al~~~~~~g~~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r~-~~y~i~~~~~~~~~~~~~ 378 (391)
T cd06372 300 PYSAYLHDAVLLYALAVKEMLKAGKDFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKRQ-MDYSVYALQKSGNSSLFL 378 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhccCceEeccceeEEECCCCCcc-eeEEEEeccccCCcccee
Confidence 7889999999999999999654 26788999999 58999999999999999995 8999999975 3488
Q ss_pred EEEEEecC
Q 043468 297 ELGFWTYG 304 (720)
Q Consensus 297 ~v~~w~~~ 304 (720)
+||.|+..
T Consensus 379 ~vg~~~~~ 386 (391)
T cd06372 379 PFLHYDSH 386 (391)
T ss_pred eEEEecch
Confidence 99999884
No 27
>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=1.8e-31 Score=283.20 Aligned_cols=292 Identities=17% Similarity=0.270 Sum_probs=235.2
Q ss_pred CCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc--CCCCeEEEeecChHHHHHHHHHHHHhCCCe-EEEEEE
Q 043468 7 QKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT--ERWPFLLQASQNQLAQMKAIAAIVQSWEWH-QVTVIY 83 (720)
Q Consensus 7 ~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~--~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~-~v~ii~ 83 (720)
+++.+||||.||.++.+++++++.+++|+|+++++++.+++ ..||++||+.|++..++.++..++++++|+ ++++||
T Consensus 72 ~~v~aviGp~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy 151 (399)
T cd06384 72 SDPDVFFGPGCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLY 151 (399)
T ss_pred cCCCEEECCCCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEE
Confidence 67889999999999999999999999999999999988874 478999999999999999988888999999 688999
Q ss_pred EcCCC---cccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 84 EDIDS---SATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 84 ~~~~~---g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
.++.. +.....+.+.+.+++.|++|+....+..++. |+.+++.+++. ++|+|++++...++..++++++++|+.+
T Consensus 152 ~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~~~~~~~~~~-d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~ 229 (399)
T cd06384 152 LDLKTDDRPHYFISEGVFLALQEENANVSAHPYHIEKNS-DIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTP 229 (399)
T ss_pred ecCCccCCcceEehHHHHHHHHhcCceEEEEEEeccchh-hHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCC
Confidence 76432 2122367788889999999988766555555 99999999996 9999999999999999999999999999
Q ss_pred CCeEEEEeCccccccc------c-------cCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCC
Q 043468 161 KDYIWITTDAFTSLVH------S-------INTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEP 227 (720)
Q Consensus 161 ~~~~~i~~~~~~~~~~------~-------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 227 (720)
+.|+|+..+.+..... . .......+.++++.++.+.+. ++..++|.++|+++....+. +.. .|
T Consensus 230 ~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~-~~~~~~F~~~~~~~~~~~~~-~~~--~p 305 (399)
T cd06384 230 GDYVFFYLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPE-NPEYKEFQRELHARAKEDFG-VEL--EP 305 (399)
T ss_pred CcEEEEEehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCC-CchHHHHHHHHHHHHhhhcC-CCc--Cc
Confidence 9999998775442111 0 012233477888877654443 57889999999876432111 110 23
Q ss_pred ---CchhhhHhhHHHHHHHHHHHH----HH-HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEE---EEeecCceE
Q 043468 228 ---GALAVQTYDAVWSVALAMEQK----SE-KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQI---INLMGKSYR 296 (720)
Q Consensus 228 ---~~~~~~~Ydav~~~a~al~~~----~~-~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i---~~~~~~~~~ 296 (720)
+.+++.+||||++++.|++++ +. .++..+.++|++++|+|++|++.||++|++. ..+.+ .+++++++.
T Consensus 306 ~~~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r~-~~~~~~~~~~~~~g~~~ 384 (399)
T cd06384 306 SLMNFIAGCFYDGVMLYAMALNETLAEGGSQKDGLNITRKMQDRRFWGVTGLVSIDKNNDRD-IDFDLWAMTDHETGKYE 384 (399)
T ss_pred chHhhhhhhhHHHHHHHHHHHHHHHhcCCCCCCcHhHHHHHhCceeecceeEEEECCCCCcc-cceEEEEeecCCCCeEE
Confidence 567899999999999999997 33 4788999999999999999999999999995 55555 466789999
Q ss_pred EEEEEecCC
Q 043468 297 ELGFWTYGL 305 (720)
Q Consensus 297 ~v~~w~~~~ 305 (720)
.++.|+...
T Consensus 385 ~v~~~~~~~ 393 (399)
T cd06384 385 VVAHYNGIT 393 (399)
T ss_pred EEEEEcCCC
Confidence 999998843
No 28
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=99.98 E-value=2e-30 Score=272.56 Aligned_cols=286 Identities=17% Similarity=0.260 Sum_probs=226.2
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+++|.+||||.||.++.+++++++.++||+|+++++++.+++ ..|++++|+.|++ ..++++++++++|++|++|++
T Consensus 64 ~~~V~aviGp~~S~~~~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~ 140 (382)
T cd06371 64 EGYASAFVGPVNPGYCEAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSS 140 (382)
T ss_pred cCCceEEECCCCchHHHHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEe
Confidence 478999999999999999999999999999999999998884 6789999999987 466888899999999999999
Q ss_pred cCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCC-CeEEEEEcCH-----HHHHHHHHHHHHcCC
Q 043468 85 DIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQ-CRVFVVHLSL-----ELAVHLFEKANKMKM 158 (720)
Q Consensus 85 ~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~-~~vvil~~~~-----~~~~~~l~~a~~~g~ 158 (720)
++++|... .+.+.+.+++.|++|+....++.++. |+.++|+++|+.+ +|+|++++.. .++..++++|+++||
T Consensus 141 ~~~~~~~~-~~~l~~~l~~~gi~v~~~~~~~~~~~-d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm 218 (382)
T cd06371 141 PQDIWVET-AQKLASALRAHGLPVGLVTSMGPDEK-GAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGM 218 (382)
T ss_pred cccchHHH-HHHHHHHHHHCCCcEEEEEEecCCHH-HHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCC
Confidence 99877544 89999999999999998888877666 9999999999987 6999987754 788899999999999
Q ss_pred CCCCeEEEEeCccccc-------cccc--CcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhccc-CCCCCCCCCCC
Q 043468 159 MEKDYIWITTDAFTSL-------VHSI--NTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAE-YPEEDNNHEPG 228 (720)
Q Consensus 159 ~~~~~~~i~~~~~~~~-------~~~~--~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~ 228 (720)
.+.+++|+.++..... .... +.....+.++++.+.... ... +|.++|.+.+... .+.......++
T Consensus 219 ~~~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~----~~~~~f~~~~~~~~~~~~~~~~~~~ 293 (382)
T cd06371 219 TDGRYVFIPYDTLLYSLPYRNVSYPALRNNSKLRRAYDAVLTITMDS-GEQ----SFYEAFRAAQERGEIPSDLEPEQVS 293 (382)
T ss_pred cCCcEEEEEeccccccCCCCCccccCCCCCHHHHHHhHhhEEEEecC-CCC----cHHHHHHHHHhcCCCCCCCCccccc
Confidence 9888999998853211 0111 111224677877665432 222 4555555443211 11000000234
Q ss_pred chhhhHhhHHHHHHHHHHHHHH----HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCceEEEEEEe
Q 043468 229 ALAVQTYDAVWSVALAMEQKSE----KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSYRELGFWT 302 (720)
Q Consensus 229 ~~~~~~Ydav~~~a~al~~~~~----~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~v~~w~ 302 (720)
.+++.+|||++++++|+++++. .++.+++++|.+++|+|++|+++||++|++. +.|.|+++++.+++-+.++.
T Consensus 294 ~~~~~~YDav~~~a~Al~~a~~~g~~~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~~-~~~~v~~~~~~~~~~~~~~~ 370 (382)
T cd06371 294 PLFGTIYNSIYLLAHAVENARAAGGGVSGANLAQHTRNLEFQGFNQRLRTDSGGGGQ-APYVVLDTDGKGDQLYPTYT 370 (382)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHhCccccccceEEEecCCCCcc-cceEEEecCCCCCeeeeeEE
Confidence 5566899999999999999974 4789999999999999999999999999985 89999999987777765554
No 29
>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=99.98 E-value=2.9e-30 Score=266.55 Aligned_cols=292 Identities=20% Similarity=0.285 Sum_probs=219.9
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEeccc-----------CCcccccCCCCeEEEeecChHHHHHHHHHH
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFAD-----------ATPNWATERWPFLLQASQNQLAQMKAIAAI 70 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~-----------~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~ 70 (720)
+|+ +++|.|||||.++.++..++++|+..+||+|+++. +++.++ ..+|.+.+.|+ ..+.+|++++
T Consensus 57 ~l~-~~gV~AI~Gp~s~~~a~~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~--~~~~~~~lrp~-~~~~~Ai~dl 132 (400)
T cd06392 57 DLM-TQGILALVTSTGCASANALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPE--GEEYTLAARPP-VRLNDVMLKL 132 (400)
T ss_pred HHH-hcCeEEEECCCchhHHHHHHHHhccCcCCcEeecccccccccccccCCCCcC--cCceeEEecCc-hHHHHHHHHH
Confidence 466 78999999999999999999999999999999855 223333 33567777787 5778899999
Q ss_pred HHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCC-------CeEEEEEcCH
Q 043468 71 VQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQ-------CRVFVVHLSL 143 (720)
Q Consensus 71 l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~-------~~vvil~~~~ 143 (720)
+.+++|++|++|| |+++|... ++.+.+.+.+.+.+|.....-...+. ++.+.++.++..+ -++||++|+.
T Consensus 133 V~~~~W~~v~~iY-D~d~gl~~-lq~L~~~~~~~~~~I~~~~v~~~~~~-~~~~~l~~~~~~~L~~~~~~~r~iVv~~s~ 209 (400)
T cd06392 133 VTELRWQKFIVFY-DSEYDIRG-LQSFLDQASRLGLDVSLQKVDRNISR-VFTNLFTTMKTEELNRYRDTLRRAILLLSP 209 (400)
T ss_pred HHhCCCcEEEEEE-ECcccHHH-HHHHHHHHhhcCceEEEEEcccCcch-hhhhHHHHHHHhhhhhccccceEEEEEcCc
Confidence 9999999999999 56667666 88888888899988875542111111 3444444444333 4888999999
Q ss_pred HHHHHHHHHHHHcCCCCCCeEEEEeCcccccccccCcchhhhcc----ccEEEEecCCCCChhHHHH----HHHHHHHhc
Q 043468 144 ELAVHLFEKANKMKMMEKDYIWITTDAFTSLVHSINTSSISSMQ----GILGVRSHFPEDKPKFQDF----CKRFRKRFG 215 (720)
Q Consensus 144 ~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~----g~~~~~~~~~~~~~~~~~f----~~~~~~~~~ 215 (720)
+.+..++++|.++||.+.+|+||.++....+.. ..+... ++++++.+.+.. ....+| ..+|.+...
T Consensus 210 ~~~~~il~qA~~lgM~~~~y~wI~t~~~~~~~d-----l~~~~~g~~~niT~~r~~~~~~-~~~~~~~~~~~~r~~~~~~ 283 (400)
T cd06392 210 RGAQTFINEAVETNLASKDSHWVFVNEEISDTE-----ILELVHSALGRMTVIRQIFPLS-KDNNQRCIRNNHRISSLLC 283 (400)
T ss_pred HHHHHHHHHHHHhCcccCCeEEEEecCCccccc-----HHHHhcccccceeeEEEecCCc-HHHHHHHHHHHHHHHhhhc
Confidence 999999999999999999999999999665422 223333 455588776543 333333 245543322
Q ss_pred ccCCCCCCCCCCCchhhhHhhHHHHHHHHHHHHHH--------------------HhHHHHHHHHHcccccCceeeEEEe
Q 043468 216 AEYPEEDNNHEPGALAVQTYDAVWSVALAMEQKSE--------------------KLNQKLLRRILLSDFDGLTGKVEFM 275 (720)
Q Consensus 216 ~~~~~~~~~~~~~~~~~~~Ydav~~~a~al~~~~~--------------------~~~~~l~~~l~~~~~~g~~G~v~f~ 275 (720)
... ....+.++.+++++||||+++|+|++.... ..|..|.++|+.++|+|++|+++||
T Consensus 284 ~~~--~~~~~~l~~~aalayDaV~~~A~Al~~ll~~~~~~~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~ 361 (400)
T cd06392 284 DPQ--EGYLQMLQVSNLYLYDSVLMLANAFHRKLEDRKWHSMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFK 361 (400)
T ss_pred ccc--cccccccchhHHHHHHHHHHHHHHHHHHhhccccCCCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeEC
Confidence 210 111114678899999999999999997421 2578999999999999999999999
Q ss_pred cCCcCCCCeEEEEEee-----cCceEEEEEEecCCCcc
Q 043468 276 NQKVAPAHTYQIINLM-----GKSYRELGFWTYGLGFS 308 (720)
Q Consensus 276 ~~g~~~~~~~~i~~~~-----~~~~~~v~~w~~~~~~~ 308 (720)
++|++.++.++|++++ +.+++++|+|++..|+.
T Consensus 362 ~~G~r~~~~ldIi~l~~~~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 362 EDGANPHVQFEILGTSYSETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred CCCCCcCCceEEEeccccccCCCCceEeEEecCCCCCC
Confidence 9999999999999965 55699999999988764
No 30
>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=99.97 E-value=2.1e-30 Score=275.28 Aligned_cols=288 Identities=17% Similarity=0.246 Sum_probs=229.4
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
+|+ +++|.+||||.+|.. +++.+++.++||+|+++++++.+++ ..||++||+.|++..++.++++++++++|++|+
T Consensus 64 ~li-~~~v~aiiGp~~S~~--~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~va 140 (404)
T cd06370 64 DWW-KRGVVAFIGPECTCT--TEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFS 140 (404)
T ss_pred HHH-hcCceEEECCCchhH--HHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEE
Confidence 567 469999999999844 4568999999999999999888874 578999999999999999999999999999999
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCC------cccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHH
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFP------SSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKAN 154 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~------~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~ 154 (720)
+|++++++|... .+.+++.+++.|++|+..+.++.+. ..++...++++++. ++++++.+...++..++++|+
T Consensus 141 ii~~~~~~g~~~-~~~~~~~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~ 218 (404)
T cd06370 141 VVYENDSKYSSV-FETLKEEAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSML 218 (404)
T ss_pred EEEecCcccHHH-HHHHHHHHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHH
Confidence 999999987554 8999999999999999999887652 12888899888764 677777777889999999999
Q ss_pred HcCCC-CCCeEEEEeCcc--ccc-------------c---cccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhc
Q 043468 155 KMKMM-EKDYIWITTDAF--TSL-------------V---HSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFG 215 (720)
Q Consensus 155 ~~g~~-~~~~~~i~~~~~--~~~-------------~---~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~ 215 (720)
++||. +.+|+|++++.. ... . .........+++|++.+..... ++..++|.+.|+++..
T Consensus 219 ~~g~~~~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~f~~~~~~~~~ 296 (404)
T cd06370 219 DEGLLESGDYMVLGVDIEYYDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV--SPDYDSFSIFVRKYNL 296 (404)
T ss_pred HcCCCCCCcEEEEEEchhhccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC--CchHHHHHHHHHHhcc
Confidence 99998 578899986531 000 0 0111123457788887654333 5777889999988754
Q ss_pred ccCCCC-----CCCCCCCchhhhHhhHHHHHHHHHHHHHH-----HhHHHHHHHHHcccccCcee-eEEEecCCcCCCCe
Q 043468 216 AEYPEE-----DNNHEPGALAVQTYDAVWSVALAMEQKSE-----KLNQKLLRRILLSDFDGLTG-KVEFMNQKVAPAHT 284 (720)
Q Consensus 216 ~~~~~~-----~~~~~~~~~~~~~Ydav~~~a~al~~~~~-----~~~~~l~~~l~~~~~~g~~G-~v~f~~~g~~~~~~ 284 (720)
.....+ .....|+.+++++||||+++++|++++.. .+++.|.++|++++|+|++| ++.||++|++. ..
T Consensus 297 ~~~~~~~~~~~~~~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~~-~~ 375 (404)
T cd06370 297 EPPFNGDLGESELVLEIDIEAAYLYDAVMLYAKALDETLLEGGDIYNGTAIVSHILNRTYRSITGFDMYIDENGDAE-GN 375 (404)
T ss_pred CCCCcccccccccccccceeeehhHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHhCcccccccCceEEEcCCCCcc-cc
Confidence 321111 12225778899999999999999999832 47889999999999999999 99999999995 88
Q ss_pred EEEEEeecCceEE
Q 043468 285 YQIINLMGKSYRE 297 (720)
Q Consensus 285 ~~i~~~~~~~~~~ 297 (720)
|.+++++++.|-.
T Consensus 376 y~v~~~~~~~~~~ 388 (404)
T cd06370 376 YSVLALQPIPPGD 388 (404)
T ss_pred eEEEEeccccccC
Confidence 9999998875543
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=99.97 E-value=9.8e-30 Score=265.89 Aligned_cols=298 Identities=18% Similarity=0.307 Sum_probs=226.6
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEec----ccCC-----cccc--cCCCCeEEEeecChHHHHHHHHHH
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSF----ADAT-----PNWA--TERWPFLLQASQNQLAQMKAIAAI 70 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~----~~~~-----~~l~--~~~~~~~fr~~p~~~~~~~~~~~~ 70 (720)
+|+ +++|.||+||.++..+..++.+|+.+++|+|++ .+++ +.++ ...||+++| |+ ..+.++++++
T Consensus 57 ~l~-~~gv~ai~Gp~~~~~~~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~l 132 (400)
T cd06391 57 ELM-NQGILALVSSIGCTSAGSLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRV 132 (400)
T ss_pred HHH-hCCeEEEECCCcchHHHHHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHH
Confidence 456 689999999988888899999999999999974 3322 2333 335555655 65 6788999999
Q ss_pred HHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc----ccHHH-HHHHhhc--CCCeEEEEEcCH
Q 043468 71 VQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS----SRLSE-ELEKLKG--GQCRVFVVHLSL 143 (720)
Q Consensus 71 l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~----~d~~~-~l~~i~~--~~~~vvil~~~~ 143 (720)
+++++|++++++|+++ +|... .+.+.+.+.+.|+||..... ..... ..+.. .++++++ ++.++||++|+.
T Consensus 133 i~~f~W~~v~i~~d~~-~~~~~-l~~l~~~~~~~~i~I~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~ 209 (400)
T cd06391 133 VTEYAWQKFIIFYDTD-YDIRG-IQEFLDKVSQQGMDVALQKV-ENNINKMITGLFRTMRIEELNRYRDTLRRAILVMNP 209 (400)
T ss_pred HHHcCCcEEEEEEeCC-ccHHH-HHHHHHHHHHcCCeEEEEec-CcchhhhhHHHHHHHHHHHHHhhcccccEEEEECCc
Confidence 9999999999876644 55555 88899999999999986432 21111 02222 4556665 677999999999
Q ss_pred HHHHHHHHHHHHcCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccC--CCC
Q 043468 144 ELAVHLFEKANKMKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEY--PEE 221 (720)
Q Consensus 144 ~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~--~~~ 221 (720)
+.+..++++|.++||.+++|+||.++......+... .......|+.++.++.+. .+...+|..++..++.... +..
T Consensus 210 ~~~~~ll~~a~~~gm~~~~y~wi~t~~~~~~~dl~~-~~~~~~~~v~~~r~~~~~-~~~~~~~~~r~~~~~~~~~~~~~~ 287 (400)
T cd06391 210 ATAKSFITEVVETNLVAFDCHWIIINEEISDMDVQE-LVRRSIGRLTIIRQTFPL-PQNISQRCFRGNHRISSSLCDPKD 287 (400)
T ss_pred HHHHHHHHHHHHcCCCCCCeEEEEeCccccccccch-HHhcccceEEEeccCCch-HHHHHHHHHHHhhhccccccCccc
Confidence 999999999999999999999999999776544322 223344566767765543 2556777777776653321 222
Q ss_pred CCCCCCCchhhhHhhHHHHHHHHHHHHH--------------------HHhHHHHHHHHHcccccCceeeEEEecCCcCC
Q 043468 222 DNNHEPGALAVQTYDAVWSVALAMEQKS--------------------EKLNQKLLRRILLSDFDGLTGKVEFMNQKVAP 281 (720)
Q Consensus 222 ~~~~~~~~~~~~~Ydav~~~a~al~~~~--------------------~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~ 281 (720)
.....++.+++.+||||+++|+|+++.. +..|..|.++|+.++|+|++|+++|+++|++.
T Consensus 288 ~~~~~~~~~~alayDaV~~~A~A~~~l~~~~~~~~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~ 367 (400)
T cd06391 288 PFAQMMEISNLYIYDTVLLLANAFHKKLEDRKWHSMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNP 367 (400)
T ss_pred cccccccchhhHHHHHHHHHHHHHHHHHhhccccCCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCcc
Confidence 1121456889999999999999999763 12578999999999999999999999999999
Q ss_pred CCeEEEEEee-----cCceEEEEEEecCCCcc
Q 043468 282 AHTYQIINLM-----GKSYRELGFWTYGLGFS 308 (720)
Q Consensus 282 ~~~~~i~~~~-----~~~~~~v~~w~~~~~~~ 308 (720)
++.++|+++. +.++++||.|++..|+.
T Consensus 368 ~~~~dIin~~~~~~~~~g~rkiG~Ws~~~gl~ 399 (400)
T cd06391 368 NVHFEILGTNYGEDLGRGVRKLGCWNPITGLN 399 (400)
T ss_pred CCceEEEEeeccccCCCcceEEEEEcCCcCCC
Confidence 9999999996 77899999999987763
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=99.97 E-value=2.1e-30 Score=268.37 Aligned_cols=268 Identities=25% Similarity=0.370 Sum_probs=219.3
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
++|++ ++|.+||||.+|+.+.+++++++.+++|+|+++++++.++ .++++||+.|++..++.++++++++++|++++
T Consensus 57 ~~li~-~~V~aiiG~~~S~~~~av~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~va 133 (327)
T cd06382 57 CDLLQ-QGVAAIFGPSSSEASSIVQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFT 133 (327)
T ss_pred hhhhh-cCcEEEECCCChhHHHHHHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEE
Confidence 36786 4999999999999999999999999999999988777766 46899999999999999999999999999999
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCcE--EEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGAE--IIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~~--v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
++|+++++ .+.+.+.+++.|.+ ++....++.+. |+.+++.+++++++|+|++.+.+.++..++++|+++|+
T Consensus 134 vl~~~~~~-----~~~l~~~~~~~~~~g~~v~~~~~~~~~--d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~ 206 (327)
T cd06382 134 IIYESAEG-----LLRLQELLQAFGISGITITVRQLDDDL--DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGM 206 (327)
T ss_pred EEecChHH-----HHHHHHHHHhhccCCCeEEEEEccCCc--cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCc
Confidence 99998764 56677777776652 33335566554 99999999999999999999999999999999999999
Q ss_pred CCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 159 MEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
.++.++|+.++......... . ......+++++..+.++ +|..++|.++|+++++...+.... ..|+.+++.+||++
T Consensus 207 ~~~~~~~i~~~~~~~~~~l~-~-~~~~~~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~-~~p~~~~a~~yDav 282 (327)
T cd06382 207 MSEYYHYIITNLDLHTLDLE-D-YRYSGVNITGFRLVDPD-SPEVKEVIRSLELSWDEGCRILPS-TGVTTESALMYDAV 282 (327)
T ss_pred cccceEEEEecCCccccchh-h-hccCceeEEEEEEecCC-chhHHHHHHHHHhhcccccccCCC-CCcchhhhhhhceE
Confidence 98889999977644332111 1 11122356656555443 588999999999999753221111 15788899999999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCceEEEEEEecCCCc
Q 043468 239 WSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSYRELGFWTYGLGF 307 (720)
Q Consensus 239 ~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~v~~w~~~~~~ 307 (720)
+++ |++|.++||++|+|.+..++|++++++++++||.|++..++
T Consensus 283 ~~~-------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 283 YLF-------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred EEe-------------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 999 99999999999999999999999999999999999997765
No 33
>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=99.97 E-value=7.8e-30 Score=265.68 Aligned_cols=273 Identities=19% Similarity=0.236 Sum_probs=236.4
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHH-HhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIV-QSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l-~~~~~~~v 79 (720)
++|+++ +|.+|+||.+|..+.+++++++..++|+|+++++++.+++..++++||+.|++..++.++++++ +.++|++|
T Consensus 60 ~~li~~-~v~aiiG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v 138 (334)
T cd06342 60 QKLVDD-GVVGVVGHLNSGVTIPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKV 138 (334)
T ss_pred HHHHhC-CceEEECCCccHhHHHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEE
Confidence 367866 9999999999999999999999999999999887777776678999999999999999999986 57889999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
++++.++.+|... .+.+++.+++.|++|+....++.++. |+.+.+.+++++++|+|++.+.+.+...+++++++.|+
T Consensus 139 ~~v~~~~~~g~~~-~~~~~~~~~~~g~~v~~~~~~~~~~~-d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~- 215 (334)
T cd06342 139 AIIDDKTAYGQGL-ADEFKKALKAAGGKVVAREGTTDGAT-DFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGL- 215 (334)
T ss_pred EEEeCCcchhhHH-HHHHHHHHHHcCCEEEEEecCCCCCc-cHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCC-
Confidence 9999999887665 89999999999999999999987766 99999999999999999999999999999999999999
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCC-CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE-DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
...|+.++.+... .+........+|++....+.+. .++..++|.++|.++++. .|+.++..+||++
T Consensus 216 --~~~~~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~~~~~~~~~yda~ 282 (334)
T cd06342 216 --KAPFMGGDGLCDP--EFIKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFGD---------PPGAYAPYAYDAA 282 (334)
T ss_pred --CCcEEecCccCCH--HHHHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhCC---------CCchhHHHHHHHH
Confidence 4467766544321 1111223567888876655543 468899999999998875 6677899999999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEe
Q 043468 239 WSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINL 290 (720)
Q Consensus 239 ~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~ 290 (720)
+++++|+++++..+++.+.++|++.+|+|++|+++|+++|++.+..+.|+||
T Consensus 283 ~~~~~al~~~~~~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 283 NVLAEAIKKAGSTDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred HHHHHHHHHhCCCCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 9999999999888999999999999999999999999999999999999886
No 34
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=99.97 E-value=8.3e-30 Score=266.57 Aligned_cols=276 Identities=13% Similarity=0.199 Sum_probs=237.3
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHH-HhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIV-QSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l-~~~~~~~v 79 (720)
++|++ ++|.+|+||.+|+.+.+++++++..++|+|+++++++.+++..++|+||+.|.+..+..++++++ ++.+|+++
T Consensus 86 ~~Li~-~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~v 164 (369)
T PRK15404 86 NKVVN-DGIKYVIGHLCSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRI 164 (369)
T ss_pred HHHHh-CCceEEEcCCCchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEE
Confidence 46885 79999999999999999999999999999999999999887778999999999999999999986 55699999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
+++++|+.+|... .+.+++.+++.|++++....++.++. |+.+++.+++++++|+|++.....+...++++++++|+.
T Consensus 165 a~i~~d~~~g~~~-~~~~~~~~~~~G~~v~~~~~~~~g~~-D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~ 242 (369)
T PRK15404 165 AVLHDKQQYGEGL-ARSVKDGLKKAGANVVFFEGITAGDK-DFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLK 242 (369)
T ss_pred EEEeCCCchhHHH-HHHHHHHHHHcCCEEEEEEeeCCCCC-chHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCC
Confidence 9999999888665 89999999999999999999988877 999999999999999999888888999999999999984
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVW 239 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~ 239 (720)
..|++++..... .+.....+..+|++...++....+|..++|.++|+++++. +|+.++..+||+++
T Consensus 243 ---~~~i~~~~~~~~--~~~~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~~~~~~~~~Y~~~~ 308 (369)
T PRK15404 243 ---TQFMGPEGVGNK--SLSNIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQD---------PSGPFVWTTYAAVQ 308 (369)
T ss_pred ---CeEEecCcCCCH--HHHHhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcCC---------CCccchHHHHHHHH
Confidence 467766544332 1111234577888865544444468899999999987653 56667889999999
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecC
Q 043468 240 SVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGK 293 (720)
Q Consensus 240 ~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~ 293 (720)
++++|++++++.+++.|.++|++.+|+|+.|+++|+++|+.....+.|.||+++
T Consensus 309 ~l~~Al~~aG~~~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~ 362 (369)
T PRK15404 309 SLAAGINRAGSDDPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHAD 362 (369)
T ss_pred HHHHHHHhhCCCCHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcC
Confidence 999999999988899999999999999999999999999887788999999864
No 35
>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=99.97 E-value=6e-30 Score=267.53 Aligned_cols=274 Identities=19% Similarity=0.237 Sum_probs=231.8
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCC--CeE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWE--WHQ 78 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~--~~~ 78 (720)
++|+++++|.+||||.+|..+.+++++++.+++|+|+++++++.++.+.++|+||+.|++..+..++++++.+++ |++
T Consensus 64 ~~li~~~~v~aviG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 143 (345)
T cd06338 64 ERLITQDKVDFLLGPYSSGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKK 143 (345)
T ss_pred HHHHhhcCccEEecCCcchhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCce
Confidence 478887899999999999999999999999999999999888877766789999999999999999999998887 999
Q ss_pred EEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 79 VTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 79 v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
+++++.++.+|... .+.+++.+++.|++|+....++.+.. |+.+++++|++.++|+|++.+.+.+...+++++++.|+
T Consensus 144 v~~v~~~~~~g~~~-~~~~~~~~~~~g~~v~~~~~~~~~~~-d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~ 221 (345)
T cd06338 144 VAILYADDPFSQDV-AEGAREKAEAAGLEVVYDETYPPGTA-DLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGY 221 (345)
T ss_pred EEEEecCCcccHHH-HHHHHHHHHHcCCEEEEEeccCCCcc-chHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCC
Confidence 99999998887655 89999999999999999888887766 99999999999999999999999999999999999999
Q ss_pred CCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCC------ChhHHHHHHHHHHHhcccCCCCCCCCCCCchhh
Q 043468 159 MEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPED------KPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAV 232 (720)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (720)
..+ ....+...... ......+...+|+++...+.+.. +|..+.|.++|+++++. .|+.++.
T Consensus 222 ~~~--~~~~~~~~~~~--~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~p~~~~~ 288 (345)
T cd06338 222 NPK--ALYMTVGPAFP--AFVKALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYGK---------APDYHAA 288 (345)
T ss_pred CCC--EEEEecCCCcH--HHHHHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhCC---------CCCcccH
Confidence 643 22222222211 11112234567887766554432 48899999999999986 6777889
Q ss_pred hHhhHHHHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEe
Q 043468 233 QTYDAVWSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINL 290 (720)
Q Consensus 233 ~~Ydav~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~ 290 (720)
.+||+++++++|++++++.+++.+.++|++++|+|+.|+++|+++|+.. ..+.+++|
T Consensus 289 ~~y~a~~~~~~a~~~ag~~~~~~v~~al~~~~~~~~~G~~~f~~~~~~~-~~~~~~~~ 345 (345)
T cd06338 289 GAYAAGQVLQEAVERAGSLDPAAVRDALASNDFDTFYGPIKFDETGQNN-HPMTVVQW 345 (345)
T ss_pred HHHHHHHHHHHHHHHhCCCCHHHHHHHHHhCCCcccccCeeECCCCCcC-CCceeeeC
Confidence 9999999999999999988999999999999999999999999999886 45656654
No 36
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=99.97 E-value=1.4e-29 Score=265.66 Aligned_cols=283 Identities=29% Similarity=0.477 Sum_probs=231.9
Q ss_pred ccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc--CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEE
Q 043468 5 DSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT--ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVI 82 (720)
Q Consensus 5 ~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~--~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii 82 (720)
..++|.+||||.|+..+.+++++++.+++|+|+++++++.+++ ..||+++|+.|++..+++++++++++++|++|++|
T Consensus 48 ~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv 127 (348)
T PF01094_consen 48 NKQGVVAVIGPSCSSSAEAVASLASEWNIPQISPGSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVV 127 (348)
T ss_dssp HHHTECEEEETSSHHHHHHHHHHHHHTT-EEEESSGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEE
T ss_pred cCCCcEEEECCCcccccchhheeecccccceeeccccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeee
Confidence 3578999999999999999999999999999999999999876 58999999999999999999999999999999999
Q ss_pred EEcCCCcccCcHHHHHHHHHHcCcEEEEE-EecCCCCcccHHHHHHHhhc--CCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 83 YEDIDSSATGILPHLSDALREAGAEIIHV-LALPHFPSSRLSEELEKLKG--GQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 83 ~~~~~~g~~~~~~~~~~~~~~~g~~v~~~-~~~~~~~~~d~~~~l~~i~~--~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
|+++++|... .+.+++.+++.++.++.. ...+.... ++...+.++++ .++++|++++...++..++++|.+.|+.
T Consensus 128 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~ 205 (348)
T PF01094_consen 128 YSDDDYGNSL-ADSFQDLLRERGGICVAFISVVISSDS-DAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMT 205 (348)
T ss_dssp EESSHHHHHH-HHHHHHHHHHHTTCEEEEEEEEETTTS-HHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTS
T ss_pred cccccccccc-chhhhhhhcccccceeccccccccccc-chhhhhhhhhhccccceeeeeecccccccccccchhhhhcc
Confidence 9999986555 899999999976554444 34444443 66666666665 9999999999999999999999999998
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVW 239 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~ 239 (720)
.++++|+.++.+................|+++++...+. .+..++|.+++.+..... ........+..+++.+|||++
T Consensus 206 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~~~~~yDAv~ 283 (348)
T PF01094_consen 206 SGDYVWILTDLDNSSFWQNNEDFREAFQGVLGFTPPPPS-SPEFEDFMKKWKESNNQS-STSGSDQEPSPYAAYAYDAVY 283 (348)
T ss_dssp STTSEEEEETTTTTTHTSTHCHHHCCHTTEEEEEESTTT-SHHHHHHHHHHHTTTHTT-TTTTTTSSGCHHHHHHHHHHH
T ss_pred ccceeEEeecccccccccccccccccccceeeeeeeccc-ccchhhhhcccChhhccC-cccccccccceeeeeehhhhH
Confidence 899999999987655322233445678889888765443 588999999998754321 111111167788999999999
Q ss_pred HHHHHHHHHHHH------------hHHHHHHHHHcccccCceeeEEEec-CCcCCCCeEEEEEee
Q 043468 240 SVALAMEQKSEK------------LNQKLLRRILLSDFDGLTGKVEFMN-QKVAPAHTYQIINLM 291 (720)
Q Consensus 240 ~~a~al~~~~~~------------~~~~l~~~l~~~~~~g~~G~v~f~~-~g~~~~~~~~i~~~~ 291 (720)
++++|++++... ++..+.++|++++|+|++|++.||+ +|++.+..+.|+++|
T Consensus 284 ~~a~al~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 284 LLAHALNRALQDGGPVTNGRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp HHHHHHHHHHHHHSTTTSSSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred HHHHHHHHHHHhccCCCCCccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 999999999753 4678999999999999999999999 999988999999875
No 37
>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=99.97 E-value=3e-29 Score=261.72 Aligned_cols=268 Identities=19% Similarity=0.300 Sum_probs=226.3
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc----CCCCeEEEeecChHHHHHHHHHHHHh---
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT----ERWPFLLQASQNQLAQMKAIAAIVQS--- 73 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~----~~~~~~fr~~p~~~~~~~~~~~~l~~--- 73 (720)
++|+++++|.+|+||.+|..+.+++++++++++|+|+++++++.++. ..++|+||+.|++..+..++++++.+
T Consensus 60 ~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~ 139 (344)
T cd06345 60 ERLVSQDKVDAVVGGYSSEVVLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLV 139 (344)
T ss_pred HHHhccCCceEEECCcchHHHHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhc
Confidence 46887789999999999999999999999999999999888887762 57899999999999999999998865
Q ss_pred --CCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHH
Q 043468 74 --WEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFE 151 (720)
Q Consensus 74 --~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~ 151 (720)
++|++|++++.++.+|... .+.+++.+++.|++|+....++.++. |+.+++.+|+++++|+|++.+.+.+...+++
T Consensus 140 ~~~~~~~va~l~~~~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~ 217 (344)
T cd06345 140 DKHGFKTAAIVAEDAAWGKGI-DAGIKALLPEAGLEVVSVERFSPDTT-DFTPILQQIKAADPDVIIAGFSGNVGVLFTQ 217 (344)
T ss_pred ccCCCceEEEEecCchhhhHH-HHHHHHHHHHcCCeEEEEEecCCCCC-chHHHHHHHHhcCCCEEEEeecCchHHHHHH
Confidence 8999999999999888665 89999999999999999998888766 9999999999999999999999999999999
Q ss_pred HHHHcCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCC---CCChhHHHHHHHHHHHhcccCCCCCCCCCCC
Q 043468 152 KANKMKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFP---EDKPKFQDFCKRFRKRFGAEYPEEDNNHEPG 228 (720)
Q Consensus 152 ~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 228 (720)
++.+.|+.. .++....+...... ........+|++....+.+ ..+|..++|.++|+++++. .|+
T Consensus 218 ~~~~~g~~~---~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~---------~p~ 284 (344)
T cd06345 218 QWAEQKVPI---PTIGISVEGNSPAF-WKATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKFGG---------PPN 284 (344)
T ss_pred HHHHcCCCC---ceEEecCCcCCHHH-HHhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHhCC---------CCc
Confidence 999999843 33433332211111 1112345566665444433 2468889999999999976 788
Q ss_pred chhhhHhhHHHHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCC
Q 043468 229 ALAVQTYDAVWSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAH 283 (720)
Q Consensus 229 ~~~~~~Ydav~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~ 283 (720)
.+++.+||+++++++|++++++.+++.+.++|++++|+|++|+++||++|++..+
T Consensus 285 ~~~~~~yda~~~l~~A~~~ag~~~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~~ 339 (344)
T cd06345 285 YMGASTYDSIYILAEAIERAGSTDGDALVEALEKTDFVGTAGRIQFYGDDSAFAH 339 (344)
T ss_pred ccchHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCcCCceeEEECCCCCcCcC
Confidence 8899999999999999999998899999999999999999999999999998644
No 38
>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=99.97 E-value=4.3e-29 Score=253.26 Aligned_cols=267 Identities=20% Similarity=0.352 Sum_probs=206.3
Q ss_pred ccccCCeEEEECCCCChh-hHHHHHhhccCCCcEEecccCC-cccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 3 LMDSQKVEAILGPQTSEE-TSSVAEIASKKQIPVLSFADAT-PNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 3 Li~~~~v~aiiGp~~s~~-~~~~~~~~~~~~ip~is~~~~~-~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
++ +++|.|||||.+|.. +.+++++++..+||+|+++.+. +.+...+++ ..++.|++..++.|+++++++++|++|+
T Consensus 61 ~l-~~gV~AIiGp~ss~~~~~~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~-~i~l~P~~~~~~~Ai~dli~~~~W~~v~ 138 (333)
T cd06394 61 IL-PKGVVSVLGPSSSPASSSIVSHICGEKEIPHFKVGPEETPKLQYLRFA-SVNLHPSNEDISVAVAGILNSFNYPTAS 138 (333)
T ss_pred HH-hcCeEEEECCCCchHHHHHHHHHhhccCCceEEeccccCcccccccce-EEEecCCHHHHHHHHHHHHHhcCCCEEE
Confidence 44 579999999999965 6799999999999999986442 222222333 4899999999999999999999999999
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCc---EEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGA---EIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~---~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
+||+++++ +..+.+.+++.+. .+. .... .++. |+.+++++|++.++++||++|+.+.+..++++|+++|
T Consensus 139 ~iYe~d~~-----l~~L~~~l~~~~~~~~~i~-~~~~-~~~~-d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lG 210 (333)
T cd06394 139 LICAKAEC-----LLRLEELLRQFLISKETLS-VRML-DDSR-DPTPLLKEIRDDKTATIIIDANASMSHTILLKASELG 210 (333)
T ss_pred EEEeCcHH-----HHHHHHHHHhhcccCCcee-eEEc-cCcc-cHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcC
Confidence 99999986 5666677665433 211 1111 1233 9999999999999999999999999999999999999
Q ss_pred CCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhH
Q 043468 158 MMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDA 237 (720)
Q Consensus 158 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Yda 237 (720)
|..+.|+|+.|+.......... ......++.+++...+. +|..++|+++|+++|.... .......+...++..|||
T Consensus 211 m~~~~y~~i~T~l~~~~~~L~~--~~~~~~niTgF~l~d~~-~~~v~~f~~~~~~~~~~~~-~~~~~~~~~~~~al~~D~ 286 (333)
T cd06394 211 MTSAFYKYILTTMDFPLLRLDS--IVDDRSNILGFSMFNQS-HAFYQEFIRSLNQSWRENC-DHSPYTGPALSSALLFDA 286 (333)
T ss_pred CCCCceEEEEecCCcccccHHH--hhcCCcceEEEEeecCC-cHHHHHHHHHHHHhhhhhc-ccccCCCcccceeeecce
Confidence 9999999999888654221111 11123446667655443 4999999999998774211 110000223468899999
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCceEEEEEEecCCCcc
Q 043468 238 VWSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSYRELGFWTYGLGFS 308 (720)
Q Consensus 238 v~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~v~~w~~~~~~~ 308 (720)
|+++ |++|++.||++|+|.+..++|+++..++.++||+|++..|+.
T Consensus 287 v~~~-------------------------glTg~i~f~~~g~R~~~~l~v~~l~~~g~~kig~W~~~~gl~ 332 (333)
T cd06394 287 VYAV-------------------------GLTGRIEFNSKGQRSNYTLKILQKTRSGFRQIGQWHSNETLS 332 (333)
T ss_pred EEEE-------------------------eeecceecCCCCcCcccEEEEEEecCCcceEEEEEeCCCCcC
Confidence 9999 999999999999999999999999999999999999988764
No 39
>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=99.96 E-value=2.7e-28 Score=251.79 Aligned_cols=268 Identities=17% Similarity=0.250 Sum_probs=209.7
Q ss_pred cccccCCeEEEE-CCCCCh--hhHHHHHhhccCCCcEEecccCCc-ccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCC
Q 043468 2 DLMDSQKVEAIL-GPQTSE--ETSSVAEIASKKQIPVLSFADATP-NWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEW 76 (720)
Q Consensus 2 ~Li~~~~v~aii-Gp~~s~--~~~~~~~~~~~~~ip~is~~~~~~-~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~ 76 (720)
+|+...+|.|+| ||.++. .+..++.++++++||+|++++.++ .++ +..+||++|+.|++..++.++++++++|+|
T Consensus 56 ~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~~q~~Ai~~Ii~~f~W 135 (362)
T cd06378 56 DLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIEQQAAVMLKIMEEYDW 135 (362)
T ss_pred HHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHHHHHHHHHHHHHHCCC
Confidence 466667899765 999987 335667777889999999986655 444 468999999999999999999999999999
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEE--EecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHV--LALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKAN 154 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~--~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~ 154 (720)
++|++||++++++..+ .+.+++.+.+.+++.... ...+.....+....+++++..++++|+++|+.+++..++++|.
T Consensus 136 ~~v~iV~~~~~g~~~~-~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~lk~~~arViVl~~s~~~a~~if~~A~ 214 (362)
T cd06378 136 HAFSVVTSRFPGYDDF-VSAVRTTVDNSFVGWELQSVLTLDMSDDDGDARTQRQLKKLESQVILLYCSKEEAEYIFRAAR 214 (362)
T ss_pred eEEEEEEEcCCCHHHH-HHHHHHHHhhcccceeEEEEEeeccCCCcchHHHHHHHHhcCCCEEEEECCHHHHHHHHHHHH
Confidence 9999999998866555 677777776655554333 2322222214788999999999999999999999999999999
Q ss_pred HcCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhH
Q 043468 155 KMKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQT 234 (720)
Q Consensus 155 ~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (720)
++||.+++|+||.++....... ....+...|++++.. ++|. ....+..
T Consensus 215 ~~gm~g~~yvWI~t~~~~~~~~---~~~~~~~~G~i~v~~-------------~~w~----------------~~~~a~~ 262 (362)
T cd06378 215 SAGLTGPGYVWIVPSLVLGNTD---LGPSEFPVGLISVSY-------------DGWR----------------YSLRARV 262 (362)
T ss_pred HcCCcCCCeEEEecccccCCCc---cccccCCcceEeecc-------------cccc----------------ccHHHHH
Confidence 9999999999999998655421 111234466665441 1110 0124678
Q ss_pred hhHHHHHHHHHHHHHH--------------------HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeec-C
Q 043468 235 YDAVWSVALAMEQKSE--------------------KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMG-K 293 (720)
Q Consensus 235 Ydav~~~a~al~~~~~--------------------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~-~ 293 (720)
||||+++|+|++.+.. ..|..|.++|++++|+|. +++||++|++.++.++|+++++ .
T Consensus 263 ~DaV~vva~Al~~l~~~~~~~~~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~~G~r~~~~ldIinl~~~~ 340 (362)
T cd06378 263 RDGVAIIATGASAMLRQHGFIPEAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTEDGYLVNPKLVVISLNKER 340 (362)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECCCCeEccceEEEEEecCCC
Confidence 9999999999996532 247789999999999996 8999999999999999999996 5
Q ss_pred ceEEEEEEecC
Q 043468 294 SYRELGFWTYG 304 (720)
Q Consensus 294 ~~~~v~~w~~~ 304 (720)
+|++||.|+.+
T Consensus 341 g~~kVG~W~~~ 351 (362)
T cd06378 341 VWEEVGKWENG 351 (362)
T ss_pred CceEEEEEcCC
Confidence 89999999954
No 40
>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=99.96 E-value=6.4e-28 Score=249.45 Aligned_cols=281 Identities=16% Similarity=0.210 Sum_probs=210.7
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCC--c-cc-----c-cCCCCeEEEeecChHHHHHHHHHHHH
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADAT--P-NW-----A-TERWPFLLQASQNQLAQMKAIAAIVQ 72 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~--~-~l-----~-~~~~~~~fr~~p~~~~~~~~~~~~l~ 72 (720)
+|+++ +|.||+||.+|..+.+++++++..+||+|++.+.. + .. . ....+|.|++.|++ .+..+++++++
T Consensus 57 ~Li~~-gV~AI~G~~~s~~~~av~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~ 134 (363)
T cd06381 57 DLMNQ-GILALVTSTGCASAIALQSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVT 134 (363)
T ss_pred HHHhc-CcEEEEecCChhHHHHHHHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHH
Confidence 67866 99999999999999999999999999999976432 1 11 1 12346888888885 68899999999
Q ss_pred hCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhh-------cCCCeEEEEEcCHHH
Q 043468 73 SWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLK-------GGQCRVFVVHLSLEL 145 (720)
Q Consensus 73 ~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~-------~~~~~vvil~~~~~~ 145 (720)
+++|++|+++|++++ |..+ .+.+.+.+++.|+.+.. ..........+.+.++.++ ..+.++||+.|+.+.
T Consensus 135 ~~~wkkvavly~~d~-g~~~-l~~~~~~~~~~g~~v~~-~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~ 211 (363)
T cd06381 135 EWRWQKFVYFYDNDY-DIRG-LQEFLDQLSRQGIDVLL-QKVDLNISKMATALFTTMRCEELNRYRDTLRRALLLLSPNG 211 (363)
T ss_pred hCCCeEEEEEEECCc-hHHH-HHHHHHHHHhcCceEEE-EecccccchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHH
Confidence 999999999999887 4466 68888889999986553 2332221112333333332 345568899999999
Q ss_pred HHHHHHHHHHcCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHH----HHHHHHHhcccCCCC
Q 043468 146 AVHLFEKANKMKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDF----CKRFRKRFGAEYPEE 221 (720)
Q Consensus 146 ~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f----~~~~~~~~~~~~~~~ 221 (720)
+..++++|.++||...+|+|+.++.+......+. .......|+++++..++.. +..++| .+.|...+.. .+
T Consensus 212 ~~~~l~~a~~~gm~~~~~~wi~~~~l~~~~~~l~-~~~~~~~nitgfrl~~~~~-~~~~~~~~~~~~~~~~~~~~---~~ 286 (363)
T cd06381 212 AYTFIDASVETNLAIKDSHWFLINEEISDTEIDE-LVRYAHGRMTVIRQTFSKE-KTNQRCLRNNHRISSLLCDP---KD 286 (363)
T ss_pred HHHHHHHHHHcCCCcCceEEEEeccccccchhhH-HHhhcCccEEEEEEecCCc-CchHHHHHHHHHHHHhhcCC---CC
Confidence 9999999999999988999999888876432222 2345777899999877543 445544 4444332211 12
Q ss_pred CCCCCCCchhhhHhhHHHHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCc-----eE
Q 043468 222 DNNHEPGALAVQTYDAVWSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKS-----YR 296 (720)
Q Consensus 222 ~~~~~~~~~~~~~Ydav~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~-----~~ 296 (720)
...+.+...++++||||+++ .++|+.++|+|++|++.||++|+|.+..++|+++.-.+ ..
T Consensus 287 ~~~~~~~~~~al~yDaV~~~---------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~~~~~~~~ 351 (363)
T cd06381 287 GYLQMLEISNLYIYDSVLLL---------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSETLGKDGR 351 (363)
T ss_pred CCCCChhHHHHHHHHHHHHH---------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCCccccceE
Confidence 22235667899999999999 78888999999999999999999999999999998433 67
Q ss_pred EEEEEecCCCc
Q 043468 297 ELGFWTYGLGF 307 (720)
Q Consensus 297 ~v~~w~~~~~~ 307 (720)
.+|+|++..|+
T Consensus 352 ~~~~w~~~~~~ 362 (363)
T cd06381 352 WLATWNPSKGL 362 (363)
T ss_pred EeeeccCCCCC
Confidence 88999987665
No 41
>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=99.96 E-value=2.6e-28 Score=262.23 Aligned_cols=316 Identities=22% Similarity=0.405 Sum_probs=257.8
Q ss_pred CCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 7 QKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 7 ~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
-.|.++|||..|..+.+++.++.-+.||+|+++++++.++ +.+|+||.|+.|+|..|+++|+++++.++|++|..++++
T Consensus 124 p~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~Am~~il~~f~W~yVstv~s~ 203 (878)
T KOG1056|consen 124 PPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQAMVDILKKFNWNYVSTVASE 203 (878)
T ss_pred CceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHHHHHHHHHhCeeEeeehhcC
Confidence 3489999999999999999999999999999999999999 579999999999999999999999999999999999999
Q ss_pred CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcc-cHHHHHHHhhc-CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCe
Q 043468 86 IDSSATGILPHLSDALREAGAEIIHVLALPHFPSS-RLSEELEKLKG-GQCRVFVVHLSLELAVHLFEKANKMKMMEKDY 163 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~-d~~~~l~~i~~-~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~ 163 (720)
+++|+.+ .+.+++..++.|+||...++++....+ .++..++++.. .++++||+++.+++++.++++|.++++.+ .+
T Consensus 204 ~dYGE~G-ieaf~~~a~~~~iCIa~s~ki~~~~~~~~~~~~l~kl~~~~~a~vvV~F~~~~~~r~~~~aa~~~n~~g-~~ 281 (878)
T KOG1056|consen 204 GDYGESG-IEAFKEEAAERGICIAFSEKIYQLSIEQEFDCVLRKLLETPNARVVVVFCRGEDARRLLKAARRANLTG-EF 281 (878)
T ss_pred ccchhhh-HHHHHHhHHhcCceEEehhhcccccchhHHHHHHHHHhhcCCCeEEEEecCcchHHHHHHHHHHhCCCc-ce
Confidence 9999999 999999999999999999887665433 89999999887 79999999999999999999999999986 58
Q ss_pred EEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHH----------HhcccCCCCC-----------
Q 043468 164 IWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRK----------RFGAEYPEED----------- 222 (720)
Q Consensus 164 ~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~----------~~~~~~~~~~----------- 222 (720)
+|+++++|......... .....+|.+++...... -+.+++|.++... +++.+...|.
T Consensus 282 ~wiaSd~W~~~~~~~~~-~e~~a~g~i~i~l~~~~-v~~F~~y~~s~~p~nn~~n~w~~e~w~~~f~C~l~~~~~~~~~~ 359 (878)
T KOG1056|consen 282 LWIASDGWASQNSPTEA-PEREAEGAITIKLASPQ-VPGFDRYFQSLHPENNRRNPWFAEFWEDKFNCSLPNSAFKNENL 359 (878)
T ss_pred EEEecchhhccCChhhh-hhhhhceeEEEEecCCc-chhHHHHHHhcCccccccCcccchhhhhcccCCCCcccccchhh
Confidence 99999999874333222 23477888888755432 3666666554332 2222211111
Q ss_pred -CCC-------C-----CCchhhhHhhHHHHHHHHHHHHHH---------------HhHHHHHHHHHcccccCceeeEEE
Q 043468 223 -NNH-------E-----PGALAVQTYDAVWSVALAMEQKSE---------------KLNQKLLRRILLSDFDGLTGKVEF 274 (720)
Q Consensus 223 -~~~-------~-----~~~~~~~~Ydav~~~a~al~~~~~---------------~~~~~l~~~l~~~~~~g~~G~v~f 274 (720)
..| . -.......+|||+++|+||+.+.. .+|..|.+.+++++|.+..|.+.|
T Consensus 360 ~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~~~~~~C~~m~~~dg~~L~~~l~~vnF~~~~~~v~F 439 (878)
T KOG1056|consen 360 IRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCPGTSGLCSAMKAIDGSLLLKYLLNVNFTGPAGSVRF 439 (878)
T ss_pred hhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcCCccccCcCccccCHHHHHhhhheeEEecCCCceee
Confidence 001 0 112345799999999999998865 278999999999999999999999
Q ss_pred ecCCcCCCCeEEEEEeec-C---ceEEEEEEecCCCccccccCCCCccCcccccCceeeCCCCCCCCccccc
Q 043468 275 MNQKVAPAHTYQIINLMG-K---SYRELGFWTYGLGFSDTIIDPKYNCSSMKDLGQVFWPGAPWYTPKGWTL 342 (720)
Q Consensus 275 ~~~g~~~~~~~~i~~~~~-~---~~~~v~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~~~~~ 342 (720)
|++||.. ..|+|++++. + .+..+|+|+....+. ...+.|..+....|++.|.
T Consensus 440 d~~gD~~-~~y~I~~~~~~~~~~~y~~vg~w~~~~~l~---------------i~~~~w~~~~~~v~~S~CS 495 (878)
T KOG1056|consen 440 DENGDGP-GRYDILNYQLTNGSYTYKEVGYWSEGLSLN---------------IEDLDWTTKPSGVPKSVCS 495 (878)
T ss_pred cCCCCCc-cceeEEEeeccCCCccceeeeeeccccccc---------------ceeeeeccCCCCCcccccc
Confidence 9999997 9999999984 2 689999999975432 2457787777778888774
No 42
>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=99.96 E-value=1.6e-28 Score=252.20 Aligned_cols=248 Identities=21% Similarity=0.296 Sum_probs=212.5
Q ss_pred CcccccCCeEEEECCCCChhhHHH-HHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSV-AEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQ 78 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~-~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~ 78 (720)
++|+++++|.+|+||.+|+.+.++ ++++++.++|+|+++++++.++. ..++|+||+.|++..++.++++++.+.+|++
T Consensus 60 ~~li~~~~v~~viG~~~s~~~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~ 139 (312)
T cd06346 60 TKLVNVDGVPGIVGAACSGVTIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKS 139 (312)
T ss_pred HHHHhhcCCCEEEccccchhhHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCe
Confidence 478888899999999999999999 99999999999999999888884 5679999999999999999999999999999
Q ss_pred EEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 79 VTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 79 v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
+++++.++++|... .+.+++.+++.|++|+....++.++. |+.+++++++++++|+|++.+.+.++..++++++++|+
T Consensus 140 vail~~~~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~ 217 (312)
T cd06346 140 VATTYINNDYGVGL-ADAFTKAFEALGGTVTNVVAHEEGKS-SYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGL 217 (312)
T ss_pred EEEEEccCchhhHH-HHHHHHHHHHcCCEEEEEEeeCCCCC-CHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCC
Confidence 99999999988665 89999999999999999999988877 99999999999999999999999999999999999999
Q ss_pred CCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 159 MEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
. ..|++++.+... ...........+|+++..+.. + .|..++|.++|+++|+. .|+.+++.+||++
T Consensus 218 ~---~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~-~-~~~~~~f~~~~~~~~g~---------~p~~~~~~~Yd~~ 282 (312)
T cd06346 218 F---DKFLLTDGMKSD-SFLPADGGYILAGSYGTSPGA-G-GPGLEAFTSAYKAAYGE---------SPSAFADQSYDAA 282 (312)
T ss_pred C---CceEeeccccCh-HHHHhhhHHHhCCcEEccCCC-C-chhHHHHHHHHHHHhCC---------CCCccchhhHHHH
Confidence 3 356666554332 111212235678888655332 2 38899999999999986 7888899999999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEE
Q 043468 239 WSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQ 286 (720)
Q Consensus 239 ~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~ 286 (720)
+++++| |.|++|+++|+++|++. ..|+
T Consensus 283 ~~l~~A--------------------~~g~~g~~~f~~~g~~~-~~~~ 309 (312)
T cd06346 283 ALLALA--------------------YQGASGVVDFDENGDVA-GSYD 309 (312)
T ss_pred HHHHHH--------------------hCCCccceeeCCCCCcc-ccee
Confidence 999988 89999999999999875 3443
No 43
>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=99.96 E-value=2.2e-28 Score=253.36 Aligned_cols=267 Identities=22% Similarity=0.302 Sum_probs=216.2
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTV 81 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~i 81 (720)
+|++ ++|.+||||.+|+.+.+++++++.+++|+|+++++++.++ .++.|++.|++..++.++++++++++|+++++
T Consensus 57 ~li~-~~V~aiiG~~~S~~~~av~~i~~~~~ip~is~~~~~~~~~---~~~~~~~~~~~~~~~~a~~~~~~~~~w~~vai 132 (324)
T cd06368 57 DLLS-QGVAAIFGPSSSSSANTVQSICDALEIPHITTSWSPNPKP---RQFTINLYPSMRDLSDALLDLIKYFGWRKFVY 132 (324)
T ss_pred HHHh-cCcEEEECCCCHHHHHHHHHHHhccCCCcEEecCCcCCCC---CcceEEecCCHHHHHHHHHHHHHhcCCCEEEE
Confidence 6786 8999999999999999999999999999999998888776 24556667888899999999999999999999
Q ss_pred EEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 82 IYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 82 i~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
+|+++++ ... .+.+.+.+++.|++|+.....+ ... |+++++.++++.++|+|++.+.++++..++++++++|+..+
T Consensus 133 i~~~~~~-~~~-l~~~~~~~~~~g~~v~~~~~~~-~~~-d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~ 208 (324)
T cd06368 133 IYDSDEG-LLR-LQELLDALSPKGIQVTVRRLDD-DTD-MYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSE 208 (324)
T ss_pred EECCcHh-HHH-HHHHHHhhccCCceEEEEEecC-Cch-HHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccC
Confidence 9987664 355 5677777888899988776544 443 89999999999999999999999999999999999999888
Q ss_pred CeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHHHH
Q 043468 162 DYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVWSV 241 (720)
Q Consensus 162 ~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~~~ 241 (720)
.++|+.++....... .. .......++.++.... ..+|..++|.++|+++++...+.... ..|+.+++.+||+|+++
T Consensus 209 ~~~~i~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~-~~p~~~aa~~yDav~~~ 284 (324)
T cd06368 209 YYHYILTNLDFHTLD-LE-LFRYGGVNITGFRLVD-PDNPEVQKFIQRWERSDHRICPGSGL-KPIKTESALTYDAVLLF 284 (324)
T ss_pred CcEEEEccCCccccc-hh-hhhcCCceEEEEEEec-CCChHHHHHHHHHHhccccccCCCCC-CCcchhhHhhhcEEEEe
Confidence 899999876443211 11 1111222344444333 34689999999999998753332211 16788899999999998
Q ss_pred HHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCceEEEEEEecCCCc
Q 043468 242 ALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSYRELGFWTYGLGF 307 (720)
Q Consensus 242 a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~~~v~~w~~~~~~ 307 (720)
+|+++||++|++.+..++|+++.+++++.+|.|++..++
T Consensus 285 ---------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 ---------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred ---------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 999999999999999999999999999999999987654
No 44
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=99.96 E-value=3.7e-28 Score=253.10 Aligned_cols=283 Identities=16% Similarity=0.151 Sum_probs=230.3
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHh-CCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQS-WEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~-~~~~~v 79 (720)
++|+++++|.+|+|+.+|+.+.++.+++++.++|++++...+. ...+||+||+.+++..+...+++++.. .+++++
T Consensus 60 ~~Li~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~v 136 (348)
T cd06355 60 RKLLTQDKVAAVFGCWTSASRKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRF 136 (348)
T ss_pred HHHHHhCCCcEEEeccchhhHHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeE
Confidence 4789889999999999999999999999999999998764322 235699999999999999999999765 579999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
++++.|+++|... .+.+++.+++.|++|+....++.++. |+.+++.++++.++|+|++...+.++..+++++++.|+.
T Consensus 137 aii~~d~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~ 214 (348)
T cd06355 137 YLVGSDYVYPRTA-NKILKAQLESLGGEVVGEEYLPLGHT-DFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGIT 214 (348)
T ss_pred EEECCcchHHHHH-HHHHHHHHHHcCCeEEeeEEecCChh-hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCC
Confidence 9999999988655 89999999999999999999988777 999999999999999999999999999999999999997
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCC-CCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFP-EDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
++...++........ +........+|++....+.. ..+|..++|.++|+++++... .++.++..+||++
T Consensus 215 ~~~~~~~~~~~~~~~---~~~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~-------~~~~~a~~~Y~a~ 284 (348)
T cd06355 215 ASKVPVLSFSVAEEE---LRGIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDR-------VTNDPMEAAYIGV 284 (348)
T ss_pred ccCCeeEEccccHHH---HhhcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCC-------CCCcHHHHHHHHH
Confidence 544455554322211 11111245678765444332 346889999999999987521 3456688999999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEee-cCceEEE
Q 043468 239 WSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLM-GKSYREL 298 (720)
Q Consensus 239 ~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~-~~~~~~v 298 (720)
+++++|++++++.++++++++|++++|+++.|.++|+++++.....+.+.+++ ++++..|
T Consensus 285 ~~~~~Al~~ag~~~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 285 YLWKQAVEKAGSFDVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred HHHHHHHHHhCCCCHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 99999999999989999999999999999999999998555544667788886 5666554
No 45
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.96 E-value=2e-28 Score=255.31 Aligned_cols=270 Identities=17% Similarity=0.227 Sum_probs=227.5
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC------
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW------ 74 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~------ 74 (720)
++|+++++|.+|+||.+|+.+.+++++++++++|+|+++++++.+++..++|+||+.|++..++.++++++.++
T Consensus 63 ~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~ 142 (347)
T cd06340 63 ERLITEEGVVALVGAYQSAVTLAASQVAERYGVPFVVDGAVSDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGK 142 (347)
T ss_pred HHHhccCCceEEecccchHhHHHHHHHHHHhCCCEEeccccchHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCC
Confidence 36888889999999999999999999999999999999888888887778999999999999999999998764
Q ss_pred CCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHH
Q 043468 75 EWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKAN 154 (720)
Q Consensus 75 ~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~ 154 (720)
+|++++++++++.+|... .+.+++.+++.|++|+..+.++.++. |+.+++.+++++++|+|++.+.+.++..|+++++
T Consensus 143 ~~~~v~~l~~~~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~ 220 (347)
T cd06340 143 PLKTVALVHEDTEFGTSV-AEAIKKFAKERGFEIVEDISYPANAR-DLTSEVLKLKAANPDAILPASYTNDAILLVRTMK 220 (347)
T ss_pred CCceEEEEecCchHhHHH-HHHHHHHHHHcCCEEEEeeccCCCCc-chHHHHHHHHhcCCCEEEEcccchhHHHHHHHHH
Confidence 569999999999888665 89999999999999999998987766 9999999999999999999999999999999999
Q ss_pred HcCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhH
Q 043468 155 KMKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQT 234 (720)
Q Consensus 155 ~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (720)
+.|+..+ .++......... .+....+++.+|++...++.++..|..++|.++|+++++. .|+.++..+
T Consensus 221 ~~G~~~~-~~~~~~~~~~~~--~~~~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~~---------~~~~~~~~~ 288 (347)
T cd06340 221 EQRVEPK-AVYSVGGGAEDP--SFVKALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFGV---------DLSGNSARA 288 (347)
T ss_pred HcCCCCc-EEEecCCCcCcH--HHHHHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhCC---------CCChHHHHH
Confidence 9999643 222222222111 1112234567888877666555568899999999999976 678889999
Q ss_pred hhHHHHHHHHHHHHHHHhHHHHH--HHHHccccc---CceeeEEEecCCcCCCCe
Q 043468 235 YDAVWSVALAMEQKSEKLNQKLL--RRILLSDFD---GLTGKVEFMNQKVAPAHT 284 (720)
Q Consensus 235 Ydav~~~a~al~~~~~~~~~~l~--~~l~~~~~~---g~~G~v~f~~~g~~~~~~ 284 (720)
||+++++++|++++++.+++.+. .+|+++.+. ++.|+++||++|+..++.
T Consensus 289 Y~a~~~l~~A~~~ag~~~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~~ 343 (347)
T cd06340 289 YTAVLVIADALERAGSADPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNAR 343 (347)
T ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHHHhccCCccccccCCCCeeECCCCCccccc
Confidence 99999999999999988899999 588888765 468899999999987543
No 46
>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=99.96 E-value=1.7e-27 Score=248.74 Aligned_cols=270 Identities=20% Similarity=0.334 Sum_probs=221.4
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHH-HHHhC-CCeE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAA-IVQSW-EWHQ 78 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~-~l~~~-~~~~ 78 (720)
++|+++++|++|+||.+|+.+.++.++++.+++|+|+++++++.+. ..++|+||+.|++..+...++. +++++ +|++
T Consensus 60 ~~li~~~~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~ 138 (344)
T cd06348 60 QTLINKDRVLAIIGPTLSQQAFAADPIAERAGVPVVGPSNTAKGIP-EIGPYVFRVSAPEAVVAPAAIAAALKLNPGIKR 138 (344)
T ss_pred HHHhhhcCceEEECCCCcHHHHhhhHHHHhCCCCEEeccCCCCCcC-CCCCeEEEccCcHHHHHHHHHHHHHHHhcCCeE
Confidence 4788888999999999999999999999999999999987766654 3568999998887766555554 46777 9999
Q ss_pred EEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 79 VTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 79 v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
++++|.+++ +|.. ..+.+++.+++.|++++....++.++. |+.+++.+++++++|+|++.+.+.++..+++++++.|
T Consensus 139 v~~l~~~~~~~g~~-~~~~~~~~~~~~g~~v~~~~~~~~~~~-d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g 216 (344)
T cd06348 139 VAVFYAQDDAFSVS-ETEIFQKALRDQGLNLVTVQTFQTGDT-DFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELG 216 (344)
T ss_pred EEEEEeCCchHHHH-HHHHHHHHHHHcCCEEEEEEeeCCCCC-CHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcC
Confidence 999998666 6644 489999999999999999999988776 9999999999999999999999999999999999999
Q ss_pred CCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCC-CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhh
Q 043468 158 MMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE-DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYD 236 (720)
Q Consensus 158 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Yd 236 (720)
+.. .++.++.+... . .....++..+|++....+.+. .+|..++|.++|+++++. .|+.++..+||
T Consensus 217 ~~~---~~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~---------~p~~~~~~~yd 282 (344)
T cd06348 217 YNG---LIVGGNGFNTP-N-VFPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYGK---------APPQFSAQAFD 282 (344)
T ss_pred CCC---ceeccccccCH-H-HHHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHCC---------CccHHHHHHHH
Confidence 953 45555443321 1 112234677888876655442 357889999999999875 67778899999
Q ss_pred HHHHHHHHHHHHHHH---h-------HHHHHHHHHcccccCceeeEEEecCCcCCCCeEEE
Q 043468 237 AVWSVALAMEQKSEK---L-------NQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQI 287 (720)
Q Consensus 237 av~~~a~al~~~~~~---~-------~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i 287 (720)
+++++++|+++++.. + ++.+.++|++.+|+|++|++.|+++|++.+..+.+
T Consensus 283 a~~~~~~A~~~a~~~~~~~~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 283 AVQVVAEALKRLNQKQKLAELPLPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred HHHHHHHHHHHhcCCCccccchhhhHHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 999999999999742 1 56889999999999999999999999987666543
No 47
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.96 E-value=7.5e-28 Score=249.71 Aligned_cols=264 Identities=15% Similarity=0.212 Sum_probs=222.7
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCC-CeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWE-WHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~-~~~v 79 (720)
++|+++++|.+|+|+.+|+.+.++++++++.++|+|+++++++.++ +.++|+||+.|++..+.+++++++.+.+ |+++
T Consensus 59 ~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~a~~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v 137 (332)
T cd06344 59 DELVKDPEILGVVGHYSSDATLAALDIYQKAKLVLISPTSTSVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKV 137 (332)
T ss_pred HHHhcccCceEEEcCCCcHHHHHHHHHHhhcCceEEccCcCchhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeE
Confidence 5789889999999999999999999999999999999988888777 5679999999999999999999998775 9999
Q ss_pred EEEEEcCC-CcccCcHHHHHHHHHH-cCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 80 TVIYEDID-SSATGILPHLSDALRE-AGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 80 ~ii~~~~~-~g~~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
++++.+++ +|... .+.+++.+++ .|++++....++..+. ++.+++.++++.++|+|++.+.+.+...+++++++.+
T Consensus 138 ~~i~~~~~~~g~~~-~~~~~~~~~~~~g~~v~~~~~~~~~~~-~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~ 215 (332)
T cd06344 138 AIFYNSTSPYSQSL-KQEFTSALLERGGGIVVTPCDLSSPDF-NANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANK 215 (332)
T ss_pred EEEeCCCchHhHHH-HHHHHHHHHHhcCCeeeeeccCCCCCC-CHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcC
Confidence 99999877 76554 8899999999 5999887766665555 8999999999999999999999989999999999877
Q ss_pred CCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhH
Q 043468 158 MMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDA 237 (720)
Q Consensus 158 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Yda 237 (720)
. ...+++++.+... .... ......+|+++..++.+. +|..++|.++|+++++. +|+.++..+||+
T Consensus 216 ~---~~~i~~~~~~~~~-~~~~-~~~~~~~G~~~~~~~~~~-~~~~~~f~~~~~~~~~~---------~~~~~a~~~Yda 280 (332)
T cd06344 216 G---RLTLLGGDSLYTP-DTLL-DGGKDLEGLVLAVPWHPL-ASPNSPFAKLAQQLWGG---------DVSWRTATAYDA 280 (332)
T ss_pred C---CceEEecccccCH-HHHH-hchhhhcCeEEEEecccc-cccchHHHHHHHHHhcC---------CchHHHHhHHHH
Confidence 6 4455655554322 1111 123567888877766655 57789999999999986 788889999999
Q ss_pred HHHHHHHHHHHHHHhHHHHH-HHHHcccccCceeeEEEecCCcCCC
Q 043468 238 VWSVALAMEQKSEKLNQKLL-RRILLSDFDGLTGKVEFMNQKVAPA 282 (720)
Q Consensus 238 v~~~a~al~~~~~~~~~~l~-~~l~~~~~~g~~G~v~f~~~g~~~~ 282 (720)
++++++|++++++.++..+. .++++..|+|+.|+++||++|++..
T Consensus 281 ~~~l~~A~~~ag~~~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~ 326 (332)
T cd06344 281 TKALIAALSQGPTREGVQQVELSLRNFSVQGATGKIKFLPSGDRNG 326 (332)
T ss_pred HHHHHHHHHhCCChhhhhhhhhhcccccccCCCceeEeCCCCcccC
Confidence 99999999999887887777 7888889999999999999999864
No 48
>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=99.96 E-value=7.4e-28 Score=250.15 Aligned_cols=268 Identities=15% Similarity=0.181 Sum_probs=226.8
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v 79 (720)
++|+++++|.+|+||.+|+.+.++++++++.++|+|+++++++.++. ...||+||+.|++..++.++++++...+++++
T Consensus 59 ~~l~~~~~V~aviG~~~s~~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v 138 (334)
T cd06327 59 REWIDRDGVDMIVGGPNSAVALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKW 138 (334)
T ss_pred HHHHhhcCceEEECCccHHHHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeE
Confidence 47888889999999999999999999999999999999988888874 35799999999999999999999877789999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
++++.++.+|... .+.+++.+++.|++++....++.+.. |+.+++.++++.++|+|++.+.+.++..+++++++.|+.
T Consensus 139 ~~i~~~~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~ 216 (334)
T cd06327 139 FFLTADYAFGHSL-ERDARKVVKANGGKVVGSVRHPLGTS-DFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLT 216 (334)
T ss_pred EEEecchHHhHHH-HHHHHHHHHhcCCEEcCcccCCCCCc-cHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCc
Confidence 9999999888766 99999999999999999999988776 999999999999999999999999999999999999986
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCC-ChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPED-KPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
.+ ..++....+..... .......+|++...++.... .|..++|.++|+++++. .|+.++..+||++
T Consensus 217 ~~-~~~~~~~~~~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~---------~p~~~~~~~Y~~~ 283 (334)
T cd06327 217 KG-QKLAGLLLFLTDVH---SLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYGK---------MPSMVQAGAYSAV 283 (334)
T ss_pred cC-CcEEEecccHHHHH---hhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHCc---------CCCcHHHHHHHHH
Confidence 32 33333332222111 11235678888776665433 78899999999999976 6788889999999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHcc-cccCceeeEEEec-CCcCCCC
Q 043468 239 WSVALAMEQKSEKLNQKLLRRILLS-DFDGLTGKVEFMN-QKVAPAH 283 (720)
Q Consensus 239 ~~~a~al~~~~~~~~~~l~~~l~~~-~~~g~~G~v~f~~-~g~~~~~ 283 (720)
+++++|++++++.+++++.++|+++ .++++.|+++|+. +|+...+
T Consensus 284 ~~~~~A~~~ag~~~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~~~ 330 (334)
T cd06327 284 LHYLKAVEAAGTDDADKVVAKMKETPIYDLFAGNGYIRACDHQMVHD 330 (334)
T ss_pred HHHHHHHHHHCCCChHHHHHhccccceeccCCCCceeeccccchhcc
Confidence 9999999999999999999999997 5688899999987 6665433
No 49
>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=99.96 E-value=1.9e-27 Score=247.97 Aligned_cols=286 Identities=14% Similarity=0.120 Sum_probs=226.9
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
|+|+++++|.+|+||.+|+.+.++++++++.++|+|.....+. ....+|+||+.|++..+..++++++.....++++
T Consensus 61 ~~li~~d~v~~viG~~~S~~~~A~~~~~~~~~~~~i~~~~~~~---~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va 137 (374)
T TIGR03669 61 RRLLNRDKVDALWAGYSSATREAIRPIIDRNEQLYFYTNQYEG---GVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIY 137 (374)
T ss_pred HHHHHhCCCCEEEcCCchHHHHHHHHHHHhcCceEEcCccccc---ccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEE
Confidence 4789889999999999999999999999999999996532111 2345899999999999999999998654347899
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
+++.|+++|... .+.+++.+++.|++++....++.++. ||.+++.+|++++||+|++...+.+...++++++++|+..
T Consensus 138 ~l~~d~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~g~~-Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~ 215 (374)
T TIGR03669 138 TIAADYNFGQLS-ADWVRVIAKENGAEVVGEEFIPLSVS-QFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNL 215 (374)
T ss_pred EEcCCcHHHHHH-HHHHHHHHHHcCCeEEeEEecCCCcc-hHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCC
Confidence 999999988655 88999999999999999999998877 9999999999999999999988889999999999999953
Q ss_pred CCeEEEEeCcccccccccCcchhhhccccEEEEecCCC-CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHH
Q 043468 161 KDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE-DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVW 239 (720)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~ 239 (720)
+ ++............. .......|++....+... .+|..++|.++|+++|+... .++.++..+||+++
T Consensus 216 ~---~~~~~~~~~~~~~~~-~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~p-------~~~~~a~~~Yda~~ 284 (374)
T TIGR03669 216 P---MGTSTAMAQGYEHKR-FEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDAP-------YINQEAENNYFSVY 284 (374)
T ss_pred c---ccchhhhhhhhhhhh-cCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCCC-------CCChHHHHHHHHHH
Confidence 3 332222211101111 112356677655554432 36889999999999997520 23567889999999
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHc-ccccCceeeEEEecCCcCCCCeEEEEEeec-CceEEEEEEe
Q 043468 240 SVALAMEQKSEKLNQKLLRRILL-SDFDGLTGKVEFMNQKVAPAHTYQIINLMG-KSYRELGFWT 302 (720)
Q Consensus 240 ~~a~al~~~~~~~~~~l~~~l~~-~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~-~~~~~v~~w~ 302 (720)
++++|++++++.+++.++++|++ ..++|+.|+++|+++++.....+.|.+++. +....+..|+
T Consensus 285 ~l~~Ai~~AGs~d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 285 MYKQAVEEAGTTDQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred HHHHHHHHhCCCCHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 99999999999999999999997 579999999999987666556677888874 4555555565
No 50
>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=99.96 E-value=4.3e-27 Score=247.51 Aligned_cols=283 Identities=17% Similarity=0.280 Sum_probs=233.0
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHH-HhCCCeE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIV-QSWEWHQ 78 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l-~~~~~~~ 78 (720)
++|+++++|.+|+||.+|..+.+++++++..++|+|++.++++.+++ +.++|+||+.|++..++.++++++ ++.++++
T Consensus 67 ~~li~~~~v~avvG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~ 146 (362)
T cd06343 67 RKLVESDEVFAMVGGLGTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAK 146 (362)
T ss_pred HHHHhhcCeEEEEecCCcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCce
Confidence 46888899999999999999999999999999999999887777774 478999999999999999999985 5678999
Q ss_pred EEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 79 VTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 79 v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
+++++.++.+|... .+.+++.+++.|++++....++.++. |+.+++++++++++|+|++.+.+.++..+++++++.|+
T Consensus 147 v~ii~~~~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~ 224 (362)
T cd06343 147 IAVLYQNDDFGKDY-LKGLKDGLGDAGLEIVAETSYEVTEP-DFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGW 224 (362)
T ss_pred EEEEEeccHHHHHH-HHHHHHHHHHcCCeEEEEeeecCCCc-cHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCC
Confidence 99999999888765 99999999999999999999988776 99999999999999999999999999999999999999
Q ss_pred CCCCeEEEEeCcccccccccCcchhhhccccEEEEecCC------CCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhh
Q 043468 159 MEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFP------EDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAV 232 (720)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (720)
.. .++.++.+...............+|++....+.. ..+|..++|.+.|+++++... .|+.++.
T Consensus 225 ~~---~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~-------~~~~~~~ 294 (362)
T cd06343 225 KP---TFLLSSVSASVASVLKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGD-------PPDTYAV 294 (362)
T ss_pred Cc---eEEEEecccccHHHHHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCC-------CCchhhh
Confidence 64 3455544332211011222356778876554321 236888999999999886510 3778889
Q ss_pred hHhhHHHHHHHHHHHHHH-HhHHHHHHHHHcccc---cC-ceeeEEEecCCcCCCCeEEEEEeecCce
Q 043468 233 QTYDAVWSVALAMEQKSE-KLNQKLLRRILLSDF---DG-LTGKVEFMNQKVAPAHTYQIINLMGKSY 295 (720)
Q Consensus 233 ~~Ydav~~~a~al~~~~~-~~~~~l~~~l~~~~~---~g-~~G~v~f~~~g~~~~~~~~i~~~~~~~~ 295 (720)
.+||++.++++|+++++. .+++.++++|+++++ .+ ..++++|+.++++....+.|.++++++|
T Consensus 295 ~~y~a~~~~~~a~~~ag~~~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~ 362 (362)
T cd06343 295 YGYAAAETLVKVLKQAGDDLTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGRW 362 (362)
T ss_pred HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCcC
Confidence 999999999999999975 488999999999986 33 3458999877666667888999988765
No 51
>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=99.95 E-value=4.8e-27 Score=244.81 Aligned_cols=270 Identities=17% Similarity=0.222 Sum_probs=229.3
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v 79 (720)
++|+++++|.+||||.+|+.+.++++.+++.++|+|+++++++.++. ..+||+||+.|++..++..+++++...+|+++
T Consensus 58 ~~lv~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v 137 (336)
T cd06360 58 RKLIEQDKVDVVVGPVHSGEALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKV 137 (336)
T ss_pred HHHHHHhCCcEEEccCccHhHHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeE
Confidence 36787789999999999999999999999999999999888888774 34799999999999999999999988899999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
++++.++.+|... .+.+++.+++.|++++....++.++. |+++++.++++.++|+|++...+.++..+++++++.|+.
T Consensus 138 ~~l~~~~~~g~~~-~~~~~~~~~~~G~~v~~~~~~~~~~~-d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~ 215 (336)
T cd06360 138 VTVAWDYAFGYEV-VEGFKEAFTEAGGKIVKELWVPFGTS-DFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLK 215 (336)
T ss_pred EEEeccchhhHHH-HHHHHHHHHHcCCEEEEEEecCCCCc-chHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCc
Confidence 9999888877555 78999999999999998888887766 999999999999999999999999999999999999996
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCC-CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE-DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
+ +..+++++.+... . .....+++.+|++...++.+. .+|..+.|.++|+++++. .|+.++..+||++
T Consensus 216 ~-~~~~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~~---------~~~~~~~~~yda~ 283 (336)
T cd06360 216 A-KIPLIGSGFLTDG-T-TLGAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYPD---------TPSVYAVQGYDAG 283 (336)
T ss_pred c-CCeEEecccccCH-H-HHHhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhCC---------CccHHHHHHHHHH
Confidence 4 3456665554322 1 112234677888876655442 468899999999999976 7888899999999
Q ss_pred HHHHHHHHHHHHH--hHHHHHHHHHcccccCceeeEEEecCCcCCCCe
Q 043468 239 WSVALAMEQKSEK--LNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHT 284 (720)
Q Consensus 239 ~~~a~al~~~~~~--~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~ 284 (720)
+++++|++++++. +++.+.++|++++++|..|+++|+++|+...+.
T Consensus 284 ~~~~~A~~~a~~~~~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~ 331 (336)
T cd06360 284 QALILALEAVGGDLSDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDN 331 (336)
T ss_pred HHHHHHHHHhCCCCCCHHHHHHHHhcCCccCCCcceEECCCCCcccce
Confidence 9999999999863 678899999999999999999999999887443
No 52
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=99.95 E-value=4e-27 Score=245.83 Aligned_cols=278 Identities=19% Similarity=0.225 Sum_probs=227.3
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHh-CCCeE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQS-WEWHQ 78 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~-~~~~~ 78 (720)
++|+.+++|.+|+|+.+|+.+.++.+++++.++|+|+++++++.++. ...+++||+.|++..++.++++++.. .+.++
T Consensus 71 ~~li~~~~V~~vvG~~~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~ 150 (366)
T COG0683 71 RKLITQDGVDAVVGPTTSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKR 150 (366)
T ss_pred HHHHhhcCceEEEEeccCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcE
Confidence 46888899999999999999999999999999999999999988774 44456999999999999999999765 45569
Q ss_pred EEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 79 VTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 79 v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
+++|++++.+|... .+.+++.+++.|++++....+.+.+. ++.+++.+++++++|+|++.+.+++...|++++++.|+
T Consensus 151 v~ii~~~~~yg~~~-~~~~~~~l~~~G~~~~~~~~~~~~~~-~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~ 228 (366)
T COG0683 151 VAIIGDDYAYGEGL-ADAFKAALKALGGEVVVEEVYAPGDT-DFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGL 228 (366)
T ss_pred EEEEeCCCCcchhH-HHHHHHHHHhCCCeEEEEEeeCCCCC-ChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCC
Confidence 99999999998655 99999999999998666677777777 89999999999999999999999999999999999999
Q ss_pred CCCCeEEEEeCcccc-cccccCcchhhhccc-cEEEEec-CCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHh
Q 043468 159 MEKDYIWITTDAFTS-LVHSINTSSISSMQG-ILGVRSH-FPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTY 235 (720)
Q Consensus 159 ~~~~~~~i~~~~~~~-~~~~~~~~~~~~~~g-~~~~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y 235 (720)
... .+..+.... ..... ......+ ......+ .+...|..+.|+++|+++++... .++.++..+|
T Consensus 229 ~~~---~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~-------~~~~~~~~~y 295 (366)
T COG0683 229 KAK---LIGGDGAGTAEFEEI---AGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDPA-------APSYFAAAAY 295 (366)
T ss_pred CCc---cccccccCchhhhhh---cccCccccEEEEecccccccCcchHHHHHHHHHHhCCCC-------CcccchHHHH
Confidence 653 122222221 11111 1112222 3223333 33446888889999999998311 6677899999
Q ss_pred hHHHHHHHHHHHHH-HHhHHHHHHHHHccc-ccCceeeEEEecCCcCCCCeEEEEEeecC
Q 043468 236 DAVWSVALAMEQKS-EKLNQKLLRRILLSD-FDGLTGKVEFMNQKVAPAHTYQIINLMGK 293 (720)
Q Consensus 236 dav~~~a~al~~~~-~~~~~~l~~~l~~~~-~~g~~G~v~f~~~g~~~~~~~~i~~~~~~ 293 (720)
|+++++++|+++++ +.+++.+.++|++.. +++..|.+.||++|++....+.|.+|+.+
T Consensus 296 ~a~~~~~~ai~~a~~~~d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~ 355 (366)
T COG0683 296 DAVKLLAKAIEKAGKSSDREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKG 355 (366)
T ss_pred HHHHHHHHHHHHHhcCCCHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEec
Confidence 99999999999999 778889999999986 68899999999999998899999999853
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=99.95 E-value=1e-26 Score=242.33 Aligned_cols=276 Identities=16% Similarity=0.243 Sum_probs=226.7
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHH-HhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIV-QSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l-~~~~~~~v 79 (720)
++|+++++|.+|+||.+|+.+.++++++++.++|+|+++++++.++. ..+|+||+.|++..+..++++++ ++.+|+++
T Consensus 60 ~~li~~~~V~~i~G~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v 138 (340)
T cd06349 60 QKFVADPRIVAVLGDFSSGVSMAASPIYQRAGLVQLSPTNSHPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKV 138 (340)
T ss_pred HHHhccCCeEEEECCCccHhHHHhHHHHHhCCCeEEecCCCCCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEE
Confidence 47899999999999999999999999999999999999887777654 46999999999999999999995 67899999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
++++.++++|... .+.+++.+++.|++++....++.++. |+++++.+++++++|+|++.+.+.+...+++++++.|+.
T Consensus 139 ~ii~~~~~~g~~~-~~~~~~~~~~~g~~v~~~~~~~~~~~-d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~ 216 (340)
T cd06349 139 AILSVNTDWGRTS-ADIFVKAAEKLGGQVVAHEEYVPGEK-DFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLD 216 (340)
T ss_pred EEEecCChHhHHH-HHHHHHHHHHcCCEEEEEEEeCCCCC-cHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCC
Confidence 9999999988666 89999999999999999888887766 999999999999999999999999999999999999995
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCC-CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE-DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
. .++.++..... ... .......+|++....+.+. .+|..++|.++|.++|+. .|+.++..+||++
T Consensus 217 ~---~~~~~~~~~~~-~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~p~~~~~~~y~~~ 282 (340)
T cd06349 217 I---PVVASSSVYSP-KFI-ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYGA---------QPDAFAAQAYDAV 282 (340)
T ss_pred C---cEEccCCcCCH-HHH-HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHCC---------CcchhhhhHHHHH
Confidence 3 44544333221 111 1123567888876655543 468899999999998875 6788899999999
Q ss_pred HHHHHHHHHHHHHhHHHHHHH-HHcccccCceeeEEEecC-CcCCCCeEEEEEeecCc
Q 043468 239 WSVALAMEQKSEKLNQKLLRR-ILLSDFDGLTGKVEFMNQ-KVAPAHTYQIINLMGKS 294 (720)
Q Consensus 239 ~~~a~al~~~~~~~~~~l~~~-l~~~~~~g~~G~v~f~~~-g~~~~~~~~i~~~~~~~ 294 (720)
.++++|+++++..+...+... +.+..+.|+.|+++|+++ |+.. ..+.++++++++
T Consensus 283 ~~~~~a~~~ag~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~-~~~~~~~~~~g~ 339 (340)
T cd06349 283 GILAAAVRRAGTDRRAARDGFAKAEDVYSGVTGSTKFDPNTRRVI-KRFVPLVVRNGK 339 (340)
T ss_pred HHHHHHHHHhCCCCHHHHHHHHHhccCcccceEeEEECCCCCCcc-CceEEEEEeCCc
Confidence 999999999987554444333 244567899999999987 5554 578788887765
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=99.95 E-value=3.2e-27 Score=245.89 Aligned_cols=261 Identities=15% Similarity=0.152 Sum_probs=221.9
Q ss_pred CcccccCCeEEEECCCCChhhHHH-------HHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHH
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSV-------AEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQ 72 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~-------~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~ 72 (720)
++|+++ +|++|+||.+|..+.++ +++++..++|+|+++++++.++. ..++|+||+.|++..++.++++++.
T Consensus 60 ~~lv~~-~v~aiiG~~~s~~~~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~ 138 (342)
T cd06329 60 QKAIDD-GVRLVVQGNSSSVALALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIK 138 (342)
T ss_pred HHHHHh-CCeEEEcccchHHHHHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHH
Confidence 468865 99999999999999999 88889999999999888888874 5679999999999999999999998
Q ss_pred hCC-CeEEEEEEEcCCCcccCcHHHHHHHHHH--cCcEEEEEEecCCCC-cccHHHHHHHhhcCCCeEEEEEcCHHHHHH
Q 043468 73 SWE-WHQVTVIYEDIDSSATGILPHLSDALRE--AGAEIIHVLALPHFP-SSRLSEELEKLKGGQCRVFVVHLSLELAVH 148 (720)
Q Consensus 73 ~~~-~~~v~ii~~~~~~g~~~~~~~~~~~~~~--~g~~v~~~~~~~~~~-~~d~~~~l~~i~~~~~~vvil~~~~~~~~~ 148 (720)
+.+ |+++++++.|+.+|... .+.+++.+++ .|++|+....++.++ . |+.+++.+++++++|+|++...+.+...
T Consensus 139 ~~~~~k~v~i~~~~~~~g~~~-~~~~~~~~~~~~~G~~vv~~~~~~~~~~~-d~~~~i~~l~~~~~d~v~~~~~~~~~~~ 216 (342)
T cd06329 139 KQPDGKKVYLINQDYSWGQDV-AAAFKAMLAAKRPDIQIVGEDLHPLGKVK-DFSPYVAKIKASGADTVITGNWGNDLLL 216 (342)
T ss_pred hcccCceEEEEeCChHHHHHH-HHHHHHHHHhhcCCcEEeceeccCCCCCC-chHHHHHHHHHcCCCEEEEcccCchHHH
Confidence 765 99999999998888766 9999999999 999999988888776 6 9999999999999999999888889999
Q ss_pred HHHHHHHcCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCC-CCChhHHHHHHHHHHHhcccCCCCCCCCCC
Q 043468 149 LFEKANKMKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFP-EDKPKFQDFCKRFRKRFGAEYPEEDNNHEP 227 (720)
Q Consensus 149 ~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 227 (720)
+++++++.|+. ..++........ .....+...+|++....+.+ ..+|..++|.++|+++++. .|
T Consensus 217 ~~~~~~~~g~~---~~~~~~~~~~~~---~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~~ 281 (342)
T cd06329 217 LVKQAADAGLK---LPFYTPYLDQPG---NPAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYGR---------VP 281 (342)
T ss_pred HHHHHHHcCCC---ceEEeccccchh---HHHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhCC---------CC
Confidence 99999999994 345554433221 11223456778776665543 3368899999999999875 67
Q ss_pred CchhhhHhhHHHHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCc
Q 043468 228 GALAVQTYDAVWSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKV 279 (720)
Q Consensus 228 ~~~~~~~Ydav~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~ 279 (720)
+.++..+||+++++++|++++++.+++.+.++|++++|+|+.|+++|++.++
T Consensus 282 ~~~~~~~y~~~~~~~~a~~~ag~~~~~~v~~al~~~~~~~~~g~~~~~~~~~ 333 (342)
T cd06329 282 DYYEGQAYNGIQMLADAIEKAGSTDPEAVAKALEGMEVDTPVGPVTMRASDH 333 (342)
T ss_pred CchHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHhCCccccCCCCeEEcccCc
Confidence 7888999999999999999999889999999999999999999999986443
No 55
>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=99.95 E-value=6e-27 Score=242.56 Aligned_cols=263 Identities=14% Similarity=0.158 Sum_probs=215.9
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v 79 (720)
++|+++++|.+|+||.+|+.+.++++++++.++|+|+++++++.++. +.++|+||+.+++..+...+++++... ++++
T Consensus 61 ~~li~~~~V~avvG~~~S~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v 139 (333)
T cd06328 61 RELIGDDGVDILVGSTSSGVALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKI 139 (333)
T ss_pred HHHHHhcCCeEEEccCCcHHHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeE
Confidence 57898889999999999999999999999999999999888888874 446999999999888899988887665 7999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHH-HHHHHHHHHHHcCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLE-LAVHLFEKANKMKM 158 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~-~~~~~l~~a~~~g~ 158 (720)
++++.++++|... .+.+++.+++.|++++....++.++. |+.+++.+++++++|+|++...+. +...+++++.+.|+
T Consensus 140 ~~i~~~~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~ 217 (333)
T cd06328 140 ATLAQDYAFGRDG-VAAFKAALEKLGAAIVTEEYAPTDTT-DFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGY 217 (333)
T ss_pred EEEecCccccHHH-HHHHHHHHHhCCCEEeeeeeCCCCCc-chHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcC
Confidence 9999999988766 89999999999999999999998877 999999999999999998876554 67777888888777
Q ss_pred CCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 159 MEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
.. .......+..... ........+|......+....+|..++|.++|+++++. .|+.+++.+||++
T Consensus 218 ~~---~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~---------~p~~~~~~~y~a~ 283 (333)
T cd06328 218 GI---EITLAGDILANLT--MYKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFGS---------PPDLFTAGGMSAA 283 (333)
T ss_pred CC---eEEecccccCccc--cccccccccceeeeecCCCCCCHHHHHHHHHHHHHhCC---------CcchhhHHHHHHH
Confidence 42 2222222222111 11123445666654444434568889999999999976 7888899999999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcC
Q 043468 239 WSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVA 280 (720)
Q Consensus 239 ~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~ 280 (720)
.++++|++++++.+++.+.++|+++.|+++.|+++|+.+++.
T Consensus 284 ~~l~~Ai~~ag~~~~~~v~~aL~~~~~~~~~g~~~f~~~~~~ 325 (333)
T cd06328 284 IAVVEALEETGDTDTEALIAAMEGMSFETPKGTMTFRKEDHQ 325 (333)
T ss_pred HHHHHHHHHhCCCCHHHHHHHHhCCeeecCCCceEECcccch
Confidence 999999999998889999999999999999999999964443
No 56
>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=99.95 E-value=6.2e-27 Score=242.94 Aligned_cols=271 Identities=16% Similarity=0.214 Sum_probs=221.3
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v 79 (720)
++|+++++|.+|+||.+|..+.+++++++..++|+|+++++.+.+.+ ..++|+||+.|++..+..++++++...|++++
T Consensus 58 ~~lv~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~v 137 (333)
T cd06359 58 ERLIKRDKVDFVTGVVFSNVLLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRV 137 (333)
T ss_pred HHHHhhcCCcEEEccCCcHHHHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeE
Confidence 47888889999999999999999999999999999998776666663 45799999999999999999999988899999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
++++.|+.+|... .+.+++.++ .+++....++.+.. |+.+++.+++++++|+|++...+.+...+++++++.|+.
T Consensus 138 ail~~~~~~g~~~-~~~~~~~~~---~~v~~~~~~~~~~~-d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~ 212 (333)
T cd06359 138 FLIAPNYQAGKDA-LAGFKRTFK---GEVVGEVYTKLGQL-DFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLK 212 (333)
T ss_pred EEEecCchhhHHH-HHHHHHHhC---ceeeeeecCCCCCc-chHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCcc
Confidence 9999999887554 666666553 46776776676666 999999999999999999988888899999999999985
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCC-CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE-DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
+ +..++.+...... . .....+++.+|++....+.+. .+|..++|.++|.++++. .|+.++..+||++
T Consensus 213 ~-~~~~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~~~~~~~~~yda~ 280 (333)
T cd06359 213 K-DIPLYSPGFSDEE-D-TLPAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYGR---------LPTLYAAQAYDAA 280 (333)
T ss_pred c-CCeeeccCcccCH-H-HHHhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhCC---------CCcHHHHHHHHHH
Confidence 4 3345554443321 1 112234567888876665542 468899999999999875 7888899999999
Q ss_pred HHHHHHHHHHHHH--hHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEE
Q 043468 239 WSVALAMEQKSEK--LNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIIN 289 (720)
Q Consensus 239 ~~~a~al~~~~~~--~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~ 289 (720)
+++++|+++++.. +++.+.++|++++|+|+.|+++|+++|+.. ....+++
T Consensus 281 ~~~~~A~~~ag~~~~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~-~~~~~~~ 332 (333)
T cd06359 281 QLLDSAVRKVGGNLSDKDALRAALRAADFKSVRGAFRFGTNHFPI-QDFYLRE 332 (333)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHhcCccccCccceEECCCCCcc-eeEEEEe
Confidence 9999999999753 789999999999999999999999887765 4455554
No 57
>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=99.95 E-value=4.6e-27 Score=245.08 Aligned_cols=269 Identities=15% Similarity=0.156 Sum_probs=225.1
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
++|+++++|.+|+|+.+|..+.+ ++++++.++|+|++.++++.++...++|+||+.|++..++.++.+++++.+|++|+
T Consensus 64 ~~li~~~~v~~iiG~~~s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~ 142 (347)
T cd06336 64 RRLVQQDGVKFILGPIGGGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVA 142 (347)
T ss_pred HHHHhhcCceEEEeCCCCchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEE
Confidence 47898889999999999998888 99999999999999998888875677999999999999999999998888999999
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHH-HHHHHHHHHHHcCCC
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLE-LAVHLFEKANKMKMM 159 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~-~~~~~l~~a~~~g~~ 159 (720)
+++.|+.+|... .+.+++.+++.|++++....++.++. |+.+++++++++++|+|++.+.+. +...++++++++|+.
T Consensus 143 il~~d~~~g~~~-~~~~~~~l~~~G~~vv~~~~~~~~~~-D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~ 220 (347)
T cd06336 143 LLGPNDAYGQPW-VAAYKAAWEAAGGKVVSEEPYDPGTT-DFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFK 220 (347)
T ss_pred EEccCCchhHHH-HHHHHHHHHHcCCEEeeecccCCCCc-chHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCC
Confidence 999999988655 99999999999999999999988776 999999999999999999999888 999999999999986
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCC---CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhh
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE---DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYD 236 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Yd 236 (720)
.+ ++........ ...........+|++...++... .+|..++|.++|+++++. .|+.++..+||
T Consensus 221 ~~---~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~p~~~~~~~y~ 287 (347)
T cd06336 221 GG---FLSCTGDKYD-ELLVATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYGE---------PPNSEAAVSYD 287 (347)
T ss_pred cc---EEeccCCCch-HHHHHhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHCC---------CCcHHHHHHHH
Confidence 43 2222221111 11111123567888877766554 578899999999999976 67888999999
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHc--------ccccCceeeEEEecCCcCCCCeE
Q 043468 237 AVWSVALAMEQKSEKLNQKLLRRILL--------SDFDGLTGKVEFMNQKVAPAHTY 285 (720)
Q Consensus 237 av~~~a~al~~~~~~~~~~l~~~l~~--------~~~~g~~G~v~f~~~g~~~~~~~ 285 (720)
++.++++|+++++..++..+.+++.. ..|+++.|.+.||++|+...+..
T Consensus 288 ~~~~~~~Al~~ag~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 344 (347)
T cd06336 288 AVYILKAAMEAAGSVDDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPWP 344 (347)
T ss_pred HHHHHHHHHHhcCCCCcHHHHHHHhhccCCCcCccccccccccccccCCCccccCcc
Confidence 99999999999988777777666543 47788899999999999875543
No 58
>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=99.95 E-value=6.7e-27 Score=242.83 Aligned_cols=270 Identities=17% Similarity=0.164 Sum_probs=222.6
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
++|+++++|.+|+||.+|..+.++++++++.++|+|++...+.. ..++|+||+.|++..+..++++++...+|++++
T Consensus 60 ~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~ 136 (333)
T cd06331 60 RRLIRDDKVDAVFGCYTSASRKAVLPVVERGRGLLFYPTQYEGG---ECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFY 136 (333)
T ss_pred HHHHhccCCcEEEecccHHHHHHHHHHHHhcCceEEeCCCCCCC---cCCCCeEEccCChHHhHHHHHHHHHHhcCCeEE
Confidence 47898889999999999999999999999999999997653321 245899999999999999999998666699999
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
+++.|+.+|... .+.+++.+++.|++|+....++.+.. |+.+++.++++.++|+|++.+.+.+...+++++++.|+..
T Consensus 137 il~~d~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~ 214 (333)
T cd06331 137 LIGSDYVWPRES-NRIARALLEELGGEVVGEEYLPLGTS-DFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDA 214 (333)
T ss_pred EECCCchhHHHH-HHHHHHHHHHcCCEEEEEEEecCCcc-cHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCc
Confidence 999998887655 89999999999999999999988776 9999999999999999999999999999999999999964
Q ss_pred CCeEEEEeCcccccccccCcchhhhccccEEEEecCC-CCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHH
Q 043468 161 KDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFP-EDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVW 239 (720)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~ 239 (720)
....+........... .......+|++...++.+ ...+..+.|.++|+++++... .++.++..+||+++
T Consensus 215 ~~~~~~~~~~~~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~-------~~~~~~~~~yda~~ 284 (333)
T cd06331 215 DRIPILSLTLDENELA---AIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDA-------VINSPAEAAYEAVY 284 (333)
T ss_pred CCCeeEEcccchhhhh---ccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCc-------CCCchhHHHHHHHH
Confidence 3344443322222111 112345788887665543 346888999999998886420 36778899999999
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeE
Q 043468 240 SVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTY 285 (720)
Q Consensus 240 ~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~ 285 (720)
++++|++++++.+++.++++|++++|+|+.|.++|++++++.....
T Consensus 285 ~~~~A~~~ag~~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~~~~~ 330 (333)
T cd06331 285 LWAAAVEKAGSTDPEAVRAALEGVSFDAPQGPVRIDPDNHHTWLYL 330 (333)
T ss_pred HHHHHHHHcCCCCHHHHHHHhhcCcccCCCCceEecCCCCcccccc
Confidence 9999999999889999999999999999999999998888764433
No 59
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=99.95 E-value=1.3e-26 Score=242.40 Aligned_cols=282 Identities=16% Similarity=0.162 Sum_probs=224.6
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHh-CCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQS-WEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~-~~~~~v 79 (720)
|+|+++++|.+|+||.+|..+.++.++++..++|++++..... ...++|+||+.|++..+...+++++.. .|.+++
T Consensus 61 ~~Lv~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v 137 (359)
T TIGR03407 61 RKLITQDKVAAVFGCWTSASRKAVLPVFEENNGLLFYPVQYEG---EECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRF 137 (359)
T ss_pred HHHHhhCCCcEEEcCCcHHHHHHHHHHHhccCCceEeCCcccC---cccCCCEEEcCCChHHHHHHHHHHHHhccCCceE
Confidence 5789889999999999999999999999999999997653221 235689999999999999999999866 599999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
++++.|+++|... .+.+++.+++.|++++....++.++. |+.+++++++++++|+|++...+.+...+++++++.|+.
T Consensus 138 ~~l~~d~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~ 215 (359)
T TIGR03407 138 FLLGSDYVFPRTA-NKIIKAYLKSLGGTVVGEDYTPLGHT-DFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGIT 215 (359)
T ss_pred EEecCccHHHHHH-HHHHHHHHHHcCCEEEeeEEecCChH-hHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCC
Confidence 9999988887654 78899999999999999998888777 999999999999999999888888888999999999996
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecC-CCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHF-PEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
.+...++.+.......... .....+|+.+...+. ...+|..++|.++|+++++... .++..+..+||++
T Consensus 216 ~~~~~~~~~~~~~~~~~~~---g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~-------~~~~~~~~~y~a~ 285 (359)
T TIGR03407 216 AKDVPVVSFSVAEEEIRGI---GPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDR-------VTNDPMEAAYLGV 285 (359)
T ss_pred ccCCcEEEeecCHHHHhhc---ChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCC-------CCCcHHHHHHHHH
Confidence 5444444443221111111 124567876443332 2346889999999999886520 2344567899999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEee-cCceEE
Q 043468 239 WSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLM-GKSYRE 297 (720)
Q Consensus 239 ~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~-~~~~~~ 297 (720)
.++++|++++++.+++.++++|++++++++.|+++|+++++.....+.+.+++ ++++..
T Consensus 286 ~~~~~A~~~ag~~~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~~~~g~~~~ 345 (359)
T TIGR03407 286 YLWKAAVEKAGSFDVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEIRADGQFDV 345 (359)
T ss_pred HHHHHHHHHhCCCCHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEEccCCCEEE
Confidence 99999999999889999999999999999999999998444444666677775 565654
No 60
>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=99.95 E-value=3.4e-26 Score=238.38 Aligned_cols=266 Identities=21% Similarity=0.313 Sum_probs=223.6
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHH-HhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIV-QSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l-~~~~~~~v 79 (720)
++|+++++|++|+||.+|..+.+++++++..++|+|+++++.+.+++. .+|+||+.|++..++.++++++ ++++|+++
T Consensus 60 ~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~i~~~~~~~~~~~~-~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v 138 (334)
T cd06347 60 TRLIDQDKVVAIIGPVTSGATLAAGPIAEDAKVPMITPSATNPKVTQG-KDYVFRVCFIDPFQGTVMAKFATENLKAKKA 138 (334)
T ss_pred HHHhcccCeEEEEcCCccHhHHHhHHHHHHCCCeEEcCCCCCCCcccC-CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEE
Confidence 468877799999999999999999999999999999999887776643 3599999999999999999996 66799999
Q ss_pred EEEEEcC-CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 80 TVIYEDI-DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 80 ~ii~~~~-~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
++|+.++ +++... .+.+++.+++.|++++....++.+.. |+.+.++++++.++|+|++.+.+++...+++++++.|+
T Consensus 139 ~ii~~~~~~~~~~~-~~~~~~~~~~~g~~v~~~~~~~~~~~-d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~ 216 (334)
T cd06347 139 AVLYDNSSDYSKGL-AKAFKEAFKKLGGEIVAEETFNAGDT-DFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGI 216 (334)
T ss_pred EEEEeCCCchhHHH-HHHHHHHHHHcCCEEEEEEEecCCCC-cHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCC
Confidence 9999886 565444 78899999999999999988887766 99999999999999999999999999999999999998
Q ss_pred CCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCC-CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhH
Q 043468 159 MEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE-DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDA 237 (720)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Yda 237 (720)
+..|+.++.|.... . ........+|+....++... .+|..+.|.++|.++++. .|+.++..+||+
T Consensus 217 ---~~~i~~~~~~~~~~-~-~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~~~~~~~~~yda 282 (334)
T cd06347 217 ---KVPILGGDGWDSPK-L-EEAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYGK---------EPDAFAALGYDA 282 (334)
T ss_pred ---CCcEEecccccCHH-H-HHHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHCC---------CcchhHHHHHHH
Confidence 44677776665421 1 11234578888776655443 368899999999988874 678888999999
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHcc-cccCceeeEEEecCCcCCCC
Q 043468 238 VWSVALAMEQKSEKLNQKLLRRILLS-DFDGLTGKVEFMNQKVAPAH 283 (720)
Q Consensus 238 v~~~a~al~~~~~~~~~~l~~~l~~~-~~~g~~G~v~f~~~g~~~~~ 283 (720)
++++++|+++++..+++.+.++|++. +++|+.|.++|+++|+..+.
T Consensus 283 ~~~~~~Al~~ag~~~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~ 329 (334)
T cd06347 283 YYLLADAIERAGSTDPEAIRDALAKTKDFDGVTGKITIDENGNPVKS 329 (334)
T ss_pred HHHHHHHHHHhCCCCHHHHHHHHHhCCCcccceeeeEECCCCCcCCC
Confidence 99999999999877899999999875 79999999999998887643
No 61
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=99.95 E-value=4.2e-26 Score=238.65 Aligned_cols=284 Identities=15% Similarity=0.146 Sum_probs=227.0
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
|||+++++|.+|+|+.+|..+.+++++++..++|++++++.+. . ...+++|++.+++..+..++++++.+.+.++++
T Consensus 60 ~~li~~~~V~aiiG~~~s~~~~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~ 136 (360)
T cd06357 60 ERLLREDGVRVIFGCYTSSSRKAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVF 136 (360)
T ss_pred HHHHhhCCCcEEEeCccHHHHHHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEE
Confidence 5799899999999999999999999999999999998765322 1 223788999988888888999998776668999
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCC--CcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHF--PSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
+|+.|+.+|... .+.+++.+++.|++++....++.+ +. |+.+++.+++++++|+|++.+.+.++..++++++++|+
T Consensus 137 ~i~~d~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~~~-d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~ 214 (360)
T cd06357 137 LVGSNYIYPYES-NRIMRDLLEQRGGEVLGERYLPLGASDE-DFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGF 214 (360)
T ss_pred EECCCCcchHHH-HHHHHHHHHHcCCEEEEEEEecCCCchh-hHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCC
Confidence 999999888655 899999999999999887666655 55 99999999999999999999999999999999999999
Q ss_pred CCCCeEEEEeCcccccccccCcchhhhccccEEEEecCC-CCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhH
Q 043468 159 MEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFP-EDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDA 237 (720)
Q Consensus 159 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Yda 237 (720)
.++...+. +...... .......++.+|+++...+.. ..+|..++|.++|+++|+... .++.++..+||+
T Consensus 215 ~~~~~~~~-~~~~~~~--~~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~-------~~~~~~~~~yda 284 (360)
T cd06357 215 DPARMPIA-SLTTSEA--EVAAMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGEDA-------PVSACAEAAYFQ 284 (360)
T ss_pred CccCceeE-EeeccHH--HHhhcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCCC-------CCCcHHHHHHHH
Confidence 65433333 3222111 111112456889887765543 346889999999999997520 256788999999
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEe-ecCceEEEE
Q 043468 238 VWSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINL-MGKSYRELG 299 (720)
Q Consensus 238 v~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~-~~~~~~~v~ 299 (720)
++++++|++++++.+++.++++|++++|+|+.|.+.|+..++.......+.++ ++|+|..+.
T Consensus 285 ~~~l~~Al~~ag~~~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 285 VHLFARALQRAGSDDPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred HHHHHHHHHHcCCCCHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 99999999999988999999999999999999999999766544455667777 567776654
No 62
>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=99.94 E-value=4.3e-26 Score=238.86 Aligned_cols=245 Identities=29% Similarity=0.488 Sum_probs=203.6
Q ss_pred CCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 7 QKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 7 ~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
++|.+|+||.+|+.+.+++++++.+++|+|+++++++.++ +..+||+||+.|++..++.++++++++++|+++++++.+
T Consensus 90 ~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~~~v~~l~~~ 169 (348)
T cd06350 90 PKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGWTWVGLVYSD 169 (348)
T ss_pred CceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCCeEEEEEEec
Confidence 7999999999999999999999999999999999999886 567899999999999999999999999999999999999
Q ss_pred CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCC-cccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeE
Q 043468 86 IDSSATGILPHLSDALREAGAEIIHVLALPHFP-SSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKDYI 164 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~-~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~~ 164 (720)
+++|... .+.+++.+++.|++|+..+.++.+. ..|+.+++++++++++|+|++.+.+.++..++++++++|+ + ...
T Consensus 170 ~~~g~~~-~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~~~g~-~-~~~ 246 (348)
T cd06350 170 DDYGRSG-LSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAYKLGM-T-GKY 246 (348)
T ss_pred chhHHHH-HHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHHHhCC-C-CeE
Confidence 8887666 9999999999999999999988763 1299999999999999999999999999999999999999 3 335
Q ss_pred EEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHHHHHHH
Q 043468 165 WITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVWSVALA 244 (720)
Q Consensus 165 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~~~a~a 244 (720)
|++++.+..... ......+..+|++++..+.+.. ...++|.+.+++ +++.+||||++
T Consensus 247 ~i~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~-~~~~~f~~~~~~-----------------~~~~~YDav~~---- 303 (348)
T cd06350 247 WIISTDWDTSTC-LLLFTLDAFQGVLGFSGHAPRS-GEIPGFKDFLRK-----------------YAYNVYDAVYA---- 303 (348)
T ss_pred EEEEccccCccc-cccCCcceeeeEEEEEEEeecC-CcCCChHHHHHH-----------------HHHHHHhheeE----
Confidence 556666554311 1122346788888877665422 223334433333 36889999999
Q ss_pred HHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeec----CceEEEEEEecC
Q 043468 245 MEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMG----KSYRELGFWTYG 304 (720)
Q Consensus 245 l~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~----~~~~~v~~w~~~ 304 (720)
.+.|+++|++. ..+.+.+++. +.++++|.|++.
T Consensus 304 --------------------------~v~f~~~gd~~-~~~~i~~~~~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 304 --------------------------EVKFDENGDRL-ASYDIINWQIFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred --------------------------EEEecCCCCcc-cceeEEEEEEcCCcEEEEEEEEEcCC
Confidence 79999999997 7788988875 689999999974
No 63
>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=99.94 E-value=3e-26 Score=239.78 Aligned_cols=278 Identities=22% Similarity=0.331 Sum_probs=232.1
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHH-HhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIV-QSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l-~~~~~~~v 79 (720)
++|+++++|.+|+||.+|..+.++++.++..++|+|++++.++ ...++|+||+.|++..++.++++++ ++++.+++
T Consensus 62 ~~l~~~~~v~~vvg~~~s~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v 138 (343)
T PF13458_consen 62 RKLIDDDGVDAVVGPLSSAQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKV 138 (343)
T ss_dssp HHHHHTSTESEEEESSSHHHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEE
T ss_pred HHhhhhcCcEEEEecCCcHHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEE
Confidence 4678789999999999999999999999999999999764442 3567999999999999999999986 55899999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
++++.++++|... .+.+++.+++.|++++....++.+.. |+.+.++++++.++|+|++.+.+.+...+++++.+.|+.
T Consensus 139 ~iv~~~~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~ 216 (343)
T PF13458_consen 139 AIVYPDDPYGRSL-AEAFRKALEAAGGKVVGEIRYPPGDT-DFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLK 216 (343)
T ss_dssp EEEEESSHHHHHH-HHHHHHHHHHTTCEEEEEEEE-TTSS-HHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGC
T ss_pred EEEecCchhhhHH-HHHHHHHHhhcCceeccceecccccc-cchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccc
Confidence 9999998887655 89999999999999998998888777 999999999999999999999999999999999999987
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCC-CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE-DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
.+.+....+..+...+. .......+|++....+.+. .+|..++|.++|+++++... .|+.++..+||++
T Consensus 217 ~~~~~~~~~~~~~~~l~---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~-------~~~~~~~~~yda~ 286 (343)
T PF13458_consen 217 PPRIPLFGTSLDDASLQ---QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEP-------PPSLYAAQGYDAA 286 (343)
T ss_dssp SCTEEEEEGGGSSHHHH---HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTG-------GTCHHHHHHHHHH
T ss_pred cccceeeccccCcHHHH---HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCC-------CCchhHHHHHHHH
Confidence 54455444443332221 2223468888877776553 47899999999999998610 3888999999999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEee-cC
Q 043468 239 WSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLM-GK 293 (720)
Q Consensus 239 ~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~-~~ 293 (720)
.++++|++++++.+++.+.++|++++|+|+.|++.|++.++.....+.|++++ +|
T Consensus 287 ~~~~~al~~~g~~~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~~G 342 (343)
T PF13458_consen 287 RLLAQALERAGSLDREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKSDG 342 (343)
T ss_dssp HHHHHHHHHHTSHHHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEETTT
T ss_pred HHHHHHHHHhCCCCHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEecCC
Confidence 99999999998899999999999999999999999987666667889999998 54
No 64
>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=99.94 E-value=5.6e-26 Score=237.55 Aligned_cols=269 Identities=14% Similarity=0.161 Sum_probs=219.4
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhC--CCe
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSW--EWH 77 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~ 77 (720)
++|+++++|.+|+||.+|..+.+++++++..++|+|++.++++.+.. ..++|+||+.|++..+..++++++++. +|+
T Consensus 60 ~~li~~~~v~aiig~~~s~~~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~ 139 (346)
T cd06330 60 RELVENEGVDMLIGLISSGVALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAK 139 (346)
T ss_pred HHHHhccCCcEEEcccchHHHHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCcc
Confidence 36887789999999999999999999999999999999888777764 578999999999999999999998776 499
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHc--CcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREA--GAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
++++++.++.+|... .+.+++.+++. |++++....++.+.. |+.+++.++++.++|+|++.+.+.+...+++++++
T Consensus 140 ~v~~l~~~~~~g~~~-~~~~~~~~~~~g~~~~~v~~~~~~~~~~-d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~ 217 (346)
T cd06330 140 TWATINPDYAYGQDA-WADFKAALKRLRPDVEVVSEQWPKLGAP-DYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANA 217 (346)
T ss_pred EEEEECCchHHHHHH-HHHHHHHHHHhCCCCeecccccCCCCCc-ccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHh
Confidence 999999988887665 88999999998 566766655555555 99999999999999999999999999999999999
Q ss_pred cCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecC--CC-CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhh
Q 043468 156 MKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHF--PE-DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAV 232 (720)
Q Consensus 156 ~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~--~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (720)
.|+.+ +..|+.+....... ........+|++....+. .. .++..++|.++|+++++. .|+.++.
T Consensus 218 ~g~~~-~~~~~~~~~~~~~~---~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g~---------~p~~~~~ 284 (346)
T cd06330 218 RGLFD-GTTVVLTLTGAPEL---APLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYGD---------YPTYGAY 284 (346)
T ss_pred cCccc-CceEEeeccchhhh---hhhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHCC---------CCChHHH
Confidence 99865 55677666543321 111234566766443222 11 468899999999999975 6778889
Q ss_pred hHhhHHHHHHHHHHHHHHHhHH----HHHHHHHcccccCceeeEEEecCCcCCCCe
Q 043468 233 QTYDAVWSVALAMEQKSEKLNQ----KLLRRILLSDFDGLTGKVEFMNQKVAPAHT 284 (720)
Q Consensus 233 ~~Ydav~~~a~al~~~~~~~~~----~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~ 284 (720)
.+||++.++++|+++++..++. .+.++|++++++|+.|++.|+++++.....
T Consensus 285 ~~y~a~~~l~~a~~~a~~~~~~~~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~~~ 340 (346)
T cd06330 285 GAYQAVMALAAAVEKAGATDGGAPPEQIAAALEGLSFETPGGPITMRAADHQATQG 340 (346)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHcCCCccCCCCceeeecCCCccccc
Confidence 9999999999999999865444 599999999999999999999855443333
No 65
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=99.94 E-value=8e-26 Score=234.30 Aligned_cols=266 Identities=13% Similarity=0.128 Sum_probs=214.3
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
|+|+++++|++|+|+.+|+.+.++.+++++.++|+|++...... ...+|+||+.+++..++.++++++...+.++++
T Consensus 60 ~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~---~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~va 136 (334)
T cd06356 60 QRLALQDKVDVVWGGISSASREAIRPIMDRTKQLYFYTTQYEGG---VCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVY 136 (334)
T ss_pred HHHHHhCCCCEEEeCcchHHHHHHHHHHHhcCceEEeCCCccCC---cccCCEEEeCCCcHHHHHHHHHHHHHccCCeEE
Confidence 57898899999999999999999999999999999986443322 234899999999999999999998765558899
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
+++.|+++|... .+.+++.+++.|++++....++.++. |++++++++++.++|+|++...+.+...+++++++.|+ .
T Consensus 137 il~~d~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~-~ 213 (334)
T cd06356 137 TIAADYNFGQIS-AEWVRKIVEENGGEVVGEEFIPLDVS-DFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL-G 213 (334)
T ss_pred EECCCchhhHHH-HHHHHHHHHHcCCEEEeeeecCCCch-hHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC-c
Confidence 999998888655 89999999999999999999998877 99999999999999999998888899999999999999 2
Q ss_pred CCeEEEEeCcccccccccCcchhhhccccEEEEecCCC-CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHH
Q 043468 161 KDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE-DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVW 239 (720)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~ 239 (720)
....+.+.......... .......+|++....+.+. ..|..++|.++|+++++... .++.++..+||+++
T Consensus 214 -~~~~~~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p-------~~~~~~~~~y~a~~ 284 (334)
T cd06356 214 -NIPMASSTLGAQGYEHK-RLKPPALKDMYATANYIEELDTPANKAFVERFRAKFPDAP-------YINEEAENNYEAIY 284 (334)
T ss_pred -cCceeeeecccchhHHh-ccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCCCC-------CCCchhHHHHHHHH
Confidence 22223221111110000 0113567788766554333 36889999999999997510 12567899999999
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHc-ccccCceeeEEEecCCcCC
Q 043468 240 SVALAMEQKSEKLNQKLLRRILL-SDFDGLTGKVEFMNQKVAP 281 (720)
Q Consensus 240 ~~a~al~~~~~~~~~~l~~~l~~-~~~~g~~G~v~f~~~g~~~ 281 (720)
++++|++++++.+++.|+++|++ ..++|+.|+++|+++++..
T Consensus 285 ~~~~A~~~ag~~~~~~v~~aL~~~~~~~~~~g~~~~~~~~h~~ 327 (334)
T cd06356 285 LYKEAVEKAGTTDRDAVIEALESGLVCDGPEGKVCIDGKTHHT 327 (334)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHhCCceeCCCceEEEecCCCce
Confidence 99999999999999999999997 5889999999999765544
No 66
>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=99.94 E-value=8.4e-26 Score=236.27 Aligned_cols=276 Identities=13% Similarity=0.129 Sum_probs=215.3
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccc------c-cCCCCeEEEeecChHHHHHHHHHHHHh
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNW------A-TERWPFLLQASQNQLAQMKAIAAIVQS 73 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l------~-~~~~~~~fr~~p~~~~~~~~~~~~l~~ 73 (720)
++|+++++|.+|+|+.+|+.+.++++++++.++|+|++.+..+.+ . ...++|.||+.+++..+..+++++++.
T Consensus 62 ~~li~~d~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 141 (357)
T cd06337 62 QELILTDKVDLLLAGGTPDTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQ 141 (357)
T ss_pred HHHHhccCccEEEecCCcchhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHh
Confidence 478988899999999999999999999999999999976432221 1 224789999999998889999988887
Q ss_pred CC-CeEEEEEEEcCCCcccCcHHHH---HHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHH
Q 043468 74 WE-WHQVTVIYEDIDSSATGILPHL---SDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHL 149 (720)
Q Consensus 74 ~~-~~~v~ii~~~~~~g~~~~~~~~---~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~ 149 (720)
.+ .+++++++.++.+|... .+.+ .+.+++.|++++..+.++.++. |+.+++++|+++++|+|++.+.+.++..+
T Consensus 142 ~~~~k~v~ii~~~~~~g~~~-~~~~~~~~~~~~~~G~~vv~~~~~~~~~~-D~~~~v~~ik~a~pD~v~~~~~~~~~~~~ 219 (357)
T cd06337 142 LETNKKVGILYPNDPDGNAF-ADPVIGLPAALADAGYKLVDPGRFEPGTD-DFSSQINAFKREGVDIVTGFAIPPDFATF 219 (357)
T ss_pred CCCCceEEEEeecCchhHHH-HHhhhcccHHHHhCCcEEecccccCCCCC-cHHHHHHHHHhcCCCEEEeCCCccHHHHH
Confidence 77 99999999999887543 4443 4677789999999999998877 99999999999999999999999999999
Q ss_pred HHHHHHcCCCCCCeEEEEe-CcccccccccCcchhhhccccEEEEecCCC-------CChhHHHHHHHHHHHhcccCCCC
Q 043468 150 FEKANKMKMMEKDYIWITT-DAFTSLVHSINTSSISSMQGILGVRSHFPE-------DKPKFQDFCKRFRKRFGAEYPEE 221 (720)
Q Consensus 150 l~~a~~~g~~~~~~~~i~~-~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~~f~~~~~~~~~~~~~~~ 221 (720)
+++++++|+..+ ++.. ...... .. ....++..+|++....+.+. .+|..++|.++|+++++.
T Consensus 220 ~~~~~~~G~~~~---~~~~~~~~~~~-~~-~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g~----- 289 (357)
T cd06337 220 WRQAAQAGFKPK---IVTIAKALLFP-ED-VEALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATGR----- 289 (357)
T ss_pred HHHHHHCCCCCC---eEEEeccccCH-HH-HHHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhCC-----
Confidence 999999999543 3332 222111 11 11123445676644332221 134589999999999976
Q ss_pred CCCCCCCchhhhHhhHHHHHHHHHHHHHH-HhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCce
Q 043468 222 DNNHEPGALAVQTYDAVWSVALAMEQKSE-KLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSY 295 (720)
Q Consensus 222 ~~~~~~~~~~~~~Ydav~~~a~al~~~~~-~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~ 295 (720)
.|......+|++++++++|++++++ .+++.|+++|++++++++.|+++|+++ . .....|+.+++++|
T Consensus 290 ----~~~~~~~~~~~~~~~l~~Ai~~Ags~~d~~~v~~aL~~~~~~~~~G~~~f~~~--~-~~~~~~~~~~~~~~ 357 (357)
T cd06337 290 ----QWTQPLGYAHALFEVGVKALVRADDPDDPAAVADAIATLKLDTVVGPVDFGNS--P-IKNVAKTPLVGGQW 357 (357)
T ss_pred ----CccCcchHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHcCCcccceeeeecCCC--C-CccccccccccCCC
Confidence 4555567799999999999999986 578899999999999999999999865 3 24566777777654
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=99.94 E-value=2.4e-25 Score=232.26 Aligned_cols=270 Identities=15% Similarity=0.176 Sum_probs=215.5
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc--CCCCeEEEeecChHHHHHHHHHHH-HhCCCe
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT--ERWPFLLQASQNQLAQMKAIAAIV-QSWEWH 77 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~--~~~~~~fr~~p~~~~~~~~~~~~l-~~~~~~ 77 (720)
++|+++++|.+|+||.+|+.+.+++++++.+++|+|++.++++.+++ ..++|+||+.|++..++.++++++ ++.+|+
T Consensus 60 ~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~ 139 (347)
T cd06335 60 QELAADEKVVAVLGGLHTPVALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFK 139 (347)
T ss_pred HHHhccCCeEEEEcCCCCHHHHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCC
Confidence 47898889999999999999999999999999999998887776663 456899999999999999999986 556699
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
+|+++|.++++|... .+.+++.+++.|++++....++.++. |+++++++|+++++|+|++.+.+.+...+++++++.|
T Consensus 140 ~v~ii~~~~~~g~~~-~~~~~~~~~~~G~~v~~~~~~~~~~~-d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g 217 (347)
T cd06335 140 KVALLLDNTGWGRSN-RKDLTAALAARGLKPVAVEWFNWGDK-DMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLG 217 (347)
T ss_pred eEEEEeccCchhhhH-HHHHHHHHHHcCCeeEEEeeecCCCc-cHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcC
Confidence 999999999988666 99999999999999999999988776 9999999999999999999999999999999999999
Q ss_pred CCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCC--CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHh
Q 043468 158 MMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE--DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTY 235 (720)
Q Consensus 158 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y 235 (720)
+.. .++........ .. ........+|++....+... .+|..++|.++|+++++..... .+.++..+..+|
T Consensus 218 ~~~---~~~~~~~~~~~-~~-~~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~---~~~~~~~~~~aY 289 (347)
T cd06335 218 WKV---PIISHWGLSGG-NF-IEGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA---DIPAPVGAAHAY 289 (347)
T ss_pred CCC---cEecccCCcCc-hh-hhccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc---ccCcchhHHHHH
Confidence 943 23332222111 11 11233556787765544432 4789999999999998752100 012455667899
Q ss_pred hHHHHHHHHHHHHHHHhHHHHHHHHHcc--cccCceee--EEEecCCcC
Q 043468 236 DAVWSVALAMEQKSEKLNQKLLRRILLS--DFDGLTGK--VEFMNQKVA 280 (720)
Q Consensus 236 dav~~~a~al~~~~~~~~~~l~~~l~~~--~~~g~~G~--v~f~~~g~~ 280 (720)
|+++++++|+++++..+++.++++|+++ .+.|+.|. +.|++..|+
T Consensus 290 d~~~~l~~A~~~ag~~~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h~ 338 (347)
T cd06335 290 DAVHLLAAAIKQAGSTDGRAIKRALENLKKPVEGLVKTYDKPFSKEDHE 338 (347)
T ss_pred HHHHHHHHHHHHhcCCCHHHHHHHHHhccCCceeeecccCCCCChhhcc
Confidence 9999999999999987778999999986 56676663 357655554
No 68
>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=99.94 E-value=2.6e-25 Score=231.59 Aligned_cols=270 Identities=17% Similarity=0.244 Sum_probs=220.8
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v 79 (720)
++|+++++|.+||||.+|..+.++.+.++..++|+|+++++.+.+++ ..+||+||+.|++..+...+++++...+|+++
T Consensus 58 ~~l~~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v 137 (333)
T cd06332 58 RKLIEQDKVDVVVGPVFSNVALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKV 137 (333)
T ss_pred HHHHHHcCCcEEEcCCccHHHHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceE
Confidence 36777779999999999988889999999999999999887777774 34799999999999999999999998999999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
++++.++.+|... .+.+++.++ ..++....++.+.. |+.++++++++.++|+|++...+.++..+++++++.|+.
T Consensus 138 ~il~~~~~~~~~~-~~~~~~~~~---~~~~~~~~~~~~~~-d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~ 212 (333)
T cd06332 138 VIIAPDYAAGKDA-VAGFKRTFK---GEVVEEVYTPLGQL-DFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLK 212 (333)
T ss_pred EEEecCcchhHHH-HHHHHHhhc---EEEeeEEecCCCCc-chHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCcc
Confidence 9999888776544 778888776 46666666776666 999999999999999999988888999999999999985
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCC-CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE-DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
+ +..+++++.+... . .....+...+|++...++.+. .+|..++|.++|+++++. .|+.++..+||++
T Consensus 213 ~-~~~~~~~~~~~~~-~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~~~~~~~~~yda~ 280 (333)
T cd06332 213 K-KIPLYGPGFLTDQ-D-TLPAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYGR---------VPSVYAAQGYDAA 280 (333)
T ss_pred c-CCceeccCCCCCH-H-HHHhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhCC---------CCcHHHHHHHHHH
Confidence 4 4556665554432 1 112234567888876655443 368899999999999975 6788899999999
Q ss_pred HHHHHHHHHHHHH--hHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEE
Q 043468 239 WSVALAMEQKSEK--LNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQII 288 (720)
Q Consensus 239 ~~~a~al~~~~~~--~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~ 288 (720)
+++++|+++++.. +++.+.++|++.+|+|+.|+++|+++|+...+ +.+.
T Consensus 281 ~~~~~a~~~ag~~~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~~-~~~~ 331 (333)
T cd06332 281 QLLDAALRAVGGDLSDKDALRAALRAADFDSPRGPFKFNPNHNPIQD-FYLR 331 (333)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHhcCceecCccceeECCCCCcccc-eeEE
Confidence 9999999999753 56789999999999999999999999887633 4343
No 69
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.93 E-value=5.6e-25 Score=228.47 Aligned_cols=270 Identities=12% Similarity=0.077 Sum_probs=214.5
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCC----
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWE---- 75 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~---- 75 (720)
++|+++++|.+|+ +.+|+.+.+++++++++++|+|+++++++.++ ...++|+||+.|++..+..++++++...+
T Consensus 60 ~~Li~~~~V~~i~-~~~S~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~ 138 (351)
T cd06334 60 ERLKGEDGAVAFQ-GWSTGITEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKL 138 (351)
T ss_pred HHHhccCCcEEEe-cCcHHHHHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCC
Confidence 4789888999876 57888999999999999999999987777666 46789999999999999999999986654
Q ss_pred -CeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHH
Q 043468 76 -WHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKAN 154 (720)
Q Consensus 76 -~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~ 154 (720)
.++|++++.|+.+|... .+.+++.+++.|++++....++.++. |+.+++.+++++++|+|++.+.+.+...++++++
T Consensus 139 ~~~kvaiv~~~~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~-D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~ 216 (351)
T cd06334 139 KGKKIALVYHDSPFGKEP-IEALKALAEKLGFEVVLEPVPPPGPN-DQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAK 216 (351)
T ss_pred CCCeEEEEeCCCccchhh-HHHHHHHHHHcCCeeeeeccCCCCcc-cHHHHHHHHHHcCCCEEEEecccchHHHHHHHHH
Confidence 79999999999988766 99999999999999999999988877 9999999999999999999999999999999999
Q ss_pred HcCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCC-CCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhh
Q 043468 155 KMKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFP-EDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQ 233 (720)
Q Consensus 155 ~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 (720)
++|+. ..++.+...... . .....+...+|++...++.. ..+|..++|.+.|+++++.. +. ....++.++..
T Consensus 217 ~~G~~---~~~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~-~~--~~~~~~~~~~~ 288 (351)
T cd06334 217 RVGLD---DKFIGNWWSGDE-E-DVKPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGS-GN--DKEIGSVYYNR 288 (351)
T ss_pred HcCCC---ceEEEeeccCcH-H-HHHHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCC-CC--cccccccHHHH
Confidence 99993 345554332221 1 11223456788887665543 34799999999999988641 00 00034678899
Q ss_pred HhhHHHHHHHHHHHHHHHhHHH----------H---HHHHHcccccCceeeEEEecCCcCC
Q 043468 234 TYDAVWSVALAMEQKSEKLNQK----------L---LRRILLSDFDGLTGKVEFMNQKVAP 281 (720)
Q Consensus 234 ~Ydav~~~a~al~~~~~~~~~~----------l---~~~l~~~~~~g~~G~v~f~~~g~~~ 281 (720)
+||+++++++|++++++.++.. + .+.+++....|+.|+++|....++.
T Consensus 289 gy~a~~~l~~Al~~ag~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~ 349 (351)
T cd06334 289 GVVNAMIMVEAIRRAQEKGGETTIAGEEQLENLKLDAARLEELGAEGLGPPVSVSCDDHRG 349 (351)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCcHHHHHHhhhhhhhhhhhcCcccccCCceeccccCCC
Confidence 9999999999999999864332 2 2234455777899999998766553
No 70
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=99.93 E-value=5.9e-25 Score=228.16 Aligned_cols=262 Identities=18% Similarity=0.230 Sum_probs=213.8
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHH-HhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIV-QSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l-~~~~~~~v 79 (720)
++|+++++|.+||||.+|..+.++.++++ .++|+|++.+.+.. ...+|+||+.+++..+..++++++ +..++++|
T Consensus 60 ~~Li~~~~v~aviG~~~s~~a~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v 135 (333)
T cd06358 60 ARLVDEGGVDAIIGWHTSAVRNAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRW 135 (333)
T ss_pred HHHHHhCCCcEEEecCcHHHHHHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeE
Confidence 47888889999999999999999999999 99999997654332 245899999999999988888886 55789999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
++++.++.+|... .+.+++.+++.|++|+....++.+.. |+.++++++++.++|+|++...+.+...+++++++.|+.
T Consensus 136 ~i~~~~~~~g~~~-~~~~~~~~~~~G~~v~~~~~~~~~~~-d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~ 213 (333)
T cd06358 136 YLIGNDYVWPRGS-LAAAKRYIAELGGEVVGEEYVPLGTT-DFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLR 213 (333)
T ss_pred EEEeccchhhHHH-HHHHHHHHHHcCCEEeeeeeecCChH-HHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCC
Confidence 9999998887655 88999999999999999988888766 999999999999999999988888889999999999996
Q ss_pred CCCeEEEE-eCcccccccccCcchhhhccccEEEEecCC-CCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhH
Q 043468 160 EKDYIWIT-TDAFTSLVHSINTSSISSMQGILGVRSHFP-EDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDA 237 (720)
Q Consensus 160 ~~~~~~i~-~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Yda 237 (720)
.+ ++. +..+... ..........+|++....+++ ...|..++|.++|+++++... ..++.++..+||+
T Consensus 214 ~~---~~~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~------~~~~~~~~~~yda 282 (333)
T cd06358 214 DR---ILRLSPLMDEN--MLLASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDA------PPLNSLSESCYEA 282 (333)
T ss_pred cc---CceeecccCHH--HHHhcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCC------CCCChHHHHHHHH
Confidence 53 222 2222221 111112345788876555433 346889999999999987521 0366788899999
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCc
Q 043468 238 VWSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKV 279 (720)
Q Consensus 238 v~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~ 279 (720)
+.++++|++++++.+++.|.++|++++|+|+.|+++|++++.
T Consensus 283 ~~~~~~A~~~ag~~~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 283 VHALAAAAERAGSLDPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred HHHHHHHHHHhCCCCHHHHHHHhccCeeeCCCcceEEccccc
Confidence 999999999999889999999999999999999999988743
No 71
>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=99.93 E-value=2.2e-25 Score=231.11 Aligned_cols=265 Identities=15% Similarity=0.153 Sum_probs=189.4
Q ss_pred ccccCCe--EEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 3 LMDSQKV--EAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 3 Li~~~~v--~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
++ ++++ .|||||.+|..+..++++++.++||+|+++..+ .+...+||++|+.|++..+.+++++++++++|++|+
T Consensus 61 ~~-~~gv~~~AIiGp~ss~~a~~V~si~~~~~IP~Is~s~~~--~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~ 137 (368)
T cd06383 61 KA-DSAIVPHLVLDTTTCGDASEIKSVTGALGIPTFSASYGQ--EGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAA 137 (368)
T ss_pred HH-HccCCcEEEECCCcchhHHHHHHHHhccCCCEEEccCCC--cCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEE
Confidence 44 3566 799999999999999999999999999986432 233478999999999999999999999999999999
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHHcCCC
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANKMKMM 159 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~~g~~ 159 (720)
+||+++.++...+.+.+++.....+.++. +.... ++...+++++..+...||+.|. ++.+..++++|.++||.
T Consensus 138 iIYddd~gl~~~l~~~l~~~~~~~~~~v~-----~~~~~-~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~ 211 (368)
T cd06383 138 ILYDDDFVMDHKYKSLLQNWPTRHVITII-----NSIID-EVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFM 211 (368)
T ss_pred EEEEcCchhhHHHHHHHHhHHhcCCEEEE-----eccch-hHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCc
Confidence 99987775322312333333334445543 11223 8999999999998856666565 59999999999999999
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVW 239 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~ 239 (720)
+++|+|+.++.......... ......++.+++...+.. ...+.+.+++.+.. . .....++....++.+||||+
T Consensus 212 ~~~y~wilt~ld~~~~dl~~--~~~~~~Nitgfrl~~~~~-~~~~~~~~~~~~~~---~-~~~~~~~~~~~~aL~~Dav~ 284 (368)
T cd06383 212 GRKYAWFLGNPDLGIYDDLS--CQLRNASIFVTRPMMDYQ-SSVRGALLRTDEPT---L-RPVFYFEWAFRLFLAYDAVL 284 (368)
T ss_pred CCceEEEEcCCCchhhhhhh--hccccCcEEEeeccccch-hhhccceeeccCCc---c-CchhHHHHHHHHHHHHHHHH
Confidence 99999999998654321111 112334677777644433 33366665541110 0 00111123346889999999
Q ss_pred HHHHHHHHHHH--------------HhH-----------HHHHHHHHcccccCceeeEEEecCCcCCCC
Q 043468 240 SVALAMEQKSE--------------KLN-----------QKLLRRILLSDFDGLTGKVEFMNQKVAPAH 283 (720)
Q Consensus 240 ~~a~al~~~~~--------------~~~-----------~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~ 283 (720)
++++|++.... .++ ..+.++|+.++|+|++|++.||++|+|.+.
T Consensus 285 ~~~~a~~~l~~~~~~~~~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~ 353 (368)
T cd06383 285 AVGEWPRRMRKKRVEDGSTGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTK 353 (368)
T ss_pred HhccccchhheeeccCCCcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeee
Confidence 99999995311 112 278899999999999999999999988643
No 72
>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=99.93 E-value=4.2e-24 Score=222.11 Aligned_cols=261 Identities=28% Similarity=0.387 Sum_probs=207.4
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
+|+..++|.+|+||.+|..+.+++++++.+++|+|+++++++.++ ...++|+||+.|++..+++++++++.+++|++++
T Consensus 57 ~l~~~~~v~ai~G~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~ 136 (328)
T cd06351 57 DLLVSQGVAAIFGPTSSESASAVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFA 136 (328)
T ss_pred HHHhccCcEEEECCCCHHHHHHHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEE
Confidence 466578999999999999999999999999999999998877766 3678999999999999999999999999999999
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCc--EEEEEEecCCCCcccHHHHHHHhhcCCC-eEEEEEcCHHHHHHHHHHHHHcC
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGA--EIIHVLALPHFPSSRLSEELEKLKGGQC-RVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~--~v~~~~~~~~~~~~d~~~~l~~i~~~~~-~vvil~~~~~~~~~~l~~a~~~g 157 (720)
++|+++++ ...+++.+++.+. ..+....+..+.. ++.+.++++++.++ ++|+.++..+++..++++|.++|
T Consensus 137 iiy~~~~~-----~~~l~~~~~~~~~~~~~v~~~~~~~~~~-~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~g 210 (328)
T cd06351 137 IIYDSDEG-----LSRLQELLDESGIKGIQVTVRRLDLDDD-NYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELG 210 (328)
T ss_pred EEEeCchH-----HHHHHHHHHhhcccCceEEEEEecCCch-hHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhc
Confidence 99998884 4455555555443 2344445555554 79999999999998 55555555599999999999999
Q ss_pred CCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhH
Q 043468 158 MMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDA 237 (720)
Q Consensus 158 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Yda 237 (720)
|.++.|+|+.++........ ........|++++....+. .+..+.|..+|...+.. .....+...++..||+
T Consensus 211 m~~~~~~~i~~~~~~~~~d~--~~~~~~~~~i~g~~~~~~~-~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~d~ 282 (328)
T cd06351 211 MMGYGYHWILTNLDLSDIDL--EPFQYGPANITGFRLVDPD-SPDVSQFLQRWLEESPG-----VNLRAPIYDAALLYDA 282 (328)
T ss_pred cccCCcEEEEecCCccccch--hhhccCCcceEEEEEeCCC-chHHHHHHHhhhhccCC-----CCcCccchhhHhhhcE
Confidence 99999999999886543221 1223456788888876654 47777888887332211 1222555678888998
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEee-cCceEEEEEEec
Q 043468 238 VWSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLM-GKSYRELGFWTY 303 (720)
Q Consensus 238 v~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~-~~~~~~v~~w~~ 303 (720)
++++ +|.+.||++|++.+..++|++++ +.+++++|.|+.
T Consensus 283 ~~~~---------------------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 283 VLLL---------------------------TGTVSFDEDGVRSNFTLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred EEEE---------------------------EeeEEECCCCcccceEEEEEEecCCCCceEEEEecC
Confidence 8777 99999999999999999999998 889999999995
No 73
>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=99.92 E-value=3e-24 Score=220.46 Aligned_cols=256 Identities=16% Similarity=0.136 Sum_probs=196.3
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v 79 (720)
|+|+ +++|.+|+|+.+|+.+++++++++++++|+|+++++++.++. .+++|+||+.|++..+++++++++...+.+++
T Consensus 53 ~~Li-~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i~~~a~~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkv 131 (347)
T TIGR03863 53 KALL-AQGVRFFVLDLPAAALLALADAAKAKGALLFNAGAPDDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRI 131 (347)
T ss_pred HHHH-HCCCCEEEecCChHHHHHHHHHHHhCCcEEEeCCCCChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEE
Confidence 4788 477999999999999999999999999999999999999984 57899999999999999999999877799999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc---ccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS---SRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~---~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
++|+.|+++|... .+.+++.+++.|++|+..+.++.+.. .|+.......+.+++|+|++...+.+....+....
T Consensus 132 aii~~~~~~g~~~-~~~~~~~~~~~G~~vv~~~~~~~~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~-- 208 (347)
T TIGR03863 132 LLIQGPLPADALY-ADAFRRSAKRFGAKIVAERPFTFSGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT-- 208 (347)
T ss_pred EEEeCCCcccHHH-HHHHHHHHHHCCCEEEEeEEeccCCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--
Confidence 9999999887555 89999999999999999998886532 14443333344589999999776654322111000
Q ss_pred CCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhh
Q 043468 157 KMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYD 236 (720)
Q Consensus 157 g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Yd 236 (720)
+. ....+ ...|+.....+.....|..++|.++|+++++. .|+..++.+||
T Consensus 209 ~~---~~~~~------------------g~~G~~~~~~~~~~~~~~~~~f~~~f~~~~g~---------~p~~~~a~aY~ 258 (347)
T TIGR03863 209 WL---PRPVA------------------GSAGLVPTAWHRAWERWGATQLQSRFEKLAGR---------PMTELDYAAWL 258 (347)
T ss_pred cc---ccccc------------------cccCccccccCCcccchhHHHHHHHHHHHhCC---------CCChHHHHHHH
Confidence 00 00011 11122211112222347789999999999976 77888999999
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHcccc--cCcee-eEEEec-CCcCCCCeEEEEEee
Q 043468 237 AVWSVALAMEQKSEKLNQKLLRRILLSDF--DGLTG-KVEFMN-QKVAPAHTYQIINLM 291 (720)
Q Consensus 237 av~~~a~al~~~~~~~~~~l~~~l~~~~~--~g~~G-~v~f~~-~g~~~~~~~~i~~~~ 291 (720)
+|+++++|++++++.++++++++|+++++ ++..| +++|++ +|+.. ..+.+.+.+
T Consensus 259 av~~~a~Ai~~AGs~d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~-~~~~~~~~~ 316 (347)
T TIGR03863 259 AVRAVGEAVTRTRSADPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLR-QPVLLVHPR 316 (347)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHcCCCceecccCCCcceeeCCCcccc-cceEecccc
Confidence 99999999999999999999999999876 46777 799996 56555 555555553
No 74
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.92 E-value=4.4e-24 Score=210.84 Aligned_cols=287 Identities=15% Similarity=0.162 Sum_probs=202.8
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHH-HhCCCeEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIV-QSWEWHQV 79 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l-~~~~~~~v 79 (720)
++|+.+++|.+|+|...|++.+++.++.++++-++..+.-.... +..|++|-+.+.+.++...+++++ .++|.+|+
T Consensus 61 ~~Li~~d~V~~ifGc~TSasRKaVlPvvE~~~~LL~Yp~~YEG~---E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~ 137 (363)
T PF13433_consen 61 EKLIREDGVRAIFGCYTSASRKAVLPVVERHNALLFYPTQYEGF---ECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRF 137 (363)
T ss_dssp HHHHHHS---EEEE--SHHHHHHHHHHHHHCT-EEEE-S-----------TTEEE-S--GGGTHHHHHHHHHHHS--SEE
T ss_pred HHHHHhCCccEEEecchhhhHHHHHHHHHhcCceEEeccccccc---cCCCceEEcCCCchhhHHHHHHHHHhccCCceE
Confidence 47888999999999999999999999999999999977644322 456899999999999999999995 77888999
Q ss_pred EEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 80 TVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 80 ~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
.+|.+|.-++.+. -+-+++.+++.|++|+.+..+|.+.+ |+...+++|++.+||+|+-...|+....|+++++++|+.
T Consensus 138 ~lvGSdYv~pre~-Nri~r~~l~~~GgevvgE~Y~plg~t-d~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~ 215 (363)
T PF13433_consen 138 YLVGSDYVYPRES-NRIIRDLLEARGGEVVGERYLPLGAT-DFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLD 215 (363)
T ss_dssp EEEEESSHHHHHH-HHHHHHHHHHTT-EEEEEEEE-S-HH-HHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-S
T ss_pred EEecCCccchHHH-HHHHHHHHHHcCCEEEEEEEecCCch-hHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCC
Confidence 9999999887666 88999999999999999999999887 999999999999999999999999999999999999998
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCC-ChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPED-KPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
.++.+.+..+........+ ..+...|.++..+|+.+. +|..++|+++|+++++.+. .++.....+|.+|
T Consensus 216 ~~~~Pi~S~~~~E~E~~~~---g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~-------v~s~~~eaaY~~v 285 (363)
T PF13433_consen 216 PERIPIASLSTSEAELAAM---GAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDR-------VTSDPMEAAYFQV 285 (363)
T ss_dssp SS---EEESS--HHHHTTS----HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT-----------HHHHHHHHHH
T ss_pred cccCeEEEEecCHHHHhhc---ChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCC-------CCCcHHHHHHHHH
Confidence 6555544333332222222 245788999888888754 7999999999999998631 3556667899999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEee-cCceEEEEEEecC
Q 043468 239 WSVALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLM-GKSYRELGFWTYG 304 (720)
Q Consensus 239 ~~~a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~-~~~~~~v~~w~~~ 304 (720)
+++++|++++++.+.+.++++|.+.+|+.+.|.+++|+..+.......|-+++ +|++..+ |...
T Consensus 286 ~l~a~Av~~ags~d~~~vr~al~g~~~~aP~G~v~id~~n~H~~l~~rIg~~~~dG~f~Iv--~~s~ 350 (363)
T PF13433_consen 286 HLWAQAVEKAGSDDPEAVREALAGQSFDAPQGRVRIDPDNHHTWLPPRIGRVNADGQFDIV--WESD 350 (363)
T ss_dssp HHHHHHHHHHTS--HHHHHHHHTT--EEETTEEEEE-TTTSBEEB--EEEEE-TTS-EEEE--EE-S
T ss_pred HHHHHHHHHhCCCCHHHHHHHhcCCeecCCCcceEEcCCCCeecccceEEEEcCCCCEEEE--EeCC
Confidence 99999999999999999999999999999999999998444433556677776 4677765 5543
No 75
>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=99.91 E-value=1.6e-23 Score=216.77 Aligned_cols=253 Identities=17% Similarity=0.163 Sum_probs=200.2
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTV 81 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~i 81 (720)
+|++ ++|.+||||.+|+.+.++++++++.++|+|+++++... .. .+++||+.+++..+..++++++...|++++++
T Consensus 54 ~li~-~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~-~~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vai 129 (336)
T cd06339 54 QAVA-EGADIIVGPLLKENVAALAAAAAELGVPVLALNNDESV-AA--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLV 129 (336)
T ss_pred HHHH-cCCCEEEccCCHHHHHHHHhhhccCCCCEEEccCCccc-cC--CCCEEEecCChHHHHHHHHHHHHhcCccceEE
Confidence 5775 59999999999999999999999999999997754432 22 58999999999999999999998889999999
Q ss_pred EEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC---------------------CCeEEEEE
Q 043468 82 IYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG---------------------QCRVFVVH 140 (720)
Q Consensus 82 i~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~---------------------~~~vvil~ 140 (720)
++.++++|.. +.+.+++.+++.|++|+....++.+.. |+++++.+|++. ++|+|++.
T Consensus 130 i~~~~~~g~~-~~~~f~~~~~~~G~~vv~~~~~~~~~~-d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~ 207 (336)
T cd06339 130 LAPDGAYGQR-VADAFRQAWQQLGGTVVAIESYDPSPT-DLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAV 207 (336)
T ss_pred EecCChHHHH-HHHHHHHHHHHcCCceeeeEecCCCHH-HHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEE
Confidence 9998887744 489999999999999999999998777 999999999998 99999988
Q ss_pred cCHH-HHHHHHHHHHHcCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCC
Q 043468 141 LSLE-LAVHLFEKANKMKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYP 219 (720)
Q Consensus 141 ~~~~-~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 219 (720)
+.++ ++..+.++++..+....+..+++++.+.... .....+...+|++.... .. +...+|.++|+++++.
T Consensus 208 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~--~~~~~g~~~~g~~~~~~-~~---~~~~~f~~~y~~~~~~--- 278 (336)
T cd06339 208 ALPDGEARLIKPQLLFYYGVPGDVPLYGTSRWYSGT--PAPLRDPDLNGAWFADP-PW---LLDANFELRYRAAYGW--- 278 (336)
T ss_pred ecChhhhhhhcchhhhhccCcCCCCEEEeccccCCC--CCcccCcccCCcEEeCC-Cc---ccCcchhhhHHHHhcC---
Confidence 8776 6666777777665411245678887766431 11223456778774433 11 1223899999999976
Q ss_pred CCCCCCCC-CchhhhHhhHHHHHHHHHHHHHHHhHHHHHHHHHc-ccccCceeeEEEecCCcCC
Q 043468 220 EEDNNHEP-GALAVQTYDAVWSVALAMEQKSEKLNQKLLRRILL-SDFDGLTGKVEFMNQKVAP 281 (720)
Q Consensus 220 ~~~~~~~~-~~~~~~~Ydav~~~a~al~~~~~~~~~~l~~~l~~-~~~~g~~G~v~f~~~g~~~ 281 (720)
.| +.+++.+||++.+++.++++.+..+ ++.+ ..|+|++|+++|+++|+..
T Consensus 279 ------~p~~~~~a~~YDa~~l~~~~~~~~~~~~------al~~~~~~~g~~G~~~f~~~g~~~ 330 (336)
T cd06339 279 ------PPLSRLAALGYDAYALAAALAQLGQGDA------ALTPGAGFSGVTGVLRLDPDGVIE 330 (336)
T ss_pred ------CCCchHHHHHHhHHHHHHHHHHcccccc------ccCCCCccccCcceEEECCCCeEE
Confidence 67 8899999999999998888775433 4443 4799999999999988764
No 76
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.90 E-value=3.2e-22 Score=208.49 Aligned_cols=264 Identities=11% Similarity=0.123 Sum_probs=209.4
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTV 81 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~i 81 (720)
+|+++++|++|||+.+|..+.++.++++..++|+|+++++++.++....+++|++.+++...+..+++++.+.||+++++
T Consensus 62 ~l~~~~~v~avig~~~s~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~ 141 (336)
T cd06326 62 KLIEDDKVFALFGYVGTPTTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAV 141 (336)
T ss_pred HHHhhcCcEEEEeCCCchhHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEE
Confidence 57766799999999988888888899999999999987666655544568999999999999999999999999999999
Q ss_pred EEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 82 IYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 82 i~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
++.++.++... .+.+++.+++.|++++....++.+.. |+.+++.++++.++|+|++.+++..+..+++++++.|+..
T Consensus 142 l~~~~~~~~~~-~~~~~~~~~~~G~~~~~~~~~~~~~~-d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~- 218 (336)
T cd06326 142 FYQDDAFGKDG-LAGVEKALAARGLKPVATASYERNTA-DVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGA- 218 (336)
T ss_pred EEecCcchHHH-HHHHHHHHHHcCCCeEEEEeecCCcc-cHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCC-
Confidence 99887777655 89999999999999888877776655 9999999999999999999998889999999999999953
Q ss_pred CeEEEEeCcccccccccCcchhhhccccEEEEe--cCC-CCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 162 DYIWITTDAFTSLVHSINTSSISSMQGILGVRS--HFP-EDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 162 ~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~--~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
.++........ . .....+...+|++.... ... ...|..++|.+.|+++++.. +|+.++..+||++
T Consensus 219 --~~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------~~~~~~~~~y~~~ 286 (336)
T cd06326 219 --QFYNLSFVGAD-A-LARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPGA--------PPSYVSLEGYIAA 286 (336)
T ss_pred --cEEEEeccCHH-H-HHHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCCC--------CCCeeeehhHHHH
Confidence 22333332221 1 11223456677764322 222 23688899999999887642 5677788999999
Q ss_pred HHHHHHHHHHHH-HhHHHHHHHHHcccc-cCceeeEEEecCCcC
Q 043468 239 WSVALAMEQKSE-KLNQKLLRRILLSDF-DGLTGKVEFMNQKVA 280 (720)
Q Consensus 239 ~~~a~al~~~~~-~~~~~l~~~l~~~~~-~g~~G~v~f~~~g~~ 280 (720)
+++++|+++++. .+++.++++|++++. ++..+.++|++..|.
T Consensus 287 ~~~~~a~~~~g~~~~~~~v~~al~~~~~~~~~g~~~~~~~~~h~ 330 (336)
T cd06326 287 KVLVEALRRAGPDPTRESLLAALEAMGKFDLGGFRLDFSPGNHQ 330 (336)
T ss_pred HHHHHHHHHcCCCCCHHHHHHHHHhcCCCCCCCeEEecCccccc
Confidence 999999999985 589999999999865 444458999865544
No 77
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=99.89 E-value=2.1e-21 Score=196.90 Aligned_cols=253 Identities=19% Similarity=0.233 Sum_probs=184.7
Q ss_pred cCCeEEEECC-CCChhhHHHHHhhccCCCcEEecccCCccc-ccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEE
Q 043468 6 SQKVEAILGP-QTSEETSSVAEIASKKQIPVLSFADATPNW-ATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIY 83 (720)
Q Consensus 6 ~~~v~aiiGp-~~s~~~~~~~~~~~~~~ip~is~~~~~~~l-~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~ 83 (720)
.++|.||+|| .++.++..+..+|+.++||+|++...+... +...+....++.|+...++.++++++++++|+++++||
T Consensus 79 ~~GV~AIfg~p~s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy 158 (382)
T cd06377 79 VQGVSALLAFPQTRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVL 158 (382)
T ss_pred hCCeEEEEecCCCHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEE
Confidence 6899999995 777888999999999999999986543222 22222233456999999999999999999999999999
Q ss_pred EcCCCcccCcHHHHHHHHHHcCc-E---EEEEEecCCCC--cccH-HHHHHHhhcCC-CeEEEEEcCHHHHHHHHHHHHH
Q 043468 84 EDIDSSATGILPHLSDALREAGA-E---IIHVLALPHFP--SSRL-SEELEKLKGGQ-CRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 84 ~~~~~g~~~~~~~~~~~~~~~g~-~---v~~~~~~~~~~--~~d~-~~~l~~i~~~~-~~vvil~~~~~~~~~~l~~a~~ 155 (720)
+++.+ ...+++.++..+. . ++.....+..+ ..++ .++|+++++.. ..+|+++|+.+.+..+++++.+
T Consensus 159 ~~~~g-----l~~lq~l~~~~~~~~~~~~i~v~~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~ 233 (382)
T cd06377 159 CRERD-----PTGLLLLWTNHARFHLGSVLNLSRNDPSTADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP 233 (382)
T ss_pred ecCcC-----HHHHHHHHHHhcccccCceEEEEeccCccCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc
Confidence 99976 4556666666543 2 22222223111 1155 99999999999 9999999999999999988766
Q ss_pred cCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHh
Q 043468 156 MKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTY 235 (720)
Q Consensus 156 ~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y 235 (720)
.|+||.++... ++.... ....-|+++. +.. ......+..|
T Consensus 234 ------~y~wIv~~~~~--le~~~~--~g~nigLl~~----------------------~~~--------~~~~l~ali~ 273 (382)
T cd06377 234 ------GPHWILGDPLP--PEALRT--EGLPPGLLAH----------------------GET--------TQPPLEAYVQ 273 (382)
T ss_pred ------ceEEEEcCCcC--hhhccC--CCCCceEEEE----------------------eec--------ccccHHHHHH
Confidence 38999987321 111111 1111122211 000 1112378999
Q ss_pred hHHHHHHHHHHHHH----H-------------------HhHHHHHHHHHcccccCceeeEEEecCCcC--CCCeEEEEEe
Q 043468 236 DAVWSVALAMEQKS----E-------------------KLNQKLLRRILLSDFDGLTGKVEFMNQKVA--PAHTYQIINL 290 (720)
Q Consensus 236 dav~~~a~al~~~~----~-------------------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~--~~~~~~i~~~ 290 (720)
|||+++++|++.+. . .+|..+.++|++++++|.+|+|.|+ +|.| .+..++|+++
T Consensus 274 DAV~lvA~a~~~l~~~~~~~~l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~-~g~R~~~~~~l~I~~L 352 (382)
T cd06377 274 DALELVARAVGSATLVQPELALIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVT-GSSQVHSSRHFKVWSL 352 (382)
T ss_pred HHHHHHHHHHHHhhhcccccccCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEc-cCeeecccceEEEEEe
Confidence 99999999999752 0 1567899999999999999999994 5778 7899999999
Q ss_pred e--c---CceEEEEEEecC
Q 043468 291 M--G---KSYRELGFWTYG 304 (720)
Q Consensus 291 ~--~---~~~~~v~~w~~~ 304 (720)
+ . ..|++||+|++.
T Consensus 353 ~~~~~G~~~W~kVG~W~~~ 371 (382)
T cd06377 353 RRDPVGQPTWTTVGSWQGG 371 (382)
T ss_pred ccccCCCccceEEEEecCC
Confidence 8 3 257999999986
No 78
>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=99.87 E-value=6.1e-22 Score=206.01 Aligned_cols=306 Identities=20% Similarity=0.329 Sum_probs=246.0
Q ss_pred eEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEcCC
Q 043468 9 VEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYEDID 87 (720)
Q Consensus 9 v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~~~ 87 (720)
-..++|+ |++....++.-+...+..++++++++|.++ +..+|++||+.|+........+.++++++|++++.++.+..
T Consensus 114 k~mll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~ 192 (865)
T KOG1055|consen 114 KLMLLGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEE 192 (865)
T ss_pred hheeccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehh
Confidence 3457787 999999999999999999999999999999 68999999999999999999999999999999999999988
Q ss_pred CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEE
Q 043468 88 SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKDYIWIT 167 (720)
Q Consensus 88 ~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 167 (720)
-+... .+.+...+.+.|++++....+-. |....+.++++.++++|+...+...+...++++.+.+|.+..|+|+.
T Consensus 193 ~f~~~-~~dl~~~~~~~~ieiv~~qsf~~----dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~ 267 (865)
T KOG1055|consen 193 VFSST-LNDLEARLKEAGIEIVFRQSFSS----DPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFL 267 (865)
T ss_pred hhcch-HHHHHHhhhccccEEEEeecccc----CHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEE
Confidence 76676 89999999999999998876654 67778899999999999999999999999999999999999999999
Q ss_pred eCcccccccc--------cCcchhhhccccEEEEecCCC-------CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhh
Q 043468 168 TDAFTSLVHS--------INTSSISSMQGILGVRSHFPE-------DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAV 232 (720)
Q Consensus 168 ~~~~~~~~~~--------~~~~~~~~~~g~~~~~~~~~~-------~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (720)
..++...+.. ...++..+++|.+++.....+ +....++|...+.+........ ......+.
T Consensus 268 ~g~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~----~~~~~~~~ 343 (865)
T KOG1055|consen 268 IGWYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEE----TGGFQEAP 343 (865)
T ss_pred EEeeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhcccccc----ccCcccCc
Confidence 8776554331 223456788888877543321 1344566766666554421111 14456688
Q ss_pred hHhhHHHHHHHHHHHHHHH-----------------hHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeecCce
Q 043468 233 QTYDAVWSVALAMEQKSEK-----------------LNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMGKSY 295 (720)
Q Consensus 233 ~~Ydav~~~a~al~~~~~~-----------------~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~~~ 295 (720)
.+||+++++|.|++++... -.+.+.++|.+++|+|++|.|.|.+ |+|. ....|.|+++|++
T Consensus 344 ~ayd~Iwa~ala~n~t~e~l~~~~~~l~~f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t~ieQ~qdg~y 421 (865)
T KOG1055|consen 344 LAYDAIWALALALNKTMEGLGRSHVRLEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTLIEQFQDGKY 421 (865)
T ss_pred hHHHHHHHHHHHHHHHHhcCCccceeccccchhhhHHHHHHHHHhhcccccccccceEecc-hhhH-HHHHHHHHhCCce
Confidence 9999999999999988641 2467899999999999999999988 8886 6677889999999
Q ss_pred EEEEEEecCCCccccccCCCCccCcccccCceeeCCCCCCCCcccc
Q 043468 296 RELGFWTYGLGFSDTIIDPKYNCSSMKDLGQVFWPGAPWYTPKGWT 341 (720)
Q Consensus 296 ~~v~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~p~~~~ 341 (720)
+++|+++.... . +.+.+.-.|-++ .+|++.+
T Consensus 422 ~k~g~Yds~~D---~----------ls~~n~~~w~~g--~ppkd~T 452 (865)
T KOG1055|consen 422 KKIGYYDSTKD---D----------LSWINTEKWIGG--SPPKDST 452 (865)
T ss_pred Eeecccccccc---h----------hhccccceEecc--CCCcccc
Confidence 99999998642 1 234466778777 4555543
No 79
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.86 E-value=1.2e-20 Score=196.85 Aligned_cols=265 Identities=12% Similarity=0.146 Sum_probs=203.8
Q ss_pred CcccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 1 MDLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 1 ~~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
++|+++++|.+|+|+.+|....++ +.+++.++|+|++.++++.++. .++.|++.+++..+...+++++...+.++++
T Consensus 60 ~~li~~~~V~~iig~~~s~~~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~ 136 (341)
T cd06341 60 RDLVEDDKVVAVVGGSSGAGGSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAV 136 (341)
T ss_pred HHHHHhcCceEEEecccccchhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEE
Confidence 368877799999999988877665 8899999999998876665543 5789999999999999999999888899999
Q ss_pred EEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 81 VIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 81 ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
+++.++. +|... .+.+++.+++.|++++....++.+.. |+.+++.++++.++|+|++...+.++..+++++++.|+.
T Consensus 137 ~i~~~~~~~g~~~-~~~~~~~~~~~G~~v~~~~~~~~~~~-d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~ 214 (341)
T cd06341 137 ALVTALSAAVSAA-AALLARSLAAAGVSVAGIVVITATAP-DPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLT 214 (341)
T ss_pred EEEeCCcHHHHHH-HHHHHHHHHHcCCccccccccCCCCC-CHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCC
Confidence 9987765 66544 89999999999999988877776655 999999999999999999999999999999999999996
Q ss_pred CCCeEEEEeCcccccccccCcchhhhccccEEEEecCCC--CChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhH
Q 043468 160 EKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPE--DKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDA 237 (720)
Q Consensus 160 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Yda 237 (720)
.+ ..+........ .....+++.+|++....+.+. ..|..++|.+.+++ |+... + ..|+.++..+||+
T Consensus 215 ~~--~~~~~~~~~~~---~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~-~~~~~----~-~~~~~~~~~~yda 283 (341)
T cd06341 215 PK--VVLSGTCYDPA---LLAAPGPALAGVYIAVFYRPFESGTPAVALYLAAMAR-YAPQL----D-PPEQGFALIGYIA 283 (341)
T ss_pred CC--EEEecCCCCHH---HHHhcCcccCceEEEeeeccccCCCHHHHHHHHHHHH-hCCCC----C-CCcchHHHHHHHH
Confidence 54 22222222221 112234678898877666543 56888888876553 33211 0 1578889999999
Q ss_pred HHHHHHHHHHHHH-HhHHH-HHHHHHcccccCcee---eEEEecCCcCC
Q 043468 238 VWSVALAMEQKSE-KLNQK-LLRRILLSDFDGLTG---KVEFMNQKVAP 281 (720)
Q Consensus 238 v~~~a~al~~~~~-~~~~~-l~~~l~~~~~~g~~G---~v~f~~~g~~~ 281 (720)
++++++|+++++. .+++. ++++|++++.....| .+++.+++.+.
T Consensus 284 ~~~~~~a~~~ag~~~~~~~~v~~al~~~~~~~~~g~~~~~~~~~~~~~~ 332 (341)
T cd06341 284 ADLFLRGLSGAGGCPTRASQFLRALRAVTDYDAGGLTPPCDGKAGPGRP 332 (341)
T ss_pred HHHHHHHHHhcCCCCChHHHHHHHhhcCCCCCCCCcccCccCccCCCCC
Confidence 9999999999986 46777 999999986544444 33444555544
No 80
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=99.86 E-value=1.4e-20 Score=192.85 Aligned_cols=220 Identities=27% Similarity=0.455 Sum_probs=185.9
Q ss_pred CCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 7 QKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 7 ~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+++.+|+||.++..+.+++++++.+++|+|+++++++.+++ ..+|++||+.|++..+++++++++++++|++++++|++
T Consensus 70 ~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~ 149 (298)
T cd06269 70 RGVVAVIGPSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSD 149 (298)
T ss_pred CceEEEECCCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEec
Confidence 79999999999999999999999999999999998888874 67899999999999999999999999999999999999
Q ss_pred CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEE
Q 043468 86 IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKDYIW 165 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~~~ 165 (720)
+++|... .+.+++.+++.|+++.....++.++. ++.+.++++++.++++|++++.++++..+++++.+.|+. .+++|
T Consensus 150 ~~~~~~~-~~~~~~~~~~~~~~v~~~~~~~~~~~-~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~ 226 (298)
T cd06269 150 DDYGRRL-LELLEEELEKNGICVAFVESIPDGSE-DIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHW 226 (298)
T ss_pred chhhHHH-HHHHHHHHHHCCeeEEEEEEcCCCHH-HHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEE
Confidence 9987666 89999999999999999998887665 899999999999999999999999999999999999997 68999
Q ss_pred EEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHHHHHHHH
Q 043468 166 ITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVWSVALAM 245 (720)
Q Consensus 166 i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~~~a~al 245 (720)
+.++.+... ...........+.++... .+...||++++
T Consensus 227 i~~~~~~~~--~~~~~~~~~~~~~~~~~~-----------------------------------~~~~~~dav~~----- 264 (298)
T cd06269 227 IITDLWLTS--CLDLELLEYFPGNLTGFG-----------------------------------EAALVYDAVYA----- 264 (298)
T ss_pred EEEChhhcc--ccccCCccccceEEEEEE-----------------------------------eeEeEEEEEEe-----
Confidence 999987643 011112233334433322 14678888877
Q ss_pred HHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEee-cCceEEEEEEec
Q 043468 246 EQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLM-GKSYRELGFWTY 303 (720)
Q Consensus 246 ~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~-~~~~~~v~~w~~ 303 (720)
|.+.+..+.+++.. ...+..+|.|++
T Consensus 265 --------------------------------~~~~~~~~~~~~~~~~~~~~~vg~w~~ 291 (298)
T cd06269 265 --------------------------------GRRANYDLDIIQLTPSGGFVKVGTWSP 291 (298)
T ss_pred --------------------------------cCcCCceEEEEEECCCCCEEEEEEEcC
Confidence 55656777777776 678999999997
No 81
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.84 E-value=9.5e-20 Score=180.32 Aligned_cols=222 Identities=19% Similarity=0.325 Sum_probs=163.1
Q ss_pred CCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeee
Q 043468 345 KDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGD 424 (720)
Q Consensus 345 ~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 424 (720)
..++|+|++ .++++||.+.+ ++ ++.|+++|+++++++++|.+++++.. +|.+++.+|.+|++|+++++
T Consensus 23 ~~~~l~v~~--~~~~~P~~~~~-~g-----~~~G~~vdl~~~ia~~lg~~~~~~~~----~~~~~~~~l~~G~vDi~~~~ 90 (247)
T PRK09495 23 ADKKLVVAT--DTAFVPFEFKQ-GD-----KYVGFDIDLWAAIAKELKLDYTLKPM----DFSGIIPALQTKNVDLALAG 90 (247)
T ss_pred cCCeEEEEe--CCCCCCeeecC-CC-----ceEEEeHHHHHHHHHHhCCceEEEeC----CHHHHHHHHhCCCcCEEEec
Confidence 457899998 35688887642 33 78999999999999999988777543 49999999999999999888
Q ss_pred eeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCcccccc
Q 043468 425 VAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALHQT 504 (720)
Q Consensus 425 ~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~ 504 (720)
++.|++|.+.++||.||+..+..+++++....... ..++.++..-
T Consensus 91 ~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~~~~~~---------------------------------~~dL~g~~I~-- 135 (247)
T PRK09495 91 ITITDERKKAIDFSDGYYKSGLLVMVKANNNDIKS---------------------------------VKDLDGKVVA-- 135 (247)
T ss_pred CccCHHHHhhccccchheecceEEEEECCCCCCCC---------------------------------hHHhCCCEEE--
Confidence 99999999999999999999999999876421111 0222221100
Q ss_pred chhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcchHHHH
Q 043468 505 GTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLGDYASD 584 (720)
Q Consensus 505 ~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~~~~~~ 584 (720)
++-.+.+...+.... ...++-...+.++++.+
T Consensus 136 -------------------------------v~~g~~~~~~l~~~~-----------------~~~~i~~~~~~~~~~~~ 167 (247)
T PRK09495 136 -------------------------------VKSGTGSVDYAKANI-----------------KTKDLRQFPNIDNAYLE 167 (247)
T ss_pred -------------------------------EecCchHHHHHHhcC-----------------CCCceEEcCCHHHHHHH
Confidence 000000111111000 01122233345678899
Q ss_pred HhcCcccEEEechhHHHHHHHhc-CCCcEeeCCeeecCceeeEecCCCCChHHHHHHHhcccccCcHHHHHHHhcCCC
Q 043468 585 LKSRKTGAVFLEVAEAKIFLAKY-CKGFTVAGPTYKVGGLGFAFPKGSPLLPSVIEALLKVSESGKLRELETSMIASE 661 (720)
Q Consensus 585 l~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~s~~~~~in~~i~~~~~~G~~~~~~~~~~~~~ 661 (720)
|.+|++|+++.+...+.+++++. ...+..++......++++++++++.+++.+|++|.++.++|.++++.++|+...
T Consensus 168 L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~~~n~al~~~~~~g~~~~i~~k~~~~~ 245 (247)
T PRK09495 168 LGTGRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGSELREKVNGALKTLKENGTYAEIYKKWFGTE 245 (247)
T ss_pred HHcCceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcHHHHHHHHHHHHHHHHCCcHHHHHHHHcCCC
Confidence 99999999999998888888765 445666666666678899999998999999999999999999999999998753
No 82
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.83 E-value=9e-20 Score=184.39 Aligned_cols=225 Identities=18% Similarity=0.177 Sum_probs=163.2
Q ss_pred CCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHH----hCCC-ccceEEecCCCCHHHHHHHHHhCCcc
Q 043468 345 KDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVE----KLPF-YLPYNFIPFNGSYDDLVKQLYLNNFA 419 (720)
Q Consensus 345 ~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~----~l~~-~~~~~~~~~~~~~~~~~~~l~~g~~D 419 (720)
..+.|+||+. +.++||.+.+.+ +++.||++|+++.|++ ++|. .+++..++. +|..++..|.+|++|
T Consensus 38 ~~g~L~Vg~~--~~~pP~~f~~~~-----g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~--~~~~~i~~L~~G~~D 108 (302)
T PRK10797 38 KNGVIVVGHR--ESSVPFSYYDNQ-----QKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPI--TSQNRIPLLQNGTFD 108 (302)
T ss_pred hCCeEEEEEc--CCCCCcceECCC-----CCEeeecHHHHHHHHHHHHHhhCCCCceEEEEEc--ChHhHHHHHHCCCcc
Confidence 4578999994 668888876433 3799999998777765 5653 244555553 477899999999999
Q ss_pred EEeeeeeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCc
Q 043468 420 GVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGS 499 (720)
Q Consensus 420 i~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~ 499 (720)
++++++++|++|.+.++||.||+..+..+++++.+...++ .++.|+
T Consensus 109 i~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~~i~sl----------------------------------~dL~Gk 154 (302)
T PRK10797 109 FECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGGDIKDF----------------------------------ADLKGK 154 (302)
T ss_pred EEecCCccCcchhhcceecccEeeccEEEEEECCCCCCCh----------------------------------HHcCCC
Confidence 9988999999999999999999999999999987422211 233332
Q ss_pred cccccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhh---cCCeEEEec
Q 043468 500 ALHQTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQS---SNAIIGYSR 576 (720)
Q Consensus 500 ~~~~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~---~~~~~~~~~ 576 (720)
..-... .+.|... ++++.. .+.++....
T Consensus 155 ~V~v~~---------------------------------gs~~~~~----------------l~~~~~~~~~~~~i~~~~ 185 (302)
T PRK10797 155 AVVVTS---------------------------------GTTSEVL----------------LNKLNEEQKMNMRIISAK 185 (302)
T ss_pred EEEEeC---------------------------------CCcHHHH----------------HHHHhhhcCCceEEEEeC
Confidence 100000 0011111 111111 123455555
Q ss_pred CcchHHHHHhcCcccEEEechhHHHHHHHhc--CCCcEeeCCeeecCceeeEecCCCC-ChHHHHHHHhcccccCcHHHH
Q 043468 577 CLGDYASDLKSRKTGAVFLEVAEAKIFLAKY--CKGFTVAGPTYKVGGLGFAFPKGSP-LLPSVIEALLKVSESGKLREL 653 (720)
Q Consensus 577 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~ 653 (720)
+.++.+++|.+|++|+++.+...+...+.+. .+.+.++++.+...+++++++|+++ +++.+|.+|.+++++|.+++|
T Consensus 186 ~~~~~l~~L~~GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~~a~~k~~~~L~~~in~~L~~l~~~G~l~~i 265 (302)
T PRK10797 186 DHGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYGCMLRKDDPQFKKLMDDTIAQAQTSGEAEKW 265 (302)
T ss_pred CHHHHHHHHHcCCceEEEccHHHHHHHHHcCCCCcceEECCccCCcCceeEEEeCCCHHHHHHHHHHHHHHHhCchHHHH
Confidence 6789999999999999999988776554432 3346777777777789999999887 999999999999999999999
Q ss_pred HHHhcCCC
Q 043468 654 ETSMIASE 661 (720)
Q Consensus 654 ~~~~~~~~ 661 (720)
.++|+...
T Consensus 266 ~~kw~~~~ 273 (302)
T PRK10797 266 FDKWFKNP 273 (302)
T ss_pred HHHHcCCC
Confidence 99999875
No 83
>cd06369 PBP1_GC_C_enterotoxin_receptor Ligand-binding domain of the membrane guanylyl cyclase C. Ligand-binding domain of the membrane guanylyl cyclase C (GC-C or StaR). StaR is a key receptor for the STa (Escherichia coli Heat Stable enterotoxin), a potent stimulant of intestinal chloride and bicarbonate secretion that cause acute secretory diarrhea. The catalytic domain of the STa/guanylin receptor type membrane GC is highly similar to those of the natriuretic peptide receptor (NPR) type and sensory organ-specific type membrane GCs (GC-D, GC-E and GC-F). The GC-C receptor is mainly expressed in the intestine of most vertebrates, but is also found in the kidney and other organs. Moreover, GC-C is activated by guanylin and uroguanylin, endogenous peptide ligands synthesized in the intestine and kidney. Consequently, the receptor activation results in increased cGMP levels and phosphorylation of the CFTR chloride channel and secretion.
Probab=99.82 E-value=1.5e-18 Score=170.92 Aligned_cols=276 Identities=13% Similarity=0.100 Sum_probs=204.3
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHH------hCCCeEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQ------SWEWHQV 79 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~------~~~~~~v 79 (720)
.+.-.+++||.|.-.+.+++.+...+++|+||.++.+.. -+..+.+-|+.|+....+..++++.+ +++|+++
T Consensus 79 ~~~gcv~lGP~CtYat~~~~~~~~~~~~P~ISaGsfgls--cd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~a 156 (380)
T cd06369 79 GRLGCVLLGPSCTYATFQMVDDEFNLSLPIISAGSFGLS--CDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETA 156 (380)
T ss_pred CccCcEEEcCccceehhhhhhhhhcCCCceEeccccccC--CCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCcee
Confidence 355678999999999999999999999999998875433 33446999999999999999999994 7899876
Q ss_pred EEEEEcCCC-ccc-CcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 80 TVIYEDIDS-SAT-GILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 80 ~ii~~~~~~-g~~-~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
. ||.++.. -.. ..+.++....+..+..+...+.... .. ++...+++.+ .+.+||++++++++.+.++.+ +
T Consensus 157 y-vyk~~~~~edCf~~i~al~a~~~~f~~~~~~~~~l~~-~~-~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~ 228 (380)
T cd06369 157 Y-VYKKQENTEDCFWYINALEAGVAYFSSALKFKELLRT-EE-ELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----R 228 (380)
T ss_pred E-EEcCCCCccceeeEhHhhhhhhhhhhhcccceeeecC-ch-hHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----C
Confidence 6 8877652 112 2367777777665555443333332 22 8888888876 688999999999999999986 4
Q ss_pred CCCCCeEEEEeCcccccccccCcchhhhccccEEEEecCCCCChhHHHHHHHHHHHhcccCCCCCCCCCC-CchhhhHhh
Q 043468 158 MMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPEDKPKFQDFCKRFRKRFGAEYPEEDNNHEP-GALAVQTYD 236 (720)
Q Consensus 158 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Yd 236 (720)
+..++|+++..+.+..... .+....++.+.++.++...+. ++..++ .... +. +. +.+++..||
T Consensus 229 ~~~gDYVf~~IDlF~~sy~-~d~~a~~amqsVLvIT~~~p~-~~~~~~-------~~~f------n~-~l~~~~aa~fyD 292 (380)
T cd06369 229 AVAEDIVIILIDLFNDVYY-ENTTSPPYMRNVLVLTLPPRN-STNNSS-------FTTD------NS-LLKDDYVAAYHD 292 (380)
T ss_pred ccCCCEEEEEEecccchhc-cCcchHHHHhceEEEecCCCC-Cccccc-------CCCC------Cc-chHHHHHHHHHH
Confidence 3445899999988765432 222345678888877644332 222221 0000 00 11 278899999
Q ss_pred HHHHHHHHHHHHHHH----hHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEee--cCceEEEEEEecCCCcc
Q 043468 237 AVWSVALAMEQKSEK----LNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLM--GKSYRELGFWTYGLGFS 308 (720)
Q Consensus 237 av~~~a~al~~~~~~----~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~--~~~~~~v~~w~~~~~~~ 308 (720)
||+++++||++.... ++..+.+.|++.+|.|++|.|++|++|||. ..|.++... .+++++|+.|+...+..
T Consensus 293 aVLLYa~AL~EtL~~G~~~~~~~I~~~m~NrTF~GitG~V~IDeNGDRd-~dfsLl~ms~~tg~y~vV~~y~t~~n~t 369 (380)
T cd06369 293 GVLLFGHVLKKFLESQEGVQTFSFINEFRNISFEGAGGPYTLDEYGDRD-VNFTLLYTSTDTSKYKVLFEFDTSTNKT 369 (380)
T ss_pred HHHHHHHHHHHHHHhCCCCCcHHHHHHHhCcceecCCCceEeCCCCCcc-CceEEEEeeCCCCCeEEEEEEECCCCee
Confidence 999999999998653 237899999999999999999999999996 778887765 47899999999966544
No 84
>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=99.82 E-value=1.1e-19 Score=177.59 Aligned_cols=221 Identities=19% Similarity=0.335 Sum_probs=161.8
Q ss_pred eEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeee
Q 043468 349 LRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIV 428 (720)
Q Consensus 349 l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t 428 (720)
||||+ .+.++||.+.+.++ .+.|+++|+++++++++|++++++..+ |.+++.+|.+|++|+++++++.+
T Consensus 1 l~V~~--~~~~~P~~~~~~~~-----~~~G~~~dl~~~i~~~~g~~~~~~~~~----~~~~~~~l~~g~~D~~~~~~~~~ 69 (225)
T PF00497_consen 1 LRVGV--DEDYPPFSYIDEDG-----EPSGIDVDLLRAIAKRLGIKIEFVPMP----WSRLLEMLENGKADIIIGGLSIT 69 (225)
T ss_dssp EEEEE--ESEBTTTBEEETTS-----EEESHHHHHHHHHHHHHTCEEEEEEEE----GGGHHHHHHTTSSSEEESSEB-B
T ss_pred CEEEE--cCCCCCeEEECCCC-----CEEEEhHHHHHHHHhhcccccceeecc----ccccccccccccccccccccccc
Confidence 68888 34677788876544 899999999999999999997777654 89999999999999999899999
Q ss_pred ccceeeeeecccccccceEEEEeccc--CCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCccccccch
Q 043468 429 ARRCQYADFTHPYTESGLVMIFPVQK--SGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALHQTGT 506 (720)
Q Consensus 429 ~~r~~~~~fs~p~~~~~~~~~v~~~~--~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~ 506 (720)
++|.+.++||.|++....++++++.+ ....+. ...++.+...-....
T Consensus 70 ~~r~~~~~~s~p~~~~~~~~~~~~~~~~~~~~~~-------------------------------~~~dl~~~~i~~~~g 118 (225)
T PF00497_consen 70 PERAKKFDFSDPYYSSPYVLVVRKGDAPPIKTIK-------------------------------SLDDLKGKRIGVVRG 118 (225)
T ss_dssp HHHHTTEEEESESEEEEEEEEEETTSTCSTSSHS-------------------------------SGGGGTTSEEEEETT
T ss_pred ccccccccccccccchhheeeecccccccccccc-------------------------------chhhhcCcccccccc
Confidence 99999999999999999999999753 111110 001222210000000
Q ss_pred hhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcchHHHHHh
Q 043468 507 FFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLGDYASDLK 586 (720)
Q Consensus 507 ~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~~~~~~l~ 586 (720)
..|... +++....+.++....+.++++++|.
T Consensus 119 ---------------------------------~~~~~~----------------l~~~~~~~~~~~~~~~~~~~~~~l~ 149 (225)
T PF00497_consen 119 ---------------------------------SSYADY----------------LKQQYPSNINIVEVDSPEEALEALL 149 (225)
T ss_dssp ---------------------------------SHHHHH----------------HHHHTHHTSEEEEESSHHHHHHHHH
T ss_pred ---------------------------------hhHHHH----------------hhhhccchhhhcccccHHHHHHHHh
Confidence 000000 1111111445666677889999999
Q ss_pred cCcccEEEechhHHHHHHHhc-CCCcEeeCCeeecCceeeEecCCCC-ChHHHHHHHhcccccCcHHHHHHHhcCC
Q 043468 587 SRKTGAVFLEVAEAKIFLAKY-CKGFTVAGPTYKVGGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELETSMIAS 660 (720)
Q Consensus 587 ~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~~~~~~~ 660 (720)
+|++|+++.+...+.+++++. ..............+++++++++.+ +++.||++|.+|.++|.++++.+||+++
T Consensus 150 ~g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~i~~l~~~G~~~~i~~ky~g~ 225 (225)
T PF00497_consen 150 SGRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELLEIFNKAIRELKQSGEIQKILKKYLGD 225 (225)
T ss_dssp TTSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHHHHHHHHHHHHHHTTHHHHHHHHHHSS
T ss_pred cCCeeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccHHHHHHHHHHHHHHhCcHHHHHHHHHcCC
Confidence 999999999999999999987 3323333455566677778877655 9999999999999999999999999874
No 85
>PRK11260 cystine transporter subunit; Provisional
Probab=99.82 E-value=4.1e-19 Score=177.72 Aligned_cols=225 Identities=21% Similarity=0.325 Sum_probs=165.0
Q ss_pred cCCCCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEE
Q 043468 342 LPAKDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGV 421 (720)
Q Consensus 342 ~~~~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~ 421 (720)
.....++++|++. ..++||.+.+.++ ++.|+.+|+++.+++++|.+++++.. .|.+++.+|++|++|++
T Consensus 36 ~i~~~~~l~v~~~--~~~~P~~~~~~~g-----~~~G~~~dl~~~i~~~lg~~~e~~~~----~~~~~~~~l~~G~~D~~ 104 (266)
T PRK11260 36 KVKERGTLLVGLE--GTYPPFSFQGEDG-----KLTGFEVEFAEALAKHLGVKASLKPT----KWDGMLASLDSKRIDVV 104 (266)
T ss_pred HhhcCCeEEEEeC--CCcCCceEECCCC-----CEEEehHHHHHHHHHHHCCeEEEEeC----CHHHHHHHHhcCCCCEE
Confidence 3356789999983 5678887654433 78999999999999999988777654 39999999999999999
Q ss_pred eeeeeeeccceeeeeecccccccceEEEEecccCC--CcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCc
Q 043468 422 VGDVAIVARRCQYADFTHPYTESGLVMIFPVQKSG--NKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGS 499 (720)
Q Consensus 422 ~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~--~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~ 499 (720)
+++++.+++|.+.+.||.|++..+..+++++.+.. ..+ .++.++
T Consensus 105 ~~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~~~~~~~----------------------------------~dL~g~ 150 (266)
T PRK11260 105 INQVTISDERKKKYDFSTPYTVSGIQALVKKGNEGTIKTA----------------------------------ADLKGK 150 (266)
T ss_pred EeccccCHHHHhccccCCceeecceEEEEEcCCcCCCCCH----------------------------------HHcCCC
Confidence 88889999999999999999999999999876411 111 112221
Q ss_pred cccccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcc
Q 043468 500 ALHQTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLG 579 (720)
Q Consensus 500 ~~~~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~ 579 (720)
..- ++-...|... +... ..+.++-...+..
T Consensus 151 ~Ig---------------------------------v~~G~~~~~~----l~~~-------------~~~~~i~~~~~~~ 180 (266)
T PRK11260 151 KVG---------------------------------VGLGTNYEQW----LRQN-------------VQGVDVRTYDDDP 180 (266)
T ss_pred EEE---------------------------------EecCCcHHHH----HHHh-------------CCCCceEecCCHH
Confidence 000 0000011111 1000 0112233334456
Q ss_pred hHHHHHhcCcccEEEechhHHHHHHHhcCCCcEeeCCeeecCceeeEecCCCC-ChHHHHHHHhcccccCcHHHHHHHhc
Q 043468 580 DYASDLKSRKTGAVFLEVAEAKIFLAKYCKGFTVAGPTYKVGGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELETSMI 658 (720)
Q Consensus 580 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~~~~~ 658 (720)
+++++|.+|++|+++.+.....+++++....+.+....+...+++++++++++ +++.+|++|.++.++|.++++.++|+
T Consensus 181 ~~l~~L~~GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~l~~~ln~~l~~~~~~g~~~~i~~k~~ 260 (266)
T PRK11260 181 TKYQDLRVGRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVALRKGNPDLLKAVNQAIAEMQKDGTLKALSEKWF 260 (266)
T ss_pred HHHHHHHcCCCCEEEechHHHHHHHHhCCCcceecCCccccCceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhc
Confidence 78999999999999999988888877654434555556667788999999887 99999999999999999999999998
Q ss_pred CCC
Q 043468 659 ASE 661 (720)
Q Consensus 659 ~~~ 661 (720)
.+.
T Consensus 261 ~~~ 263 (266)
T PRK11260 261 GAD 263 (266)
T ss_pred CCc
Confidence 864
No 86
>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=99.81 E-value=9.7e-19 Score=180.03 Aligned_cols=224 Identities=21% Similarity=0.249 Sum_probs=179.4
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTV 81 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~i 81 (720)
+|+++++|.+|||+.+|..+.++.+.+...++|+|+++++++.++ ...+|+||+.|++...+..+++++...||+++++
T Consensus 60 ~li~~~~v~~vig~~~s~~~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vai 138 (312)
T cd06333 60 KLIEEDKVDAIIGPSTTPATMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAF 138 (312)
T ss_pred HHHhhCCeEEEECCCCCHHHHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEE
Confidence 577778999999999888888889999999999999876554333 4468999999999999999999999999999999
Q ss_pred EEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 82 IYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 82 i~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
++.++.++... .+.+++.+++.|++++....++..+. |+...+.+++++++|+|++......+..+++++++.|+..+
T Consensus 139 l~~~~~~~~~~-~~~~~~~~~~~G~~v~~~~~~~~~~~-d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p 216 (312)
T cd06333 139 IGFSDAYGESG-LKELKALAPKYGIEVVADERYGRTDT-SVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP 216 (312)
T ss_pred EecCcHHHHHH-HHHHHHHHHHcCCEEEEEEeeCCCCc-CHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC
Confidence 99887776554 88999999999999988777876665 89999999988899999998888888889999999998543
Q ss_pred CeEEEEeCcccccccccCcchhhhccccEEEEec------CC---CCChhHHHHHHHHHHHhcccCCCCCCCCC-CCchh
Q 043468 162 DYIWITTDAFTSLVHSINTSSISSMQGILGVRSH------FP---EDKPKFQDFCKRFRKRFGAEYPEEDNNHE-PGALA 231 (720)
Q Consensus 162 ~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~------~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~~~ 231 (720)
+++++..... ......++..+|++....+ .+ ..+|..++|.++|+++++. . |+.++
T Consensus 217 ---~~~~~~~~~~--~~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~---------~~~~~~~ 282 (312)
T cd06333 217 ---IYQTHGVASP--DFLRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGA---------GSVSTFG 282 (312)
T ss_pred ---EEeecCcCcH--HHHHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCC---------CCCCchh
Confidence 4444433321 1122234667888754322 12 2246799999999999976 4 88899
Q ss_pred hhHhhHHHHHH
Q 043468 232 VQTYDAVWSVA 242 (720)
Q Consensus 232 ~~~Ydav~~~a 242 (720)
+.+||++++++
T Consensus 283 ~~~Yda~~~~~ 293 (312)
T cd06333 283 GHAYDALLLLA 293 (312)
T ss_pred HHHHHHHHHHH
Confidence 99999999998
No 87
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.80 E-value=1.4e-18 Score=173.12 Aligned_cols=225 Identities=18% Similarity=0.246 Sum_probs=157.4
Q ss_pred CCCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEee
Q 043468 344 AKDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVG 423 (720)
Q Consensus 344 ~~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 423 (720)
...++++|++. +.|+||.+.+.++ .+.|+++||++++++++|.+++++.. .|+.++.++..|++|++++
T Consensus 23 ~~~~~l~v~~~--~~~pPf~~~~~~g-----~~~G~~vdl~~~ia~~lg~~~~~~~~----~~~~~~~~l~~g~~Di~~~ 91 (260)
T PRK15010 23 ALPETVRIGTD--TTYAPFSSKDAKG-----DFVGFDIDLGNEMCKRMQVKCTWVAS----DFDALIPSLKAKKIDAIIS 91 (260)
T ss_pred ccCCeEEEEec--CCcCCceeECCCC-----CEEeeeHHHHHHHHHHhCCceEEEeC----CHHHHHHHHHCCCCCEEEe
Confidence 34578999983 4578888864433 88999999999999999988776643 4999999999999999988
Q ss_pred eeeeeccceeeeeecccccccceEEEEecccCCC-cccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCcccc
Q 043468 424 DVAIVARRCQYADFTHPYTESGLVMIFPVQKSGN-KTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALH 502 (720)
Q Consensus 424 ~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~-~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~ 502 (720)
++..|++|.+.++||.|++..+..+++++..... ++ .++.|+..-
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~~~~~----------------------------------~dl~g~~Ig 137 (260)
T PRK15010 92 SLSITDKRQQEIAFSDKLYAADSRLIAAKGSPIQPTL----------------------------------DSLKGKHVG 137 (260)
T ss_pred cCcCCHHHHhhcccccceEeccEEEEEECCCCCCCCh----------------------------------hHcCCCEEE
Confidence 8999999999999999999999999998875221 11 222221100
Q ss_pred ccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcchHH
Q 043468 503 QTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLGDYA 582 (720)
Q Consensus 503 ~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~~~~ 582 (720)
.. . .+.|...+...+ .+.+.++-.....++++
T Consensus 138 v~-~--------------------------------gs~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~ 169 (260)
T PRK15010 138 VL-Q--------------------------------GSTQEAYANETW---------------RSKGVDVVAYANQDLVY 169 (260)
T ss_pred Ee-c--------------------------------CchHHHHHHHhc---------------ccCCceEEecCCHHHHH
Confidence 00 0 000111111000 01122232233456788
Q ss_pred HHHhcCcccEEEechhHHHH-HHHhc-CCCcEeeCCee-----ecCceeeEecCCCC-ChHHHHHHHhcccccCcHHHHH
Q 043468 583 SDLKSRKTGAVFLEVAEAKI-FLAKY-CKGFTVAGPTY-----KVGGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELE 654 (720)
Q Consensus 583 ~~l~~~~~~~~~~~~~~~~~-~~~~~-~~~l~~~~~~~-----~~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~ 654 (720)
++|.+|++|+++.+...+.+ +.++. ...+...+... ....++++++++.+ +++.+|++|.+++++|.++++.
T Consensus 170 ~~l~~griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~L~~~ln~~l~~l~~~G~~~~i~ 249 (260)
T PRK15010 170 SDLAAGRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVGLRKDDAELTAAFNKALGELRQDGTYDKMA 249 (260)
T ss_pred HHHHcCCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHH
Confidence 99999999999999877764 33332 34454443322 22345789998876 9999999999999999999999
Q ss_pred HHhcCCC
Q 043468 655 TSMIASE 661 (720)
Q Consensus 655 ~~~~~~~ 661 (720)
++|+...
T Consensus 250 ~ky~~~~ 256 (260)
T PRK15010 250 KKYFDFN 256 (260)
T ss_pred HHhcCCc
Confidence 9998743
No 88
>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=99.80 E-value=1.5e-18 Score=177.71 Aligned_cols=225 Identities=24% Similarity=0.374 Sum_probs=182.2
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVT 80 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ 80 (720)
+|+++++|.+||||.++....+++++++..++|+|++.+..+.+. ...++++|++.|++..++..+++++.+++|++++
T Consensus 61 ~l~~~~~v~~iig~~~~~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~ 140 (299)
T cd04509 61 RLCQQEGVDALVGPVSSGVALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVA 140 (299)
T ss_pred HHhcccCceEEEcCCCcHHHHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEE
Confidence 567656999999999998889999999999999999988776665 3568999999999999999999999999999999
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
+++.++.++... .+.+++.+++.|+++.....++.+.. ++...++++++.++|+|++.+.+..+..+++++++.|+.
T Consensus 141 iv~~~~~~~~~~-~~~~~~~~~~~g~~i~~~~~~~~~~~-~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~- 217 (299)
T cd04509 141 ILYDDDSYGRGL-LEAFKAAFKKKGGTVVGEEYYPLGTT-DFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT- 217 (299)
T ss_pred EEecCchHHHHH-HHHHHHHHHHcCCEEEEEecCCCCCc-cHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-
Confidence 999988876555 89999999999999988777776655 899999999988899999988889999999999999998
Q ss_pred CCeEEEEeCcccccccccCcchhhhccccEEEEecCCCC-ChhHHHHH---HHHHHHhcccCCCCCCCCCCCchhhhHhh
Q 043468 161 KDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPED-KPKFQDFC---KRFRKRFGAEYPEEDNNHEPGALAVQTYD 236 (720)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~f~---~~~~~~~~~~~~~~~~~~~~~~~~~~~Yd 236 (720)
+++.|++.+.+...... .......+|+++...+.... .+..+.|. ..+...++. .++.+++.+||
T Consensus 218 ~~~~~i~~~~~~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~yd 286 (299)
T cd04509 218 GGYPILGITLGLSDVLL--EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYED---------QPDYFAALAYD 286 (299)
T ss_pred CCCcEEecccccCHHHH--HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhCC---------CCChhhhhhcc
Confidence 67889988876543211 12346678888776655433 34444443 344444443 78888999999
Q ss_pred HHHH
Q 043468 237 AVWS 240 (720)
Q Consensus 237 av~~ 240 (720)
++++
T Consensus 287 a~~~ 290 (299)
T cd04509 287 AVLL 290 (299)
T ss_pred eeee
Confidence 9887
No 89
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.78 E-value=5.8e-18 Score=167.38 Aligned_cols=218 Identities=19% Similarity=0.315 Sum_probs=154.2
Q ss_pred CCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeee
Q 043468 345 KDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGD 424 (720)
Q Consensus 345 ~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 424 (720)
..++|+|++. +.++||.+.+.++ ++.|+++|+++++++++|.++++... +|+.++..+.+|++|+++++
T Consensus 19 ~~~~l~v~~~--~~~~P~~~~~~~g-----~~~G~~~dl~~~i~~~lg~~~~~~~~----~~~~~~~~l~~g~~D~~~~~ 87 (243)
T PRK15007 19 AAETIRFATE--ASYPPFESIDANN-----QIVGFDVDLAQALCKEIDATCTFSNQ----AFDSLIPSLKFRRVEAVMAG 87 (243)
T ss_pred cCCcEEEEeC--CCCCCceeeCCCC-----CEEeeeHHHHHHHHHHhCCcEEEEeC----CHHHHhHHHhCCCcCEEEEc
Confidence 3578999993 5677887765433 89999999999999999998777643 49999999999999999888
Q ss_pred eeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCcccccc
Q 043468 425 VAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALHQT 504 (720)
Q Consensus 425 ~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~ 504 (720)
+..+++|.+.++||.||+..+..++.++.. ..+. .++.+...
T Consensus 88 ~~~~~~r~~~~~fs~p~~~~~~~~v~~~~~-~~~~----------------------------------~dL~g~~I--- 129 (243)
T PRK15007 88 MDITPEREKQVLFTTPYYDNSALFVGQQGK-YTSV----------------------------------DQLKGKKV--- 129 (243)
T ss_pred CccCHHHhcccceecCccccceEEEEeCCC-CCCH----------------------------------HHhCCCeE---
Confidence 889999999999999999998877776542 1111 11111100
Q ss_pred chhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcchHHHH
Q 043468 505 GTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLGDYASD 584 (720)
Q Consensus 505 ~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~~~~~~ 584 (720)
. ++-...|.. ++... ..+.++....+.++.+.+
T Consensus 130 g------------------------------v~~g~~~~~----~l~~~-------------~~~~~~~~~~~~~~~~~~ 162 (243)
T PRK15007 130 G------------------------------VQNGTTHQK----FIMDK-------------HPEITTVPYDSYQNAKLD 162 (243)
T ss_pred E------------------------------EecCcHHHH----HHHHh-------------CCCCeEEEcCCHHHHHHH
Confidence 0 000000111 11000 012233333446778889
Q ss_pred HhcCcccEEEechhHHHHHHHhcCCCcEeeCCe-----eecCceeeEecCCCC-ChHHHHHHHhcccccCcHHHHHHHhc
Q 043468 585 LKSRKTGAVFLEVAEAKIFLAKYCKGFTVAGPT-----YKVGGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELETSMI 658 (720)
Q Consensus 585 l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~~~~~ 658 (720)
|.+|++|+++.+...+.+++++... +..++.. ....+++++++++++ +++.||++|.++.++|.++++.++|+
T Consensus 163 L~~grvDa~i~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ln~~l~~l~~~g~~~~i~~~w~ 241 (243)
T PRK15007 163 LQNGRIDAVFGDTAVVTEWLKDNPK-LAAVGDKVTDKDYFGTGLGIAVRQGNTELQQKLNTALEKVKKDGTYETIYNKWF 241 (243)
T ss_pred HHcCCCCEEEeCHHHHHHHHhcCCC-ceeecCcccccccCCcceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhc
Confidence 9999999999999888887765533 3333321 223357899998765 99999999999999999999999998
Q ss_pred C
Q 043468 659 A 659 (720)
Q Consensus 659 ~ 659 (720)
.
T Consensus 242 ~ 242 (243)
T PRK15007 242 Q 242 (243)
T ss_pred C
Confidence 5
No 90
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.78 E-value=9.3e-18 Score=166.29 Aligned_cols=222 Identities=12% Similarity=0.159 Sum_probs=156.1
Q ss_pred CCCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEe
Q 043468 344 AKDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVV 422 (720)
Q Consensus 344 ~~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~ 422 (720)
...+.|+||+. ++++||.+.+.+ ++++.|+++|+++++++++ |..+++...+. +|.....+|.+|++|+++
T Consensus 35 ~~~g~l~vg~~--~~~pP~~~~~~~----~g~~~G~~vdl~~~ia~~llg~~~~~~~~~~--~~~~~~~~l~~g~~D~~~ 106 (259)
T PRK11917 35 KSKGQLIVGVK--NDVPHYALLDQA----TGEIKGFEIDVAKLLAKSILGDDKKIKLVAV--NAKTRGPLLDNGSVDAVI 106 (259)
T ss_pred HhCCEEEEEEC--CCCCCceeeeCC----CCceeEeeHHHHHHHHHHhcCCCccEEEEEc--ChhhHHHHHHCCCccEEE
Confidence 45689999994 678888875321 2389999999999999995 75544554443 366677899999999999
Q ss_pred eeeeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCcccc
Q 043468 423 GDVAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALH 502 (720)
Q Consensus 423 ~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~ 502 (720)
+++++|++|.+.++||.||+.++..+++++.+...++ .++.|+..-
T Consensus 107 ~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~~~~s~----------------------------------~dL~g~~V~ 152 (259)
T PRK11917 107 ATFTITPERKRIYNFSEPYYQDAIGLLVLKEKNYKSL----------------------------------ADMKGANIG 152 (259)
T ss_pred ecccCChhhhheeeeccCceeeceEEEEECCCCCCCH----------------------------------HHhCCCeEE
Confidence 9999999999999999999999999999987522211 223332100
Q ss_pred ccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcchHH
Q 043468 503 QTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLGDYA 582 (720)
Q Consensus 503 ~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~~~~ 582 (720)
- .-.+.|...+...+... ....++....+..+.+
T Consensus 153 v---------------------------------~~gs~~~~~l~~~~~~~-------------~~~~~~~~~~~~~~~~ 186 (259)
T PRK11917 153 V---------------------------------AQAATTKKAIGEAAKKI-------------GIDVKFSEFPDYPSIK 186 (259)
T ss_pred E---------------------------------ecCCcHHHHHHHhhHhc-------------CCceeEEecCCHHHHH
Confidence 0 00011111111111000 0012333444567888
Q ss_pred HHHhcCcccEEEechhHHHHHHHhcCCCcEeeCCeeecCceeeEecCCCC-ChHHHHHHHhcccccCcHHHHHHHhc
Q 043468 583 SDLKSRKTGAVFLEVAEAKIFLAKYCKGFTVAGPTYKVGGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELETSMI 658 (720)
Q Consensus 583 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~~~~~ 658 (720)
++|.+|++|+++.+...+..+..+. ...++..+...+++++++|+++ +++.+|..|.++.. .++++.+||.
T Consensus 187 ~~l~~GrvDa~~~d~~~~~~~~~~~---~~~~~~~~~~~~~~~a~~k~~~~l~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 187 AALDAKRVDAFSVDKSILLGYVDDK---SEILPDSFEPQSYGIVTKKDDPAFAKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred HHHHcCCCcEEEecHHHHHHhhhcC---CeecCCcCCCCceEEEEeCCCHHHHHHHHHHHHHHHH--HHHHHHHHhC
Confidence 9999999999999988776655432 3456666777889999999987 99999999999864 7999999984
No 91
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.77 E-value=1e-17 Score=166.52 Aligned_cols=219 Identities=21% Similarity=0.323 Sum_probs=159.6
Q ss_pred CCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeee
Q 043468 347 QPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVA 426 (720)
Q Consensus 347 ~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~ 426 (720)
++|+|++ .+.++||.+.+.++ ++.|+++|+++.+++++|.+++++.. +|..++.++.+|++|++++++.
T Consensus 24 ~~l~v~~--~~~~~P~~~~~~~g-----~~~G~~~dl~~~i~~~lg~~~~~~~~----~~~~~~~~l~~G~~D~~~~~~~ 92 (250)
T TIGR01096 24 GSVRIGT--ETGYPPFESKDANG-----KLVGFDVDLAKALCKRMKAKCKFVEQ----NFDGLIPSLKAKKVDAIMATMS 92 (250)
T ss_pred CeEEEEE--CCCCCCceEECCCC-----CEEeehHHHHHHHHHHhCCeEEEEeC----CHHHHHHHHhCCCcCEEEecCc
Confidence 7899998 45678887764433 89999999999999999988776543 4899999999999999988888
Q ss_pred eeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCccccccch
Q 043468 427 IVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALHQTGT 506 (720)
Q Consensus 427 ~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~ 506 (720)
.+++|.+.+.||.|++..+..+++++.+..... ..++.++......
T Consensus 93 ~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~~~~---------------------------------~~dl~g~~i~~~~- 138 (250)
T TIGR01096 93 ITPKRQKQIDFSDPYYATGQGFVVKKGSDLAKT---------------------------------LEDLDGKTVGVQS- 138 (250)
T ss_pred cCHHHhhccccccchhcCCeEEEEECCCCcCCC---------------------------------hHHcCCCEEEEec-
Confidence 999999999999999999999999887521110 0122221100000
Q ss_pred hhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcchHHHHHh
Q 043468 507 FFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLGDYASDLK 586 (720)
Q Consensus 507 ~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~~~~~~l~ 586 (720)
.+.+...+... ...++++....+.++++++|.
T Consensus 139 --------------------------------g~~~~~~l~~~----------------~~~~~~~~~~~s~~~~~~~L~ 170 (250)
T TIGR01096 139 --------------------------------GTTHEQYLKDY----------------FKPGVDIVEYDSYDNANMDLK 170 (250)
T ss_pred --------------------------------CchHHHHHHHh----------------ccCCcEEEEcCCHHHHHHHHH
Confidence 00011111110 001234444455788999999
Q ss_pred cCcccEEEechhHHHHHHHhcC--CCcEeeCCeeec-----CceeeEecCCCC-ChHHHHHHHhcccccCcHHHHHHHhc
Q 043468 587 SRKTGAVFLEVAEAKIFLAKYC--KGFTVAGPTYKV-----GGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELETSMI 658 (720)
Q Consensus 587 ~~~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~-----~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~~~~~ 658 (720)
+|++|+++.+...+.+++++.. +.+.+++..+.. ..++++++++++ ++..+|++|.+|.++|.++++.++|+
T Consensus 171 ~g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 171 AGRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGLRKGDTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred cCCCCEEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEEeCCCHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 9999999999999888877652 236666544332 247899999877 99999999999999999999999995
No 92
>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=99.76 E-value=3.1e-17 Score=167.82 Aligned_cols=224 Identities=21% Similarity=0.350 Sum_probs=183.0
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCC-CeEEE
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWE-WHQVT 80 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~-~~~v~ 80 (720)
+|+ +++|++|+||.++..+.++++.+...++|+|++.++++.+.+..++++|++.|++..+.+.+++++...+ |++++
T Consensus 61 ~l~-~~~v~~iig~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ 139 (298)
T cd06268 61 ELV-DDGVDAVIGPLSSGVALAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVA 139 (298)
T ss_pred HHH-hCCceEEEcCCcchhHHhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEE
Confidence 455 4589999999999888899999999999999998877665544679999999999999999999998877 99999
Q ss_pred EEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 81 VIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 81 ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
+++.++..+... .+.+++.+++.|++++....++.... ++...++++++.++|+|++.+.+..+..+++++++.|+
T Consensus 140 ~v~~~~~~~~~~-~~~~~~~~~~~g~~i~~~~~~~~~~~-~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~-- 215 (298)
T cd06268 140 IIYDDYAYGRGL-AAAFREALKKLGGEVVAEETYPPGAT-DFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL-- 215 (298)
T ss_pred EEEcCCchhHHH-HHHHHHHHHHcCCEEEEEeccCCCCc-cHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC--
Confidence 999988866554 89999999999999988877776555 89999999999999999999888999999999999998
Q ss_pred CCeEEEEeCcccccccccCcchhhhccccEEEEecCCCC-ChhHHHHH-HHHHHHhcccCCCCCCCCCCCchhhhHhhHH
Q 043468 161 KDYIWITTDAFTSLVHSINTSSISSMQGILGVRSHFPED-KPKFQDFC-KRFRKRFGAEYPEEDNNHEPGALAVQTYDAV 238 (720)
Q Consensus 161 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav 238 (720)
+..|++.+.+..... . ....+..+|++...++.+.. .+..+.|. +.|++.++. .|+.++..+||++
T Consensus 216 -~~~~~~~~~~~~~~~-~-~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~y~~~ 283 (298)
T cd06268 216 -KVPIVGGDGAAAPAL-L-ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYGR---------PPDSYAAAAYDAV 283 (298)
T ss_pred -CCcEEecCccCCHHH-H-HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHhCC---------CcccchHHHHHHH
Confidence 557787776654311 1 12345678888777665533 34555565 777777765 7888999999999
Q ss_pred HHHH
Q 043468 239 WSVA 242 (720)
Q Consensus 239 ~~~a 242 (720)
.+++
T Consensus 284 ~~~~ 287 (298)
T cd06268 284 RLLA 287 (298)
T ss_pred HHHc
Confidence 9987
No 93
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.76 E-value=2.1e-17 Score=164.66 Aligned_cols=226 Identities=19% Similarity=0.231 Sum_probs=156.5
Q ss_pred CCCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEee
Q 043468 344 AKDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVG 423 (720)
Q Consensus 344 ~~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 423 (720)
.....|+|++ .+.++||.+.+.++ ++.|+++|+++++++++|.++++...| |++++.++.+|++|++++
T Consensus 23 a~~~~l~v~~--~~~~~P~~~~~~~g-----~~~G~~vdi~~~ia~~lg~~i~~~~~p----w~~~~~~l~~g~~D~~~~ 91 (259)
T PRK15437 23 AIPQNIRIGT--DPTYAPFESKNSQG-----ELVGFDIDLAKELCKRINTQCTFVENP----LDALIPSLKAKKIDAIMS 91 (259)
T ss_pred ccCCeEEEEe--CCCCCCcceeCCCC-----CEEeeeHHHHHHHHHHcCCceEEEeCC----HHHHHHHHHCCCCCEEEe
Confidence 3457899998 34577887765444 899999999999999999887776544 999999999999999988
Q ss_pred eeeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCccccc
Q 043468 424 DVAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALHQ 503 (720)
Q Consensus 424 ~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~~ 503 (720)
+++.|++|.+.++||.|++..+..+++++....... ..++.+...--
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~~~~---------------------------------~~dl~g~~Igv 138 (259)
T PRK15437 92 SLSITEKRQQEIAFTDKLYAADSRLVVAKNSDIQPT---------------------------------VESLKGKRVGV 138 (259)
T ss_pred cCCCCHHHhhhccccchhhcCceEEEEECCCCCCCC---------------------------------hHHhCCCEEEE
Confidence 999999999999999999999999999887421100 01222210000
Q ss_pred cchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcchHHH
Q 043468 504 TGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLGDYAS 583 (720)
Q Consensus 504 ~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~~~~~ 583 (720)
... +.+...+...+ ...+.++....+.++.++
T Consensus 139 ~~g---------------------------------~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~i~ 170 (259)
T PRK15437 139 LQG---------------------------------TTQETFGNEHW---------------APKGIEIVSYQGQDNIYS 170 (259)
T ss_pred ecC---------------------------------cHHHHHHHhhc---------------cccCceEEecCCHHHHHH
Confidence 000 00000000000 001234444445678899
Q ss_pred HHhcCcccEEEechhHHHH-HHHhc-CCCcEeeC-----CeeecCceeeEecCCCC-ChHHHHHHHhcccccCcHHHHHH
Q 043468 584 DLKSRKTGAVFLEVAEAKI-FLAKY-CKGFTVAG-----PTYKVGGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELET 655 (720)
Q Consensus 584 ~l~~~~~~~~~~~~~~~~~-~~~~~-~~~l~~~~-----~~~~~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~~ 655 (720)
+|.+|++|+++.+.....+ +.++. -..+.+.+ +.+...+++++++++.+ +++.+|.+|.++.++|.++++.+
T Consensus 171 ~L~~grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia~~~~~~~l~~~~n~~l~~~~~~G~~~~i~~ 250 (259)
T PRK15437 171 DLTAGRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMGLRKEDNELREALNKAFAEMRADGTYEKLAK 250 (259)
T ss_pred HHHcCCccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEEEeCCCHHHHHHHHHHHHHHHHCCcHHHHHH
Confidence 9999999999999877654 33332 12233222 22223456788887766 99999999999999999999999
Q ss_pred HhcCCC
Q 043468 656 SMIASE 661 (720)
Q Consensus 656 ~~~~~~ 661 (720)
+|+...
T Consensus 251 k~~~~~ 256 (259)
T PRK15437 251 KYFDFD 256 (259)
T ss_pred HhcCCc
Confidence 998753
No 94
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein. Members of this family are the extracellular solute-binding proteins of ABC transporters that closely resemble amino acid transporters. The member from Sinorhizobium meliloti is involved in ectoine uptake, both for osmoprotection and for catabolism. All other members of the seed alignment are found associated with ectoine catabolic genes.
Probab=99.76 E-value=1.4e-17 Score=167.28 Aligned_cols=222 Identities=16% Similarity=0.134 Sum_probs=154.2
Q ss_pred CCCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCc-cceEEecCCCCHHHHHHHHHhCCccEEe
Q 043468 344 AKDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFY-LPYNFIPFNGSYDDLVKQLYLNNFAGVV 422 (720)
Q Consensus 344 ~~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~-~~~~~~~~~~~~~~~~~~l~~g~~Di~~ 422 (720)
...+.|+|++. +++||.+.+.++ ++.|+++|+++++++++|.+ +++... +|+.++..+.+|++|+++
T Consensus 30 ~~~~~l~v~~~---~~pP~~~~~~~g-----~~~G~~~dl~~~i~~~lg~~~~~~~~~----~w~~~~~~l~~G~~Di~~ 97 (275)
T TIGR02995 30 KEQGFARIAIA---NEPPFTYVGADG-----KVSGAAPDVARAIFKRLGIADVNASIT----EYGALIPGLQAGRFDAIA 97 (275)
T ss_pred HhCCcEEEEcc---CCCCceeECCCC-----ceecchHHHHHHHHHHhCCCceeeccC----CHHHHHHHHHCCCcCEEe
Confidence 34678999984 467777764433 78999999999999999976 344433 499999999999999998
Q ss_pred eeeeeeccceeeeeecccccccceEEEEecccCC--CcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCcc
Q 043468 423 GDVAIVARRCQYADFTHPYTESGLVMIFPVQKSG--NKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSA 500 (720)
Q Consensus 423 ~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~--~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~ 500 (720)
.+++.|++|.+.++||.||+..+..+++++.+.. .++ .++.+..
T Consensus 98 ~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~~~i~~~----------------------------------~dl~~~~ 143 (275)
T TIGR02995 98 AGLFIKPERCKQVAFTQPILCDAEALLVKKGNPKGLKSY----------------------------------KDIAKNP 143 (275)
T ss_pred ecccCCHHHHhccccccceeecceeEEEECCCCCCCCCH----------------------------------HHhccCC
Confidence 8899999999999999999999999999887521 111 1111000
Q ss_pred ccccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcC---CeEEEecC
Q 043468 501 LHQTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSN---AIIGYSRC 577 (720)
Q Consensus 501 ~~~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~---~~~~~~~~ 577 (720)
...+. ++-.+.|. +.|.+.+ .++....+
T Consensus 144 g~~Ig------------------------------v~~g~~~~-------------------~~l~~~~~~~~~i~~~~~ 174 (275)
T TIGR02995 144 DAKIA------------------------------APGGGTEE-------------------KLAREAGVKREQIIVVPD 174 (275)
T ss_pred CceEE------------------------------EeCCcHHH-------------------HHHHHcCCChhhEEEeCC
Confidence 00000 00000010 1111111 13334455
Q ss_pred cchHHHHHhcCcccEEEechhHHHHHHHhc-CCCcEeeCCee-e--cCceeeEecCCCC-ChHHHHHHHhcccccCcHHH
Q 043468 578 LGDYASDLKSRKTGAVFLEVAEAKIFLAKY-CKGFTVAGPTY-K--VGGLGFAFPKGSP-LLPSVIEALLKVSESGKLRE 652 (720)
Q Consensus 578 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~-~--~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~ 652 (720)
.++.++.|.+|++|+++.+...+.+.+++. -..+..+.... . ...++++++++++ +++.||++|.++.++|.+.+
T Consensus 175 ~~~~i~~L~~grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~~~~sG~~~~ 254 (275)
T TIGR02995 175 GQSGLKMVQDGRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAFRPEDKELRDAFNVELAKLKESGEFAK 254 (275)
T ss_pred HHHHHHHHHcCCCCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEECCCCHHHHHHHHHHHHHHHhChHHHH
Confidence 688999999999999999999888887754 22344332211 1 1233788888766 99999999999999999999
Q ss_pred HHHHhcCC
Q 043468 653 LETSMIAS 660 (720)
Q Consensus 653 ~~~~~~~~ 660 (720)
+.++|-..
T Consensus 255 i~~ky~~~ 262 (275)
T TIGR02995 255 IIAPYGFS 262 (275)
T ss_pred HHHHhCCC
Confidence 99999444
No 95
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.72 E-value=6.8e-17 Score=174.16 Aligned_cols=224 Identities=16% Similarity=0.196 Sum_probs=156.8
Q ss_pred CCCCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEe
Q 043468 343 PAKDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVV 422 (720)
Q Consensus 343 ~~~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~ 422 (720)
..+.+.|+|++.. +|+ .+...++ ...||++|+++++++++|.+++++..+ +|++++.+|.+|++|+++
T Consensus 39 I~~~g~LrVg~~~-~P~---~~~~~~~-----~~~G~~~DLl~~ia~~LGv~~e~v~~~---~~~~ll~aL~~G~iDi~~ 106 (482)
T PRK10859 39 IQERGELRVGTIN-SPL---TYYIGND-----GPTGFEYELAKRFADYLGVKLEIKVRD---NISQLFDALDKGKADLAA 106 (482)
T ss_pred HHhCCEEEEEEec-CCC---eeEecCC-----CcccHHHHHHHHHHHHhCCcEEEEecC---CHHHHHHHHhCCCCCEEe
Confidence 3467899999964 333 2222221 348999999999999999987776444 699999999999999998
Q ss_pred eeeeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCcccc
Q 043468 423 GDVAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALH 502 (720)
Q Consensus 423 ~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~ 502 (720)
+++++|++|.+.++||.||+.....+++++....... ..++.|+..-
T Consensus 107 ~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~~~i~~---------------------------------l~dL~Gk~I~ 153 (482)
T PRK10859 107 AGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQPRPRS---------------------------------LGDLKGGTLT 153 (482)
T ss_pred ccCcCChhhhccCcccCCceeeeEEEEEeCCCCCCCC---------------------------------HHHhCCCeEE
Confidence 8999999999999999999999999999876411110 0222221100
Q ss_pred ccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhh--cCCeEEEe--cCc
Q 043468 503 QTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQS--SNAIIGYS--RCL 578 (720)
Q Consensus 503 ~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~--~~~~~~~~--~~~ 578 (720)
-. -.++|. ..++++.+ .++.+-.. .+.
T Consensus 154 V~---------------------------------~gS~~~----------------~~L~~l~~~~p~i~~~~~~~~s~ 184 (482)
T PRK10859 154 VA---------------------------------AGSSHV----------------ETLQELKKKYPELSWEESDDKDS 184 (482)
T ss_pred EE---------------------------------CCCcHH----------------HHHHHHHHhCCCceEEecCCCCH
Confidence 00 000111 11122211 12232222 246
Q ss_pred chHHHHHhcCcccEEEechhHHHHHHHhcCCCcEeeCCeeecCceeeEecCC-CC-ChHHHHHHHhcccccCcHHHHHHH
Q 043468 579 GDYASDLKSRKTGAVFLEVAEAKIFLAKYCKGFTVAGPTYKVGGLGFAFPKG-SP-LLPSVIEALLKVSESGKLRELETS 656 (720)
Q Consensus 579 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~-s~-~~~~in~~i~~~~~~G~~~~~~~~ 656 (720)
++++++|.+|++|+++.+...+..... ...++.+........+++++++|+ ++ +++.+|++|.++.++|.++++.++
T Consensus 185 ~e~l~aL~~G~iDa~v~d~~~~~~~~~-~~p~l~v~~~l~~~~~~~~av~k~~~~~L~~~ln~~L~~i~~~G~l~~L~~k 263 (482)
T PRK10859 185 EELLEQVAEGKIDYTIADSVEISLNQR-YHPELAVAFDLTDEQPVAWALPPSGDDSLYAALLDFFNQIKEDGTLARLEEK 263 (482)
T ss_pred HHHHHHHHCCCCCEEEECcHHHHHHHH-hCCCceeeeecCCCceeEEEEeCCCCHHHHHHHHHHHHHhhcCCHHHHHHHH
Confidence 789999999999999999877664433 333355544444556789999994 55 999999999999999999999999
Q ss_pred hcCCC
Q 043468 657 MIASE 661 (720)
Q Consensus 657 ~~~~~ 661 (720)
|+...
T Consensus 264 yfg~~ 268 (482)
T PRK10859 264 YFGHV 268 (482)
T ss_pred Hhhhh
Confidence 99864
No 96
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.68 E-value=1.4e-15 Score=185.09 Aligned_cols=218 Identities=13% Similarity=0.139 Sum_probs=162.4
Q ss_pred CCCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEee
Q 043468 344 AKDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVG 423 (720)
Q Consensus 344 ~~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 423 (720)
.+..+++|++ .+.|+||.+.+.++ ++.||++|+++.|++++|.+++++..+ +|..+...|.+|++|++.
T Consensus 299 ~~~~~l~v~~--~~~~pP~~~~d~~g-----~~~G~~~Dll~~i~~~~g~~~~~v~~~---~~~~~~~~l~~g~~D~i~- 367 (1197)
T PRK09959 299 KQHPDLKVLE--NPYSPPYSMTDENG-----SVRGVMGDILNIITLQTGLNFSPITVS---HNIHAGTQLNPGGWDIIP- 367 (1197)
T ss_pred HHCCceEEEc--CCCCCCeeEECCCC-----cEeeehHHHHHHHHHHHCCeEEEEecC---CHHHHHHHHHCCCceEee-
Confidence 4567899988 57789999986544 899999999999999999886555444 588899999999999874
Q ss_pred eeeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCccccc
Q 043468 424 DVAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALHQ 503 (720)
Q Consensus 424 ~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~~ 503 (720)
++..|++|.+.++||.||+..+.++++++....... . ..|+..
T Consensus 368 ~~~~t~~r~~~~~fs~py~~~~~~~v~~~~~~~~~~----------------------------------~-~~g~~v-- 410 (1197)
T PRK09959 368 GAIYSEDRENNVLFAEAFITTPYVFVMQKAPDSEQT----------------------------------L-KKGMKV-- 410 (1197)
T ss_pred cccCCccccccceeccccccCCEEEEEecCCCCccc----------------------------------c-ccCCEE--
Confidence 666899999999999999999999998766311100 0 011100
Q ss_pred cchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHH-hhh--cCCeEEEecCcch
Q 043468 504 TGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIET-LQS--SNAIIGYSRCLGD 580 (720)
Q Consensus 504 ~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~d-l~~--~~~~~~~~~~~~~ 580 (720)
... .-....+ +.+ .+.++....+.++
T Consensus 411 -----------------------------------------------av~----~g~~~~~~~~~~~p~~~~~~~~~~~~ 439 (1197)
T PRK09959 411 -----------------------------------------------AIP----YYYELHSQLKEMYPEVEWIKVDNASA 439 (1197)
T ss_pred -----------------------------------------------EEe----CCcchHHHHHHHCCCcEEEEcCCHHH
Confidence 000 0001111 111 2456777777899
Q ss_pred HHHHHhcCcccEEEechhHHHHHHHhc-CCCc-EeeCCeeecCceeeEecCCCC-ChHHHHHHHhcccccCcHHHHHHHh
Q 043468 581 YASDLKSRKTGAVFLEVAEAKIFLAKY-CKGF-TVAGPTYKVGGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELETSM 657 (720)
Q Consensus 581 ~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~l-~~~~~~~~~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~~~~ 657 (720)
++++|.+|++|+++.+...+.+++++. ...+ ...........++++++|+.| |++.+|++|..+.++ .+.++.++|
T Consensus 440 ~l~av~~G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~~~~L~~~lnk~l~~i~~~-~~~~i~~kW 518 (1197)
T PRK09959 440 AFHKVKEGELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRGEPELKDIINKALNAIPPS-EVLRLTEKW 518 (1197)
T ss_pred HHHHHHcCCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCCCHHHHHHHHHHHHhCCHH-HHHHHHhhc
Confidence 999999999999999999999988875 2222 333333455678999999988 999999999999999 788999999
Q ss_pred cCCC
Q 043468 658 IASE 661 (720)
Q Consensus 658 ~~~~ 661 (720)
+...
T Consensus 519 ~~~~ 522 (1197)
T PRK09959 519 IKMP 522 (1197)
T ss_pred ccCC
Confidence 8753
No 97
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.67 E-value=6.8e-16 Score=152.07 Aligned_cols=220 Identities=14% Similarity=0.115 Sum_probs=137.3
Q ss_pred CeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHH---HHHHhCCccEEeee
Q 043468 348 PLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLV---KQLYLNNFAGVVGD 424 (720)
Q Consensus 348 ~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~---~~l~~g~~Di~~~~ 424 (720)
+|+||+ .+.|+||.+.+ + .||++||+++|++++|.+++++..+ |++++ ..|.+|++|+++ +
T Consensus 1 ~l~vg~--~~~~pPf~~~~--~-------~Gfdvdl~~~ia~~lg~~~~~~~~~----~~~~~~~~~~L~~g~~Dii~-~ 64 (246)
T TIGR03870 1 TLRVCA--ATKEAPYSTKD--G-------SGFENKIAAALAAAMGRKVVFVWLA----KPAIYLVRDGLDKKLCDVVL-G 64 (246)
T ss_pred CeEEEe--CCCCCCCccCC--C-------CcchHHHHHHHHHHhCCCeEEEEec----cchhhHHHHHHhcCCccEEE-e
Confidence 478899 57899998852 1 5999999999999999887776544 66655 699999999997 6
Q ss_pred eeeeccceeeeeecccccccceEEEEecccCC--CcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCc-cc
Q 043468 425 VAIVARRCQYADFTHPYTESGLVMIFPVQKSG--NKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGS-AL 501 (720)
Q Consensus 425 ~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~--~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~-~~ 501 (720)
++++++| +.||.||+.++.++++++.+.. ..+ ...++.|+ ..
T Consensus 65 ~~~t~~r---~~fS~PY~~~~~~~v~~k~~~~~~~~~--------------------------------~d~~L~g~~~v 109 (246)
T TIGR03870 65 LDTGDPR---VLTTKPYYRSSYVFLTRKDRNLDIKSW--------------------------------NDPRLKKVSKI 109 (246)
T ss_pred CCCChHH---HhcccCcEEeeeEEEEeCCCCCCCCCc--------------------------------cchhhccCceE
Confidence 8888877 6799999999999999987521 111 00112221 10
Q ss_pred cccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhc---CCeEEEecCc
Q 043468 502 HQTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSS---NAIIGYSRCL 578 (720)
Q Consensus 502 ~~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~---~~~~~~~~~~ 578 (720)
--. +| +.....+.... .......-..++.+. ...+. ..+.
T Consensus 110 gv~----------~g-----------------------s~~~~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 152 (246)
T TIGR03870 110 GVI----------FG-----------------------SPAETMLKQIG---RYEDNFAYLYSLVNFKSPRNQYT-QIDP 152 (246)
T ss_pred EEe----------cC-----------------------ChHHHHHHhcC---ccccccccccccccccCcccccc-cCCH
Confidence 000 00 00000000000 000000000000000 00110 0023
Q ss_pred chHHHHHhcCcccEEEechhHHHHHHHhcCCCcE--eeCCee-------e--cCceeeEecCCCC-ChHHHHHHHhcccc
Q 043468 579 GDYASDLKSRKTGAVFLEVAEAKIFLAKYCKGFT--VAGPTY-------K--VGGLGFAFPKGSP-LLPSVIEALLKVSE 646 (720)
Q Consensus 579 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~-------~--~~~~~~~~~k~s~-~~~~in~~i~~~~~ 646 (720)
++.+++|.+|++|+++.+...+.+++.+....+. .+++.. . ...++++++|+++ |++.||++|.+|.
T Consensus 153 ~~~~~aL~~GrvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~- 231 (246)
T TIGR03870 153 RKLVSEVATGKADLAVAFAPEVARYVKASPEPLRMTVIPDDATRSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK- 231 (246)
T ss_pred HHHHHHHHcCCCCEEEeeHHhHHHHHHhCCCCceEEeccccccccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH-
Confidence 5788999999999999988777777765422232 222211 1 1135899999988 9999999999999
Q ss_pred cCcHHHHHHHh
Q 043468 647 SGKLRELETSM 657 (720)
Q Consensus 647 ~G~~~~~~~~~ 657 (720)
|.+++|.++|
T Consensus 232 -~~~~~i~~~y 241 (246)
T TIGR03870 232 -PRIDAILKEE 241 (246)
T ss_pred -HHHHHHHHHc
Confidence 4899999998
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=9.2e-16 Score=153.57 Aligned_cols=232 Identities=11% Similarity=0.089 Sum_probs=151.4
Q ss_pred CCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEee
Q 043468 345 KDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVG 423 (720)
Q Consensus 345 ~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 423 (720)
...+|++++ ++|+||.+.+.+ +...|+..++++++++++ ++++++...| |++++..+ +|+.|+++.
T Consensus 16 ~~~~l~~~~---~~~pPf~~~~~~-----~~~~G~~~~i~~~i~~~~~~~~~~~~~~p----w~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 16 AKEAITWIV---NDFPPFFIFSGP-----SKGRGVFDVILQEIRRALPQYEHRFVRVS----FARSLKEL-QGKGGVCTV 82 (268)
T ss_pred ccceeEEEe---cccCCeeEeCCC-----CCCCChHHHHHHHHHHHcCCCceeEEECC----HHHHHHHH-hcCCCeEEe
Confidence 356899888 457777776432 267899999999999998 8887777655 99999999 788888877
Q ss_pred eeeeeccceeeeeecccccc-cceEEEEecccCCCccccccc-ccchhHHHHHHHHHHHHhhheeeeecccCCCccCccc
Q 043468 424 DVAIVARRCQYADFTHPYTE-SGLVMIFPVQKSGNKTLLFLK-PFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSAL 501 (720)
Q Consensus 424 ~~~~t~~r~~~~~fs~p~~~-~~~~~~v~~~~~~~~~~~~~~-pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~ 501 (720)
++++|++|.+.++||.|++. ...++++++.+... ...+-. |.++.-. .++.+..
T Consensus 83 ~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~-~~~~~d~~~~~~~l----------------------~~l~g~~- 138 (268)
T TIGR02285 83 NLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAG-VRDEQDGDVDLKKL----------------------LASKKKR- 138 (268)
T ss_pred eccCCcchhhceeecCCccccCCceEEEccchhhh-ccccCCCCccHHHH----------------------hcCCCeE-
Confidence 89999999999999999985 57888888764211 000000 0000000 0001100
Q ss_pred cccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhc-C----CeEEEec
Q 043468 502 HQTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSS-N----AIIGYSR 576 (720)
Q Consensus 502 ~~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~-~----~~~~~~~ 576 (720)
+. ++-...|.. .++++.+. + .++....
T Consensus 139 --vg------------------------------v~~g~~~~~----------------~~~~~~~~~~~~~~~~~~~~~ 170 (268)
T TIGR02285 139 --LG------------------------------VIASRSYGQ----------------QIDDILSDSGYQHNTRIIGNA 170 (268)
T ss_pred --EE------------------------------EecceeccH----------------HHHHHHHhCCcccceeeeccc
Confidence 00 000001111 12232221 1 1222223
Q ss_pred CcchHHHHHhcCcccEEEechhHHHHHHHhc---CCCcEeeCCee--ecCceeeEecCCC---CChHHHHHHHhcccccC
Q 043468 577 CLGDYASDLKSRKTGAVFLEVAEAKIFLAKY---CKGFTVAGPTY--KVGGLGFAFPKGS---PLLPSVIEALLKVSESG 648 (720)
Q Consensus 577 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~--~~~~~~~~~~k~s---~~~~~in~~i~~~~~~G 648 (720)
+.++.+++|.+|++|+++.+...+.+++++. ...+...+... ...+++++++|+. .+++.||++|.+|.++|
T Consensus 171 ~~~~~~~~L~~GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~l~~~in~~L~~l~~dG 250 (268)
T TIGR02285 171 AMGNLFKMLEKGRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHISVWVACPKTEWGRKVIADIDQALSELNVDP 250 (268)
T ss_pred hHHHHHHHHHcCCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccceEEEEEeCCCHHHHHHHHHHHHHHHHHhhCH
Confidence 3567899999999999999999888887642 22344433221 2235789999874 39999999999999999
Q ss_pred cHHHHHHHhcCCC
Q 043468 649 KLRELETSMIASE 661 (720)
Q Consensus 649 ~~~~~~~~~~~~~ 661 (720)
.++++.++|+...
T Consensus 251 ~~~~i~~k~~~~~ 263 (268)
T TIGR02285 251 KYYKYFDRWLSPE 263 (268)
T ss_pred HHHHHHHHhCCHh
Confidence 9999999999653
No 99
>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=99.66 E-value=3.6e-17 Score=147.85 Aligned_cols=103 Identities=30% Similarity=0.527 Sum_probs=76.1
Q ss_pred chhHHHHHHHHHHHHhhheeeeecccCCCccC-------ccccccchhhhhhh---hccC--CcccccchhHHHHHHHHH
Q 043468 467 TRAVWILVAVISIYNGFVVWLIERNHWPELTG-------SALHQTGTFFWLSF---NLHG--EKLHSNLSRMTTLVWLFV 534 (720)
Q Consensus 467 ~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~-------~~~~~~~~~~~~~~---~~~g--~~~~~~~~R~~~~~~~l~ 534 (720)
++++|++++++++++++++|++.|..+.+.+. .....+.+++|+.+ ++|+ ..|++.++|++.++|+++
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 47899999999999999999999987666554 12234667888888 4454 347999999999999999
Q ss_pred HHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcC
Q 043468 535 ALVISQTYTANLTSMLTARGLEPTVNNIETLQSSN 569 (720)
Q Consensus 535 ~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~ 569 (720)
++++.++|+|+|+++|+.++..++|+|++||.+++
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 115 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKYEPPIDSLEDLANSG 115 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHHTHS
T ss_pred HHHHHHHHHHHHHHHhcccCcCCCCCCHHHHHHCC
Confidence 99999999999999999999999999999999765
No 100
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.56 E-value=3e-14 Score=173.45 Aligned_cols=222 Identities=10% Similarity=0.012 Sum_probs=163.3
Q ss_pred cCCCCCCeEEeecCCCccccceEe-eeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccE
Q 043468 342 LPAKDQPLRIGVPIGSEFQQYVNV-EYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAG 420 (720)
Q Consensus 342 ~~~~~~~l~v~~~~~~p~~p~~~~-~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di 420 (720)
+..+.++++||+. ++++|+.+. +.++ ++.||.+|+++.|++++|.+++++..+ +|++++.+|++|++|+
T Consensus 51 ~l~~~~~l~vgv~--~~~~p~~~~~~~~g-----~~~G~~~D~l~~ia~~lG~~~e~v~~~---~~~~~l~~l~~g~iDl 120 (1197)
T PRK09959 51 WLASKKNLVIAVH--KSQTATLLHTDSQQ-----RVRGINADYLNLLKRALNIKLTLREYA---DHQKAMDALEEGEVDI 120 (1197)
T ss_pred HHhhCCeEEEEec--CCCCCCceeecCCC-----ccceecHHHHHHHHHhcCCceEEEeCC---CHHHHHHHHHcCCCcE
Confidence 3456788999994 455444333 3333 899999999999999999887766544 6999999999999999
Q ss_pred EeeeeeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCcc
Q 043468 421 VVGDVAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSA 500 (720)
Q Consensus 421 ~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~ 500 (720)
+++.++.+++|.+.++||.||+.....+++++....... .++.+..
T Consensus 121 ~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~~~~~~----------------------------------~~l~~~~ 166 (1197)
T PRK09959 121 VLSHLVASPPLNDDIAATKPLIITFPALVTTLHDSMRPL----------------------------------TSSKPVN 166 (1197)
T ss_pred ecCccccccccccchhcCCCccCCCceEEEeCCCCCCCc----------------------------------ccccCeE
Confidence 988889999999999999999999999999886422211 1111110
Q ss_pred ccccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhh---cCCeEEEecC
Q 043468 501 LHQTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQS---SNAIIGYSRC 577 (720)
Q Consensus 501 ~~~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~---~~~~~~~~~~ 577 (720)
. ... .-.+.++... .+.++....+
T Consensus 167 i-------------------------------------------------~~~----~g~~~~~~~~~~~p~~~i~~~~s 193 (1197)
T PRK09959 167 I-------------------------------------------------ARV----ANYPPDEVIHQSFPKATIISFTN 193 (1197)
T ss_pred E-------------------------------------------------EEe----CCCCCHHHHHHhCCCCEEEeCCC
Confidence 0 000 0001111111 2356777778
Q ss_pred cchHHHHHhcCcccEEEechhHHHHHHHhc-CCCcEeeCCe-eecCceeeEecCCCC-ChHHHHHHHhcccccCcHHHHH
Q 043468 578 LGDYASDLKSRKTGAVFLEVAEAKIFLAKY-CKGFTVAGPT-YKVGGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELE 654 (720)
Q Consensus 578 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~-~~~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~ 654 (720)
..+++++|.+|++|+++.+...+.++++++ -..+.+.+.. .....++++++|+.+ ++..+|++|..+.++|.. ++.
T Consensus 194 ~~~al~av~~G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~lnkal~~i~~~~~~-~i~ 272 (1197)
T PRK09959 194 LYQALASVSAGQNDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFLTRKESVILNEVLNRFVDALTNEVRY-EVS 272 (1197)
T ss_pred HHHHHHHHHcCCCCEEEccHHHHHHHHhcccccceEEEeeccCCCCceeEEEcCCcHHHHHHHHHHHHhCCHHHHH-HHH
Confidence 899999999999999999999999998865 3334444322 223345688899988 899999999999999987 999
Q ss_pred HHhcCCC
Q 043468 655 TSMIASE 661 (720)
Q Consensus 655 ~~~~~~~ 661 (720)
++|+...
T Consensus 273 ~kW~~~~ 279 (1197)
T PRK09959 273 QNWLDTG 279 (1197)
T ss_pred HhccCCC
Confidence 9998754
No 101
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.56 E-value=1e-13 Score=140.09 Aligned_cols=227 Identities=21% Similarity=0.257 Sum_probs=158.5
Q ss_pred CCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeee
Q 043468 345 KDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGD 424 (720)
Q Consensus 345 ~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 424 (720)
....++|++.. ...+||.+.+... +++.||++|+++.+++.++........+ .+|++++..|.+|++|+.+.+
T Consensus 32 ~~~~~~v~~~~-~~~~p~~~~~~~~----~~~~G~dvdl~~~ia~~l~~~~~~~~~~--~~~~~~~~~l~~g~~D~~~~~ 104 (275)
T COG0834 32 ARGKLRVGTEA-TYAPPFEFLDAKG----GKLVGFDVDLAKAIAKRLGGDKKVEFVP--VAWDGLIPALKAGKVDIIIAG 104 (275)
T ss_pred hcCeEEEEecC-CCCCCcccccCCC----CeEEeeeHHHHHHHHHHhCCcceeEEec--cchhhhhHHHhcCCcCEEEec
Confidence 45678888863 3344776654331 3899999999999999998763222222 259999999999999999999
Q ss_pred eeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCcccccc
Q 043468 425 VAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALHQT 504 (720)
Q Consensus 425 ~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~ 504 (720)
+++|++|.+.++||.||+..+..+++++.+..... ...++.++..-
T Consensus 105 ~~~t~er~~~~~fs~py~~~~~~~~~~~~~~~~~~--------------------------------~~~DL~gk~v~-- 150 (275)
T COG0834 105 MTITPERKKKVDFSDPYYYSGQVLLVKKDSDIGIK--------------------------------SLEDLKGKKVG-- 150 (275)
T ss_pred cccCHHHhccccccccccccCeEEEEECCCCcCcC--------------------------------CHHHhCCCEEE--
Confidence 99999999999999999999999999988632200 11233332100
Q ss_pred chhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhh---cCCeEEEecCcchH
Q 043468 505 GTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQS---SNAIIGYSRCLGDY 581 (720)
Q Consensus 505 ~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~---~~~~~~~~~~~~~~ 581 (720)
...... ...++... ....+....+..+.
T Consensus 151 -----------------------------------------------v~~gt~--~~~~~~~~~~~~~~~~~~~~~~~~~ 181 (275)
T COG0834 151 -----------------------------------------------VQLGTT--DEAEEKAKKPGPNAKIVAYDSNAEA 181 (275)
T ss_pred -----------------------------------------------EEcCcc--hhHHHHHhhccCCceEEeeCCHHHH
Confidence 000000 00111111 12344444456778
Q ss_pred HHHHhcCcccEEEechhHHHHH--HHhcCCCcEeeCCeeec-CceeeEecCC--CCChHHHHHHHhcccccCcHHHHHHH
Q 043468 582 ASDLKSRKTGAVFLEVAEAKIF--LAKYCKGFTVAGPTYKV-GGLGFAFPKG--SPLLPSVIEALLKVSESGKLRELETS 656 (720)
Q Consensus 582 ~~~l~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~-~~~~~~~~k~--s~~~~~in~~i~~~~~~G~~~~~~~~ 656 (720)
+.++.+|++|+++.+...+.+. ..+.............. .+++++++|+ ..+++.+|..|.++.++|.+.++.++
T Consensus 182 ~~al~~Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~in~~l~~l~~~G~~~~i~~k 261 (275)
T COG0834 182 LLALKNGRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIALRKGDDPELLEAVNKALKELKADGTLQKISDK 261 (275)
T ss_pred HHHHHcCCccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEeccCCcHHHHHHHHHHHHHHHhCccHHHHHHH
Confidence 9999999999999999988884 33332212223333333 6889999998 46999999999999999999999999
Q ss_pred hcCCC
Q 043468 657 MIASE 661 (720)
Q Consensus 657 ~~~~~ 661 (720)
|+...
T Consensus 262 w~~~~ 266 (275)
T COG0834 262 WFGPD 266 (275)
T ss_pred hcCcc
Confidence 99864
No 102
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=99.54 E-value=1.3e-13 Score=135.23 Aligned_cols=219 Identities=16% Similarity=0.125 Sum_probs=136.9
Q ss_pred CeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeee
Q 043468 348 PLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAI 427 (720)
Q Consensus 348 ~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~ 427 (720)
.|||++ ++.|+||.+. ...|+++||++++++++|.+++++..+. .+..++..+++|++|++++
T Consensus 1 ~l~v~~--~~~~~P~~~~---------~~~G~~~el~~~i~~~~g~~i~~~~~~~--~~~~~~~~l~~g~~Di~~~---- 63 (232)
T TIGR03871 1 ALRVCA--DPNNLPFSNE---------KGEGFENKIAQLLADDLGLPLEYTWFPQ--RRGFVRNTLNAGRCDVVIG---- 63 (232)
T ss_pred CeEEEe--CCCCCCccCC---------CCCchHHHHHHHHHHHcCCceEEEecCc--chhhHHHHHhcCCccEEEe----
Confidence 378887 4667887652 2369999999999999999988876663 2444677899999999864
Q ss_pred eccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCC--ccCccccccc
Q 043468 428 VARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPE--LTGSALHQTG 505 (720)
Q Consensus 428 t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~--~~~~~~~~~~ 505 (720)
+++|.+.++||.||+..+.++++++.+.. .+. +..+ +.+... .
T Consensus 64 ~~~r~~~~~fs~py~~~~~~lv~~~~~~~-~~~-------------------------------~~~d~~l~g~~V---~ 108 (232)
T TIGR03871 64 VPAGYEMVLTTRPYYRSTYVFVTRKDSLL-DVK-------------------------------SLDDPRLKKLRI---G 108 (232)
T ss_pred ccCccccccccCCcEeeeEEEEEeCCCcc-ccc-------------------------------chhhhhhcCCeE---E
Confidence 57788999999999999999999887411 110 0011 122100 0
Q ss_pred hhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcchHHHHH
Q 043468 506 TFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLGDYASDL 585 (720)
Q Consensus 506 ~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~~~~~~l 585 (720)
. .. .+.+. .++........+.... . ........+.++.+.+|
T Consensus 109 v-------~~-----------------------g~~~~----~~l~~~~~~~~~~~~~-~---~~~~~~~~~~~~~~~~l 150 (232)
T TIGR03871 109 V-------FA-----------------------GTPPA----HWLARHGLVENVVGYS-L---FGDYRPESPPGRMVEDL 150 (232)
T ss_pred E-------Ec-----------------------CChHH----HHHHhcCccccccccc-c---cccccccCCHHHHHHHH
Confidence 0 00 00000 0111000000100000 0 00000012347889999
Q ss_pred hcCcccEEEechhHHHHHHHhcCCCcEeeCCee------ecCceeeEecCCCC-ChHHHHHHHhcccccCcHHHHHHHhc
Q 043468 586 KSRKTGAVFLEVAEAKIFLAKYCKGFTVAGPTY------KVGGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELETSMI 658 (720)
Q Consensus 586 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------~~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~~~~~ 658 (720)
.+|++|+++.+...+.+++++....+.+..... ...+++++++++++ +++.+|.+|.++. |.++++.++|.
T Consensus 151 ~~G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~~~--~~~~~i~~kyg 228 (232)
T TIGR03871 151 AAGEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDYRIAMGVRKGDKAWKDELNAVLDRRQ--AEIDAILREYG 228 (232)
T ss_pred HcCCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccceEEEEEecCCHHHHHHHHHHHHHHH--HHHHHHHHHcC
Confidence 999999999998888877775422244332211 22356788898866 9999999999985 47899999984
No 103
>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=99.54 E-value=2.6e-13 Score=131.39 Aligned_cols=214 Identities=21% Similarity=0.336 Sum_probs=151.6
Q ss_pred eEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeee
Q 043468 349 LRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIV 428 (720)
Q Consensus 349 l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t 428 (720)
|+|++ .+.++||.+.+. ++++.|+..++++.++++++.++++...+ |.+++.+|.+|++|+++.....+
T Consensus 1 l~i~~--~~~~~p~~~~~~-----~g~~~G~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~l~~g~~D~~~~~~~~~ 69 (218)
T cd00134 1 LTVGT--AGTYPPFSFRDA-----NGELTGFDVDLAKAIAKELGVKVKFVEVD----WDGLITALKSGKVDLIAAGMTIT 69 (218)
T ss_pred CEEec--CCCCCCeeEECC-----CCCEEeeeHHHHHHHHHHhCCeEEEEeCC----HHHHHHHHhcCCcCEEeecCcCC
Confidence 46777 356778877543 34899999999999999999776655544 89999999999999998777788
Q ss_pred ccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCccccccchhh
Q 043468 429 ARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALHQTGTFF 508 (720)
Q Consensus 429 ~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~ 508 (720)
.+|.+.+.|+.|+......+++++....... .++.|+..-...
T Consensus 70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------~dl~g~~i~~~~--- 112 (218)
T cd00134 70 PERAKQVDFSDPYYKSGQVILVKKGSPIKSV----------------------------------KDLKGKKVAVQK--- 112 (218)
T ss_pred HHHHhhccCcccceeccEEEEEECCCCCCCh----------------------------------HHhCCCEEEEEc---
Confidence 8999999999999999999999987533211 222221100000
Q ss_pred hhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcchHHHHHhcC
Q 043468 509 WLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLGDYASDLKSR 588 (720)
Q Consensus 509 ~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~~~~~~l~~~ 588 (720)
...+...+...+ . ...+....+.++.++.+.+|
T Consensus 113 ------------------------------~~~~~~~~~~~~----------------~-~~~~~~~~~~~~~~~~l~~g 145 (218)
T cd00134 113 ------------------------------GSTAEKYLKKAL----------------P-EAKVVSYDDNAEALAALENG 145 (218)
T ss_pred ------------------------------CchHHHHHHHhC----------------C-cccEEEeCCHHHHHHHHHcC
Confidence 000000000000 0 12333344467899999999
Q ss_pred cccEEEechhHHHHHHHhc-CCCcEeeCCe--eecCceeeEecCCCC-ChHHHHHHHhcccccCcHHHHHHHhc
Q 043468 589 KTGAVFLEVAEAKIFLAKY-CKGFTVAGPT--YKVGGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELETSMI 658 (720)
Q Consensus 589 ~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~--~~~~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~~~~~ 658 (720)
++|+++.+.....+..++. +. +.++... .....++++.+++++ +.+.+|++|.+++++|.++.+.++|+
T Consensus 146 ~~d~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 146 RADAVIVDEIALAALLKKHPPE-LKIVGPSIDLEPLGFGVAVGKDNKELLDAVNKALKELRADGELKKISKKWF 218 (218)
T ss_pred CccEEEeccHHHHHHHHhcCCC-cEEeccccCCCccceEEEEcCCCHHHHHHHHHHHHHHHhCccHHHHHHhhC
Confidence 9999999998888877665 43 6666553 333445666666664 99999999999999999999999986
No 104
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.53 E-value=2.1e-13 Score=132.09 Aligned_cols=216 Identities=22% Similarity=0.372 Sum_probs=155.2
Q ss_pred CeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeee
Q 043468 348 PLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAI 427 (720)
Q Consensus 348 ~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~ 427 (720)
+|+|++. +.++||.+.+.++ .+.|+..|+++.+.+++|.++++... +|..++..+.+|++|+++++...
T Consensus 1 ~l~v~~~--~~~~p~~~~~~~g-----~~~G~~~~~~~~~~~~~g~~~~~~~~----~~~~~~~~l~~g~~D~~~~~~~~ 69 (219)
T smart00062 1 TLRVGTN--GDYPPFSFADEDG-----ELTGFDVDLAKAIAKELGLKVEFVEV----SFDNLLTALKSGKIDVVAAGMTI 69 (219)
T ss_pred CEEEEec--CCCCCcEEECCCC-----CcccchHHHHHHHHHHhCCeEEEEec----cHHHHHHHHHCCcccEEeccccC
Confidence 4788884 6677777754433 79999999999999999977666543 48999999999999999887777
Q ss_pred eccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCccccccchh
Q 043468 428 VARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALHQTGTF 507 (720)
Q Consensus 428 t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~ 507 (720)
+.+|.+.+.++.|+......+++++.....++ .++.|+......
T Consensus 70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------~dL~g~~i~~~~-- 113 (219)
T smart00062 70 TPERAKQVDFSDPYYKSGQVILVRKDSPIKSL----------------------------------EDLKGKKVAVVA-- 113 (219)
T ss_pred CHHHHhheeeccceeeceeEEEEecCCCCCCh----------------------------------HHhCCCEEEEec--
Confidence 88888889999999999999999877532211 222221100000
Q ss_pred hhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcchHHHHHhc
Q 043468 508 FWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLGDYASDLKS 587 (720)
Q Consensus 508 ~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~~~~~~l~~ 587 (720)
...+...+. +. ..+.++-...+..+.+.+|.+
T Consensus 114 -------------------------------g~~~~~~~~----------------~~-~~~~~~~~~~~~~~~~~~l~~ 145 (219)
T smart00062 114 -------------------------------GTTGEELLK----------------KL-YPEAKIVSYDSQAEALAALKA 145 (219)
T ss_pred -------------------------------CccHHHHHH----------------Hh-CCCceEEEcCCHHHHHHHhhc
Confidence 000000000 00 112334444446788899999
Q ss_pred CcccEEEechhHHHHHHHhc-CCCcEeeCCeeec-CceeeEecCCCC-ChHHHHHHHhcccccCcHHHHHHHhc
Q 043468 588 RKTGAVFLEVAEAKIFLAKY-CKGFTVAGPTYKV-GGLGFAFPKGSP-LLPSVIEALLKVSESGKLRELETSMI 658 (720)
Q Consensus 588 ~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~-~~~~~~~~k~s~-~~~~in~~i~~~~~~G~~~~~~~~~~ 658 (720)
|++|+++.......+...+. -..+.++...... ..++++++++++ +.+.+++.|.++.++|.++++.++|+
T Consensus 146 g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 146 GRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPELLDKINKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred CcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCHHHHHHHHHHHHHHHhCchHHHHHhccC
Confidence 99999999998887777664 2336666555544 778899999986 99999999999999999999999985
No 105
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.38 E-value=1.1e-12 Score=126.28 Aligned_cols=226 Identities=16% Similarity=0.139 Sum_probs=164.1
Q ss_pred ccCCCCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccE
Q 043468 341 TLPAKDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAG 420 (720)
Q Consensus 341 ~~~~~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di 420 (720)
......+.|||++.++| ...| .. ++...|+++++.+.+|+.||.++++...+ +-+.++.+|.+|++|+
T Consensus 17 ~~Iq~rGvLrV~tinsp-~sy~---~~-----~~~p~G~eYelak~Fa~yLgV~Lki~~~~---n~dqLf~aL~ng~~DL 84 (473)
T COG4623 17 AAIQARGVLRVSTINSP-LSYF---ED-----KGGPTGLEYELAKAFADYLGVKLKIIPAD---NIDQLFDALDNGNADL 84 (473)
T ss_pred HHHHhcCeEEEEeecCc-ccee---cc-----CCCccchhHHHHHHHHHHhCCeEEEEecC---CHHHHHHHHhCCCcce
Confidence 33456899999998744 3322 11 22567999999999999999886666555 4689999999999999
Q ss_pred EeeeeeeeccceeeeeecccccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCcc
Q 043468 421 VVGDVAIVARRCQYADFTHPYTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSA 500 (720)
Q Consensus 421 ~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~ 500 (720)
+.+++...++|.+.+.....|+..++.++.++....++.+ .++.|+
T Consensus 85 ~Aagl~~~~~~l~~~~~gP~y~svs~qlVyRkG~~Rp~~l---------------------------------~~L~g~- 130 (473)
T COG4623 85 AAAGLLYNSERLKNFQPGPTYYSVSQQLVYRKGQYRPRSL---------------------------------GQLKGR- 130 (473)
T ss_pred ecccccCChhHhcccCCCCceecccHHHHhhcCCCCCCCH---------------------------------HHccCc-
Confidence 9999999999999999999999999999999987444321 222221
Q ss_pred ccccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeE-----EEe
Q 043468 501 LHQTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAII-----GYS 575 (720)
Q Consensus 501 ~~~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~-----~~~ 575 (720)
.++..+.....+++..+.+..++. --.
T Consensus 131 ------------------------------------------------~i~v~~gs~~~~~l~~lk~~kyP~l~~k~d~~ 162 (473)
T COG4623 131 ------------------------------------------------QITVAKGSAHVEDLKLLKETKYPELIWKVDDK 162 (473)
T ss_pred ------------------------------------------------eeeccCCcHHHHHHHHHHHhhcchhhhhhccc
Confidence 111111122223333333322211 112
Q ss_pred cCcchHHHHHhcCcccEEEechhHHHHHHHhcCCCcEeeCCeeecCceeeEecCC--CCChHHHHHHHhcccccCcHHHH
Q 043468 576 RCLGDYASDLKSRKTGAVFLEVAEAKIFLAKYCKGFTVAGPTYKVGGLGFAFPKG--SPLLPSVIEALLKVSESGKLREL 653 (720)
Q Consensus 576 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~--s~~~~~in~~i~~~~~~G~~~~~ 653 (720)
.+.++.++.+..|++|+.+.|+..+....+-.. ++.+.-+.-...+.++++|.+ +.+...++.++..+.+.|.++++
T Consensus 163 ~~~~dLle~v~~Gkldytiads~~is~~q~i~P-~laVafd~tde~~v~Wy~~~~dd~tL~a~ll~F~~~~~e~g~larl 241 (473)
T COG4623 163 LGVEDLLEMVAEGKLDYTIADSVEISLFQRVHP-ELAVAFDLTDEQPVAWYLPRDDDSTLSAALLDFLNEAKEDGLLARL 241 (473)
T ss_pred ccHHHHHHHHhcCCcceeeeccHHHHHHHHhCc-cceeeeecccccCceeeccCCchHHHHHHHHHHHHHhhcchHHHHH
Confidence 237899999999999999999887765544333 366665655668899999986 44999999999999999999999
Q ss_pred HHHhcCCC
Q 043468 654 ETSMIASE 661 (720)
Q Consensus 654 ~~~~~~~~ 661 (720)
++||++..
T Consensus 242 eeky~gH~ 249 (473)
T COG4623 242 EEKYLGHG 249 (473)
T ss_pred HHHHhccc
Confidence 99999764
No 106
>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=99.22 E-value=3e-10 Score=113.80 Aligned_cols=164 Identities=23% Similarity=0.337 Sum_probs=132.3
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
.+++++++|+.++.....+.+.+...++|+|+.++..+... .+++++++.|++...++.+++++.+.+|+++++++.+
T Consensus 56 ~~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~ 133 (269)
T cd01391 56 QQGVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGD 133 (269)
T ss_pred HcCCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecC
Confidence 46899999999887776688899999999999887655443 5689999999999999999999999999999999987
Q ss_pred C-CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC-CCeEEEEEcCHHHHHHHHHHHHHcCCCCCCe
Q 043468 86 I-DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG-QCRVFVVHLSLELAVHLFEKANKMKMMEKDY 163 (720)
Q Consensus 86 ~-~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~-~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~ 163 (720)
. ..+ ....+.+++.+++.|+++......+.....+++...+.+++. ++++|+..++ ..+..+++++.+.|+.++++
T Consensus 134 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~ 211 (269)
T cd01391 134 DGAYG-RERLEGFKAALKKAGIEVVAIEYGDLDTEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDI 211 (269)
T ss_pred Ccchh-hHHHHHHHHHHHhcCcEEEeccccCCCccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCC
Confidence 7 333 333788999999999877665555444322788888888876 7899888777 89999999999999975567
Q ss_pred EEEEeCcccc
Q 043468 164 IWITTDAFTS 173 (720)
Q Consensus 164 ~~i~~~~~~~ 173 (720)
.|++.+.+..
T Consensus 212 ~ii~~~~~~~ 221 (269)
T cd01391 212 SIIGFDGSPA 221 (269)
T ss_pred EEEecccccc
Confidence 7777766543
No 107
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=98.97 E-value=2.7e-09 Score=94.43 Aligned_cols=80 Identities=31% Similarity=0.511 Sum_probs=72.8
Q ss_pred cchHHHHHhcCcccEEEechhHHHHHHHhcCCCcEeeCCeeecCceeeEecCCCCChHHHHHHHhcccccCcHHHHHHHh
Q 043468 578 LGDYASDLKSRKTGAVFLEVAEAKIFLAKYCKGFTVAGPTYKVGGLGFAFPKGSPLLPSVIEALLKVSESGKLRELETSM 657 (720)
Q Consensus 578 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~~~~~in~~i~~~~~~G~~~~~~~~~ 657 (720)
..+++.+|++|+ |+++.+...+.++.++.|+ +.+++..+...+++++++|+++|++.+|.+|.+|.++|.++++.++|
T Consensus 54 ~~~~~~~l~~g~-da~v~d~~~~~~~~~~~~~-~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw 131 (134)
T smart00079 54 YAEGVQRVRVSN-YAFLMESTYLDYELSQNCD-LMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKW 131 (134)
T ss_pred HHHHHHHHHcCC-CEEEeehHhHHHHHhCCCC-eEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhh
Confidence 467778889999 9999999999988877786 88888888888999999999999999999999999999999999999
Q ss_pred cC
Q 043468 658 IA 659 (720)
Q Consensus 658 ~~ 659 (720)
+.
T Consensus 132 ~~ 133 (134)
T smart00079 132 WK 133 (134)
T ss_pred cc
Confidence 86
No 108
>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=98.92 E-value=3.9e-10 Score=82.06 Aligned_cols=55 Identities=27% Similarity=0.550 Sum_probs=44.3
Q ss_pred cceEeeec--cCCCceeEEEEeHHHHHHHHHhCCCccceEEecC--------CCCHHHHHHHHHh
Q 043468 361 QYVNVEYD--ELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPF--------NGSYDDLVKQLYL 415 (720)
Q Consensus 361 p~~~~~~~--~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~--------~~~~~~~~~~l~~ 415 (720)
||++..++ ...++.++.|+++||+++||+.+||++++..+++ +|+|+|++++|.+
T Consensus 1 Pfvm~~~~~~~~~g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 1 PFVMLKEDGENLTGNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp TTBEE-TTSSGSBGGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CeEEEecCCcccCCCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 56676555 4567889999999999999999999999988874 5899999999874
No 109
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=98.76 E-value=3.5e-07 Score=99.20 Aligned_cols=256 Identities=14% Similarity=0.121 Sum_probs=138.3
Q ss_pred cCCeEEEECCCCChhhHHHHHhhcc--CCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASK--KQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIY 83 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~--~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~ 83 (720)
.+++.+||||..-+...+++..-.. -.+|++.....+.. .. -+.+|.++=+.+.+++.+++.+...|+++..||+
T Consensus 276 ~~ga~~ViGPL~k~~V~~l~~~~~~~~~~vp~LaLN~~~~~-~~--~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~ 352 (536)
T PF04348_consen 276 ADGADFVIGPLLKSNVEALAQLPQLQAQPVPVLALNQPDNS-QA--PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLA 352 (536)
T ss_dssp HTT--EEE---SHHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEE
T ss_pred HcCCCEEEcCCCHHHHHHHHhcCcccccCCceeeccCCCcc-cC--ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEc
Confidence 5799999999998777777665442 58999988765544 21 2455666666677899999999999999999999
Q ss_pred EcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCe
Q 043468 84 EDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKDY 163 (720)
Q Consensus 84 ~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~ 163 (720)
.+++.|..- .+.|.+.+.+.|+.++....+... . ++...++.-.+.+.|.||+...+.+++.+--...-. ...+.
T Consensus 353 p~~~~g~R~-~~aF~~~W~~~gg~~~~~~~~~~~-~-~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~--~a~~l 427 (536)
T PF04348_consen 353 PQNAWGQRM-AEAFNQQWQALGGQVAEVSYYGSP-A-DLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH--FAGDL 427 (536)
T ss_dssp ESSHHHHHH-HHHHHHHHHHHHSS--EEEEESST-T-HHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT---T-TT-
T ss_pred CCChHHHHH-HHHHHHHHHHcCCCceeeEecCCH-H-HHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc--cCCCC
Confidence 999998766 999999999999988777777643 3 888888866667899999999999888876555432 22355
Q ss_pred EEEEeCcccccccccCcchhhhccccEEEEecCC--CCChhHHHHHHHHHHHhcccCCCCCCCCCCCchhhhHhhHHHHH
Q 043468 164 IWITTDAFTSLVHSINTSSISSMQGILGVRSHFP--EDKPKFQDFCKRFRKRFGAEYPEEDNNHEPGALAVQTYDAVWSV 241 (720)
Q Consensus 164 ~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ydav~~~ 241 (720)
+.+.++..... ..+......++|+..+....- ...+. .+.+...+.... . ...-..+.+|||..+.
T Consensus 428 PvyatS~~~~g--~~~~~~~~dL~gv~f~d~Pwll~~~~~~----~~~~~~~~~~~~-----~-~~~RL~AlG~DA~~L~ 495 (536)
T PF04348_consen 428 PVYATSRSYSG--SPNPSQDRDLNGVRFSDMPWLLDPNSPL----RQQLAALWPNAS-----N-SLQRLYALGIDAYRLA 495 (536)
T ss_dssp EEEE-GGG--H--HT-HHHHHHTTT-EEEE-GGGG---SHH----HHHHH-HHTTT------H-HHHHHHHHHHHHHHHH
T ss_pred CEEEeccccCC--CCCcchhhhhcCCEEeccccccCCCchH----HHHHHhhccCCc-----c-HHHHHHHHHHHHHHHH
Confidence 66666665322 112233467889885543221 11222 233443332200 0 0112345677775554
Q ss_pred HHHHHHHHHHhHHHHHHHHHcccccCceeeEEEecCCcCCCCeEEEEEeec
Q 043468 242 ALAMEQKSEKLNQKLLRRILLSDFDGLTGKVEFMNQKVAPAHTYQIINLMG 292 (720)
Q Consensus 242 a~al~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~ 292 (720)
.+ +. -...+.+..+.|.+|.+++|++|.. .......++++
T Consensus 496 ~~-l~---------~l~~~~~~~~~G~TG~L~~~~~g~i-~R~l~wa~f~~ 535 (536)
T PF04348_consen 496 PR-LP---------QLRQFPGYRLDGLTGQLSLDEDGRI-ERQLSWAQFRN 535 (536)
T ss_dssp HT-HH---------HHHHSTT--EEETTEEEEE-TT-BE-EEE-EEEEEET
T ss_pred HH-HH---------HHhhCCCCcccCCceeEEECCCCeE-EEeecceeecC
Confidence 32 11 1223344578999999999988854 36666555554
No 110
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=98.75 E-value=8.8e-08 Score=95.24 Aligned_cols=211 Identities=13% Similarity=0.065 Sum_probs=126.6
Q ss_pred CCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeee
Q 043468 345 KDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGD 424 (720)
Q Consensus 345 ~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 424 (720)
..++|+||+. +.++|+ .+.+...++.+.+++++|.++++... ++|..++..+.+|++|+++.+
T Consensus 30 ~~~~l~vg~~--~~~~~~------------~~~~~~~~l~~~l~~~~g~~v~~~~~---~~~~~~~~~l~~g~~Di~~~~ 92 (254)
T TIGR01098 30 VPKELNFGIL--PGENAS------------NLTRRWEPLADYLEKKLGIKVQLFVA---TDYSAVIEAMRFGRVDIAWFG 92 (254)
T ss_pred CCCceEEEEC--CCCCHH------------HHHHHHHHHHHHHHHHhCCcEEEEeC---CCHHHHHHHHHcCCccEEEEC
Confidence 3468999993 555443 22344578999999999988666543 368999999999999999865
Q ss_pred eeeec---cceeeeeeccccccc------ceEEEEecccCCCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCC
Q 043468 425 VAIVA---RRCQYADFTHPYTES------GLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPE 495 (720)
Q Consensus 425 ~~~t~---~r~~~~~fs~p~~~~------~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~ 495 (720)
..... +|.+...|+.|+... ...+++++.....++ .+
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~~i~~~----------------------------------~d 138 (254)
T TIGR01098 93 PSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADSPIKSL----------------------------------KD 138 (254)
T ss_pred cHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCCCCCCh----------------------------------HH
Confidence 54332 566667788876543 257777776433222 33
Q ss_pred ccCccccccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEe
Q 043468 496 LTGSALHQTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYS 575 (720)
Q Consensus 496 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~ 575 (720)
+.|+..-... +.+.+..++ . ...+.... .+ +.++. ...+...
T Consensus 139 L~gk~I~~~~-------------~~s~~~~~~------~------------~~~l~~~~---~~-~~~~~---~~~i~~~ 180 (254)
T TIGR01098 139 LKGKTFAFGD-------------PASTSGYLV------P------------RYQLKKEG---GL-DADGF---FSEVVFS 180 (254)
T ss_pred hcCCEEEeeC-------------CCCccchHh------H------------HHHHHHhc---CC-ChHHh---hhheeec
Confidence 3332110000 000000000 0 00000000 00 00000 0122233
Q ss_pred cCcchHHHHHhcCcccEEEechhHHHHHHHhcC---CCcEeeCCeeecCceeeEecCC-CC-ChHHHHHHHhcc
Q 043468 576 RCLGDYASDLKSRKTGAVFLEVAEAKIFLAKYC---KGFTVAGPTYKVGGLGFAFPKG-SP-LLPSVIEALLKV 644 (720)
Q Consensus 576 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~~~~~~k~-s~-~~~~in~~i~~~ 644 (720)
.+..+.++++.+|++|+++.+......+..+.. ..+.++.......+++++++|+ .+ +++.+|++|..+
T Consensus 181 ~~~~~~~~al~~G~~Da~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 181 GSHDASALAVANGKVDAATNNSSAIGRLKKRGPSDMKKVRVIWKSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred CchHHHHHHHHcCCCCeEEecHHHHHHHHHhCccchhheEEEEecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 335678999999999999999988877666542 2467777666666789999999 54 999999998753
No 111
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.32 E-value=3.3e-06 Score=84.70 Aligned_cols=163 Identities=12% Similarity=0.088 Sum_probs=110.0
Q ss_pred CHHHHHHHHHhCCccEEeeeeeeeccceeeeeeccc--ccccceEEEEecccCCCcccccccccchhHHHHHHHHHHHHh
Q 043468 405 SYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHP--YTESGLVMIFPVQKSGNKTLLFLKPFTRAVWILVAVISIYNG 482 (720)
Q Consensus 405 ~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p--~~~~~~~~~v~~~~~~~~~~~~~~pf~~~~W~~i~~~~~~~~ 482 (720)
+|.+++..|.+|++|+++++..++.+|.+.++|+.| |....+++++|+.....+.
T Consensus 52 ~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~~i~sl----------------------- 108 (287)
T PRK00489 52 RPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDSDWQGV----------------------- 108 (287)
T ss_pred CcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCCCCCCh-----------------------
Confidence 378999999999999999999999999999999988 6777788888877432221
Q ss_pred hheeeeecccCCCccCccccccchhhhhhhhccCCcccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhccccCCCCCCh
Q 043468 483 FVVWLIERNHWPELTGSALHQTGTFFWLSFNLHGEKLHSNLSRMTTLVWLFVALVISQTYTANLTSMLTARGLEPTVNNI 562 (720)
Q Consensus 483 ~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~ 562 (720)
.++.|+... +.|...+..++
T Consensus 109 -----------~DL~Gk~ia-------------------------------------~~~~~~~~~~l------------ 128 (287)
T PRK00489 109 -----------EDLAGKRIA-------------------------------------TSYPNLTRRYL------------ 128 (287)
T ss_pred -----------HHhCCCEEE-------------------------------------EcCcHHHHHHH------------
Confidence 334443110 01111111111
Q ss_pred HHhhhcCC--eEEEecCcchHHHHHhcCcccEEEechhHHHHHHHhcCCCcEeeCCeeecCceeeEecC--CCC-ChHHH
Q 043468 563 ETLQSSNA--IIGYSRCLGDYASDLKSRKTGAVFLEVAEAKIFLAKYCKGFTVAGPTYKVGGLGFAFPK--GSP-LLPSV 637 (720)
Q Consensus 563 ~dl~~~~~--~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k--~s~-~~~~i 637 (720)
.+.++ ++....+..+. .+..|..|+++..........++ .+..+ +.......+++.+| .++ .++.+
T Consensus 129 ---~~~gi~~~iv~~~gs~ea--a~~~G~aDaivd~~~~~~~l~~~---~L~~v-~~~~~~~~~li~~k~~~~~~~~~~i 199 (287)
T PRK00489 129 ---AEKGIDAEVVELSGAVEV--APRLGLADAIVDVVSTGTTLRAN---GLKIV-EVILRSEAVLIARKGWLDPEKQEKI 199 (287)
T ss_pred ---HHcCCceEEEECCCchhh--hhcCCcccEEEeeHHHHHHHHHC---CCEEE-EeeeeeeEEEEEcccccChhHHHHH
Confidence 12222 22233332332 66779999998777666655553 36666 46666778899998 566 88889
Q ss_pred HHHHhcccccCcHHHHHHHhcCCC
Q 043468 638 IEALLKVSESGKLRELETSMIASE 661 (720)
Q Consensus 638 n~~i~~~~~~G~~~~~~~~~~~~~ 661 (720)
|..+.++ +|.+..+.++|+...
T Consensus 200 ~~~l~~l--~g~l~a~~~k~~~~~ 221 (287)
T PRK00489 200 DQLLTRL--QGVLRARESKYLMMN 221 (287)
T ss_pred HHHHHHH--HHHHHhhceEEEEEe
Confidence 9999999 599999999999753
No 112
>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=98.02 E-value=5.1e-05 Score=75.70 Aligned_cols=149 Identities=15% Similarity=0.184 Sum_probs=104.4
Q ss_pred ccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEE
Q 043468 3 LMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVI 82 (720)
Q Consensus 3 Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii 82 (720)
++ +.+++++|+...+.......+.+...++|+|......+. ..+++++.+++......+++++...+.++++++
T Consensus 51 ~~-~~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i 124 (264)
T cd01537 51 LI-ARGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDIPD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALL 124 (264)
T ss_pred HH-HcCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCCCC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEE
Confidence 44 457888887666555544678888899999988765432 256778888999999999999988889999999
Q ss_pred EEcCC-CcccCcHHHHHHHHHHcC-cEEEEEEecCCCCcccHHHHHHHhhcCC--CeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 83 YEDID-SSATGILPHLSDALREAG-AEIIHVLALPHFPSSRLSEELEKLKGGQ--CRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 83 ~~~~~-~g~~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~d~~~~l~~i~~~~--~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
..+.. .......+.+++.+++.| .++........... +....+.++.+.+ +++|+...+ ..+..+++++.+.|+
T Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~ 202 (264)
T cd01537 125 AGPLGSSTARERVAGFKDALKEAGPIEIVLVQEGDWDAE-KGYQAAEELLTAHPDPTAIFAAND-DMALGALRALREAGL 202 (264)
T ss_pred ECCCCCCcHHHHHHHHHHHHHHcCCcChhhhccCCCCHH-HHHHHHHHHHhcCCCCCEEEEcCc-HHHHHHHHHHHHhCC
Confidence 87655 222333788898998887 44333322232222 5667777776665 566555444 567778899999988
Q ss_pred C
Q 043468 159 M 159 (720)
Q Consensus 159 ~ 159 (720)
.
T Consensus 203 ~ 203 (264)
T cd01537 203 R 203 (264)
T ss_pred C
Confidence 5
No 113
>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=97.98 E-value=0.0001 Score=74.72 Aligned_cols=78 Identities=9% Similarity=-0.011 Sum_probs=55.4
Q ss_pred cchHHHHHhcCcccEEEechhHHHHHHHhcC----CCcEeeCCeeecCceeeEecCCC-C-ChHHHHHHHhcccccCcHH
Q 043468 578 LGDYASDLKSRKTGAVFLEVAEAKIFLAKYC----KGFTVAGPTYKVGGLGFAFPKGS-P-LLPSVIEALLKVSESGKLR 651 (720)
Q Consensus 578 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~~~~~~k~s-~-~~~~in~~i~~~~~~G~~~ 651 (720)
..+.+.+|.+|++|+++.+......+.++.. ..++.+.........+++++++- + +++.++++|..+.+++...
T Consensus 177 ~~~~~~al~~G~vDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~ 256 (288)
T TIGR03431 177 HEAAILAVANGTVDAATTNDENLDRMIRKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKAC 256 (288)
T ss_pred hHHHHHHHHcCCCCeEeccHHHHHHHHHcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHH
Confidence 5678899999999999998887777776431 12343322111223568889884 3 9999999999999997766
Q ss_pred HHHH
Q 043468 652 ELET 655 (720)
Q Consensus 652 ~~~~ 655 (720)
++..
T Consensus 257 ~~~~ 260 (288)
T TIGR03431 257 FEKI 260 (288)
T ss_pred HHhh
Confidence 5544
No 114
>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=97.84 E-value=0.00036 Score=69.74 Aligned_cols=157 Identities=15% Similarity=0.121 Sum_probs=101.4
Q ss_pred ccccCCeEEEECC-CCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEE
Q 043468 3 LMDSQKVEAILGP-QTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQV 79 (720)
Q Consensus 3 Li~~~~v~aiiGp-~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v 79 (720)
|+ ..+++++|+. ..+.......+.+...++|+|......+. ...+..+.+++...+..+++++... |.+++
T Consensus 51 l~-~~~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i 124 (267)
T cd01536 51 LI-AQGVDGIIISPVDSAALTPALKKANAAGIPVVTVDSDIDG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKV 124 (267)
T ss_pred HH-HcCCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCCCCc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceE
Confidence 44 3588988753 33333334566777889999988654332 2345667788888888899988766 88999
Q ss_pred EEEEEcCC--CcccCcHHHHHHHHHHc-CcEEEEEEecCCCCcccHHHHHHHhhcCC--CeEEEEEcCHHHHHHHHHHHH
Q 043468 80 TVIYEDID--SSATGILPHLSDALREA-GAEIIHVLALPHFPSSRLSEELEKLKGGQ--CRVFVVHLSLELAVHLFEKAN 154 (720)
Q Consensus 80 ~ii~~~~~--~g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~d~~~~l~~i~~~~--~~vvil~~~~~~~~~~l~~a~ 154 (720)
++++.++. .+.. ..+.+++.+++. |.++........... +..+.+.++.+.. +++|+. ++...+..++++++
T Consensus 125 ~~i~~~~~~~~~~~-r~~gf~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~~-~~d~~a~~~~~~l~ 201 (267)
T cd01536 125 AIIEGPPGSSNAQE-RVKGFRDALKEYPDIEIVAVQDGNWDRE-KALQAMEDLLQANPDIDAIFA-ANDSMALGAVAALK 201 (267)
T ss_pred EEEEcccccchHHH-HHHHHHHHHHhCCCcEEEEEecCCCcHH-HHHHHHHHHHHhCCCccEEEE-ecCCchHHHHHHHH
Confidence 99987654 3323 378889999988 466544332222212 5667777776554 455443 44467777999999
Q ss_pred HcCCCCCCeEEEEeC
Q 043468 155 KMKMMEKDYIWITTD 169 (720)
Q Consensus 155 ~~g~~~~~~~~i~~~ 169 (720)
+.|+. .+...++.+
T Consensus 202 ~~g~~-~~i~ivg~d 215 (267)
T cd01536 202 AAGRK-GDVKIVGVD 215 (267)
T ss_pred hcCCC-CCceEEecC
Confidence 99986 344444433
No 115
>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=97.73 E-value=0.00044 Score=68.87 Aligned_cols=147 Identities=15% Similarity=0.097 Sum_probs=99.7
Q ss_pred ccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEE
Q 043468 3 LMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVI 82 (720)
Q Consensus 3 Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii 82 (720)
++ .+++++++....+..... .+.+...++|+|......+. +.+..+.++.....+.+++++...|.++++++
T Consensus 51 ~~-~~~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i 122 (264)
T cd06267 51 LL-SRRVDGIILAPSRLDDEL-LEELAALGIPVVLVDRPLDG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFI 122 (264)
T ss_pred HH-HcCcCEEEEecCCcchHH-HHHHHHcCCCEEEecccccC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEe
Confidence 44 468888877665555555 77788999999998765332 45566777888888888899887899999999
Q ss_pred EEcCC-CcccCcHHHHHHHHHHcCcEEEE--EEecCCCCcccHHHHHHHhhcCC--CeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 83 YEDID-SSATGILPHLSDALREAGAEIIH--VLALPHFPSSRLSEELEKLKGGQ--CRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 83 ~~~~~-~g~~~~~~~~~~~~~~~g~~v~~--~~~~~~~~~~d~~~~l~~i~~~~--~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
+.+.. .......+.+++.+++.|.++.. ......... +....+.++.++. +|+|+.. ....+..+++++++.|
T Consensus 123 ~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g 200 (264)
T cd06267 123 GGPPDLSTARERLEGYREALEEAGIPLDEELIVEGDFSEE-SGYEAARELLASGERPTAIFAA-NDLMAIGALRALRELG 200 (264)
T ss_pred cCCCccchHHHHHHHHHHHHHHcCCCCCcceEEecccchh-hHHHHHHHHHhcCCCCcEEEEc-CcHHHHHHHHHHHHhC
Confidence 87654 22222367888889888853322 222222222 5666777766554 6776644 4566778888899998
Q ss_pred CC
Q 043468 158 MM 159 (720)
Q Consensus 158 ~~ 159 (720)
+.
T Consensus 201 ~~ 202 (264)
T cd06267 201 LR 202 (264)
T ss_pred CC
Confidence 85
No 116
>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=97.58 E-value=0.0012 Score=66.40 Aligned_cols=156 Identities=15% Similarity=0.135 Sum_probs=96.0
Q ss_pred cCCeEEE-ECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAI-LGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~ai-iGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
+++|++| +.|..+....+....+.+.++|+|....... .. ....+..++...++.+++++... |.++++++
T Consensus 55 ~~~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~~~~~~---~~---~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l 128 (275)
T cd06320 55 NKGYKGLLFSPISDVNLVPAVERAKKKGIPVVNVNDKLI---PN---ATAFVGTDNKANGVRGAEWIIDKLAEGGKVAII 128 (275)
T ss_pred HhCCCEEEECCCChHHhHHHHHHHHHCCCeEEEECCCCC---Cc---cceEEecCcHHHHHHHHHHHHHHhCCCceEEEE
Confidence 4678874 6665554444556777889999997754321 11 12235777777888889998665 88999999
Q ss_pred EEcCC-CcccCcHHHHHHHHHHc-CcEEEEEEecCCCCcccHHHHHHHhhcCCCeEE-EEEcCHHHHHHHHHHHHHcCCC
Q 043468 83 YEDID-SSATGILPHLSDALREA-GAEIIHVLALPHFPSSRLSEELEKLKGGQCRVF-VVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 83 ~~~~~-~g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vv-il~~~~~~~~~~l~~a~~~g~~ 159 (720)
..... .......+.+++.+++. |+++....... .+..+....+.++.+..+++- +++.....+..+++.+++.|+.
T Consensus 129 ~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~ 207 (275)
T cd06320 129 EGKAGAFAAEQRTEGFTEAIKKASGIEVVASQPAD-WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ 207 (275)
T ss_pred eCCCCCccHHHHHHHHHHHHhhCCCcEEEEecCCC-ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC
Confidence 75433 22122257799999998 88875432211 111144456666554444332 3444566677889999999985
Q ss_pred CCCeEEEEeC
Q 043468 160 EKDYIWITTD 169 (720)
Q Consensus 160 ~~~~~~i~~~ 169 (720)
.+...++.+
T Consensus 208 -~di~vig~d 216 (275)
T cd06320 208 -GKVLVVGTD 216 (275)
T ss_pred -CCeEEEecC
Confidence 344444333
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=97.50 E-value=0.00079 Score=67.55 Aligned_cols=144 Identities=17% Similarity=0.083 Sum_probs=95.8
Q ss_pred cCCeEEEECCCCC-hhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAILGPQTS-EETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aiiGp~~s-~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
.+++++||....+ .........+.+.++|+|......+ . +...++.+++...+..+++++... |.++++++
T Consensus 58 ~~~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i 131 (272)
T cd06300 58 AQGVDAIIINPASPTALNPVIEEACEAGIPVVSFDGTVT---T---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVV 131 (272)
T ss_pred HcCCCEEEEeCCChhhhHHHHHHHHHCCCeEEEEecCCC---C---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEE
Confidence 4689998874443 2234455667788999998764321 1 456778899999999999998665 88899999
Q ss_pred EEcCC--CcccCcHHHHHHHHHHcC-cEEEEEEecCCCCcccHHHHHHHhhcCC--CeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 83 YEDID--SSATGILPHLSDALREAG-AEIIHVLALPHFPSSRLSEELEKLKGGQ--CRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 83 ~~~~~--~g~~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~d~~~~l~~i~~~~--~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
..+.. .+.. ..+.+++.+++.| +++......+.... +....+.++.++. +++|+...+. +..+++.+++.|
T Consensus 132 ~~~~~~~~~~~-R~~g~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~i~~~~d~--A~g~~~al~~~g 207 (272)
T cd06300 132 RGLAGHPVDED-RYAGAKEVLKEYPGIKIVGEVYGDWDQA-VAQKAVADFLASNPDVDGIWTQGGD--AVGAVQAFEQAG 207 (272)
T ss_pred ECCCCCcchHH-HHHHHHHHHHHCCCcEEEeecCCCCCHH-HHHHHHHHHHHhCCCcCEEEecCCC--cHHHHHHHHHcC
Confidence 75322 2222 2678899998888 77654322122111 4566777776554 4554444444 889999999999
Q ss_pred CC
Q 043468 158 MM 159 (720)
Q Consensus 158 ~~ 159 (720)
+.
T Consensus 208 ~~ 209 (272)
T cd06300 208 RD 209 (272)
T ss_pred CC
Confidence 84
No 118
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=97.31 E-value=0.0066 Score=62.82 Aligned_cols=257 Identities=11% Similarity=0.073 Sum_probs=149.0
Q ss_pred ccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 5 DSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 5 ~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
..+++..|+||..-...+++..--. ..+|++....++..- .-+.+..++=+++.+++..+++|-.-|.+...++..
T Consensus 316 qq~G~~~VVGPLlK~nVe~L~~~~q-~~i~vLALN~~~n~r---~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvP 391 (604)
T COG3107 316 QQDGADFVVGPLLKPNVEALLASNQ-QPIPVLALNQPENSR---NPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVP 391 (604)
T ss_pred HhcCCcEEeccccchhHHHHHhCcC-CCCceeeecCCcccc---CcccceeeecChhHHHHHHHHHHHHccccCceEEec
Confidence 3689999999999988887765544 688888766543321 224444455555567889999998889999999999
Q ss_pred cCCCcccCcHHHHHHHHHHcCcEEEEEEecCCC------------------CcccHHHHH----HHhhcCC-CeEEEEEc
Q 043468 85 DIDSSATGILPHLSDALREAGAEIIHVLALPHF------------------PSSRLSEEL----EKLKGGQ-CRVFVVHL 141 (720)
Q Consensus 85 ~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~------------------~~~d~~~~l----~~i~~~~-~~vvil~~ 141 (720)
.++.|+.. .+.|.+.+.+.|+..+....+... .. +..... ..+.+.. .|.|++..
T Consensus 392 r~~lG~Rv-~~AF~~~Wq~~gg~~v~~~~fg~~~~l~~~i~~~a~ir~~~~p~-~~~~~~g~~~~p~~~~d~iDaVyivA 469 (604)
T COG3107 392 RNDLGDRV-ANAFNQEWQKLGGGTVLQQKFGSTSELRQGINDGAGIRLTGLPA-DLTTTNGLQTPPLDDQDTIDAVYIVA 469 (604)
T ss_pred chHHHHHH-HHHHHHHHHHhcCCchhHhhcCcHHHHHhhcccccceeecCCcc-chhcccCCCCCCcccccccceEEEEe
Confidence 99999887 999999999998844444333211 11 111000 1122334 88999988
Q ss_pred CHHHHHHHHHHHHHcCCCCCCeEEEEeCcccccccccCcchhhhccccEEEEe-cCC-CCChhHHHHHHHHHHHhcccCC
Q 043468 142 SLELAVHLFEKANKMKMMEKDYIWITTDAFTSLVHSINTSSISSMQGILGVRS-HFP-EDKPKFQDFCKRFRKRFGAEYP 219 (720)
Q Consensus 142 ~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~-~~~-~~~~~~~~f~~~~~~~~~~~~~ 219 (720)
.+.++..+--...-.+... ..+.+.++..... .-+++.-..++|+..... +.. ...|..+.....| +
T Consensus 470 tp~el~~IKP~ia~~~~~~-~~p~yaSSr~~~g--T~~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~----p---- 538 (604)
T COG3107 470 TPSELALIKPMIAMANGSD-SPPLYASSRSSQG--TNGPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAW----P---- 538 (604)
T ss_pred cchhHhHHhhHHHhhcCCC-Ccceeeecccccc--CCCccHHHhccCccccCCchhcCCCchHHHHHHHhc----C----
Confidence 8888776644444334332 2244444443311 111223345677652211 111 2233333333222 1
Q ss_pred CCCCCCCCCchhhhHhhHHHHHHHHHHHHHHHhHHHHHHHHHc------ccccCceeeEEEecCCcCCCCeEEEEEeecC
Q 043468 220 EEDNNHEPGALAVQTYDAVWSVALAMEQKSEKLNQKLLRRILL------SDFDGLTGKVEFMNQKVAPAHTYQIINLMGK 293 (720)
Q Consensus 220 ~~~~~~~~~~~~~~~Ydav~~~a~al~~~~~~~~~~l~~~l~~------~~~~g~~G~v~f~~~g~~~~~~~~i~~~~~~ 293 (720)
+ -|-.+.++|.++. .+.|..++.. ..++|.+|.++.|++.... ..+.-.++++|
T Consensus 539 --------~-----~~sl~RLyAmGvD------AwrLan~f~elrqV~G~~i~G~TG~Lsad~~c~I~-R~l~Waqy~~G 598 (604)
T COG3107 539 --------N-----DYSLARLYAMGVD------AWRLANHFSELRQVPGYQIDGLTGTLSADPDCVIE-RKLSWAQYQQG 598 (604)
T ss_pred --------C-----chHHHHHHHhcch------HHHHHHHhHHhhcCCCcccccccceeecCCCceEe-ecchHHHhcCC
Confidence 1 2333445544443 3334444333 3788999999998776543 55555556665
Q ss_pred ceEEE
Q 043468 294 SYREL 298 (720)
Q Consensus 294 ~~~~v 298 (720)
...++
T Consensus 599 ~vvP~ 603 (604)
T COG3107 599 QVVPV 603 (604)
T ss_pred CeeeC
Confidence 55443
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=97.25 E-value=0.0031 Score=62.90 Aligned_cols=145 Identities=14% Similarity=0.204 Sum_probs=92.7
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
.+++++||....+.......+.+...++|+|....... ...++ +..++...+..+++++...|.++++++..+
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~----~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~ 125 (266)
T cd06282 53 RQRVDGLILTVADAATSPALDLLDAERVPYVLAYNDPQ----PGRPS---VSVDNRAAARDVAQALAALGHRRIAMLAGR 125 (266)
T ss_pred hcCCCEEEEecCCCCchHHHHHHhhCCCCEEEEeccCC----CCCCE---EeeCcHHHHHHHHHHHHHcCcccEEEeccc
Confidence 46889888533333334456778888999988764322 22333 346777888889999888899999999753
Q ss_pred C---CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHh-hcC-CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 86 I---DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKL-KGG-QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 86 ~---~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i-~~~-~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
. +.+. ...+.+++.+++.|+++......+.... +....+.++ ++. ++++|+. ++...+..+++++++.|+..
T Consensus 126 ~~~~~~~~-~r~~gf~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~ 202 (266)
T cd06282 126 LAASDRAR-QRYAGYRAAMRAAGLAPLPPVEIPFNTA-ALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRV 202 (266)
T ss_pred cccCchHH-HHHHHHHHHHHHcCCCCCccccCCCcHH-HHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCC
Confidence 2 1222 2368889999999876543332222221 333444443 433 4666544 56677788999999999853
No 120
>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=97.20 E-value=0.0057 Score=61.09 Aligned_cols=156 Identities=15% Similarity=0.138 Sum_probs=92.9
Q ss_pred cCCeEE-EECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEA-ILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~a-iiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
.+++++ |++|..+.........+...++|+|......+. ...+-.+..++...+..+++++... |.++++++
T Consensus 53 ~~~~dgii~~~~~~~~~~~~l~~l~~~~ipvv~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l 127 (268)
T cd06323 53 TRGVDAIIINPTDSDAVVPAVKAANEAGIPVFTIDREANG-----GEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVEL 127 (268)
T ss_pred HcCCCEEEEcCCChHHHHHHHHHHHHCCCcEEEEccCCCC-----CceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEE
Confidence 457887 566655544344555667789999988653221 1223346666666778889988665 78999999
Q ss_pred EEcCCC-cccCcHHHHHHHHHHc-CcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 83 YEDIDS-SATGILPHLSDALREA-GAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 83 ~~~~~~-g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
..+... ......+.+++.+++. |+++........... +....+.++.+. ++++ +++.+...+..+++++++.|+
T Consensus 128 ~~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~ 205 (268)
T cd06323 128 QGIPGASAARERGKGFHEVVDKYPGLKVVASQPADFDRA-KGLNVMENILQAHPDIKG-VFAQNDEMALGAIEALKAAGK 205 (268)
T ss_pred eCCCCCccHHHHHHHHHHHHHhCCCcEEEecccCCCCHH-HHHHHHHHHHHHCCCcCE-EEEcCCchHHHHHHHHHHcCC
Confidence 864332 2222368888899884 777653222111111 333445554433 3455 344455556678889999998
Q ss_pred CCCCeEEEEeCc
Q 043468 159 MEKDYIWITTDA 170 (720)
Q Consensus 159 ~~~~~~~i~~~~ 170 (720)
++...++.+.
T Consensus 206 --~di~iig~d~ 215 (268)
T cd06323 206 --DDVKVVGFDG 215 (268)
T ss_pred --CCcEEEEeCC
Confidence 3555555433
No 121
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.17 E-value=0.0078 Score=60.45 Aligned_cols=158 Identities=11% Similarity=0.127 Sum_probs=93.9
Q ss_pred cCCeEEE-ECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC------CCeE
Q 043468 6 SQKVEAI-LGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW------EWHQ 78 (720)
Q Consensus 6 ~~~v~ai-iGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~------~~~~ 78 (720)
.++++++ ++|..+.......+.+...++|+|....... ...+...+.+++..-+..+++++... |.++
T Consensus 53 ~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~ 127 (277)
T cd06319 53 DKGVSGIIISPTNSSAAVTLLKLAAQAKIPVVIADIGAE-----GGDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGK 127 (277)
T ss_pred hcCCCEEEEcCCchhhhHHHHHHHHHCCCCEEEEecCCC-----CCceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCc
Confidence 4678877 5676655555667778889999997653211 11244556677766676777765433 6789
Q ss_pred EEEEEEcCC--CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEE-EEEcCHHHHHHHHHHHHH
Q 043468 79 VTVIYEDID--SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVF-VVHLSLELAVHLFEKANK 155 (720)
Q Consensus 79 v~ii~~~~~--~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vv-il~~~~~~~~~~l~~a~~ 155 (720)
++++..+.. .+.. ..+.+++.+++.|..+.........+..+....++++.++.++.- +++.....+..+++++++
T Consensus 128 i~~i~~~~~~~~~~~-r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~ 206 (277)
T cd06319 128 VGMVAIPQKRKNGQK-RTKGFKEAMKEAGCDLAGIRQQKDFSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIAT 206 (277)
T ss_pred EEEEeccCCCccHHH-HHHHHHHHHHhcCCceEeeccCCCCCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHH
Confidence 999975332 2222 368889999999986542211111111133345555554444432 333444556789999999
Q ss_pred cCCCCCCeEEEEeCc
Q 043468 156 MKMMEKDYIWITTDA 170 (720)
Q Consensus 156 ~g~~~~~~~~i~~~~ 170 (720)
.|+. .+...++.+.
T Consensus 207 ~g~~-~di~vvg~d~ 220 (277)
T cd06319 207 AGKT-GKVLLICFDA 220 (277)
T ss_pred cCCC-CCEEEEEcCC
Confidence 9986 3444444443
No 122
>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=97.05 E-value=0.0039 Score=62.80 Aligned_cols=147 Identities=16% Similarity=0.221 Sum_probs=93.0
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc----cCCCCeEEEeecChHHHHHHHHHHHHhC--C
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA----TERWPFLLQASQNQLAQMKAIAAIVQSW--E 75 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~----~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~ 75 (720)
+|+ ++++++||+..++. .... .+...++|+|..+...+... ....+..+.+..++......+++++... |
T Consensus 55 ~l~-~~~vd~iI~~~~~~-~~~~--~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g 130 (281)
T cd06325 55 KFV-ADKPDLIVAIATPA-AQAA--ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPD 130 (281)
T ss_pred HHH-hcCCCEEEEcCcHH-HHHH--HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCC
Confidence 345 46899999854432 2222 25678999998875433211 1111222233445556678888888765 9
Q ss_pred CeEEEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHH
Q 043468 76 WHQVTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKAN 154 (720)
Q Consensus 76 ~~~v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~ 154 (720)
.+++++++.+.. .+... .+.+++.+++.|+++..... .... ++...++++.+ ++|+|+...+ ..+..+++++.
T Consensus 131 ~~~i~~l~~~~~~~~~~r-~~g~~~~~~~~g~~~~~~~~--~~~~-~~~~~~~~~~~-~~dai~~~~d-~~a~~~~~~~~ 204 (281)
T cd06325 131 AKTVGVLYNPSEANSVVQ-VKELKKAAAKLGIEVVEATV--SSSN-DVQQAAQSLAG-KVDAIYVPTD-NTVASAMEAVV 204 (281)
T ss_pred CcEEEEEeCCCCccHHHH-HHHHHHHHHhCCCEEEEEec--CCHH-HHHHHHHHhcc-cCCEEEEcCc-hhHHhHHHHHH
Confidence 999999986544 33333 68899999999988765421 2222 67778888764 4687766554 46667888888
Q ss_pred HcCC
Q 043468 155 KMKM 158 (720)
Q Consensus 155 ~~g~ 158 (720)
+.++
T Consensus 205 ~~~~ 208 (281)
T cd06325 205 KVAN 208 (281)
T ss_pred HHHH
Confidence 8775
No 123
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=96.89 E-value=0.012 Score=57.82 Aligned_cols=84 Identities=13% Similarity=0.065 Sum_probs=59.1
Q ss_pred EecCcchHHHHHhcCcccEEEechhHHHHHHHhc---CCCcEeeCCeeecCceeeEecCCCC--ChHHHHHHHhcccccC
Q 043468 574 YSRCLGDYASDLKSRKTGAVFLEVAEAKIFLAKY---CKGFTVAGPTYKVGGLGFAFPKGSP--LLPSVIEALLKVSESG 648 (720)
Q Consensus 574 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~~~~~~k~s~--~~~~in~~i~~~~~~G 648 (720)
.....+..+..|.+|++|+++............. ...++++...-......++.+++-+ .++.+-.++..+..+-
T Consensus 142 ~~~~~~~~~~~l~~G~~Da~~~~~~~~~~~~~~~~~~~~~~rvl~~s~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~ 221 (243)
T PF12974_consen 142 FVGSHDAVLEALLNGKADAAAIPSDAFERLEAEGPDIPSQLRVLWTSPPYPNWPLVASPDLPPELRQRLRDALLSLSKDP 221 (243)
T ss_dssp EEE-HHHHHHHHHTTSSSEEEEEHHHHHHHHHH-HHHHTTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHHTTSSH
T ss_pred EeCCHHHHHHHHHcCCccEEEEechhHHHHHHccCcccccEEEEEEeCCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCh
Confidence 4445688999999999999999887777666542 4457777654444455677777755 8999999999999865
Q ss_pred cHHHHHHHh
Q 043468 649 KLRELETSM 657 (720)
Q Consensus 649 ~~~~~~~~~ 657 (720)
.-.++.+.+
T Consensus 222 ~~~~~l~~~ 230 (243)
T PF12974_consen 222 EGKAILDAF 230 (243)
T ss_dssp HHHHHHHHT
T ss_pred hhHHHHHhc
Confidence 556666655
No 124
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=96.77 E-value=0.015 Score=58.04 Aligned_cols=146 Identities=12% Similarity=0.166 Sum_probs=90.1
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+++|+++|-- ++.........+...++|+|......+. ...+ .+..++...+..+++++...|.++++++...
T Consensus 53 ~~~vdgiii~-~~~~~~~~~~~l~~~~iPvv~~~~~~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 125 (268)
T cd06273 53 ERGVDGLALI-GLDHSPALLDLLARRGVPYVATWNYSPD---SPYP---CVGFDNREAGRLAARHLIALGHRRIAMIFGP 125 (268)
T ss_pred hcCCCEEEEe-CCCCCHHHHHHHHhCCCCEEEEcCCCCC---CCCC---EEEeChHHHHHHHHHHHHHCCCCeEEEEecc
Confidence 4567765531 1112234455677889999987643221 1223 3557788888889999877899999999753
Q ss_pred CC---CcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 86 ID---SSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 86 ~~---~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
.. .+.. ..+.|++.+++.|+.+.....+... +..+....+.++.+. ++++|+. ++...+..+++.+++.|+.
T Consensus 126 ~~~~~~~~~-r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~ 203 (268)
T cd06273 126 TQGNDRARA-RRAGVRAALAEAGLELPELWQVEAPYSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLS 203 (268)
T ss_pred ccCCccHHH-HHHHHHHHHHHcCCCCCHHHeeeCCCcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCC
Confidence 22 2222 2688999999988654332222211 111334555565443 5777554 5667778889999999985
Q ss_pred C
Q 043468 160 E 160 (720)
Q Consensus 160 ~ 160 (720)
.
T Consensus 204 ~ 204 (268)
T cd06273 204 V 204 (268)
T ss_pred C
Confidence 3
No 125
>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=96.76 E-value=0.03 Score=56.07 Aligned_cols=159 Identities=14% Similarity=0.135 Sum_probs=95.2
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
+.+|+++| .|..+.........+...++|+|......... .+.+..+..++...+..+++++... +.++++++
T Consensus 54 ~~~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~~~~~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i 129 (272)
T cd06301 54 AQGVDAIIVVPVDTAATAPIVKAANAAGIPLVYVNRRPENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAIL 129 (272)
T ss_pred HcCCCEEEEecCchhhhHHHHHHHHHCCCeEEEecCCCCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEE
Confidence 45788775 56555444555666788899999875432111 1334557788888888888887554 45799999
Q ss_pred EEcCCC-cccCcHHHHHHHHHHcC-cEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 83 YEDIDS-SATGILPHLSDALREAG-AEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 83 ~~~~~~-g~~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
...... ......+.+++.+++.| +++... .....+.......++++.+. ++++ +++.+...+..+++.+++.|+
T Consensus 130 ~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~ 207 (272)
T cd06301 130 MGPLGQSAQIDRTKGVEEVLAKYPDIKVVEE-QTANWSRAEAMDLMENWLSSGGKIDA-VVANNDEMALGAIMALKAAGK 207 (272)
T ss_pred ECCCCCccHHHHHHHHHHHHHHCCCcEEEec-CCCCccHHHHHHHHHHHHHhCCCCCE-EEECCCchHHHHHHHHHHcCC
Confidence 754332 11222578899998888 443322 11111111222344454333 4565 444556667788999999998
Q ss_pred CCCCeEEEEeCc
Q 043468 159 MEKDYIWITTDA 170 (720)
Q Consensus 159 ~~~~~~~i~~~~ 170 (720)
.+++...++-+.
T Consensus 208 ~~~di~ivg~d~ 219 (272)
T cd06301 208 SDKDVPVAGIDG 219 (272)
T ss_pred CCCCcEEEeeCC
Confidence 743555555444
No 126
>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=96.72 E-value=0.018 Score=57.59 Aligned_cols=160 Identities=15% Similarity=0.174 Sum_probs=96.8
Q ss_pred cccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEE
Q 043468 4 MDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIY 83 (720)
Q Consensus 4 i~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~ 83 (720)
+..++++++|....+.......+.+...++|+|......+. ...++ +..+....+..+++++...|.++++++.
T Consensus 52 l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~ 125 (270)
T cd01545 52 LQRSRVDGVILTPPLSDNPELLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIA 125 (270)
T ss_pred HHHCCCCEEEEeCCCCCccHHHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEe
Confidence 44678999887544333345566778899999987654322 12232 4567777778888988778999999997
Q ss_pred EcCCCc-ccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhc--CCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 84 EDIDSS-ATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKG--GQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 84 ~~~~~g-~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~--~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
.+.... ...-.+.+++.+++.|.++......... +..+-...+.++.+ .++++|+ .++...+..+++.+++.|..
T Consensus 126 ~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~ 204 (270)
T cd01545 126 GPPDHRASAERLEGYRDALAEAGLPLDPELVAQGDFTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLR 204 (270)
T ss_pred CCCCchhHHHHHHHHHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCC
Confidence 544321 1112567888888888765211111111 11122234455433 3567766 45567788999999999985
Q ss_pred CC-CeEEEEeCc
Q 043468 160 EK-DYIWITTDA 170 (720)
Q Consensus 160 ~~-~~~~i~~~~ 170 (720)
.+ +...++.+.
T Consensus 205 ~p~~i~vig~d~ 216 (270)
T cd01545 205 VPDDLSVVGFDD 216 (270)
T ss_pred CCCceEEEEECC
Confidence 33 344444443
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=96.71 E-value=0.017 Score=57.20 Aligned_cols=151 Identities=17% Similarity=0.216 Sum_probs=99.4
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHh-CC-CeEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQS-WE-WHQVTVI 82 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~-~~-~~~v~ii 82 (720)
++++++|| .|..+.......+-+...+||+|..... .....+....+.++.......+++++.. .+ -.+++++
T Consensus 53 ~~~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~~d~~----~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~ 128 (257)
T PF13407_consen 53 SQGVDGIIVSPVDPDSLAPFLEKAKAAGIPVVTVDSD----EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLIL 128 (257)
T ss_dssp HTTESEEEEESSSTTTTHHHHHHHHHTTSEEEEESST----HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEE
T ss_pred HhcCCEEEecCCCHHHHHHHHHHHhhcCceEEEEecc----ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEec
Confidence 46788775 7777777778888899999999987654 1123356677888899999999999754 33 2688877
Q ss_pred EEcCCCcc-cCcHHHHHHHHHH-cCcEEEEEEecCCCCcccHHHHHHHhhcCC-CeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 83 YEDIDSSA-TGILPHLSDALRE-AGAEIIHVLALPHFPSSRLSEELEKLKGGQ-CRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 83 ~~~~~~g~-~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~-~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
........ ....+.+++.+++ .++++.........+..+....+.++.+.+ .+. |+.+....+..+++.+.+.|..
T Consensus 129 ~~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~-i~~~~~~~~~g~~~al~~~g~~ 207 (257)
T PF13407_consen 129 SGSPGNPNTQERLEGFRDALKEYPGVEIVDEYEYTDWDPEDARQAIENLLQANPVDA-IIACNDGMALGAAQALQQAGRA 207 (257)
T ss_dssp ESSTTSHHHHHHHHHHHHHHHHCTTEEEEEEEEECTTSHHHHHHHHHHHHHHTTEEE-EEESSHHHHHHHHHHHHHTTCT
T ss_pred cCCCCchHHHHHHHHHHHHHhhcceeeeeeeeeccCCCHHHHHHHHHHhhhcCCceE-EEeCCChHHHHHHHHHHHcCCc
Confidence 54443211 1236778888888 567776643333333324444444444343 444 4667888888899999999986
Q ss_pred CC
Q 043468 160 EK 161 (720)
Q Consensus 160 ~~ 161 (720)
+.
T Consensus 208 ~~ 209 (257)
T PF13407_consen 208 GK 209 (257)
T ss_dssp TT
T ss_pred cc
Confidence 54
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=96.69 E-value=0.025 Score=56.64 Aligned_cols=158 Identities=13% Similarity=0.105 Sum_probs=96.7
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHh-CCCeEEEEEE
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQS-WEWHQVTVIY 83 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~-~~~~~v~ii~ 83 (720)
+++++++|. |..........+.+...++|+|......+... ..+.+..+..++......+++++.+ .|.++++++.
T Consensus 55 ~~~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~ 132 (271)
T cd06312 55 AAKPDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAGDPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVI 132 (271)
T ss_pred HhCCCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCCCCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 467888775 33323234455666778999998864332211 2245667888889999999999887 8999999997
Q ss_pred EcCC--CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 84 EDID--SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 84 ~~~~--~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
.+.. .+.. ..+.+++.+++.|+.+... ....+..+....++++.++ ++++| ++.....+..+++.+++.|+.
T Consensus 133 g~~~~~~~~~-r~~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~ 208 (271)
T cd06312 133 HEPGNVTLED-RCAGFADGLGGAGITEEVI--ETGADPTEVASRIAAYLRANPDVDAV-LTLGAPSAAPAAKALKQAGLK 208 (271)
T ss_pred cCCCCccHHH-HHHHHHHHHHhcCceeeEe--ecCCCHHHHHHHHHHHHHhCCCccEE-EEeCCccchHHHHHHHhcCCC
Confidence 5322 2222 3788888888888754221 1111111334445554333 45653 344456677888888899886
Q ss_pred CCCeEEEEeCc
Q 043468 160 EKDYIWITTDA 170 (720)
Q Consensus 160 ~~~~~~i~~~~ 170 (720)
++...++.+.
T Consensus 209 -~di~vvg~d~ 218 (271)
T cd06312 209 -GKVKLGGFDL 218 (271)
T ss_pred -CCeEEEEecC
Confidence 3444444333
No 129
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=96.64 E-value=0.0092 Score=61.24 Aligned_cols=70 Identities=9% Similarity=0.037 Sum_probs=40.8
Q ss_pred HHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccc--ee----eeeecccccccceEEEEecc
Q 043468 381 IELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARR--CQ----YADFTHPYTESGLVMIFPVQ 453 (720)
Q Consensus 381 ~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r--~~----~~~fs~p~~~~~~~~~v~~~ 453 (720)
.+....+.++. +.++++...+ +...++..|.+|++|+++.+ ..+..+ .. .+..+.++......+++++.
T Consensus 43 ~~~~~~~~~~~p~v~ie~~~~~---~~~~~~~aL~~G~iDia~~~-~~~~~~~~~~g~~~~~v~~~~~~~~~~~lvv~~~ 118 (314)
T PRK11553 43 AKSHQLLEKRFPQTKISWVEFP---AGPQMLEALNVGSIDLGSTG-DIPPIFAQAAGADLVYVGVEPPKPKAEVILVAEN 118 (314)
T ss_pred HHhhCHHHHhCCCCeeEEEECC---CcHHHHHHHHcCCCCEEccC-CHHHHHHHhCCCCEEEEEEecCCCcceEEEEeCC
Confidence 34444555554 5555454432 23689999999999999754 222222 11 12224566666678888776
Q ss_pred c
Q 043468 454 K 454 (720)
Q Consensus 454 ~ 454 (720)
.
T Consensus 119 s 119 (314)
T PRK11553 119 S 119 (314)
T ss_pred C
Confidence 4
No 130
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=96.50 E-value=0.039 Score=55.01 Aligned_cols=157 Identities=15% Similarity=0.130 Sum_probs=95.5
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+++++++|-..+ .....+...+...++|+|......+ ... +..+.+++...+..+++++...|.++++++..+
T Consensus 53 ~~~vdgiii~~~-~~~~~~~~~l~~~~ipvV~~~~~~~---~~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~ 125 (268)
T cd06298 53 AKQVDGIIFMGG-KISEEHREEFKRSPTPVVLAGSVDE---DNE---LPSVNIDYKKAAFEATELLIKNGHKKIAFISGP 125 (268)
T ss_pred HhcCCEEEEeCC-CCcHHHHHHHhcCCCCEEEEccccC---CCC---CCEEEECcHHHHHHHHHHHHHcCCceEEEEeCC
Confidence 567888873111 2223455667778999998865322 111 223567777888888999887899999999754
Q ss_pred CC--CcccCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhhcCC-CeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 86 ID--SSATGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLKGGQ-CRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 86 ~~--~g~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~~~~-~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
.. .......+.+++.+++.|+++....... ..+.......++++.+.. +++|+. .+...+..+++.+++.|+.-+
T Consensus 126 ~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp 204 (268)
T cd06298 126 LEDSINGDERLAGYKEALSEANIEFDESLIFEGDYTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVP 204 (268)
T ss_pred cccccchhHHHHHHHHHHHHcCCCCCHHHeEeCCCChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCc
Confidence 33 1222337888999999886542221111 111113334555665544 677665 455557789999999998533
Q ss_pred -CeEEEEeCc
Q 043468 162 -DYIWITTDA 170 (720)
Q Consensus 162 -~~~~i~~~~ 170 (720)
+..+++-+.
T Consensus 205 ~di~vvg~d~ 214 (268)
T cd06298 205 EDFEIIGFNN 214 (268)
T ss_pred cceEEEeecc
Confidence 344444443
No 131
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=96.48 E-value=0.05 Score=54.40 Aligned_cols=157 Identities=13% Similarity=0.026 Sum_probs=93.0
Q ss_pred cCCeEEEECC-CCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHh--CCCeEEEEE
Q 043468 6 SQKVEAILGP-QTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQS--WEWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aiiGp-~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~--~~~~~v~ii 82 (720)
..+++++|.. ..+.........+...++|+|......+. +.+..+..++...++.+++++.. .|.++++++
T Consensus 53 ~~~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i 126 (273)
T cd06305 53 AQKVDAIIIQHGRAEVLKPWVKRALDAGIPVVAFDVDSDN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYV 126 (273)
T ss_pred HcCCCEEEEecCChhhhHHHHHHHHHcCCCEEEecCCCCC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEEE
Confidence 4578888763 33333345556677889999987653221 23345777888888888998755 588999999
Q ss_pred EEcCC-CcccCcHHHHHHHHHHcC-cEEEEEEecC-CCCcccHHHHHHHhhcCCCeE---EEEEcCHHHHHHHHHHHHHc
Q 043468 83 YEDID-SSATGILPHLSDALREAG-AEIIHVLALP-HFPSSRLSEELEKLKGGQCRV---FVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 83 ~~~~~-~g~~~~~~~~~~~~~~~g-~~v~~~~~~~-~~~~~d~~~~l~~i~~~~~~v---vil~~~~~~~~~~l~~a~~~ 156 (720)
...+. .... ....+++.+++.+ .++....... ..+..+....++++....++. .+++.+...+..+++.+++.
T Consensus 127 ~~~~~~~~~~-R~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~ 205 (273)
T cd06305 127 NVAGFPPLDR-RYDVWQAVLKAYPGIKEVAELGDVSNNTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEA 205 (273)
T ss_pred EccCCchHHH-HHHHHHHHHHHCCCcEEecccccccccchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHc
Confidence 75422 1112 2457778888877 5544332111 111113344555554344432 23344556777888999999
Q ss_pred CCCCCCeEEEEeCc
Q 043468 157 KMMEKDYIWITTDA 170 (720)
Q Consensus 157 g~~~~~~~~i~~~~ 170 (720)
|+.. +...++.+.
T Consensus 206 g~~~-di~iig~d~ 218 (273)
T cd06305 206 GRTD-EIKIYGVDI 218 (273)
T ss_pred CCCC-CceEEEecC
Confidence 9863 444454443
No 132
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=96.47 E-value=0.065 Score=54.41 Aligned_cols=157 Identities=13% Similarity=0.143 Sum_probs=90.9
Q ss_pred cCCeE-EEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC-CC-eEEEEE
Q 043468 6 SQKVE-AILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW-EW-HQVTVI 82 (720)
Q Consensus 6 ~~~v~-aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~-~~-~~v~ii 82 (720)
+++++ +|++|..+.........+...++|+|....... ....+..+.+++..-+..+++++... +. .+++++
T Consensus 80 ~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~ 154 (295)
T PRK10653 80 VRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRGAT-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQL 154 (295)
T ss_pred HcCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccCCC-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEE
Confidence 45666 456665555444556777788999998764221 11334556677766678888987554 43 256665
Q ss_pred EEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEE-EEEcCHHHHHHHHHHHHHcCCCC
Q 043468 83 YEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVF-VVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 83 ~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vv-il~~~~~~~~~~l~~a~~~g~~~ 160 (720)
..+.. .......+.+++.+++.|.++....... .+..+....+.++.+..++.- +++.+...+..+++++++.|+.
T Consensus 155 ~~~~~~~~~~~R~~gf~~al~~~g~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~~- 232 (295)
T PRK10653 155 EGIAGTSAARERGEGFKQAVAAHKFNVLASQPAD-FDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGKS- 232 (295)
T ss_pred EccCCCccHHHHHHHHHHHHhhCCCEEEEecCCC-CCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCCC-
Confidence 54322 1112236889999999998764322111 111133345556654444422 3444556666789999999982
Q ss_pred CCeEEEEeCc
Q 043468 161 KDYIWITTDA 170 (720)
Q Consensus 161 ~~~~~i~~~~ 170 (720)
+...++.+.
T Consensus 233 -dv~vig~d~ 241 (295)
T PRK10653 233 -DVMVVGFDG 241 (295)
T ss_pred -ceEEEEeCC
Confidence 455554443
No 133
>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=96.38 E-value=0.049 Score=54.52 Aligned_cols=159 Identities=16% Similarity=0.159 Sum_probs=90.5
Q ss_pred cCCeEEE-ECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEe-ecChHHHHHHHHHHHHhC--CCeEEEE
Q 043468 6 SQKVEAI-LGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQA-SQNQLAQMKAIAAIVQSW--EWHQVTV 81 (720)
Q Consensus 6 ~~~v~ai-iGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~-~p~~~~~~~~~~~~l~~~--~~~~v~i 81 (720)
++++++| +.|..++........+...++|+|......+ ....++.+.. .+++...++..++++.+. |.+++++
T Consensus 54 ~~~vdgiii~~~~~~~~~~~l~~~~~~~iPvV~~~~~~~---~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~ 130 (275)
T cd06317 54 AQKVDGIILWPTDGQAYIPGLRKAKQAGIPVVITNSNIS---EKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVV 130 (275)
T ss_pred HcCCCEEEEecCCccccHHHHHHHHHCCCcEEEeCCCCC---CCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEE
Confidence 4678877 4454444444555667889999997764322 1223444332 345556667777776553 7789999
Q ss_pred EEEcCCCc-ccCcHHHHHHHHHHcCc--EEEEEEecCCCCcccHHHHHHHhh-c--CCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 82 IYEDIDSS-ATGILPHLSDALREAGA--EIIHVLALPHFPSSRLSEELEKLK-G--GQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 82 i~~~~~~g-~~~~~~~~~~~~~~~g~--~v~~~~~~~~~~~~d~~~~l~~i~-~--~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
+..+.+.. .....+.+++.+++.|. ++..... ...+..+....+.++. + .++++|+. +....+..+++++++
T Consensus 131 l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~ 208 (275)
T cd06317 131 IAGQPGNGTAIERQKGFEDELAEVCPGVEVLDTQP-ADWDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKE 208 (275)
T ss_pred EecCCCCchHHHHHHHHHHHHHhhCCCCEEEeccC-CCCCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHh
Confidence 97643322 11225788899999864 4332211 1111112223344432 2 24677664 445557889999999
Q ss_pred cCCCCCCeEEEEeCc
Q 043468 156 MKMMEKDYIWITTDA 170 (720)
Q Consensus 156 ~g~~~~~~~~i~~~~ 170 (720)
.|+. .+...++.+.
T Consensus 209 ~g~~-~dv~v~g~d~ 222 (275)
T cd06317 209 AGLA-GGIVIVGANN 222 (275)
T ss_pred cCCc-CCcEEEEeCC
Confidence 9986 3445454443
No 134
>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=96.36 E-value=0.095 Score=52.41 Aligned_cols=157 Identities=17% Similarity=0.081 Sum_probs=91.3
Q ss_pred cCCeEEEECCCCC-hhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAILGPQTS-EETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aiiGp~~s-~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
.++++++|--... .........+...++|+|......+. . ..+-.+..++..-+..+++++... |.++++++
T Consensus 55 ~~~vdgvii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~--~---~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i 129 (273)
T cd06310 55 ARGPDAILLAPTDAKALVPPLKEAKDAGIPVVLIDSGLNS--D---IAVSFVATDNVAAGKLAAEALAELLGKKGKVAVI 129 (273)
T ss_pred HhCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEecCCCCC--C---cceEEEeeChHHHHHHHHHHHHHHcCCCceEEEE
Confidence 4678887753222 22234445566789999987542211 1 112235566666778888887665 89999999
Q ss_pred EEcCCC-cccCcHHHHHHHHHHc-CcEEEEEEecCCCCcccHHHHHHHhhcCC--CeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 83 YEDIDS-SATGILPHLSDALREA-GAEIIHVLALPHFPSSRLSEELEKLKGGQ--CRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 83 ~~~~~~-g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~d~~~~l~~i~~~~--~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
....+. ......+.+++.+++. |+++.... ....+..+-...+.++..+. +++ +++.+...+..+++.+++.|+
T Consensus 130 ~~~~~~~~~~~r~~gf~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~-i~~~~d~~a~g~~~~l~~~g~ 207 (273)
T cd06310 130 SFVPGSSTTDQREEGFLEGLKEYPGIEIVATQ-YSDSDYAKALDITEDLLTANPDLKG-IFGANEGSAVGAARAVRQAGK 207 (273)
T ss_pred eCCCCCccHHHHHHHHHHHHHhCCCcEEEecc-cCCcCHHHHHHHHHHHHHhCCCceE-EEecCchhHHHHHHHHHhcCC
Confidence 654332 1112257888899988 87764421 11111113333555554333 443 445556778889999999998
Q ss_pred CCCCeEEEEeCc
Q 043468 159 MEKDYIWITTDA 170 (720)
Q Consensus 159 ~~~~~~~i~~~~ 170 (720)
. ++..+++.+.
T Consensus 208 ~-~di~vig~d~ 218 (273)
T cd06310 208 A-GKVKVVGFDA 218 (273)
T ss_pred C-CCeEEEEeCC
Confidence 5 3555554443
No 135
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.34 E-value=0.1 Score=51.95 Aligned_cols=154 Identities=16% Similarity=0.112 Sum_probs=91.6
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
+++++++|- |..+.........+.+.++|+|......+ .......+.++....+...++++... |.++++++
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i 127 (267)
T cd06322 53 TKKVDAIVLSPVDSKGIRAAIAKAKKAGIPVITVDIAAE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAII 127 (267)
T ss_pred HcCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEEcccCC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEE
Confidence 467888765 44433333444556778999998754221 11233457777777788888887664 78899999
Q ss_pred EEcCCCcccCcHHHHHHHHHHc-CcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 83 YEDIDSSATGILPHLSDALREA-GAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 83 ~~~~~~g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
+..+........+.+++.+++. |+++.... ... ..++-...+.++.+. ++++ +++.+...+..+++.+++.|.
T Consensus 128 ~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~-~~~-~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~al~~~g~- 203 (267)
T cd06322 128 DYPTVQSVVDRVRGFKEALADYPNIKIVAVQ-PGI-TRAEALTAAQNILQANPDLDG-IFAFGDDAALGAVSAIKAAGR- 203 (267)
T ss_pred ecCCCccHHHHHHHHHHHHHhCCCcEEEEec-CCC-ChHHHHHHHHHHHHhCCCCCE-EEEcCCcHHHHHHHHHHHCCC-
Confidence 7543322122368888999998 88764321 111 111223334444322 4565 444555667788899999998
Q ss_pred CCCeEEEEeC
Q 043468 160 EKDYIWITTD 169 (720)
Q Consensus 160 ~~~~~~i~~~ 169 (720)
++...++.+
T Consensus 204 -~di~vvg~d 212 (267)
T cd06322 204 -DNVKVIGFD 212 (267)
T ss_pred -CCeEEEEec
Confidence 344444433
No 136
>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=96.32 E-value=0.14 Score=51.47 Aligned_cols=162 Identities=10% Similarity=0.037 Sum_probs=90.5
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEeccc-CCcccccCCCCeEEEeecChHHHHHHHHHHHHh--CCCeEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFAD-ATPNWATERWPFLLQASQNQLAQMKAIAAIVQS--WEWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~-~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~--~~~~~v~ii 82 (720)
+++|++||=...+.........+...++|.+.... ..+.-.....+....+.+++..-+..+++++.. .|.++++++
T Consensus 58 ~~~vDgiIv~~~~~~~~~~~~~l~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l 137 (280)
T cd06303 58 QSKPDYLIFTLDSLRHRKLIERVLASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAML 137 (280)
T ss_pred HcCCCEEEEcCCchhhHHHHHHHHhCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEE
Confidence 56788876432222222222334445667665532 222100001122344677887888888998876 789999999
Q ss_pred EEcCCCcccCcHHHHHHHHHHc-CcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 83 YEDIDSSATGILPHLSDALREA-GAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 83 ~~~~~~g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
............+.+++.+++. |+++.... ....+..+-...++++.+. ++++ +++.+...+..+++++++.|+.
T Consensus 138 ~~~~~~~~~~R~~gf~~al~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~nd~~A~g~l~al~~~G~~ 215 (280)
T cd06303 138 YFSPGYISTARGDTFIDCVHARNNWTLTSEF-YTDATRQKAYQATSDILSNNPDVDF-IYACSTDIALGASDALKELGRE 215 (280)
T ss_pred ECCCCcchhHHHHHHHHHHHhCCCceEEEee-cCCCCHHHHHHHHHHHHHhCCCCcE-EEECCcHHHHHHHHHHHHcCCC
Confidence 6543221122267888999988 76643321 1111111333445554433 3565 4456677778999999999986
Q ss_pred CCCeEEEEeCc
Q 043468 160 EKDYIWITTDA 170 (720)
Q Consensus 160 ~~~~~~i~~~~ 170 (720)
++...++-+.
T Consensus 216 -~dv~vvg~d~ 225 (280)
T cd06303 216 -DDILINGWGG 225 (280)
T ss_pred -CCcEEEecCC
Confidence 4555554443
No 137
>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=96.25 E-value=0.075 Score=54.92 Aligned_cols=155 Identities=17% Similarity=0.148 Sum_probs=93.8
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+++++++|=- ...........+...++|+|..+...+ ... +..+..++..-+..+++++...|.++++++...
T Consensus 113 ~~~vdGiIi~-~~~~~~~~~~~l~~~~iPvV~~~~~~~---~~~---~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~ 185 (329)
T TIGR01481 113 SKQVDGIIFM-GGTITEKLREEFSRSPVPVVLAGTVDK---ENE---LPSVNIDYKQATKEAVGELIAKGHKSIAFVGGP 185 (329)
T ss_pred hCCCCEEEEe-CCCCChHHHHHHHhcCCCEEEEecCCC---CCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEecC
Confidence 4678777621 111223445566778999997654321 111 223667777777888898888899999999643
Q ss_pred CCC---cccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 86 IDS---SATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 86 ~~~---g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
... +..- .+.+++.+++.|+.+......... +..+-...++++.+.++++|+. .+...+..+++++++.|+.-+
T Consensus 186 ~~~~~~~~~R-~~Gf~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP 263 (329)
T TIGR01481 186 LSDSINGEDR-LEGYKEALNKAGIQFGEDLVCEGKYSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVP 263 (329)
T ss_pred cccccchHHH-HHHHHHHHHHcCCCCCcceEEecCCChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCC
Confidence 321 1222 688899999998764432222111 1113334556665567887554 455678899999999998533
Q ss_pred -CeEEEEeC
Q 043468 162 -DYIWITTD 169 (720)
Q Consensus 162 -~~~~i~~~ 169 (720)
+...++-+
T Consensus 264 ~dvsvvgfd 272 (329)
T TIGR01481 264 EDLEVITSN 272 (329)
T ss_pred CceEEEeeC
Confidence 34444333
No 138
>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=96.24 E-value=0.093 Score=52.49 Aligned_cols=161 Identities=13% Similarity=0.135 Sum_probs=95.8
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
.+++++|| .|..+.........+...++|+|......+. ....+++.++.+++...+..+++++... |.++++++
T Consensus 53 ~~~vdgiIi~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~--~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i 130 (273)
T cd06309 53 AQGVDVIILAPVVETGWDPVLKEAKAAGIPVILVDRGVDV--KDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVEL 130 (273)
T ss_pred HcCCCEEEEcCCccccchHHHHHHHHCCCCEEEEecCcCC--ccCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEE
Confidence 45677774 4544443344556677889999987753211 1112467778899998999999998665 88899999
Q ss_pred EEcCCC-cccCcHHHHHHHHHHc-CcEEEEEEecCCCCcccHHHHHHHhhcC---CCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 83 YEDIDS-SATGILPHLSDALREA-GAEIIHVLALPHFPSSRLSEELEKLKGG---QCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 83 ~~~~~~-g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~d~~~~l~~i~~~---~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
..+... ......+.+++.+++. +.++..... ...+..+....+.++.++ ++++| ++.+...+..+++.+.+.|
T Consensus 131 ~~~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~aI-~~~~d~~a~g~~~a~~~~g 208 (273)
T cd06309 131 QGTVGSSVAIDRKKGFAEVIKKYPNMKIVASQT-GDFTRAKGKEVMEALLKAHGDDIDAV-YAHNDEMALGAIQAIKAAG 208 (273)
T ss_pred eCCCCCchHHHHHHHHHHHHHHCCCCEEeeccC-CcccHHHHHHHHHHHHHhCCCCccEE-EECCcHHHHHHHHHHHHcC
Confidence 764332 1122257788889887 455432111 111111333344554433 35653 4445556667889999999
Q ss_pred CCCC-CeEEEEeCc
Q 043468 158 MMEK-DYIWITTDA 170 (720)
Q Consensus 158 ~~~~-~~~~i~~~~ 170 (720)
+..+ +...++-+.
T Consensus 209 ~~ip~di~iig~d~ 222 (273)
T cd06309 209 KKPGKDIKIVSIDG 222 (273)
T ss_pred CCCCCCeEEEecCC
Confidence 8633 344444433
No 139
>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=96.23 E-value=0.052 Score=54.09 Aligned_cols=157 Identities=15% Similarity=0.096 Sum_probs=92.7
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+++++++|...+..........+...++|+|......+. .. +-.+.++....++.+++++...|.++++++..+
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~~---~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~ 126 (268)
T cd06289 53 EHGVAGIILCPAAGTSPDLLKRLAESGIPVVLVAREVAG---AP---FDYVGPDNAAGARLATEHLISLGHRRIAFIGGL 126 (268)
T ss_pred HcCCCEEEEeCCCCccHHHHHHHHhcCCCEEEEeccCCC---CC---CCEEeecchHHHHHHHHHHHHCCCCCEEEecCC
Confidence 477888876444333334556677889999987543221 11 223566777788888888877899999998754
Q ss_pred CC-CcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 86 ID-SSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 86 ~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
.. .......+.+.+.+++.|..+.....+... +.......++++.+. ++++|+ +.+...+..+++.+++.|+..+
T Consensus 127 ~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~~~~a~~~~~al~~~g~~~p 205 (268)
T cd06289 127 EDSSTRRERLAGYRAALAEAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAIV-CFNDLVAFGAMSGLRRAGLTPG 205 (268)
T ss_pred ccccchHHHHHHHHHHHHHcCCCCCchhEEecCcchhhHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCC
Confidence 33 111223688889998888532221111111 111233444454333 456644 4455567778999999998633
Q ss_pred -CeEEEEeC
Q 043468 162 -DYIWITTD 169 (720)
Q Consensus 162 -~~~~i~~~ 169 (720)
+...++.+
T Consensus 206 ~di~iig~d 214 (268)
T cd06289 206 RDIAVVGFD 214 (268)
T ss_pred cceEEEeec
Confidence 33444433
No 140
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=96.17 E-value=0.18 Score=49.60 Aligned_cols=149 Identities=17% Similarity=0.265 Sum_probs=94.5
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcc---cccC-CCCeEEEeecChHHHHHHHHHHHHh--CC
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPN---WATE-RWPFLLQASQNQLAQMKAIAAIVQS--WE 75 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~---l~~~-~~~~~fr~~p~~~~~~~~~~~~l~~--~~ 75 (720)
+|. .++.++|++ ..+..+.++.+-.. ++|+|-.+.+++. +.+. .-|.--=+.-+|..-...-++++++ -+
T Consensus 83 ql~-~~~~dviv~-i~tp~Aq~~~s~~~--~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pn 158 (322)
T COG2984 83 QLV-GDKPDVIVA-IATPAAQALVSATK--TIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPN 158 (322)
T ss_pred Hhh-cCCCcEEEe-cCCHHHHHHHHhcC--CCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCC
Confidence 344 455566665 44444444444333 4999988877543 2210 1122222455565555666666665 48
Q ss_pred CeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHH---HHHH
Q 043468 76 WHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVH---LFEK 152 (720)
Q Consensus 76 ~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~---~l~~ 152 (720)
.++++++|..++.......+.+++.+++.|++|+..-. +... |....++.+. .++|+|++.++...... ++..
T Consensus 159 ak~Igv~Y~p~E~ns~~l~eelk~~A~~~Gl~vve~~v-~~~n--di~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~ 234 (322)
T COG2984 159 AKSIGVLYNPGEANSVSLVEELKKEARKAGLEVVEAAV-TSVN--DIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQV 234 (322)
T ss_pred CeeEEEEeCCCCcccHHHHHHHHHHHHHCCCEEEEEec-Cccc--ccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHH
Confidence 89999999988865566689999999999999866533 3222 6666666665 78999999987654443 3555
Q ss_pred HHHcCC
Q 043468 153 ANKMKM 158 (720)
Q Consensus 153 a~~~g~ 158 (720)
+.+.+.
T Consensus 235 a~~~ki 240 (322)
T COG2984 235 ANKAKI 240 (322)
T ss_pred HHHhCC
Confidence 666654
No 141
>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=96.17 E-value=0.057 Score=53.80 Aligned_cols=160 Identities=13% Similarity=0.107 Sum_probs=94.6
Q ss_pred ccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEE
Q 043468 3 LMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVI 82 (720)
Q Consensus 3 Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii 82 (720)
++.+++++++|...+.... .....+...++|+|......+ ...+++ +.+++...+..+++++...|.++++++
T Consensus 54 ~~~~~~vdgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i 126 (268)
T cd06271 54 LVESGLVDGVIISRTRPDD-PRVALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALL 126 (268)
T ss_pred HHHcCCCCEEEEecCCCCC-hHHHHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEe
Confidence 4556678888864332222 234556678999998754322 122343 456777777888888877899999999
Q ss_pred EEcCCC-cccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 83 YEDIDS-SATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 83 ~~~~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
...... ......+.+++.+++.|..+.....+... +.......++++.+. .+++|+.. +...+..+++++++.|+
T Consensus 127 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~ 205 (268)
T cd06271 127 NPPEDLTFAQHRRAGYRRALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGL 205 (268)
T ss_pred cCccccchHHHHHHHHHHHHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCC
Confidence 754332 11222678889999988764222222211 111233455554333 46775554 45666788999999998
Q ss_pred CCC-CeEEEEeCc
Q 043468 159 MEK-DYIWITTDA 170 (720)
Q Consensus 159 ~~~-~~~~i~~~~ 170 (720)
..+ +...++-+.
T Consensus 206 ~vp~~i~iig~d~ 218 (268)
T cd06271 206 RPGRDVSVVGFDD 218 (268)
T ss_pred CCCcceeEEEecC
Confidence 643 333443333
No 142
>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=96.10 E-value=0.057 Score=54.17 Aligned_cols=154 Identities=16% Similarity=0.104 Sum_probs=99.7
Q ss_pred cccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeE-EEEE
Q 043468 4 MDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQ-VTVI 82 (720)
Q Consensus 4 i~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~-v~ii 82 (720)
+.+++|+++|=.........+..+.+. ++|+|........- ...++ +..++..-+..+.+++...|.++ |+++
T Consensus 52 l~~~~vDGiI~~s~~~~~~~l~~~~~~-~iPvV~~~~~~~~~--~~~~~---V~~D~~~a~~~a~~~Li~~Gh~~~I~~i 125 (279)
T PF00532_consen 52 LLQRRVDGIILASSENDDEELRRLIKS-GIPVVLIDRYIDNP--EGVPS---VYIDNYEAGYEATEYLIKKGHRRPIAFI 125 (279)
T ss_dssp HHHTTSSEEEEESSSCTCHHHHHHHHT-TSEEEEESS-SCTT--CTSCE---EEEEHHHHHHHHHHHHHHTTCCSTEEEE
T ss_pred HHhcCCCEEEEecccCChHHHHHHHHc-CCCEEEEEeccCCc--ccCCE---EEEcchHHHHHHHHHHHhcccCCeEEEE
Confidence 346778888643222223566677777 99999876542211 12233 34557777778888999999999 9999
Q ss_pred EEcCCCcc-cCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCe--EEEEEcCHHHHHHHHHHHHHcC-
Q 043468 83 YEDIDSSA-TGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCR--VFVVHLSLELAVHLFEKANKMK- 157 (720)
Q Consensus 83 ~~~~~~g~-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~--vvil~~~~~~~~~~l~~a~~~g- 157 (720)
..+..... ..-.+.+++++++.|+.+........... .+-...++++.+.+++ + +++++...+...++.+.+.|
T Consensus 126 ~~~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~~~~~~~~~g~~~~~~ll~~~p~ida-i~~~nd~~A~ga~~~l~~~gr 204 (279)
T PF00532_consen 126 GGPEDSSTSRERLQGYRDALKEAGLPIDEEWIFEGDFDYESGYEAARELLESHPDIDA-IFCANDMMAIGAIRALRERGR 204 (279)
T ss_dssp EESTTTHHHHHHHHHHHHHHHHTTSCEEEEEEEESSSSHHHHHHHHHHHHHTSTT-SE-EEESSHHHHHHHHHHHHHTT-
T ss_pred ecCcchHHHHHHHHHHHHHHHHcCCCCCcccccccCCCHHHHHHHHHHHHhhCCCCEE-EEEeCHHHHHHHHHHHHHcCC
Confidence 88765321 11256789999999996555544332221 1333455666555555 5 67778888999999999999
Q ss_pred CCCCCeE
Q 043468 158 MMEKDYI 164 (720)
Q Consensus 158 ~~~~~~~ 164 (720)
+..++-+
T Consensus 205 ~~ip~di 211 (279)
T PF00532_consen 205 LKIPEDI 211 (279)
T ss_dssp TCTTTEE
T ss_pred cccChhh
Confidence 7655444
No 143
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=95.99 E-value=0.13 Score=52.98 Aligned_cols=155 Identities=15% Similarity=0.157 Sum_probs=103.3
Q ss_pred cccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEE
Q 043468 4 MDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIY 83 (720)
Q Consensus 4 i~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~ 83 (720)
+.+++|+++|=-. ..........+...++|+|..+...+. +.+-.+..++..-++.+++++.+.|.++++++.
T Consensus 110 l~~~~vdGiIi~~-~~~~~~~~~~l~~~~~P~V~i~~~~~~------~~~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~ 182 (333)
T COG1609 110 LLQKRVDGLILLG-ERPNDSLLELLAAAGIPVVVIDRSPPG------LGVPSVGIDNFAGAYLATEHLIELGHRRIAFIG 182 (333)
T ss_pred HHHcCCCEEEEec-CCCCHHHHHHHHhcCCCEEEEeCCCcc------CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEe
Confidence 3367788886422 344456677777779999987654431 234446788888899999999999999999999
Q ss_pred EcC-C-CcccCcHHHHHHHHHHcCcEE-EEEEecCCCCcccHHHHHHHhhcC--C-CeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 84 EDI-D-SSATGILPHLSDALREAGAEI-IHVLALPHFPSSRLSEELEKLKGG--Q-CRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 84 ~~~-~-~g~~~~~~~~~~~~~~~g~~v-~~~~~~~~~~~~d~~~~l~~i~~~--~-~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
... . .+..- .+.+++.+++.|+.. .........+..+-...+.++... . +++ +++++...+..+++.+.+.|
T Consensus 183 ~~~~~~~~~~R-~~Gf~~al~~~~~~~~~~~i~~~~~~~~~g~~~~~~ll~~~~~~ptA-if~~nD~~Alg~l~~~~~~g 260 (333)
T COG1609 183 GPLDSSASRER-LEGYRAALREAGLPINPEWIVEGDFSEESGYEAAERLLARGEPRPTA-IFCANDLMALGALRALRELG 260 (333)
T ss_pred CCCccccHhHH-HHHHHHHHHHCCCCCCcceEEecCCChHHHHHHHHHHHhcCCCCCcE-EEEcCcHHHHHHHHHHHHcC
Confidence 863 2 33333 789999999999875 222211111111444455555433 2 677 66777888999999999999
Q ss_pred CCCCC-eEEEE
Q 043468 158 MMEKD-YIWIT 167 (720)
Q Consensus 158 ~~~~~-~~~i~ 167 (720)
+..++ ...++
T Consensus 261 ~~vP~disviG 271 (333)
T COG1609 261 LRVPEDLSVIG 271 (333)
T ss_pred CCCCCeeEEEE
Confidence 86543 33443
No 144
>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=95.83 E-value=0.12 Score=51.78 Aligned_cols=147 Identities=12% Similarity=0.120 Sum_probs=88.5
Q ss_pred cccCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEE
Q 043468 4 MDSQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVI 82 (720)
Q Consensus 4 i~~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii 82 (720)
+...++++||= +.... ......+...++|+|..+...+. +.+..+.+++...+...++++...|.++++++
T Consensus 60 l~~~~~dgiii~~~~~~--~~~~~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i 131 (275)
T cd06295 60 LASGRADGVILIGQHDQ--DPLPERLAETGLPFVVWGRPLPG------QPYCYVGSDNVGGGRLATEHLLARGRRRIAFL 131 (275)
T ss_pred HHhCCCCEEEEeCCCCC--hHHHHHHHhCCCCEEEECCccCC------CCCCEEEECcHHHHHHHHHHHHHCCCCeEEEE
Confidence 33567887752 32222 23355667889999987653322 22334667778888888999888899999999
Q ss_pred EEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 83 YEDID-SSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 83 ~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
..+.. .......+.+++.+++.|..+......... +..+....+.++.+. ++++|+.. ....+..+++.+++.|+
T Consensus 132 ~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~ 210 (275)
T cd06295 132 GGPQDMPEGEERLEGYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGR 210 (275)
T ss_pred cCCCCcchhHHHHHHHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCC
Confidence 75433 111223678899998888543222111211 111223344444333 46765554 45667788898999998
Q ss_pred C
Q 043468 159 M 159 (720)
Q Consensus 159 ~ 159 (720)
.
T Consensus 211 ~ 211 (275)
T cd06295 211 R 211 (275)
T ss_pred C
Confidence 5
No 145
>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=95.80 E-value=0.11 Score=51.56 Aligned_cols=143 Identities=15% Similarity=0.165 Sum_probs=86.9
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+++++++|--.+... ....+.+...++|+|......+. ..+..+.++....+..+++++...|.++++++..+
T Consensus 52 ~~~vdgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~ 124 (266)
T cd06278 52 QYRVDGVIVTSGTLS-SELAEECRRNGIPVVLINRYVDG------PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGP 124 (266)
T ss_pred HcCCCEEEEecCCCC-HHHHHHHhhcCCCEEEECCccCC------CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCC
Confidence 567887764222222 23466677789999987643221 23345778888888999999888899999999865
Q ss_pred CCC-cccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 86 IDS-SATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 86 ~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
... ......+.+.+.+++.|.++... .....+..+....+.++.+. ++++|+.. +...+..+++.+++.+
T Consensus 125 ~~~~~~~~R~~gf~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~~ 197 (266)
T cd06278 125 ADTSTSRERERGFRDALAAAGVPVVVE-EAGDYSYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQEG 197 (266)
T ss_pred CcccchHHHHHHHHHHHHHcCCChhhh-ccCCCCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhc
Confidence 442 11222578888998888764321 11111111233444454433 46665443 4555667778787753
No 146
>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=95.78 E-value=0.23 Score=49.62 Aligned_cols=155 Identities=10% Similarity=0.057 Sum_probs=88.9
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
.+++++|| .|..+.........+...++|+|......+ ... .....+.++.......+++++... +.++++++
T Consensus 58 ~~~vDgiii~~~~~~~~~~~i~~~~~~gIpvV~~d~~~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~ 133 (274)
T cd06311 58 NRKIDALVILPFESAPLTQPVAKAKKAGIFVVVVDRGLS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVL 133 (274)
T ss_pred HcCCCEEEEeCCCchhhHHHHHHHHHCCCeEEEEcCCCC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEE
Confidence 46677665 344433333344556778999998764321 110 122346777777788888887655 78899999
Q ss_pred EEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 83 YEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 83 ~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
............+.+++.+++.|+++.... ....+..+....++++.+. ++++|+. .+...+..++.++++.|..+
T Consensus 134 ~g~~~~~~~~R~~gf~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~ 211 (274)
T cd06311 134 RGIPTPIDNERVDAFDAAIAKYPIKILDRQ-YANWNRDDAFSVMQDLLTKFPKIDAVWA-HDDDMAVGVLAAIKQAGRTD 211 (274)
T ss_pred ECCCCcchhHHHHHHHHHHhhCCcEEEecc-CCCCcHHHHHHHHHHHHHhCCCcCEEEE-CCCcHHHHHHHHHHHcCCCC
Confidence 754332112225788899999997765432 1111111223344444323 4666444 34445778889999988763
Q ss_pred CCeEEEE
Q 043468 161 KDYIWIT 167 (720)
Q Consensus 161 ~~~~~i~ 167 (720)
+...++
T Consensus 212 -~~~ivg 217 (274)
T cd06311 212 -IKFVVG 217 (274)
T ss_pred -CceEEE
Confidence 333343
No 147
>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=95.75 E-value=0.15 Score=50.79 Aligned_cols=156 Identities=17% Similarity=0.179 Sum_probs=91.1
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
++++++||--.... .......+...++|+|......+ . +....+..+....+...++++...|.++++++..+
T Consensus 53 ~~~vdgiii~~~~~-~~~~~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 125 (268)
T cd01575 53 SRRPAGLILTGLEH-TERTRQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGAR 125 (268)
T ss_pred HcCCCEEEEeCCCC-CHHHHHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCC
Confidence 46788876422221 23444556677999997643211 1 22234566777888888999888899999999865
Q ss_pred CC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCC-cccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 86 ID-SSATGILPHLSDALREAGAEIIHVLALPHFP-SSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 86 ~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~-~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
.. .......+.+++.+++.|............. .......+.++.+. ++++|+ +++...+..+++.+.+.|...+
T Consensus 126 ~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p 204 (268)
T cd01575 126 MDDTRAQQRLEGFRAALRAAGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVF-CSNDDLALGALFECQRRGISVP 204 (268)
T ss_pred CCcccHHHHHHHHHHHHHHcCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHhCCCCC
Confidence 43 1112225778889998886432222211111 11333445554333 567755 4555667788999999987533
Q ss_pred -CeEEEEeC
Q 043468 162 -DYIWITTD 169 (720)
Q Consensus 162 -~~~~i~~~ 169 (720)
+...++-+
T Consensus 205 ~di~vig~d 213 (268)
T cd01575 205 EDIAIAGFG 213 (268)
T ss_pred cceEEEecC
Confidence 33344433
No 148
>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=95.71 E-value=0.13 Score=51.14 Aligned_cols=156 Identities=15% Similarity=0.123 Sum_probs=90.0
Q ss_pred cccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEE
Q 043468 4 MDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIY 83 (720)
Q Consensus 4 i~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~ 83 (720)
+.+.+|+++|......... ..... ..++|+|......+ . +....+..++...++.+++++...|.++++++.
T Consensus 51 ~~~~~vdgiii~~~~~~~~-~~~~~-~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~ 122 (267)
T cd06284 51 LRRKQADGIILLDGSLPPT-ALTAL-AKLPPIVQACEYIP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALIT 122 (267)
T ss_pred HHHcCCCEEEEecCCCCHH-HHHHH-hcCCCEEEEecccC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEc
Confidence 3357888877632221211 22333 45999997643211 1 233346677778888899998888999999997
Q ss_pred EcCC--CcccCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 84 EDID--SSATGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 84 ~~~~--~g~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
.+.. .+.. ..+.|++.+++.|+++....... ..+.++....+.++.+. .+++|+.. +...+..+++++++.|+
T Consensus 123 ~~~~~~~~~~-r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~ 200 (267)
T cd06284 123 GPRDNPLARD-RLEGYRQALAEAGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGL 200 (267)
T ss_pred CCccchhHHH-HHHHHHHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCC
Confidence 6433 2222 36888899999886533221111 11111233444454333 46775554 55557788999999997
Q ss_pred CC-CCeEEEEeC
Q 043468 159 ME-KDYIWITTD 169 (720)
Q Consensus 159 ~~-~~~~~i~~~ 169 (720)
.. .+...++.+
T Consensus 201 ~~p~~v~v~g~d 212 (267)
T cd06284 201 RVPEDISVVGFD 212 (267)
T ss_pred CCccceeEEEeC
Confidence 53 233344433
No 149
>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=95.69 E-value=0.4 Score=47.90 Aligned_cols=158 Identities=11% Similarity=0.091 Sum_probs=93.2
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
++++++|| .|..+.........+...++|+|......+ ....+....+.+++..-...+++++... |.++++++
T Consensus 53 ~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~---~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l 129 (272)
T cd06313 53 SQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIA---PLQINVHSFLAPDNYFMGASVAQALCNAMGGKGKIAML 129 (272)
T ss_pred HcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCC---CCCCceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEE
Confidence 46677665 344333334444556677999998764321 1111233446788888889999998666 88899999
Q ss_pred EEcCCCc-ccCcHHHHHHHHHHcC-cEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 83 YEDIDSS-ATGILPHLSDALREAG-AEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 83 ~~~~~~g-~~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
..+.... ...-.+.+++.+++.+ .++... .....+.......++++.+. ++++ +++.+...+..+++.+++.|+
T Consensus 130 ~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~nd~~a~g~~~al~~~g~ 207 (272)
T cd06313 130 QGALGHTGAQGRAQGFNDVIKKYPDIEVVDE-QPANWDVSKAARIWETWLTKYPQLDG-AFCHNDSMALAAYQIMKAAGR 207 (272)
T ss_pred ECCCCCcchhHHHHHHHHHHHhCCCCEEEec-cCCCCCHHHHHHHHHHHHHhCCCCCE-EEECCCcHHHHHHHHHHHcCC
Confidence 7543321 1122788899998876 555432 11111111333455554433 3565 444556677788899999998
Q ss_pred CCCCeEEEEeCc
Q 043468 159 MEKDYIWITTDA 170 (720)
Q Consensus 159 ~~~~~~~i~~~~ 170 (720)
.+...++-+.
T Consensus 208 --~di~vvgfd~ 217 (272)
T cd06313 208 --TKIVIGGVDG 217 (272)
T ss_pred --CceEEEeecC
Confidence 3555554443
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=95.53 E-value=0.16 Score=50.20 Aligned_cols=149 Identities=15% Similarity=0.111 Sum_probs=90.9
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
.++++++|...... .......+...++|+|..+...+ ....+.++....+..+++++...|.++++++...
T Consensus 53 ~~~~dgii~~~~~~-~~~~~~~~~~~~ipvv~~~~~~~--------~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~ 123 (259)
T cd01542 53 RQKVDGIILLATTI-TDEHREAIKKLNVPVVVVGQDYP--------GISSVVYDDYGAGYELGEYLAQQGHKNIAYLGVS 123 (259)
T ss_pred hcCCCEEEEeCCCC-CHHHHHHHhcCCCCEEEEeccCC--------CCCEEEECcHHHHHHHHHHHHHcCCCcEEEEcCC
Confidence 57888887633322 24555666777999998764221 2233667888888999999888889999998643
Q ss_pred CC---CcccCcHHHHHHHHHHcCc-EEEEEEecCCCCcccHHHHHHHhhcCC-CeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 86 ID---SSATGILPHLSDALREAGA-EIIHVLALPHFPSSRLSEELEKLKGGQ-CRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 86 ~~---~g~~~~~~~~~~~~~~~g~-~v~~~~~~~~~~~~d~~~~l~~i~~~~-~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
.. .... ..+.+++.+++.|. .+. ......+.......+.++.+.. +++|+.. +...+..+++.+++.|+.-
T Consensus 124 ~~~~~~~~~-r~~gf~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~i~~~-~d~~a~g~~~~l~~~g~~v 199 (259)
T cd01542 124 ESDIAVGIL-RKQGYLDALKEHGICPPN--IVETDFSYESAYEAAQELLEPQPPDAIVCA-TDTIALGAMKYLQELGRRI 199 (259)
T ss_pred cccchhHHH-HHHHHHHHHHHcCCChHH--eeeccCchhhHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHcCCCC
Confidence 22 1112 25788899998887 211 1111111113344555554444 6765544 4566778899999999864
Q ss_pred CCeEEEE
Q 043468 161 KDYIWIT 167 (720)
Q Consensus 161 ~~~~~i~ 167 (720)
++-+.+.
T Consensus 200 p~di~v~ 206 (259)
T cd01542 200 PEDISVA 206 (259)
T ss_pred CCceEEE
Confidence 3333333
No 151
>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=95.51 E-value=0.4 Score=47.80 Aligned_cols=157 Identities=16% Similarity=0.182 Sum_probs=93.4
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
..++++|| .|............+...++|+|......+ .. .+...+..++...+...++++... |.++++++
T Consensus 54 ~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l 128 (270)
T cd06308 54 RQGVDLLIISPNEAAPLTPVVEEAYRAGIPVILLDRKIL---SD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEI 128 (270)
T ss_pred HhCCCEEEEecCchhhchHHHHHHHHCCCCEEEeCCCCC---Cc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEE
Confidence 45666664 333322223334455678999998764221 11 234457778888888888887664 88999999
Q ss_pred EEcCCCc-ccCcHHHHHHHHHHc-CcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 83 YEDIDSS-ATGILPHLSDALREA-GAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 83 ~~~~~~g-~~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
....... .....+.+++.+++. |+++.... ....+..+-...+.++.++ ++++ |++.+...+..+++.+++.|+
T Consensus 129 ~~~~~~~~~~~R~~g~~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~a-I~~~~d~~a~g~~~al~~~g~ 206 (270)
T cd06308 129 WGLEGSSPAIERHDGFKEALSKYPKIKIVAQQ-DGDWLKEKAEEKMEELLQANPDIDL-VYAHNDPMALGAYLAAKRAGR 206 (270)
T ss_pred ECCCCCchHHHHHHHHHHHHHHCCCCEEEEec-CCCccHHHHHHHHHHHHHhCCCCcE-EEeCCcHHHHHHHHHHHHcCC
Confidence 7533321 112267888899988 88765322 1111111222344444322 4665 455567777789999999998
Q ss_pred CCCCeEEEEeCc
Q 043468 159 MEKDYIWITTDA 170 (720)
Q Consensus 159 ~~~~~~~i~~~~ 170 (720)
. .+...++-+.
T Consensus 207 ~-~dv~vvg~d~ 217 (270)
T cd06308 207 E-KEIKFIGIDG 217 (270)
T ss_pred C-CCcEEEEecC
Confidence 7 4555555554
No 152
>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=95.42 E-value=0.071 Score=54.27 Aligned_cols=66 Identities=11% Similarity=-0.034 Sum_probs=39.4
Q ss_pred HHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeee-ccceeeee----ecccccccceEEEEeccc
Q 043468 386 ALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIV-ARRCQYAD----FTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 386 ~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t-~~r~~~~~----fs~p~~~~~~~~~v~~~~ 454 (720)
.+++++|.++++...+ ++..++..|.+|++|++..+.... ..+.+..+ +..........+++++.+
T Consensus 20 ~~~k~~Gl~Ve~~~~~---~~~~~~~al~~G~iD~~~~~~~~~~~a~~~g~~~~~v~~~~~~~~~~~lv~~~~s 90 (300)
T TIGR01729 20 AAAKEAGATIDWRKFD---SGADISTALASGNVPIGVIGSSPLAAAASRGVPIELFWILDNIGKSEALVAREGS 90 (300)
T ss_pred chHHhcCCeeEEEecC---cHHHHHHHHHcCCCCEeccCCCHHHHHHHCCCCeEEEEEeccCCccceEEecCCC
Confidence 4566688876665543 478899999999999997543321 12222222 223333334567777654
No 153
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=95.41 E-value=0.23 Score=47.93 Aligned_cols=142 Identities=8% Similarity=0.054 Sum_probs=93.6
Q ss_pred HHHHHhhccCCCcEEecccCCcccccC--C-CCeE--EEeecChHHHHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHH
Q 043468 22 SSVAEIASKKQIPVLSFADATPNWATE--R-WPFL--LQASQNQLAQMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPH 96 (720)
Q Consensus 22 ~~~~~~~~~~~ip~is~~~~~~~l~~~--~-~~~~--fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~ 96 (720)
.+++.+....++-.|.+++|+..+-.+ . ..-. =+...+...-+.++.+.++++|.+|++++..-.+ ...+.
T Consensus 61 ~aa~~ll~~a~~dvi~~~cTsgs~~~G~~~~~~~i~~~~~g~p~tt~~~A~~~AL~alg~~RIalvTPY~~----~v~~~ 136 (239)
T TIGR02990 61 EAAALILPDEELDVVAYSCTSASVVIGDDEVTRAINAAKPGTPVVTPSSAAVDGLAALGVRRISLLTPYTP----ETSRP 136 (239)
T ss_pred HHHHHhcCCCCCCEEEEccchhheecCHHHHHHHHHhcCCCCCeeCHHHHHHHHHHHcCCCEEEEECCCcH----HHHHH
Confidence 344455555688889999887665210 0 0000 0122334456788999999999999999966333 33789
Q ss_pred HHHHHHHcCcEEEEEEecCCCCc--------ccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 043468 97 LSDALREAGAEIIHVLALPHFPS--------SRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKDYIWITT 168 (720)
Q Consensus 97 ~~~~~~~~g~~v~~~~~~~~~~~--------~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 168 (720)
+++.+++.|++|+....+..... ++....+.++...++|+|++.|..-....++.++.+. + +.+.+.+
T Consensus 137 ~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDAifisCTnLrt~~vi~~lE~~-l---GkPVlsS 212 (239)
T TIGR02990 137 MAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADALFLSCTALRAATCAQRIEQA-I---GKPVVTS 212 (239)
T ss_pred HHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCEEEEeCCCchhHHHHHHHHHH-H---CCCEEEH
Confidence 99999999999998865543211 1344444555467999999999998888998888653 2 2255665
Q ss_pred Ccc
Q 043468 169 DAF 171 (720)
Q Consensus 169 ~~~ 171 (720)
+..
T Consensus 213 Nqa 215 (239)
T TIGR02990 213 NQA 215 (239)
T ss_pred HHH
Confidence 553
No 154
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=95.37 E-value=0.24 Score=49.48 Aligned_cols=76 Identities=9% Similarity=0.044 Sum_probs=58.3
Q ss_pred eEEEecCcchHHHHHhcCcccEEEechhHHHHHHHhc-C---CCcEeeCCeeecCceeeEecCCCC--ChHHHHHHHhcc
Q 043468 571 IIGYSRCLGDYASDLKSRKTGAVFLEVAEAKIFLAKY-C---KGFTVAGPTYKVGGLGFAFPKGSP--LLPSVIEALLKV 644 (720)
Q Consensus 571 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~---~~l~~~~~~~~~~~~~~~~~k~s~--~~~~in~~i~~~ 644 (720)
++.+..+.+..+..|.+|++|++.............. . ++++++...-......++++++-| +++.+-.++..+
T Consensus 179 ~v~~~G~H~~a~~aV~nG~vDva~~~~~~~~~~~~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~~~~k~kl~~af~~l 258 (299)
T COG3221 179 EVIFSGGHDAAVLAVANGQVDVAAVNSSARGLLKKAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLPADLKEKLRDAFLDL 258 (299)
T ss_pred eeeccChHHHHHHHHHcCCceEEeccHHHHhhhhhcccccchhhceEEEecCCCCCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence 4445555789999999999999999887766665554 2 367777766555566788888855 999999999999
Q ss_pred cc
Q 043468 645 SE 646 (720)
Q Consensus 645 ~~ 646 (720)
.+
T Consensus 259 ~~ 260 (299)
T COG3221 259 AK 260 (299)
T ss_pred Cc
Confidence 86
No 155
>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=95.37 E-value=0.32 Score=48.23 Aligned_cols=143 Identities=13% Similarity=0.147 Sum_probs=87.1
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+++++++|- +..... ..+.. +...++|+|......+ +.+-.+..++..-++.+++++...|.++++++..
T Consensus 54 ~~~vdgiii~~~~~~~-~~~~~-~~~~~ipvv~~~~~~~-------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 124 (264)
T cd01574 54 AQRVDGVIVNAPLDDA-DAALA-AAPADVPVVFVDGSPS-------PRVSTVSVDQEGGARLATEHLLELGHRTIAHVAG 124 (264)
T ss_pred hcCCCEEEEeCCCCCh-HHHHH-HHhcCCCEEEEeccCC-------CCCCEEEeCcHHHHHHHHHHHHHCCCCEEEEEec
Confidence 567888863 332222 23333 3567999998765321 1233466777788888899988889999999976
Q ss_pred cCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC-CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 85 DID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG-QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 85 ~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~-~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
+.. .......+.+.+.+++.|+.+..... ...+.+.....++++.+. ++++| ++++...+..+++++++.|..
T Consensus 125 ~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~ai-~~~~d~~a~g~~~~~~~~g~~ 199 (264)
T cd01574 125 PEEWLSARARLAGWRAALEAAGIAPPPVLE-GDWSAESGYRAGRELLREGDPTAV-FAANDQMALGVLRALHELGLR 199 (264)
T ss_pred CCccchHHHHHHHHHHHHHHCCCCcceeee-cCCCHHHHHHHHHHHHhCCCCcEE-EEcCcHHHHHHHHHHHHcCCC
Confidence 443 21122257788888888876543221 111111233444555433 36664 445666778899999999964
No 156
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=95.36 E-value=0.39 Score=49.56 Aligned_cols=147 Identities=11% Similarity=0.101 Sum_probs=86.7
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
++++++||= |..... ......+...++|+|......+ ....+ .+..++..-+..+++++...|.++++++..
T Consensus 115 ~~~vdgiIi~~~~~~~-~~~~~~l~~~~iPvV~v~~~~~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~r~I~~i~~ 187 (328)
T PRK11303 115 QRQVDALIVSTSLPPE-HPFYQRLQNDGLPIIALDRALD---REHFT---SVVSDDQDDAEMLAESLLKFPAESILLLGA 187 (328)
T ss_pred HcCCCEEEEcCCCCCC-hHHHHHHHhcCCCEEEECCCCC---CCCCC---EEEeCCHHHHHHHHHHHHHCCCCeEEEEeC
Confidence 567888763 222222 2333445567999998754321 11222 345677777888888888889999999975
Q ss_pred cCCCc-ccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 85 DIDSS-ATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 85 ~~~~g-~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
..... ...-.+.+++.+++.|+.+.... ....+.++-...++++.+. .+++|+. .+...+..+++++.+.|+.-+
T Consensus 188 ~~~~~~~~~R~~Gf~~al~~~g~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~al~~~g~~vP 265 (328)
T PRK11303 188 LPELSVSFEREQGFRQALKDDPREVHYLY-ANSFEREAGAQLFEKWLETHPMPDALFT-TSYTLLQGVLDVLLERPGELP 265 (328)
T ss_pred ccccccHHHHHHHHHHHHHHcCCCceEEE-eCCCChHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCC
Confidence 43311 11125788999999987543221 1111111223345555433 4677554 445567788999999998543
No 157
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=95.29 E-value=0.074 Score=52.51 Aligned_cols=88 Identities=17% Similarity=0.184 Sum_probs=54.6
Q ss_pred CCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeee
Q 043468 345 KDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGD 424 (720)
Q Consensus 345 ~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 424 (720)
+..+||||....+++.|+. +-.-+.+.++.|+++++.... ++..++..+.+|++|++..
T Consensus 4 ~~~~l~ig~~~~~~~~p~~-----------------~a~~~g~f~~~G~~ve~~~~~---~g~~~~~al~~G~iD~a~~- 62 (252)
T PF13379_consen 4 EPTTLRIGYLPGPDYAPLY-----------------VAQEKGLFEKEGLDVEWVQFA---SGADILEALAAGEIDIAFV- 62 (252)
T ss_dssp SESEEEEEETSSGGGHHHH-----------------HHHHTTHHHHTTSCEEEEEES---SHHHHHHHHHCTSSSEEEE-
T ss_pred CCcEEEEEeecchHHHHHH-----------------HHHHcChHHHcCCEEEEEEcC---CHHHHHHHHHcCCCCEEEe-
Confidence 3468999996554444431 112234667789887666655 6799999999999999975
Q ss_pred ee---eecccee-----eeeecccccccceEEEEecc
Q 043468 425 VA---IVARRCQ-----YADFTHPYTESGLVMIFPVQ 453 (720)
Q Consensus 425 ~~---~t~~r~~-----~~~fs~p~~~~~~~~~v~~~ 453 (720)
.. .-..+-. .+.........+..++++..
T Consensus 63 ~~~~~~~~~~g~~~~~~~~~~~~~~~~~g~~lvv~~~ 99 (252)
T PF13379_consen 63 LAPALIAIAKGAGGPDVDIVVLAGLSQNGNALVVRND 99 (252)
T ss_dssp CTHHHHHHHTTTTT----EEEEEECSBSSEEEEECGG
T ss_pred chHHHHHHHcCCCCcccceEEeeccCCCceEEEEcCc
Confidence 21 1112222 23333445666778888764
No 158
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=95.25 E-value=0.43 Score=47.60 Aligned_cols=152 Identities=11% Similarity=0.076 Sum_probs=88.6
Q ss_pred cccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEE
Q 043468 4 MDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIY 83 (720)
Q Consensus 4 i~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~ 83 (720)
+...+|+++|-...... ......+...++|+|........ ....++ +..++..-...+++++...|.+++++|.
T Consensus 52 l~~~~vdgiIi~~~~~~-~~~~~~l~~~~iPvV~i~~~~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~ 125 (269)
T cd06287 52 LDALDIDGAILVEPMAD-DPQVARLRQRGIPVVSIGRPPGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIV 125 (269)
T ss_pred hhccCcCeEEEecCCCC-CHHHHHHHHcCCCEEEeCCCCCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEe
Confidence 44678887653111112 22334455679999987643210 112233 4456677778888888888999999996
Q ss_pred EcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 84 EDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 84 ~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
.... .......+.+++.+++.|+...........+..+-...++++.+. ++++ |++.+...+..+++.+++.|+.-
T Consensus 126 ~~~~~~~~~~R~~gf~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~A~gvl~al~~~gl~v 204 (269)
T cd06287 126 GSARRNSYLEAEAAYRAFAAEHGMPPVVLRVDEAGGEEAGYAACAQLLAQHPDLDA-LCVPVDAFAVGAVRAATELGRAV 204 (269)
T ss_pred CCcccccHHHHHHHHHHHHHHcCCCcceeEecCCCChHHHHHHHHHHHhCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCC
Confidence 4332 111222677889999988754221111111111223455555433 4676 44567788889999999999864
Q ss_pred CC
Q 043468 161 KD 162 (720)
Q Consensus 161 ~~ 162 (720)
++
T Consensus 205 P~ 206 (269)
T cd06287 205 PD 206 (269)
T ss_pred CC
Confidence 43
No 159
>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=95.14 E-value=0.55 Score=46.79 Aligned_cols=155 Identities=12% Similarity=0.017 Sum_probs=90.4
Q ss_pred cCCeEEE-ECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAI-LGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~ai-iGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
.++++++ +.|............+...++|+|..+...+. ....+..++...++.+++++... |.++++++
T Consensus 55 ~~~~dgiIi~~~~~~~~~~~i~~~~~~~ipvv~~~~~~~~-------~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i 127 (271)
T cd06321 55 AAKVDLILLNAVDSKGIAPAVKRAQAAGIVVVAVDVAAEG-------ADATVTTDNVQAGEISCQYLADRLGGKGNVAIL 127 (271)
T ss_pred HhCCCEEEEeCCChhHhHHHHHHHHHCCCeEEEecCCCCC-------ccceeeechHHHHHHHHHHHHHHhCCCceEEEE
Confidence 4566665 44433332234445566779999988653221 11246778888888889988766 89999999
Q ss_pred EEcCCCcccCcHHHHHHHHHHc-CcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 83 YEDIDSSATGILPHLSDALREA-GAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 83 ~~~~~~g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
..+.........+.+++.+++. +++..........+...-...++++.+. ++++| ++.+...+..+++++++.|+.
T Consensus 128 ~g~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~al~~~g~~ 206 (271)
T cd06321 128 NGPPVSAVLDRVAGCKAALAKYPGIKLLSDDQNGKGSRDGGLRVMQGLLTRFPKLDGV-FAINDPTAIGADLAAKQAGRN 206 (271)
T ss_pred eCCCCchHHHHHHHHHHHHHhCCCcEEEeeecCCCCChhhHHHHHHHHHHhCCCCCEE-EECCchhHHHHHHHHHHcCCC
Confidence 7643321122267888888887 5653322111111111222344554333 45664 444566677888999999982
Q ss_pred CCCeEEEEeCc
Q 043468 160 EKDYIWITTDA 170 (720)
Q Consensus 160 ~~~~~~i~~~~ 170 (720)
+..+++.+.
T Consensus 207 --di~v~g~d~ 215 (271)
T cd06321 207 --DIKITSVDG 215 (271)
T ss_pred --CcEEEEecC
Confidence 555555444
No 160
>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=95.13 E-value=0.3 Score=48.46 Aligned_cols=148 Identities=13% Similarity=0.163 Sum_probs=87.1
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
..++++||=........ ....+...++|+|......+. +.+..+..++...+..+++++...|.++++++...
T Consensus 53 ~~~~dgiii~~~~~~~~-~l~~~~~~~ipvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~ 125 (267)
T cd06283 53 AYQVDGLIVNPTGNNKE-LYQRLAKNGKPVVLVDRKIPE------LGVDTVTLDNYEAAKEAVDHLIEKGYERILFVTEP 125 (267)
T ss_pred HcCcCEEEEeCCCCChH-HHHHHhcCCCCEEEEcCCCCC------CCCCEEEeccHHHHHHHHHHHHHcCCCcEEEEecC
Confidence 46777775322222222 235566789999987643221 12233556777788888999888899999999754
Q ss_pred CC--CcccCcHHHHHHHHHHcCcEEEEEEe-cCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 86 ID--SSATGILPHLSDALREAGAEIIHVLA-LPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 86 ~~--~g~~~~~~~~~~~~~~~g~~v~~~~~-~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
.. .......+.+++.+++.|........ ....+..+....++++.++ .+++|+. ++...+..+++.+++.|+..
T Consensus 126 ~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~v 204 (267)
T cd06283 126 LDEISPRMERYEGFKEALAEHGIGVNEELIEIDDEDADELDERLRQLLNKPKKKTAIFA-ANGLILLEVLKALKELGIRI 204 (267)
T ss_pred ccccccHHHHHHHHHHHHHHcCCCCCcceeEecccchHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCC
Confidence 33 11112357888889888743222111 1111111445566666544 3566444 45566678899999999853
Q ss_pred C
Q 043468 161 K 161 (720)
Q Consensus 161 ~ 161 (720)
+
T Consensus 205 p 205 (267)
T cd06283 205 P 205 (267)
T ss_pred c
Confidence 3
No 161
>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=95.04 E-value=0.2 Score=49.88 Aligned_cols=145 Identities=11% Similarity=-0.003 Sum_probs=87.3
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
..+++++|-...... .+.......++|+|......+. . .+..+.+++...+..+++++...|.++++++..+
T Consensus 54 ~~~~dgiii~~~~~~--~~~~~~~~~~ipvv~~~~~~~~---~---~~~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~ 125 (269)
T cd06288 54 DHRVDGIIYATMYHR--EVTLPPELLSVPTVLLNCYDAD---G---ALPSVVPDEEQGGYDATRHLLAAGHRRIAFINGE 125 (269)
T ss_pred HcCCCEEEEecCCCC--hhHHHHHhcCCCEEEEecccCC---C---CCCeEEEccHHHHHHHHHHHHHcCCceEEEEeCC
Confidence 467777765332211 1123345578999887543221 1 2334667888888999999877799999999765
Q ss_pred CCC-cccCcHHHHHHHHHHcCcEEEEE--EecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 86 IDS-SATGILPHLSDALREAGAEIIHV--LALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 86 ~~~-g~~~~~~~~~~~~~~~g~~v~~~--~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
... ......+.+.+.+++.|+++... ........ +....++++.+. ++++| ++.+...+..+++.+++.|+.-
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~v 203 (269)
T cd06288 126 PWMLAAKDRLKGYRQALAEAGIPFDPDLVVHGDWSAD-DGYEAAAALLDLDDRPTAI-FCGNDRMAMGAYQALLERGLRI 203 (269)
T ss_pred ccchhHHHHHHHHHHHHHHcCCCCCHHHeEeCCCChH-HHHHHHHHHHhCCCCCCEE-EEeCcHHHHHHHHHHHHcCCCC
Confidence 431 11223678888999888653221 11111111 333445555433 46775 4456667778889999999853
No 162
>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=94.97 E-value=0.24 Score=49.28 Aligned_cols=159 Identities=12% Similarity=0.163 Sum_probs=92.1
Q ss_pred ccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEE
Q 043468 3 LMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVI 82 (720)
Q Consensus 3 Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii 82 (720)
++.+.++++||-... .........+...++|+|......+. .+.+..+..++....+.+++++...|.++++++
T Consensus 55 ~~~~~~~dgiii~~~-~~~~~~~~~~~~~~ipvV~~~~~~~~-----~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i 128 (270)
T cd06294 55 MIQQKRVDGFILLYS-REDDPIIDYLKEEKFPFVVIGKPEDD-----KENITYVDNDNIQAGYDATEYLIKLGHKKIAFV 128 (270)
T ss_pred HHHHcCcCEEEEecC-cCCcHHHHHHHhcCCCEEEECCCCCC-----CCCCCeEEECcHHHHHHHHHHHHHcCCccEEEe
Confidence 344456777654221 22234455567789999987643211 012233556777777888888877799999999
Q ss_pred EEcCCC-cccCcHHHHHHHHHHcCcEEEE--EEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 83 YEDIDS-SATGILPHLSDALREAGAEIIH--VLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 83 ~~~~~~-g~~~~~~~~~~~~~~~g~~v~~--~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
..+... ......+.+++.+++.|+.+.. ....+.... +....+.++.++ ++++|+. .+...+..+++.+++.|
T Consensus 129 ~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g 206 (270)
T cd06294 129 GGDLDLEVTQDRLQGYKQALEDHGIPDRNEVIISLDFSEE-GGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELG 206 (270)
T ss_pred cCCcccHHHHHHHHHHHHHHHHcCCCCCcceEEecCCchH-HHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcC
Confidence 754332 1122267889999998853211 111111111 334455555433 4666444 56778888999999999
Q ss_pred CCCC-CeEEEEeC
Q 043468 158 MMEK-DYIWITTD 169 (720)
Q Consensus 158 ~~~~-~~~~i~~~ 169 (720)
+.-+ +..+++.+
T Consensus 207 ~~iP~dv~vig~d 219 (270)
T cd06294 207 LKVPEDLSIIGFN 219 (270)
T ss_pred CCCCcceEEEeeC
Confidence 8532 34444433
No 163
>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=94.95 E-value=0.46 Score=47.36 Aligned_cols=152 Identities=11% Similarity=0.013 Sum_probs=89.7
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCC-----eEE
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEW-----HQV 79 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~-----~~v 79 (720)
..++++||= |....... ....+...++|+|....... .. ...-.+..++...++.+++++...+. +++
T Consensus 55 ~~~vdgiI~~~~~~~~~~-~~~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i 128 (268)
T cd06306 55 AWGADAILLGAVSPDGLN-EILQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKV 128 (268)
T ss_pred HcCCCEEEEcCCChhhHH-HHHHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceE
Confidence 467887753 33222222 34556778999997653221 11 12234677778888888898866665 899
Q ss_pred EEEEEcCCC-cccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 80 TVIYEDIDS-SATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 80 ~ii~~~~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
+++...... ......+.+++.+++.++++.... ....+...-...++++.+. ++++|+. ....+..+++.+++.
T Consensus 129 ~~l~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~ 205 (268)
T cd06306 129 AWFPGPKGAGWVKAVEKGFRDALAGSAIEISAIK-YGDTGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQR 205 (268)
T ss_pred EEEeCCCCCchHHHHHHHHHHHHhhcCcEEeeec-cCCccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhc
Confidence 999754331 112225778889999998765421 1111111233455554322 5677763 367778889999999
Q ss_pred CCCCCCeEEEE
Q 043468 157 KMMEKDYIWIT 167 (720)
Q Consensus 157 g~~~~~~~~i~ 167 (720)
|+. ++...++
T Consensus 206 g~p-~di~vig 215 (268)
T cd06306 206 GLT-DQIKIVS 215 (268)
T ss_pred CCC-CCeEEEe
Confidence 973 3444443
No 164
>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=94.92 E-value=0.26 Score=49.13 Aligned_cols=156 Identities=10% Similarity=0.106 Sum_probs=90.0
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+.+|+++|--.+......+...+...++|+|......+ ...+ .+..+...-+...++++...|.++++++...
T Consensus 53 ~~~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i~~~~~----~~~~---~V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~ 125 (269)
T cd06281 53 QRRMDGIIIAPGDERDPELVDALASLDLPIVLLDRDMG----GGAD---AVLFDHAAGMRQAVEYLISLGHRRIALVGGG 125 (269)
T ss_pred HcCCCEEEEecCCCCcHHHHHHHHhCCCCEEEEecccC----CCCC---EEEECcHHHHHHHHHHHHHCCCcEEEEecCc
Confidence 56788777422222234556667778999998765432 1122 2455665566777888777799999999654
Q ss_pred CCC-cccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhc--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCC-
Q 043468 86 IDS-SATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKG--GQCRVFVVHLSLELAVHLFEKANKMKMMEK- 161 (720)
Q Consensus 86 ~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~--~~~~vvil~~~~~~~~~~l~~a~~~g~~~~- 161 (720)
... ......+.+++.+++.|+++.....+.......-...+.++.+ ..+++|+ +.+...+..+++.+.+.|+.-+
T Consensus 126 ~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~ 204 (269)
T cd06281 126 SNTRPGRERLEGYKAAFAAAGLPPDPALVRLSTPAASGFDATRALLALPDRPTAII-AGGTQVLVGVLRALREAGLRIPR 204 (269)
T ss_pred cccccHHHHHHHHHHHHHHcCCCCCHHHeecCcHHHHHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCc
Confidence 322 1112257888999998875421111111101122334444432 3578865 4455666688999999998533
Q ss_pred CeEEEEeC
Q 043468 162 DYIWITTD 169 (720)
Q Consensus 162 ~~~~i~~~ 169 (720)
+...++-+
T Consensus 205 dv~iig~d 212 (269)
T cd06281 205 DLSVISIG 212 (269)
T ss_pred ceeEEEec
Confidence 33344333
No 165
>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=94.90 E-value=0.39 Score=47.79 Aligned_cols=157 Identities=13% Similarity=0.066 Sum_probs=92.0
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
++++++||--.+. ........+...++|+|......+. ..+++ +..+...-++.+++++...|.++++++..+
T Consensus 53 ~~~vdgii~~~~~-~~~~~~~~~~~~~ipvV~~~~~~~~---~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 125 (268)
T cd06270 53 ERRCDALILHSKA-LSDDELIELAAQVPPLVLINRHIPG---LADRC---IWLDNEQGGYLATEHLIELGHRKIACITGP 125 (268)
T ss_pred HcCCCEEEEecCC-CCHHHHHHHhhCCCCEEEEeccCCC---CCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCC
Confidence 4678877642221 2222245556789999987643221 12222 567788888889999888899999999764
Q ss_pred CCC-cccCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 86 IDS-SATGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 86 ~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
... ......+.+++.+++.|.++....... ..+..+....++++.++ .+++|+ ++....+..+++.+++.|+.-+
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip 204 (268)
T cd06270 126 LTKEDARLRLQGYRDALAEAGIALDESLIIEGDFTEEGGYAAMQELLARGAPFTAVF-CANDEMAAGAISALREHGISVP 204 (268)
T ss_pred cccccHHHHHHHHHHHHHHcCCCCCcceEEECCCCHHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCC
Confidence 332 111225778889999886542211111 11111344455555444 456644 4556677889999999997532
Q ss_pred -CeEEEEeCc
Q 043468 162 -DYIWITTDA 170 (720)
Q Consensus 162 -~~~~i~~~~ 170 (720)
+...++-+.
T Consensus 205 ~di~v~g~d~ 214 (268)
T cd06270 205 QDVSIIGFDD 214 (268)
T ss_pred CceeEEEecC
Confidence 343444343
No 166
>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=94.87 E-value=0.36 Score=47.94 Aligned_cols=147 Identities=14% Similarity=0.168 Sum_probs=84.9
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+.++++||=....... .....+...++|+|..+...+ ....+++ ..++..-...+++++...|.++++++...
T Consensus 53 ~~~vdgiIi~~~~~~~-~~~~~l~~~~ipvV~~~~~~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~ 125 (265)
T cd06299 53 SQRVDGIIVVPHEQSA-EQLEDLLKRGIPVVFVDREIT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGP 125 (265)
T ss_pred hcCCCEEEEcCCCCCh-HHHHHHHhCCCCEEEEecccC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCC
Confidence 5678877642222222 334566678999998765322 1223333 34555555666777777799999999654
Q ss_pred CCC-cccCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 86 IDS-SATGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 86 ~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
... ......+.+++.+++.|.++....... .....+....+.++.+.++++| ++++...+..+++.+++.|+.-
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~av-~~~~d~~a~gv~~al~~~g~~v 201 (265)
T cd06299 126 QDTSTGRERLEAFRQACASLGLEVNEDLVVLGGYSQESGYAGATKLLDQGATAI-IAGDSMMTIGAIRAIHDAGLVI 201 (265)
T ss_pred CCcccHHHHHHHHHHHHHHCCCCCChHhEEecCcchHHHHHHHHHHHcCCCCEE-EEcCcHHHHHHHHHHHHhCCCC
Confidence 331 111224788889988885432211111 1111133345555544457764 4455666888899999999853
No 167
>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=94.87 E-value=0.5 Score=47.03 Aligned_cols=149 Identities=11% Similarity=0.065 Sum_probs=88.3
Q ss_pred ccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 5 DSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 5 ~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
...+++++|--.+......+.... ..++|+|......+. .. ...+.+++...+..+++++...|.++++++..
T Consensus 52 ~~~~~dgiii~~~~~~~~~~~~~~-~~~~pvV~i~~~~~~---~~---~~~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~ 124 (269)
T cd06293 52 DTNHVDGLIFVTNRPDDGALAKLI-NSYGNIVLVDEDVPG---AK---VPKVFCDNEQGGRLATRHLARAGHRRIAFVGG 124 (269)
T ss_pred HHCCCCEEEEeCCCCCHHHHHHHH-hcCCCEEEECCCCCC---CC---CCEEEECCHHHHHHHHHHHHHCCCceEEEEec
Confidence 356788887532222223333433 357999987643221 11 22466888888899999988889999999975
Q ss_pred cCCC-cccCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 85 DIDS-SATGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 85 ~~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
+... ......+.+++.+++.|..+....... ..+..+....+.++.+. .+++|+ +++...+..+++.+.+.|..-
T Consensus 125 ~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~al~~~g~~v 203 (269)
T cd06293 125 PDALISARERYAGYREALAEAHIPEVPEYVCFGDYTREFGRAAAAQLLARGDPPTAIF-AASDEIAIGLLEVLRERGLSI 203 (269)
T ss_pred CcccccHHHHHHHHHHHHHHcCCCCChheEEecCCCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCC
Confidence 4332 111225789999999886532211111 11111333455555333 467644 445666778899999999754
Q ss_pred C
Q 043468 161 K 161 (720)
Q Consensus 161 ~ 161 (720)
+
T Consensus 204 p 204 (269)
T cd06293 204 P 204 (269)
T ss_pred c
Confidence 3
No 168
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=94.86 E-value=0.45 Score=49.44 Aligned_cols=148 Identities=11% Similarity=0.098 Sum_probs=88.8
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
.+++++||=-............+...++|+|...... .....+ .+..++..-+..++++|...|.++++++..+
T Consensus 118 ~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~~~---~~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~ 191 (342)
T PRK10014 118 NQGVDGVVIAGAAGSSDDLREMAEEKGIPVVFASRAS---YLDDVD---TVRPDNMQAAQLLTEHLIRNGHQRIAWLGGQ 191 (342)
T ss_pred hCCCCEEEEeCCCCCcHHHHHHHhhcCCCEEEEecCC---CCCCCC---EEEeCCHHHHHHHHHHHHHCCCCEEEEEcCC
Confidence 4677777632222223455666778899999875321 111222 2667777788888999888899999999654
Q ss_pred CCCcc-cCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 86 IDSSA-TGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 86 ~~~g~-~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
..... ..-.+.+++.+++.|+.+.....+. ..+...-...+.++.+. ++++|+ +.+...+..+++.+.+.|+.-
T Consensus 192 ~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~v 269 (342)
T PRK10014 192 SSSLTRAERVGGYCATLLKFGLPFHSEWVLECTSSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQS 269 (342)
T ss_pred cccccHHHHHHHHHHHHHHcCCCCCcceEecCCCChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCC
Confidence 33211 1125678999999987643222211 11111223344454433 456644 556677778889999998753
No 169
>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=94.85 E-value=0.57 Score=47.75 Aligned_cols=160 Identities=15% Similarity=0.103 Sum_probs=91.0
Q ss_pred CeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccc-------cCCC-CeEEEeecChHHHHHHHHHHHHhCCCeE
Q 043468 8 KVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWA-------TERW-PFLLQASQNQLAQMKAIAAIVQSWEWHQ 78 (720)
Q Consensus 8 ~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~-------~~~~-~~~fr~~p~~~~~~~~~~~~l~~~~~~~ 78 (720)
+|++||= |.. .........+...++|+|......+... ...+ .++-.+.+++...++.+++++...|.++
T Consensus 58 ~vdgiIi~~~~-~~~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~ 136 (305)
T cd06324 58 KPDALIFTNEK-SVAPELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSV 136 (305)
T ss_pred CCCEEEEcCCc-cchHHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcc
Confidence 7887653 322 2334455667788999998875432211 0111 2345577888888888899887666553
Q ss_pred --------EEEEEEcCC-CcccCcHHHHHHHHHHcC-cEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHH
Q 043468 79 --------VTVIYEDID-SSATGILPHLSDALREAG-AEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELA 146 (720)
Q Consensus 79 --------v~ii~~~~~-~g~~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~ 146 (720)
++++..... .....-.+.+++.++++| .++... ........+-...++++.+. ++++|+ +.+...+
T Consensus 137 ~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~g~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A 214 (305)
T cd06324 137 QAPGGRIDLLAISGDPTTPAAILREAGLRRALAEHPDVRLRQV-VYAGWSEDEAYEQAENLLKRYPDVRLIW-AANDQMA 214 (305)
T ss_pred cCCCCceeEEEEeCCCCChHHHHHHHHHHHHHHHCCCceEeee-ecCCCCHHHHHHHHHHHHHHCCCccEEE-ECCchHH
Confidence 776654322 111122677899999887 443222 11111111333445554333 466644 4566777
Q ss_pred HHHHHHHHHcCCCCC-CeEEEEeCc
Q 043468 147 VHLFEKANKMKMMEK-DYIWITTDA 170 (720)
Q Consensus 147 ~~~l~~a~~~g~~~~-~~~~i~~~~ 170 (720)
..+++++++.|+.-+ +..+++-+.
T Consensus 215 ~g~~~al~~~g~~vp~di~vig~D~ 239 (305)
T cd06324 215 FGALRAAKEAGRKPGRDVLFGGVNW 239 (305)
T ss_pred HHHHHHHHHcCCCcCCCEEEEecCC
Confidence 889999999998632 444444333
No 170
>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=94.80 E-value=1.1 Score=45.20 Aligned_cols=161 Identities=12% Similarity=0.034 Sum_probs=90.2
Q ss_pred cCCeEEE-ECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAI-LGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~ai-iGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
..++++| +.|............+...++|+|......+.... ..++...+..+...-.+.+++++... |.++++++
T Consensus 54 ~~~~dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l 132 (294)
T cd06316 54 SQKPDIIISIPVDPVSTAAAYKKVAEAGIKLVFMDNVPSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLI 132 (294)
T ss_pred HhCCCEEEEcCCCchhhhHHHHHHHHcCCcEEEecCCCccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEE
Confidence 3567766 44433332344456667789999987654322211 11234446677777778888887665 78899999
Q ss_pred EEcCCC-cccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 83 YEDIDS-SATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 83 ~~~~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
..+.+. ......+.+.+.+++.+..+.................++++.+. ++++|+ +.+...+..+++.+++.|+
T Consensus 133 ~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~- 210 (294)
T cd06316 133 YHGADYFVTNQRDQGFKETIKKNYPDITIVAEKGIDGPSKAEDIANAMLTQNPDLKGIY-AVWDVPAEGVIAALRAAGR- 210 (294)
T ss_pred eCCCCcccHHHHHHHHHHHHHHhCCCcEEEeecCCcchhHHHHHHHHHHHhCCCeeEEE-eCCCchhHHHHHHHHHcCC-
Confidence 754332 11222577888887765322111111111011223344454322 456654 4455678899999999998
Q ss_pred CCCeEEEEeCc
Q 043468 160 EKDYIWITTDA 170 (720)
Q Consensus 160 ~~~~~~i~~~~ 170 (720)
.+..+++.+.
T Consensus 211 -~di~vvg~d~ 220 (294)
T cd06316 211 -DDIKVTTVDL 220 (294)
T ss_pred -CCceEEEeCC
Confidence 2455555444
No 171
>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=94.75 E-value=0.74 Score=45.63 Aligned_cols=147 Identities=12% Similarity=0.122 Sum_probs=85.4
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
..++++|+=......... ...+...++|+|......+ ....++ +..++..-+..+++++...|.++++++...
T Consensus 53 ~~~vdgiii~~~~~~~~~-~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~ 125 (264)
T cd06274 53 ARQVDALIVAGSLPPDDP-YYLCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGL 125 (264)
T ss_pred HcCCCEEEEcCCCCchHH-HHHHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCC
Confidence 467787763222222222 3445668999998754322 112233 556666667888888877899999999764
Q ss_pred CC-CcccCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhhcC---CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 86 ID-SSATGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLKGG---QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 86 ~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~~~---~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
.. .....-.+.+++.+++.|..+....... ..+...-...++++.++ .+++|+ +++...+..+++++++.|+..
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~i 204 (264)
T cd06274 126 PELSPSRERLAGFRQALADAGLPVQPDWIYAEGYSPESGYQLMAELLARLGRLPRALF-TTSYTLLEGVLRFLRERPGLA 204 (264)
T ss_pred CcccchHHHHHHHHHHHHHcCCCCCcceeecCCCChHHHHHHHHHHHccCCCCCcEEE-EcChHHHHHHHHHHHHcCCCC
Confidence 43 2112226788899999885432222111 11111223344454332 367655 445666778999999999853
No 172
>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=94.71 E-value=0.53 Score=46.72 Aligned_cols=141 Identities=17% Similarity=0.194 Sum_probs=83.1
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
..+++++| .|..+. ...+...++|+|......+ ...+ .+.++....++.+++++...|.++++++..
T Consensus 53 ~~~~dgiii~~~~~~-----~~~~~~~gipvv~~~~~~~----~~~~---~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 120 (265)
T cd06291 53 QNQVDGIIAGTHNLG-----IEEYENIDLPIVSFDRYLS----ENIP---IVSSDNYEGGRLAAEELIERGCKHIAHIGG 120 (265)
T ss_pred HcCCCEEEEecCCcC-----HHHHhcCCCCEEEEeCCCC----CCCC---eEeechHHHHHHHHHHHHHcCCcEEEEEcc
Confidence 45677665 333222 1244567999998775432 1223 356666777788888887789999999975
Q ss_pred cCC--CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 85 DID--SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 85 ~~~--~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
... .......+.+++.+++.|+++.........+..+....+.++.+. ++++|+ +++...+..+++.+.+.|..
T Consensus 121 ~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~al~~~g~~ 198 (265)
T cd06291 121 PNNTVSPTNLRYEGFLDVLKENGLEVRIIEIQENFDDAEKKEEIKELLEEYPDIDGIF-ASNDLTAILVLKEAQQRGIR 198 (265)
T ss_pred CcccccchHHHHHHHHHHHHHcCCCCChheeeccccchHHHHHHHHHHhCCCCCCEEE-ECChHHHHHHHHHHHHcCCC
Confidence 433 111222578899999988754221111111110223445554433 345544 44555778899999999985
No 173
>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=94.69 E-value=1.4 Score=44.44 Aligned_cols=164 Identities=9% Similarity=0.083 Sum_probs=91.0
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHH----hCCC--eE
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQ----SWEW--HQ 78 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~----~~~~--~~ 78 (720)
..++++||= |..+.........+...++|+|..............+.+-.+..+....+...++++. ..|+ ++
T Consensus 52 ~~~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~ 131 (289)
T cd01540 52 AQGAKGFVICVPDVKLGPAIVAKAKAYNMKVVAVDDRLVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPKE 131 (289)
T ss_pred HcCCCEEEEccCchhhhHHHHHHHHhCCCeEEEecCCCcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCcc
Confidence 466776653 3333344556677888999999875432211100112233456677666666666653 3566 68
Q ss_pred EEEEEE-cC--CCcccCcHHHHHHHHHHcCcEEEEEEecCCCC--cccHHHHHHHhhcC--CCeE-EEEEcCHHHHHHHH
Q 043468 79 VTVIYE-DI--DSSATGILPHLSDALREAGAEIIHVLALPHFP--SSRLSEELEKLKGG--QCRV-FVVHLSLELAVHLF 150 (720)
Q Consensus 79 v~ii~~-~~--~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~--~~d~~~~l~~i~~~--~~~v-vil~~~~~~~~~~l 150 (720)
++++.. .. .....- .+.+++.+++.|+........+... ...-...++++..+ +++. ++++.....+..++
T Consensus 132 i~~i~~~~~~~~~~~~R-~~G~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~ 210 (289)
T cd01540 132 VGALRITYDELDTAKPR-TDGALEALKAPGFPEANIFQAPQKTTDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAV 210 (289)
T ss_pred eEEEEecCCCCcchhhH-HHHHHHHHhcCCCCcceEecccccCcchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHH
Confidence 888753 22 122233 7888999988886532222111111 11222344454333 3453 45666777788899
Q ss_pred HHHHHcCCCCCCeEEEEeCc
Q 043468 151 EKANKMKMMEKDYIWITTDA 170 (720)
Q Consensus 151 ~~a~~~g~~~~~~~~i~~~~ 170 (720)
+.+++.|+..++...++-+.
T Consensus 211 ~al~~~g~~~~di~vig~d~ 230 (289)
T cd01540 211 RATEQSGIAAADVIGVGING 230 (289)
T ss_pred HHHHHcCCCCcceEEEecCC
Confidence 99999998754555554443
No 174
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=94.63 E-value=0.66 Score=47.70 Aligned_cols=159 Identities=18% Similarity=0.187 Sum_probs=96.0
Q ss_pred cCCeEEE-ECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHH-hCCC-eEEEEE
Q 043468 6 SQKVEAI-LGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQ-SWEW-HQVTVI 82 (720)
Q Consensus 6 ~~~v~ai-iGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~-~~~~-~~v~ii 82 (720)
.+++++| +.|..+.....+..-+...+||+|......+.- ......+..+.....+...+++. .++. -+++++
T Consensus 89 a~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~ 164 (322)
T COG1879 89 AQGVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVL 164 (322)
T ss_pred HcCCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEE
Confidence 4677665 788999999999999999999999876543321 23444455566666666677763 3332 346666
Q ss_pred EEcCC-CcccCcHHHHHHHHHHcCc--EEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-CHHHHHHHHHHHHHcCC
Q 043468 83 YEDID-SSATGILPHLSDALREAGA--EIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-SLELAVHLFEKANKMKM 158 (720)
Q Consensus 83 ~~~~~-~g~~~~~~~~~~~~~~~g~--~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-~~~~~~~~l~~a~~~g~ 158 (720)
..... .......+.+++.+++.+. +++.... ...+.+.-.+....+..+.+|+-.+++ ....+...++++++.|.
T Consensus 165 ~g~~~~~~~~~R~~G~~~~l~~~~~~~~v~~~~~-~~~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~ 243 (322)
T COG1879 165 VGSPGNSSAEERVKGFRDALKEHPPDIEVVDVQT-GDWDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGR 243 (322)
T ss_pred ecCCCCchHHHHHhhHHHHHHhCCCcEEEeeccC-CcccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCC
Confidence 54433 3323347889999999884 4333322 112221344455666666667665555 45555566677777888
Q ss_pred CCCCeEEEEeCc
Q 043468 159 MEKDYIWITTDA 170 (720)
Q Consensus 159 ~~~~~~~i~~~~ 170 (720)
.+ ....++.+.
T Consensus 244 ~~-~v~v~g~D~ 254 (322)
T COG1879 244 KG-DVVVVGFDG 254 (322)
T ss_pred CC-ceEEEEecC
Confidence 65 333333344
No 175
>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=94.63 E-value=0.34 Score=48.25 Aligned_cols=148 Identities=13% Similarity=0.101 Sum_probs=84.3
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
++++++||=............+....++|+|......+ ...++ .+..+....++.+++++...|.++++++...
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~l~~~~~ipvV~i~~~~~---~~~~~---~V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~ 126 (269)
T cd06275 53 QKRVDGLLVMCSEYDQPLLAMLERYRHIPMVVMDWGPE---DDFAD---KIQDNSEEGGYLATRHLIELGHRRIGCITGP 126 (269)
T ss_pred HcCCCEEEEecCCCChHHHHHHHhcCCCCEEEEecccC---CCCCC---eEeeCcHHHHHHHHHHHHHCCCceEEEEeCC
Confidence 46677665322222222223333457999997764322 11222 2556666777778888888899999999753
Q ss_pred CCC-cccCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 86 IDS-SATGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 86 ~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
... ......+.+.+.+++.|+++....... ..+.......++++.+. ++++ |++++...+..+++.+++.|..-
T Consensus 127 ~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~v 204 (269)
T cd06275 127 LEKAPAQQRLAGFRRAMAEAGLPVNPGWIVEGDFECEGGYEAMQRLLAQPKRPTA-VFCGNDLMAMGALCAAQEAGLRV 204 (269)
T ss_pred CCCccHHHHHHHHHHHHHHcCCCCCHHHhccCCCChHHHHHHHHHHHcCCCCCcE-EEECChHHHHHHHHHHHHcCCCC
Confidence 331 111125778889988887643211111 11111333455555444 4565 44456677778899999998753
No 176
>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=94.56 E-value=0.63 Score=46.22 Aligned_cols=156 Identities=13% Similarity=0.083 Sum_probs=93.8
Q ss_pred ccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 5 DSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 5 ~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
..++|+++|=...+ ......+...++|+|......+. +.+-.+..++..-+..+++++...|.++++++..
T Consensus 47 ~~~~vdGiI~~~~~---~~~~~~l~~~~~PvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 117 (265)
T cd01543 47 KDWQGDGIIARIDD---PEMAEALQKLGIPVVDVSGSREK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFYGL 117 (265)
T ss_pred cccccceEEEECCC---HHHHHHHhhCCCCEEEEeCccCC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcC
Confidence 36788888743222 22334556779999987643221 2234577888888888899988889999999864
Q ss_pred cCCCcccCcHHHHHHHHHHcCcEEEEEEec-CCCCc--ccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 85 DIDSSATGILPHLSDALREAGAEIIHVLAL-PHFPS--SRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 85 ~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~-~~~~~--~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
........-.+.+++.+++.|..+...... ..... .+-...+.++.++ ++++ |++++...+..+++.+++.|+.
T Consensus 118 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~ 196 (265)
T cd01543 118 PGARWSDEREEAFRQLVAEAGYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVG-IFACTDARARQLLEACRRAGIA 196 (265)
T ss_pred CCCHHHHHHHHHHHHHHHHcCCccccccCccccccccHHHHHHHHHHHHhcCCCCcE-EEecChHHHHHHHHHHHHhCCC
Confidence 433211122578889999999765211111 11111 1223345554333 4565 5555677788889999999974
Q ss_pred -CCCeEEEEeCc
Q 043468 160 -EKDYIWITTDA 170 (720)
Q Consensus 160 -~~~~~~i~~~~ 170 (720)
+++...++-+.
T Consensus 197 vp~di~vigfd~ 208 (265)
T cd01543 197 VPEEVAVLGVDN 208 (265)
T ss_pred CCCceEEEeeCC
Confidence 33455554443
No 177
>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=94.51 E-value=0.32 Score=48.21 Aligned_cols=144 Identities=10% Similarity=0.129 Sum_probs=84.1
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
..+++++| .|..... ... .+...++|+|......+ ...+++ +..++..-+..+++++...|.++++++..
T Consensus 53 ~~~~dgiii~~~~~~~--~~~-~~~~~~iPvV~~~~~~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~ 123 (263)
T cd06280 53 EERVTGVIFAPTRATL--RRL-AELRLSFPVVLIDRAGP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFG 123 (263)
T ss_pred hCCCCEEEEeCCCCCc--hHH-HHHhcCCCEEEECCCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeC
Confidence 45666654 3332222 222 23566899998764332 122343 34567777788888888889999999876
Q ss_pred cCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 85 DIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 85 ~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
+.......-.+.+++.+++.|+...... ...... +-...+.++.+. .+++ +++.+...+..+++.+++.|+..+
T Consensus 124 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~~p 199 (263)
T cd06280 124 NASTTGAERRAGYEDAMRRHGLAPDARF-VAPTAE-AAEAALAAWLAAPERPEA-LVASNGLLLLGALRAVRAAGLRIP 199 (263)
T ss_pred CCCCCHHHHHHHHHHHHHHcCCCCChhh-cccCHH-HHHHHHHHHhcCCCCCcE-EEECCcHHHHHHHHHHHHcCCCCC
Confidence 4332112225778888888887542211 111111 223344454433 4666 445666678889999999998543
No 178
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=94.50 E-value=0.61 Score=48.16 Aligned_cols=147 Identities=12% Similarity=0.124 Sum_probs=86.8
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+++|+++|=... .........+...++|+|....... . .... .+..++..-+..+++++...|.++++++...
T Consensus 117 ~~~vdgiI~~~~-~~~~~~~~~l~~~~iPvV~~~~~~~---~-~~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~ 189 (331)
T PRK14987 117 SWNIDGLILTER-THTPRTLKMIEVAGIPVVELMDSQS---P-CLDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGAR 189 (331)
T ss_pred hcCCCEEEEcCC-CCCHHHHHHHHhCCCCEEEEecCCC---C-CCCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCC
Confidence 567888763211 1223344556778999997532111 1 1111 3677887888888999888999999999643
Q ss_pred CCCcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 86 IDSSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
.......-.+.+++.+++.|+.... ...... +..+-...++++.+. ++++ +++++...+..+++++++.|+.-+
T Consensus 190 ~~~~~~~R~~Gf~~al~~~g~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~nD~~A~g~~~al~~~g~~vP 266 (331)
T PRK14987 190 LDERTIIKQKGYEQAMLDAGLVPYS-VMVEQSSSYSSGIELIRQARREYPQLDG-VFCTNDDLAVGAAFECQRLGLKVP 266 (331)
T ss_pred CcccHHHHHHHHHHHHHHcCCCccc-eeecCCCChhhHHHHHHHHHhcCCCCCE-EEECCcHHHHHHHHHHHHcCCCCC
Confidence 3211111267889999999863211 111111 111222344554433 4676 445566778888999999998644
No 179
>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=94.47 E-value=0.42 Score=47.57 Aligned_cols=154 Identities=14% Similarity=0.096 Sum_probs=88.5
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+.++++||-..... ......+...++|+|......+. ...++ +..+....++.+++++...|.++++++..+
T Consensus 56 ~~~vdgiii~~~~~--~~~~~~l~~~~ipvV~~~~~~~~---~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~ 127 (268)
T cd06277 56 DGKVDGIILLGGIS--TEYIKEIKELGIPFVLVDHYIPN---EKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDP 127 (268)
T ss_pred HCCCCEEEEeCCCC--hHHHHHHhhcCCCEEEEccCCCC---CCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCC
Confidence 57788887422221 23356677789999987543221 12233 555666667777888877899999999755
Q ss_pred CCC-cccCcHHHHHHHHHHcCcEEEEEEecCCCCc--ccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCC-C
Q 043468 86 IDS-SATGILPHLSDALREAGAEIIHVLALPHFPS--SRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMME-K 161 (720)
Q Consensus 86 ~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~--~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~-~ 161 (720)
... ....-.+.+.+.+++.|+++........... ..+...++++. ..+++ |+.+....+..+++.+++.|+.. +
T Consensus 128 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~a-i~~~~d~~a~g~~~a~~~~g~~~p~ 205 (268)
T cd06277 128 LYSPSFEERYEGYKKALLDHGIPFNEDYDITEKEEDEEDIGKFIDELK-PLPTA-FFCSNDGVAFLLIKVLKEMGIRVPE 205 (268)
T ss_pred CCCcchHHHHHHHHHHHHHcCCCCCcceEEEcchhHHHHHHHHHhcCC-CCCCE-EEECCcHHHHHHHHHHHHcCCCCCC
Confidence 432 1112256788999998876533222211111 13333333322 23666 44455566688888889999853 2
Q ss_pred CeEEEEeC
Q 043468 162 DYIWITTD 169 (720)
Q Consensus 162 ~~~~i~~~ 169 (720)
+..+++-+
T Consensus 206 di~vig~d 213 (268)
T cd06277 206 DVSVIGFD 213 (268)
T ss_pred cceEEeec
Confidence 33444333
No 180
>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=94.45 E-value=0.62 Score=48.03 Aligned_cols=153 Identities=12% Similarity=0.128 Sum_probs=89.1
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+++++++| .|.... .......+...++|+|......+. ...+ .+.+++..-+..+++++...|.++++++..
T Consensus 114 ~~~vdgiIi~~~~~~-~~~~~~~l~~~~iPvV~~~~~~~~---~~~~---~V~~dn~~~~~~~~~~L~~~G~~~I~~i~~ 186 (327)
T TIGR02417 114 ARQVDALIVASCMPP-EDAYYQKLQNEGLPVVALDRSLDD---EHFC---SVISDDVDAAAELIERLLSQHADEFWYLGA 186 (327)
T ss_pred HcCCCEEEEeCCCCC-ChHHHHHHHhcCCCEEEEccccCC---CCCC---EEEeCcHHHHHHHHHHHHHCCCCeEEEEeC
Confidence 56788765 333221 223344556679999987643221 1222 255677777778888888889999999975
Q ss_pred cCC--CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC---CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 85 DID--SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG---QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 85 ~~~--~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~---~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
... ....- .+.+++.+++.|+.+..... ...+.++-...+.++.+. .+++|+. .....+..+++.+++.| .
T Consensus 187 ~~~~~~~~~R-~~Gf~~al~~~~~~~~~~~~-~~~~~~~~~~~~~~ll~~~~~~~~Ai~~-~~D~~A~g~~~al~~~g-~ 262 (327)
T TIGR02417 187 QPELSVSRDR-LAGFRQALKQATLEVEWVYG-GNYSRESGYQMFAKLCARLGRLPQALFT-TSYTLLEGVLDYMLERP-L 262 (327)
T ss_pred cccchhHHHH-HHHHHHHHHHcCCChHhEEe-CCCChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcC-C
Confidence 433 12222 67888999999875321111 111111223345555433 3677554 44566778999999999 5
Q ss_pred CC-CeEEEEeC
Q 043468 160 EK-DYIWITTD 169 (720)
Q Consensus 160 ~~-~~~~i~~~ 169 (720)
-+ +..+++-+
T Consensus 263 vP~dvsvigfd 273 (327)
T TIGR02417 263 LDSQLHLATFG 273 (327)
T ss_pred CCCcceEEEEC
Confidence 33 44444443
No 181
>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=94.40 E-value=0.38 Score=48.03 Aligned_cols=148 Identities=12% Similarity=0.130 Sum_probs=88.7
Q ss_pred cCCeEEEE-CCCCCh---hhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEE
Q 043468 6 SQKVEAIL-GPQTSE---ETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTV 81 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~---~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~i 81 (720)
+++|+++| .|..+. ........+...++|+|......+. +-+..+..++..-+..+++++...|.+++++
T Consensus 53 ~~~vdgii~~~~~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~~------~~~~~V~~D~~~~g~~~~~~l~~~G~~~i~~ 126 (273)
T cd01541 53 SQGIDGLIIEPTKSALPNPNIDLYLKLEKLGIPYVFINASYEE------LNFPSLVLDDEKGGYKATEYLIELGHRKIAG 126 (273)
T ss_pred HcCCCEEEEeccccccccccHHHHHHHHHCCCCEEEEecCCCC------CCCCEEEECcHHHHHHHHHHHHHcCCcCEEE
Confidence 46788875 333221 1223344567789999987643221 1123467777788888899988889999998
Q ss_pred EEEcCC-CcccCcHHHHHHHHHHcCcEEEEE--EecCCCCc-ccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHH
Q 043468 82 IYEDID-SSATGILPHLSDALREAGAEIIHV--LALPHFPS-SRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 82 i~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~--~~~~~~~~-~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
+...+. .+.. ..+.+++.+++.|..+... ..+..... ......++++.+. ++++| ++.+...+..+++.+.+
T Consensus 127 l~~~~~~~~~~-r~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~av-~~~~d~~a~g~~~al~~ 204 (273)
T cd01541 127 IFKADDLQGVK-RMKGFIKAYREHGIPFNPSNVITYTTEEKEEKLFEKIKEILKRPERPTAI-VCYNDEIALRVIDLLKE 204 (273)
T ss_pred ecCCCcccHHH-HHHHHHHHHHHcCCCCChHHEEeccccchhhHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHH
Confidence 865433 2222 2577888888888643221 11111111 1234455555433 46764 45666777789999999
Q ss_pred cCCCCC
Q 043468 156 MKMMEK 161 (720)
Q Consensus 156 ~g~~~~ 161 (720)
.|+..+
T Consensus 205 ~g~~~p 210 (273)
T cd01541 205 LGLKIP 210 (273)
T ss_pred cCCCCC
Confidence 998543
No 182
>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=94.30 E-value=1.3 Score=44.75 Aligned_cols=149 Identities=13% Similarity=0.100 Sum_probs=85.8
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC------CCeE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW------EWHQ 78 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~------~~~~ 78 (720)
+.++++|| .|..+.........+...++|+|......+. . +..+.+..++...++.+++++... |.++
T Consensus 53 ~~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~~~~~~~---~--~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~ 127 (288)
T cd01538 53 AKGVDVLVIAPVDGEALASAVEKAADAGIPVIAYDRLILN---S--NVDYYVSFDNEKVGELQGQALVDGLGAKGKPPGN 127 (288)
T ss_pred HcCCCEEEEecCChhhHHHHHHHHHHCCCCEEEECCCCCC---C--CcceEEEeChHHHHHHHHHHHHHHHhhcCCCCce
Confidence 46788775 3433333344555667789999987654321 1 122235566666777777776554 8889
Q ss_pred EEEEEEcCCC-cccCcHHHHHHHHHHcC----cEEEEEEecCCCCcccHHHHHHHhhcC---CCeEEEEEcCHHHHHHHH
Q 043468 79 VTVIYEDIDS-SATGILPHLSDALREAG----AEIIHVLALPHFPSSRLSEELEKLKGG---QCRVFVVHLSLELAVHLF 150 (720)
Q Consensus 79 v~ii~~~~~~-g~~~~~~~~~~~~~~~g----~~v~~~~~~~~~~~~d~~~~l~~i~~~---~~~vvil~~~~~~~~~~l 150 (720)
++++..+... ......+.+++.+++.| +++.........+..+-...++++.+. ++++ |++.....+..++
T Consensus 128 i~~l~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-I~~~~d~~a~g~~ 206 (288)
T cd01538 128 IELIAGSPTDNNAKLFFNGAMSVLKPLIDSGKITIVGEVATPDWDPETAQKRMENALTANYNKVDG-VLAANDGTAGGAI 206 (288)
T ss_pred EEEEECCCCCchHHHHHHHHHHHHHhccccCCeeEEeccccCCCCHHHHHHHHHHHHHhCCCCccE-EEeCCcHHHHHHH
Confidence 9999754332 11222677888998887 554332211111111222344444333 3555 4444567777889
Q ss_pred HHHHHcCCCC
Q 043468 151 EKANKMKMME 160 (720)
Q Consensus 151 ~~a~~~g~~~ 160 (720)
.++++.|+..
T Consensus 207 ~al~~~g~~~ 216 (288)
T cd01538 207 AALKAAGLAG 216 (288)
T ss_pred HHHHHcCCCC
Confidence 9999999864
No 183
>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=94.22 E-value=1.6 Score=44.46 Aligned_cols=155 Identities=10% Similarity=0.089 Sum_probs=83.4
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CC------
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EW------ 76 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~------ 76 (720)
.+++.+|| .|..+.....+...+...++|+|......+........-+..+.+++....+.+++++... +.
T Consensus 55 ~~~vdgiii~~~~~~~~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~ 134 (303)
T cd01539 55 AKGVDLLAVNLVDPTAAQTVINKAKQKNIPVIFFNREPEEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALDK 134 (303)
T ss_pred HcCCCEEEEecCchhhHHHHHHHHHHCCCCEEEeCCCCcccccccccccceeeecHHHHHHHHHHHHHHHhhcccccccc
Confidence 46777654 4555444455556677889999987653221111111234456777777777777876442 22
Q ss_pred ---eE--EEEEEEcCCCc-ccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC---CCeEEEEEcCHHHH
Q 043468 77 ---HQ--VTVIYEDIDSS-ATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG---QCRVFVVHLSLELA 146 (720)
Q Consensus 77 ---~~--v~ii~~~~~~g-~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~---~~~vvil~~~~~~~ 146 (720)
.+ ++++..+.... .....+.+++.+++.|..+......... +.+.....++++... ++++| ++.....+
T Consensus 135 ~~~g~~~i~~~~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~~ai-~~~~d~~a 213 (303)
T cd01539 135 NGDGIIQYVMLKGEPGHPDAIARTKYSIETLNDAGIKTEELASDTANWDRAQAKDKMDALLLKYGDKIEAV-IANNDAMA 213 (303)
T ss_pred CCCCceEEEEEEcCCCCchhhhhhhhHHHHHHhcCCCeEEEEeecCCCCHHHHHHHHHHHHHhcCCCccEE-EECCchHH
Confidence 12 34454432211 1112567889999888765332222211 111223344554322 35664 44455556
Q ss_pred HHHHHHHHHcCCCCC
Q 043468 147 VHLFEKANKMKMMEK 161 (720)
Q Consensus 147 ~~~l~~a~~~g~~~~ 161 (720)
..+++++++.|...+
T Consensus 214 ~g~~~al~~~g~~~p 228 (303)
T cd01539 214 LGAIEALQKYGYNKG 228 (303)
T ss_pred HHHHHHHHHcCCCcC
Confidence 678888888887643
No 184
>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=94.22 E-value=1.1 Score=44.71 Aligned_cols=153 Identities=8% Similarity=0.015 Sum_probs=88.6
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
.++++++| .+..+. .....+...++|+|....... ....+ .+..++...+..+++++...|.++++++..
T Consensus 50 ~~~vdgii~~~~~~~---~~~~~~~~~~~pvV~~~~~~~---~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~ 120 (270)
T cd01544 50 LEDVDGIIAIGKFSQ---EQLAKLAKLNPNLVFVDSNPA---PDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGG 120 (270)
T ss_pred ccCcCEEEEecCCCH---HHHHHHHhhCCCEEEECCCCC---CCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECC
Confidence 35677665 222222 444556677899998754321 22223 366788888888899988889999999976
Q ss_pred cCCCc------ccCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhh-cC---CCeEEEEEcCHHHHHHHHHHH
Q 043468 85 DIDSS------ATGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLK-GG---QCRVFVVHLSLELAVHLFEKA 153 (720)
Q Consensus 85 ~~~~g------~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~-~~---~~~vvil~~~~~~~~~~l~~a 153 (720)
..... ...-.+.+++.+++.|.. .....+. ..+..+....++++. +. .+++ |++++...+..+++.+
T Consensus 121 ~~~~~~~~~~~~~~R~~gf~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~a-i~~~~d~~a~g~~~~l 198 (270)
T cd01544 121 EEKTTDGHEYIEDPRETAFREYMKEKGLY-DPELIYIGDFTVESGYQLMKEALKSLGDNLPTA-FFIASDPMAIGALRAL 198 (270)
T ss_pred CcccccccchhhhHHHHHHHHHHHHcCCC-ChheEeeCCCCHHHHHHHHHHHHhccCCCCCCE-EEEcCcHHHHHHHHHH
Confidence 54211 111257788889888841 1111111 111112233444433 32 3565 4556777888899999
Q ss_pred HHcCCCCC-CeEEEEeC
Q 043468 154 NKMKMMEK-DYIWITTD 169 (720)
Q Consensus 154 ~~~g~~~~-~~~~i~~~ 169 (720)
++.|+.-+ +..+++-+
T Consensus 199 ~~~g~~vp~di~v~g~d 215 (270)
T cd01544 199 QEAGIKVPEDVSVISFN 215 (270)
T ss_pred HHcCCCCCCceEEEEEC
Confidence 99998633 34444433
No 185
>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=94.20 E-value=1.6 Score=43.52 Aligned_cols=155 Identities=10% Similarity=0.066 Sum_probs=87.7
Q ss_pred CeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC-C--CeEEEEEE
Q 043468 8 KVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW-E--WHQVTVIY 83 (720)
Q Consensus 8 ~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~-~--~~~v~ii~ 83 (720)
+++++| .|..+.........+...++|+|......+. . .....+..++...+...++++.+. | .++++++.
T Consensus 58 ~vdgiii~~~~~~~~~~~i~~~~~~~ipvV~~~~~~~~--~---~~~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~ 132 (275)
T cd06307 58 RSDGVALVAPDHPQVRAAVARLAAAGVPVVTLVSDLPG--S---PRAGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLA 132 (275)
T ss_pred cCCEEEEeCCCcHHHHHHHHHHHHCCCcEEEEeCCCCC--C---ceeeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEe
Confidence 777764 3443333234456666789999977543211 1 112335566666677777776554 4 46999997
Q ss_pred EcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhc--CCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 84 EDID-SSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKG--GQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 84 ~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~--~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
.... .......+.+++.+++.+..+......... +..+....++++.+ .++++|+...+. +..+++.+++.|+.
T Consensus 133 ~~~~~~~~~~R~~gf~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~ 210 (275)
T cd06307 133 GSHRFRGHEEREMGFRSVLREEFPGLRVLETLEGLDDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA 210 (275)
T ss_pred cCCCCcchHHHHHHHHHHHHhhCCCcEEEeeccCCCChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC
Confidence 6433 111222578888998877544322222211 11122345555432 357787766654 36899999999985
Q ss_pred CCCeEEEEeCc
Q 043468 160 EKDYIWITTDA 170 (720)
Q Consensus 160 ~~~~~~i~~~~ 170 (720)
. +...++.+.
T Consensus 211 ~-di~Ivg~d~ 220 (275)
T cd06307 211 G-KVVFVGHEL 220 (275)
T ss_pred C-CcEEEEecC
Confidence 3 455554443
No 186
>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=94.12 E-value=0.57 Score=46.70 Aligned_cols=148 Identities=13% Similarity=0.060 Sum_probs=88.4
Q ss_pred cccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEE
Q 043468 4 MDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIY 83 (720)
Q Consensus 4 i~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~ 83 (720)
+...+|++||=-.. .........+...++|+|......+ ..++ +.+++..-+...+++|.+. .++++++.
T Consensus 51 l~~~~vdgvi~~~~-~~~~~~~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~ 120 (269)
T cd06297 51 TLAYLTDGLLLASY-DLTERLAERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAIT 120 (269)
T ss_pred HHhcCCCEEEEecC-ccChHHHHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEe
Confidence 33567777753222 2224455666778999998764321 1233 4577888888888888666 78999886
Q ss_pred EcCC-C------cccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHH
Q 043468 84 EDID-S------SATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKA 153 (720)
Q Consensus 84 ~~~~-~------g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a 153 (720)
.... . ....-.+.+++.+++.|+++.....+... +..+....+.++.+. .+++ |++.+...+..+++.+
T Consensus 121 ~~~~~~~~~~~~~~~~R~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l 199 (269)
T cd06297 121 VEEEPDRAFRRTVFAERRAGFQQALKDAGRPFSPDLLAITDHSEEGGRLAMRHLLEKASPPLA-VFASADQQALGALQEA 199 (269)
T ss_pred CccccccccccccHHHHHHHHHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHcCCCCCcE-EEEcCcHHHHHHHHHH
Confidence 4322 1 11122688899999998764332221111 111344566665433 3566 4445666778899999
Q ss_pred HHcCCCCCC
Q 043468 154 NKMKMMEKD 162 (720)
Q Consensus 154 ~~~g~~~~~ 162 (720)
++.|..-++
T Consensus 200 ~~~g~~vP~ 208 (269)
T cd06297 200 VELGLTVGE 208 (269)
T ss_pred HHcCCCCCC
Confidence 999975433
No 187
>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=93.93 E-value=2.1 Score=42.51 Aligned_cols=156 Identities=11% Similarity=0.120 Sum_probs=84.8
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii 82 (720)
+.+|+++| .|............+.. ++|+|......+. . +.+-.+..++..-++.+++++... +..+++++
T Consensus 53 ~~~vDgiIi~~~~~~~~~~~l~~~~~-~ipvV~~~~~~~~--~---~~~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~ 126 (271)
T cd06314 53 AEGVDGIAISPIDPKAVIPALNKAAA-GIKLITTDSDAPD--S---GRYVYIGTDNYAAGRTAGEIMKKALPGGGKVAIF 126 (271)
T ss_pred hcCCCEEEEecCChhHhHHHHHHHhc-CCCEEEecCCCCc--c---ceeEEEccChHHHHHHHHHHHHHHcCCCCEEEEE
Confidence 46787775 34333222333344455 9999987643211 1 122235667777778888887553 33456666
Q ss_pred EEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 83 YEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 83 ~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
..... .......+.+++.+++.|+++.... ....+..+-...++++.+. ++++|+.. +...+..++..+++.|+.
T Consensus 127 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~d~~a~~~~~al~~~g~~ 204 (271)
T cd06314 127 VGSLGADNAKERIQGIKDAIKDSKIEIVDTR-GDEEDFAKAKSNAEDALNAHPDLKCMFGL-YAYNGPAIAEAVKAAGKL 204 (271)
T ss_pred ecCCCCCCHHHHHHHHHHHHhcCCcEEEEEe-cCccCHHHHHHHHHHHHHhCCCccEEEec-CCccHHHHHHHHHHcCCC
Confidence 54322 1112236778999999998765422 1111111333455555433 45666543 334445678888888886
Q ss_pred CCCeEEEEeCc
Q 043468 160 EKDYIWITTDA 170 (720)
Q Consensus 160 ~~~~~~i~~~~ 170 (720)
++...++-+.
T Consensus 205 -~di~vig~d~ 214 (271)
T cd06314 205 -GKVKIVGFDE 214 (271)
T ss_pred -CceEEEEeCC
Confidence 4455554443
No 188
>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=93.81 E-value=0.77 Score=45.43 Aligned_cols=156 Identities=13% Similarity=0.076 Sum_probs=90.2
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
..+++++|-....... .....+...++|+|......+ ...+ .+..++...+..+++++...|.++++++...
T Consensus 49 ~~~vdgii~~~~~~~~-~~~~~~~~~~ipvV~~~~~~~----~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 120 (261)
T cd06272 49 ENRFDGVIIFGESASD-VEYLYKIKLAIPVVSYGVDYD----LKYP---IVNVDNEKAMELAVLYLAEKGHKKIAYIGDL 120 (261)
T ss_pred HcCcCEEEEeCCCCCh-HHHHHHHHcCCCEEEEcccCC----CCCC---EEEEChHHHHHHHHHHHHHcCchhEEEeecc
Confidence 4677777532222222 223445678999997754322 1222 3667777888888999888899999999754
Q ss_pred CCC-cccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Q 043468 86 IDS-SATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMMEK 161 (720)
Q Consensus 86 ~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~~ 161 (720)
... ......+.+++.+++.|+.+......... +.......+.++.+. .+++ +++++...+..+++.+++.|+.-+
T Consensus 121 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp 199 (261)
T cd06272 121 SLDRRQRKRFKGFLETCDENGISISDSHIDVDGLSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIP 199 (261)
T ss_pred cccccHHHHHHHHHHHHHHcCCCCCHHHeeeCCCCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCC
Confidence 431 11112577888999988643221111111 111233445555433 3566 455566667788999999998533
Q ss_pred -CeEEEEeCc
Q 043468 162 -DYIWITTDA 170 (720)
Q Consensus 162 -~~~~i~~~~ 170 (720)
+...++-+.
T Consensus 200 ~dv~vvg~d~ 209 (261)
T cd06272 200 EDIEIISYDN 209 (261)
T ss_pred CceEEEeeCC
Confidence 344444333
No 189
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=93.68 E-value=1.9 Score=39.50 Aligned_cols=140 Identities=10% Similarity=0.111 Sum_probs=91.6
Q ss_pred hHHHHHhhccCCCcEEecccCCcccc-cCCCCeEE-------EeecChHHHHHHHHHHHHhCCCeEEEEEEEcCCCcccC
Q 043468 21 TSSVAEIASKKQIPVLSFADATPNWA-TERWPFLL-------QASQNQLAQMKAIAAIVQSWEWHQVTVIYEDIDSSATG 92 (720)
Q Consensus 21 ~~~~~~~~~~~~ip~is~~~~~~~l~-~~~~~~~f-------r~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~ 92 (720)
+..+|..+...++-+|.+++++..+. ..+|.-=. .-.|. -..+.+.++-++.++.+++.++..-.+.
T Consensus 56 t~~aAl~Lada~vdvI~Y~CtsgS~i~G~~~d~ei~~~ie~~~~v~v-vTts~Avv~aL~al~a~ri~vlTPY~~e---- 130 (238)
T COG3473 56 TERAALELADAGVDVIVYGCTSGSLIGGPGYDKEIAQRIEEAKGVPV-VTTSTAVVEALNALGAQRISVLTPYIDE---- 130 (238)
T ss_pred HHHHHHhcCccccCEEEEeccceeeecCCchhHHHHHHHHhccCCce-eechHHHHHHHHhhCcceEEEeccchhh----
Confidence 45667777888999999999987776 22221100 00011 1124677888999999999999764432
Q ss_pred cHHHHHHHHHHcCcEEEEEEecCCCCcc-----c---HHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH-cCCCCCCe
Q 043468 93 ILPHLSDALREAGAEIIHVLALPHFPSS-----R---LSEELEKLKGGQCRVFVVHLSLELAVHLFEKANK-MKMMEKDY 163 (720)
Q Consensus 93 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~-----d---~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~-~g~~~~~~ 163 (720)
..+...+.++++|++|+........+.- + .-...+++...++|.||+.|..-....++....+ .|.
T Consensus 131 vn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~DaiFiSCTnlRt~eii~~lE~~~G~----- 205 (238)
T COG3473 131 VNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAIFISCTNLRTFEIIEKLERDTGV----- 205 (238)
T ss_pred hhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeEEEEeeccccHHHHHHHHHHhCC-----
Confidence 3788999999999999998765432210 2 2334455666799999999977666666665543 343
Q ss_pred EEEEeCc
Q 043468 164 IWITTDA 170 (720)
Q Consensus 164 ~~i~~~~ 170 (720)
+.+.++.
T Consensus 206 PVvsSN~ 212 (238)
T COG3473 206 PVVSSNQ 212 (238)
T ss_pred ceeeccH
Confidence 4555554
No 190
>PRK09526 lacI lac repressor; Reviewed
Probab=93.64 E-value=1.4 Score=45.58 Aligned_cols=144 Identities=11% Similarity=0.087 Sum_probs=84.8
Q ss_pred cCCeEEEEC--CCCChhhHHHHHhh-ccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEE
Q 043468 6 SQKVEAILG--PQTSEETSSVAEIA-SKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVI 82 (720)
Q Consensus 6 ~~~v~aiiG--p~~s~~~~~~~~~~-~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii 82 (720)
+++|+++|- |..+.. ...+. ...++|+|..... + .. .+-.+..++..-+..+++++...|.++++++
T Consensus 118 ~~~vdGiii~~~~~~~~---~~~~~~~~~~iPvV~~d~~-~---~~---~~~~V~~d~~~~~~~a~~~L~~~G~~~I~~l 187 (342)
T PRK09526 118 AQRVSGVIINVPLEDAD---AEKIVADCADVPCLFLDVS-P---QS---PVNSVSFDPEDGTRLGVEHLVELGHQRIALL 187 (342)
T ss_pred hcCCCEEEEecCCCcch---HHHHHhhcCCCCEEEEecc-C---CC---CCCEEEECcHHHHHHHHHHHHHCCCCeEEEE
Confidence 567887763 433322 22222 2358999876532 1 11 1234667777777888999888899999999
Q ss_pred EEcCCC-cccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 83 YEDIDS-SATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 83 ~~~~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
...... ....-.+.+++.+++.|+.+..... ...+..+-...+.++.+. .+++|+ +++...+..+++.+++.|+.
T Consensus 188 ~g~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~ 265 (342)
T PRK09526 188 AGPESSVSARLRLAGWLEYLTDYQLQPIAVRE-GDWSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLR 265 (342)
T ss_pred eCCCccccHHHHHHHHHHHHHHcCCCcceEEe-CCCchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCC
Confidence 754331 1112257789999999986433211 111111222334444333 467644 55667778899999999986
Q ss_pred CC
Q 043468 160 EK 161 (720)
Q Consensus 160 ~~ 161 (720)
-+
T Consensus 266 vP 267 (342)
T PRK09526 266 VP 267 (342)
T ss_pred CC
Confidence 43
No 191
>PRK09701 D-allose transporter subunit; Provisional
Probab=93.63 E-value=2.3 Score=43.40 Aligned_cols=162 Identities=10% Similarity=0.064 Sum_probs=91.1
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcc--cccCCCCeEEEeecChHHHHHHHHHHHHh-CCC--eEE
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPN--WATERWPFLLQASQNQLAQMKAIAAIVQS-WEW--HQV 79 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~--l~~~~~~~~fr~~p~~~~~~~~~~~~l~~-~~~--~~v 79 (720)
.+++++||- |..+.........+...++|++..+...+. +..........+..+........++++.. .|. +++
T Consensus 80 ~~~vDgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i 159 (311)
T PRK09701 80 NKNYKGIAFAPLSSVNLVMPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEV 159 (311)
T ss_pred HcCCCEEEEeCCChHHHHHHHHHHHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEE
Confidence 456777753 333322223234446789999988743221 11111123344778888888888998755 454 689
Q ss_pred EEEEEcCC-CcccCcHHHHHHHHHHcC-cEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHH
Q 043468 80 TVIYEDID-SSATGILPHLSDALREAG-AEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 80 ~ii~~~~~-~g~~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
+++..... .......+.+++.+++.| +++..... ...+..+-...++++.+. ++++ |++.+...+..+++.+++
T Consensus 160 ~~l~g~~~~~~~~~R~~Gf~~al~~~~~~~~~~~~~-~~~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~ 237 (311)
T PRK09701 160 AIIEGKAGNASGEARRNGATEAFKKASQIKLVASQP-ADWDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVAN 237 (311)
T ss_pred EEEECCCCCccHHHHHHHHHHHHHhCCCcEEEEecC-CCCCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHH
Confidence 88854332 111223678899998887 76543221 111111233444555333 4565 445566677889999999
Q ss_pred cCCCCCCeEEEEeCc
Q 043468 156 MKMMEKDYIWITTDA 170 (720)
Q Consensus 156 ~g~~~~~~~~i~~~~ 170 (720)
.|.. .+...++-+.
T Consensus 238 ~G~~-~dv~vvg~d~ 251 (311)
T PRK09701 238 AGKT-GKVLVVGTDG 251 (311)
T ss_pred cCCC-CCEEEEEeCC
Confidence 9985 3444444443
No 192
>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=93.57 E-value=0.92 Score=44.96 Aligned_cols=152 Identities=13% Similarity=0.121 Sum_probs=90.7
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
.+++++|| .|... .. .....+...++|++......+ ..++ +..+...-+..+++++...|.++++++..
T Consensus 53 ~~~~dgiii~~~~~-~~-~~~~~~~~~~iPvv~~~~~~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~ 122 (265)
T cd06285 53 DRRVDGLILGDARS-DD-HFLDELTRRGVPFVLVLRHAG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAG 122 (265)
T ss_pred HcCCCEEEEecCCC-Ch-HHHHHHHHcCCCEEEEccCCC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeC
Confidence 56777665 44332 22 334556778999998764321 2232 56677778888889988889999999976
Q ss_pred cCC--CcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 85 DID--SSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 85 ~~~--~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
+.. .... -.+.+++.+++.|+++......... +...-...+.++... ++++ |++.+...+..+++.+++.|+.
T Consensus 123 ~~~~~~~~~-R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~ 200 (265)
T cd06285 123 PDYASTARD-RLAGFRAALAEAGIEVPPERIVYSGFDIEGGEAAAEKLLRSDSPPTA-IFAVNDFAAIGVMGAARDRGLR 200 (265)
T ss_pred CcccccHHH-HHHHHHHHHHHcCCCCChhhEEeCCCCHHHHHHHHHHHHcCCCCCCE-EEEcCcHHHHHHHHHHHHcCCC
Confidence 433 2222 2677888898888764322111111 111223445554333 4566 4445666777899999999975
Q ss_pred C-CCeEEEEeC
Q 043468 160 E-KDYIWITTD 169 (720)
Q Consensus 160 ~-~~~~~i~~~ 169 (720)
. ++...++-+
T Consensus 201 ~p~di~iig~d 211 (265)
T cd06285 201 VPDDVALVGYN 211 (265)
T ss_pred CCcceEEEeec
Confidence 3 334444433
No 193
>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=93.50 E-value=1.2 Score=44.44 Aligned_cols=149 Identities=15% Similarity=0.137 Sum_probs=87.2
Q ss_pred cCCeEEEEC-CCCChh---hHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEE
Q 043468 6 SQKVEAILG-PQTSEE---TSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTV 81 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~---~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~i 81 (720)
+++++++|= |..... .......+...++|+|......+. ....+ .+..++...+..+++++...|.+++++
T Consensus 53 ~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~~~~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~ 127 (273)
T cd06292 53 ARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNGRAPP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGF 127 (273)
T ss_pred HcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcCCCCC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEE
Confidence 467787652 222111 122334556789999987653221 01122 366788888888899988889999999
Q ss_pred EEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 82 IYEDID-SSATGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 82 i~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
+..... .....-.+.+++.++++|+......... ..+.......+.++.+.++++|+ +.+...+..+++.+.+.|+.
T Consensus 128 i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ 206 (273)
T cd06292 128 ASGPGRTVPRRRKIAGFRAALEEAGLEPPEALVARGMFSVEGGQAAAVELLGSGPTAIV-AASDLMALGAIRAARRRGLR 206 (273)
T ss_pred EeCCcccccHHHHHHHHHHHHHHcCCCCChhheEeCCCCHHHHHHHHHHHhcCCCCEEE-EcCcHHHHHHHHHHHHcCCC
Confidence 865432 2112226788888988886422111111 11111223344555444577644 45666777888999999975
Q ss_pred C
Q 043468 160 E 160 (720)
Q Consensus 160 ~ 160 (720)
-
T Consensus 207 i 207 (273)
T cd06292 207 V 207 (273)
T ss_pred C
Confidence 3
No 194
>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=93.33 E-value=0.8 Score=45.55 Aligned_cols=156 Identities=14% Similarity=0.086 Sum_probs=91.0
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+++++++| .|.... ....+.+...++|+|........ ....+ .+.+++...++..++++...|.++++++..
T Consensus 53 ~~~~dgiii~~~~~~--~~~~~~~~~~~ipvV~i~~~~~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~ 125 (270)
T cd06296 53 ARRTDGVILVTPELT--SAQRAALRRTGIPFVVVDPAGDP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFITG 125 (270)
T ss_pred HcCCCEEEEecCCCC--hHHHHHHhcCCCCEEEEecccCC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcC
Confidence 46788775 333322 23356667789999987643211 11222 367778888888888887789999999965
Q ss_pred cCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 85 DID-SSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 85 ~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
... .......+.+.+.+++.|+.+......... +..+....+.++.+. .+++|+ +.+...+..+++.+.+.|..-
T Consensus 126 ~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~ 204 (270)
T cd06296 126 PPDLLCSRARLDGYRAALAEAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIF-AGNDLMALGVYEAARERGLRI 204 (270)
T ss_pred CCcchhHHHHHHHHHHHHHHcCCCCChHHheeCCCCHHHHHHHHHHHHhCCCCCcEEE-EcCcHHHHHHHHHHHHhCCCC
Confidence 432 122223678888998887654321111111 111223344444333 456644 445566778899999999753
Q ss_pred -CCeEEEEeC
Q 043468 161 -KDYIWITTD 169 (720)
Q Consensus 161 -~~~~~i~~~ 169 (720)
.+..+++-+
T Consensus 205 p~~i~v~~~d 214 (270)
T cd06296 205 PEDLSVVGFD 214 (270)
T ss_pred CCceEEEEEC
Confidence 344444443
No 195
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=93.29 E-value=1.2 Score=44.61 Aligned_cols=155 Identities=17% Similarity=0.198 Sum_probs=92.4
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+.+++++|--..... ......+...++|+|......+ +..-.+..+....+...++++...|.++++++..+
T Consensus 54 ~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~~~-------~~~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~ 125 (283)
T cd06279 54 SALVDGFIVYGVPRD-DPLVAALLRRGLPVVVVDQPLP-------PGVPSVGIDDRAAAREAARHLLDLGHRRIGILGLR 125 (283)
T ss_pred hcCCCEEEEeCCCCC-hHHHHHHHHcCCCEEEEecCCC-------CCCCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCc
Confidence 577888875332222 2345556778999998764321 12234667888888888999888899999999754
Q ss_pred CC------------------CcccCcHHHHHHHHHHcCcEEEEEEec--CCCCcccHHHHHHHhhcC--CCeEEEEEcCH
Q 043468 86 ID------------------SSATGILPHLSDALREAGAEIIHVLAL--PHFPSSRLSEELEKLKGG--QCRVFVVHLSL 143 (720)
Q Consensus 86 ~~------------------~g~~~~~~~~~~~~~~~g~~v~~~~~~--~~~~~~d~~~~l~~i~~~--~~~vvil~~~~ 143 (720)
.. .......+.+++.+++.|++......+ ...+..+....++++.++ .+++ |++++.
T Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d 204 (283)
T cd06279 126 LGRDRNTGRVTDERLASATFSVARERLEGYLEALEEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTA-ILCMSD 204 (283)
T ss_pred ccccccccccccccccccccccHHHHHHHHHHHHHHcCCCCChheEEecCCCchHHHHHHHHHHHcCCCCCcE-EEECCc
Confidence 21 101112577888888888543211111 111111344555565444 3565 445566
Q ss_pred HHHHHHHHHHHHcCCCCC-CeEEEEeC
Q 043468 144 ELAVHLFEKANKMKMMEK-DYIWITTD 169 (720)
Q Consensus 144 ~~~~~~l~~a~~~g~~~~-~~~~i~~~ 169 (720)
..+..+++.+++.|+..+ +...++-+
T Consensus 205 ~~a~gv~~al~~~g~~ip~di~vig~d 231 (283)
T cd06279 205 VLALGALQVARELGLRVPEDLSVVGFD 231 (283)
T ss_pred HHHHHHHHHHHHcCCCCCCceEEeeeC
Confidence 777789999999998533 34444433
No 196
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=93.26 E-value=1.1 Score=46.39 Aligned_cols=147 Identities=12% Similarity=0.127 Sum_probs=84.3
Q ss_pred cCCeEEEECCCCChhhHHHHHhhcc-CCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASK-KQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~-~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
.+++++||--.. .........+.. .++|+|......+. .. ....+.++...-+...++++...|.++++++..
T Consensus 113 ~~~vdgiii~~~-~~~~~~~~~l~~~~~iPvV~~d~~~~~---~~--~~~~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~ 186 (341)
T PRK10703 113 QKRVDGLLVMCS-EYPEPLLAMLEEYRHIPMVVMDWGEAK---AD--FTDAIIDNAFEGGYLAGRYLIERGHRDIGVIPG 186 (341)
T ss_pred HcCCCEEEEecC-CCCHHHHHHHHhcCCCCEEEEecccCC---cC--CCCeEEECcHHHHHHHHHHHHHCCCCcEEEEeC
Confidence 467787753111 122333445555 79999977543211 11 112245555566778888887779999999965
Q ss_pred cCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 85 DID-SSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 85 ~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
... .......+.+++.+++.|+++......... +..+....+.++.+. .+++|+ +++...+..+++++.+.|..
T Consensus 187 ~~~~~~~~~R~~Gf~~~l~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~a~g~~~al~~~g~~ 264 (341)
T PRK10703 187 PLERNTGAGRLAGFMKAMEEANIKVPEEWIVQGDFEPESGYEAMQQILSQKHRPTAVF-CGGDIMAMGAICAADEMGLR 264 (341)
T ss_pred CccccchHHHHHHHHHHHHHcCCCCChHHeEeCCCCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHcCCC
Confidence 332 111222678899999999765432111111 111334455554433 467655 45566677899999999975
No 197
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=93.23 E-value=2.2 Score=44.22 Aligned_cols=145 Identities=11% Similarity=0.105 Sum_probs=84.9
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC-----CCeEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW-----EWHQV 79 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~-----~~~~v 79 (720)
.+++++|| .|.......... .+...++|+|....... .. .....+..++...++..++++... |.+++
T Consensus 102 ~~~vdgIIl~~~~~~~~~~~l-~~~~~giPvV~~~~~~~--~~---~~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i 175 (343)
T PRK10936 102 AWGADAILLGAVTPDGLNPDL-ELQAANIPVIALVNGID--SP---QVTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNV 175 (343)
T ss_pred HhCCCEEEEeCCChHHhHHHH-HHHHCCCCEEEecCCCC--Cc---cceEEEecChHHHHHHHHHHHHHHHHhcCCCceE
Confidence 46677765 444433222233 45678999997643211 11 123446778888888888887554 47899
Q ss_pred EEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhc--CCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 80 TVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKG--GQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 80 ~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~--~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
+++..+.. .......+.+++.+++.|+++.... ....+.+.-...++++.+ .++++|+ . ....+..+++.+++.
T Consensus 176 ~~i~g~~~~~~~~~R~~Gf~~~l~~~~i~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~ai~-~-~d~~A~ga~~al~~~ 252 (343)
T PRK10936 176 ALLPGPEGAGGSKAVEQGFRAAIAGSDVRIVDIA-YGDNDKELQRNLLQELLERHPDIDYIA-G-SAVAAEAAIGELRGR 252 (343)
T ss_pred EEEECCCCCchHHHHHHHHHHHHhcCCCEEEEee-cCCCcHHHHHHHHHHHHHhCCCccEEE-e-CCHHHHHHHHHHHhc
Confidence 99975432 1111225778888888898875422 111111122334444432 2578776 3 446677788999999
Q ss_pred CCC
Q 043468 157 KMM 159 (720)
Q Consensus 157 g~~ 159 (720)
|+.
T Consensus 253 g~~ 255 (343)
T PRK10936 253 NLT 255 (343)
T ss_pred CCC
Confidence 984
No 198
>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=93.14 E-value=3.8 Score=40.90 Aligned_cols=154 Identities=11% Similarity=0.085 Sum_probs=87.5
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHh-CCCe--EEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQS-WEWH--QVTV 81 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~-~~~~--~v~i 81 (720)
..++++|| .+..+.........+...++|+|......+. ..+.+..+..+....++.+++++.. .|.+ ++++
T Consensus 53 ~~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~----~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~ 128 (282)
T cd06318 53 TRGVNVLIINPVDPEGLVPAVAAAKAAGVPVVVVDSSINL----EAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIIL 128 (282)
T ss_pred HcCCCEEEEecCCccchHHHHHHHHHCCCCEEEecCCCCC----CcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEE
Confidence 46676665 3433332234445667789999987643211 0123445777888888899998755 6754 8888
Q ss_pred EEEcCC--CcccCcHHHHHHHHHHcCcE--------EEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHH
Q 043468 82 IYEDID--SSATGILPHLSDALREAGAE--------IIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHL 149 (720)
Q Consensus 82 i~~~~~--~g~~~~~~~~~~~~~~~g~~--------v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~ 149 (720)
+..+.. .+..- .+.+++.+++.|+. +.. ......+..+-...+.++... ++++| ++.+...+..+
T Consensus 129 i~~~~~~~~~~~R-~~gf~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~ 205 (282)
T cd06318 129 LSGDAGNLVGQAR-RDGFLLGVSEAQLRKYGKTNFTIVA-QGYGDWTREGGLKAMEDLLVAHPDINVV-YSENDDMALGA 205 (282)
T ss_pred EECCCCCchHhHH-HHhHHHHHhhCcccccccCCeEEEe-cCCCCCCHHHHHHHHHHHHHhCCCcCEE-EECCcchHHHH
Confidence 875322 22233 67889999888642 111 011111111222344444322 45654 44555666788
Q ss_pred HHHHHHcCCCCCCeEEEE
Q 043468 150 FEKANKMKMMEKDYIWIT 167 (720)
Q Consensus 150 l~~a~~~g~~~~~~~~i~ 167 (720)
++++++.|+. .+...++
T Consensus 206 ~~al~~~g~~-~dv~vvg 222 (282)
T cd06318 206 MRVLAEAGKT-DDVKVAA 222 (282)
T ss_pred HHHHHHcCCC-CCeEEEe
Confidence 9999999985 3444443
No 199
>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=93.09 E-value=2.6 Score=42.65 Aligned_cols=155 Identities=8% Similarity=0.007 Sum_probs=86.0
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC-CC-eEEEEE
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW-EW-HQVTVI 82 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~-~~-~~v~ii 82 (720)
.+++++||= +..+.........+...++|+|......+. . ....+...+++......+++++... +. ++++++
T Consensus 54 ~~~~DgiIi~~~~~~~~~~~~~~~~~~~iPvV~v~~~~~~--~--~~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l 129 (298)
T cd06302 54 AQGVDAIAVVPNDPDALEPVLKKAREAGIKVVTHDSDVQP--D--NRDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIF 129 (298)
T ss_pred hcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEEcCCCCC--C--cceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEE
Confidence 456777763 333332234445567789999987643211 0 1123445677778888888987665 43 699998
Q ss_pred EEcCCCcc-cCcHHHHHHHHHHcC---cEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 83 YEDIDSSA-TGILPHLSDALREAG---AEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 83 ~~~~~~g~-~~~~~~~~~~~~~~g---~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
..+..... ..-.+.+++.++++| .++... .....+..+-...++++.++ ++++|+ +.....+..+++.+++.
T Consensus 130 ~g~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~D~~A~g~~~al~~~ 207 (298)
T cd06302 130 VGSLTATNQNAWIDAAKAYQKEKYYPMLELVDR-QYGDDDADKSYQTAQELLKAYPDLKGII-GPTSVGIPGAARAVEEA 207 (298)
T ss_pred eCCCCCcchHHHHHHHHHHHhhcCCCCeEEeCc-ccCCCCHHHHHHHHHHHHHhCCCceEEE-ECCCcchhHHHHHHHhc
Confidence 75433211 112578889999987 232211 11111111222334444322 455544 44556778889999999
Q ss_pred CCCCCCeEEEE
Q 043468 157 KMMEKDYIWIT 167 (720)
Q Consensus 157 g~~~~~~~~i~ 167 (720)
|+. .+...++
T Consensus 208 g~~-~dv~vvG 217 (298)
T cd06302 208 GLK-GKVAVTG 217 (298)
T ss_pred CCC-CCEEEEE
Confidence 986 3444443
No 200
>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=92.97 E-value=0.8 Score=46.32 Aligned_cols=131 Identities=16% Similarity=0.265 Sum_probs=74.3
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc----cCCC--CeEEEeecChHHHHHHHHHHHHhC--CCe
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA----TERW--PFLLQASQNQLAQMKAIAAIVQSW--EWH 77 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~----~~~~--~~~fr~~p~~~~~~~~~~~~l~~~--~~~ 77 (720)
++++++|+- ..+..+..+.+..... +|+|..+.+++.-. .... .++.-+. +....+.-++++++. +.+
T Consensus 57 ~~~~DlIi~-~gt~aa~~~~~~~~~~-iPVVf~~V~dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k 132 (294)
T PF04392_consen 57 AQKPDLIIA-IGTPAAQALAKHLKDD-IPVVFCGVSDPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAK 132 (294)
T ss_dssp CTS-SEEEE-ESHHHHHHHHHH-SS--S-EEEECES-TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--
T ss_pred cCCCCEEEE-eCcHHHHHHHHhcCCC-cEEEEEeccChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCC
Confidence 467777774 3444556666655544 99998887555422 1122 3554444 334456666766653 568
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLE 144 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~ 144 (720)
+++++|+++........+.+++.+++.|+++.... ++. . .++...++.+. .+.|++++..+..
T Consensus 133 ~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~~~~-v~~-~-~~~~~~~~~l~-~~~da~~~~~~~~ 195 (294)
T PF04392_consen 133 RIGVLYDPSEPNSVAQIEQLRKAAKKLGIELVEIP-VPS-S-EDLEQALEALA-EKVDALYLLPDNL 195 (294)
T ss_dssp EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEEEEE-ESS-G-GGHHHHHHHHC-TT-SEEEE-S-HH
T ss_pred EEEEEecCCCccHHHHHHHHHHHHHHcCCEEEEEe-cCc-H-hHHHHHHHHhh-ccCCEEEEECCcc
Confidence 99999997764333347889999999999876543 332 2 28888888875 5678888876553
No 201
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=92.95 E-value=1.9 Score=44.37 Aligned_cols=146 Identities=13% Similarity=0.099 Sum_probs=82.3
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhcc-CCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEE
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASK-KQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIY 83 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~-~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~ 83 (720)
+++|+++|= |.... ......+.. .++|+|..+.... ... ...+..+...-+..+++++...|.++++++.
T Consensus 110 ~~~vdGiI~~~~~~~--~~~~~~l~~~~~iPvV~i~~~~~---~~~---~~~v~~d~~~~~~~a~~~L~~~G~~~I~~i~ 181 (327)
T PRK10423 110 QKRVDGLLLLCTETH--QPSREIMQRYPSVPTVMMDWAPF---DGD---SDLIQDNSLLGGDLATQYLIDKGYTRIACIT 181 (327)
T ss_pred HcCCCEEEEeCCCcc--hhhHHHHHhcCCCCEEEECCccC---CCC---CCEEEEChHHHHHHHHHHHHHcCCCeEEEEe
Confidence 466777652 22211 122222333 4899998753211 111 1124455556678888888888999999996
Q ss_pred EcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 84 EDID-SSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 84 ~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
.... .....-.+.+++.+++.|+.+.....+... +..+-...+.++.+. .+++| ++++...+..+++.+++.|+.
T Consensus 182 ~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~A~g~~~~l~~~g~~ 260 (327)
T PRK10423 182 GPLDKTPARLRLEGYRAAMKRAGLNIPDGYEVTGDFEFNGGFDAMQQLLALPLRPQAV-FTGNDAMAVGVYQALYQAGLS 260 (327)
T ss_pred CCccccchHHHHHHHHHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHhcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCC
Confidence 5332 111222678899999998764332222211 111223344554433 46664 445566677899999999985
Q ss_pred C
Q 043468 160 E 160 (720)
Q Consensus 160 ~ 160 (720)
-
T Consensus 261 v 261 (327)
T PRK10423 261 V 261 (327)
T ss_pred C
Confidence 3
No 202
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=92.94 E-value=1.9 Score=44.50 Aligned_cols=149 Identities=11% Similarity=0.103 Sum_probs=79.9
Q ss_pred ccccCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeec-ChHHHHHHHHHHHHh-C--CCe
Q 043468 3 LMDSQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQ-NQLAQMKAIAAIVQS-W--EWH 77 (720)
Q Consensus 3 Li~~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p-~~~~~~~~~~~~l~~-~--~~~ 77 (720)
|+ +++|++|+= |..+........-+.+.+||+|+.....+. . .. .+-+.. ++....+.+++++.+ . +..
T Consensus 76 li-~~~vdgIiv~~~d~~al~~~l~~a~~~gIpVV~~d~~~~~--~--~~-~~~V~~~~~~~~G~~~~~~l~~~l~~g~g 149 (336)
T PRK15408 76 FV-NQGYNAIIVSAVSPDGLCPALKRAMQRGVKVLTWDSDTKP--E--CR-SYYINQGTPEQLGSMLVEMAAKQVGKDKA 149 (336)
T ss_pred HH-HcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEeCCCCCC--c--cc-eEEEecCCHHHHHHHHHHHHHHhcCCCCC
Confidence 44 577877754 544444456667788889999987654221 1 11 222332 334566666676644 3 456
Q ss_pred EEEEEEEcCCC-cccCcHHHHHHHHHH--cCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHH
Q 043468 78 QVTVIYEDIDS-SATGILPHLSDALRE--AGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEK 152 (720)
Q Consensus 78 ~v~ii~~~~~~-g~~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~ 152 (720)
+++++...... ....+.+.+++.+++ .+++++... +...+...-...++++.++ +.++|+.. +...+...+++
T Consensus 150 ki~il~g~~~~~~~~~r~~g~~~~l~~~~p~~~vv~~~-~~~~d~~~a~~~~~~lL~~~pdi~aI~~~-~~~~~~Ga~~A 227 (336)
T PRK15408 150 KVAFFYSSPTVTDQNQWVKEAKAKIAKEHPGWEIVTTQ-FGYNDATKSLQTAEGILKAYPDLDAIIAP-DANALPAAAQA 227 (336)
T ss_pred EEEEEECCCCCccHHHHHHHHHHHHHhhCCCCEEEeec-CCCCcHHHHHHHHHHHHHHCCCCcEEEEC-CCccHHHHHHH
Confidence 89988654321 112224666666654 356665432 2211111223345555444 45565543 44444567888
Q ss_pred HHHcCCC
Q 043468 153 ANKMKMM 159 (720)
Q Consensus 153 a~~~g~~ 159 (720)
+++.|..
T Consensus 228 l~~~g~~ 234 (336)
T PRK15408 228 AENLKRD 234 (336)
T ss_pred HHhCCCC
Confidence 8888863
No 203
>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=92.83 E-value=1.4 Score=43.74 Aligned_cols=145 Identities=15% Similarity=0.092 Sum_probs=83.5
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+++++++| .|.. .....+.. .. .++|+|......+. ...+ .+..++..-+..+++++...|.++++++..
T Consensus 53 ~~~~dgiii~~~~-~~~~~~~~-~~-~~iPvV~i~~~~~~---~~~~---~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~ 123 (265)
T cd06290 53 SRRVDALILLGGD-LPEEEILA-LA-EEIPVLAVGRRVPG---PGAA---SIAVDNFQGGYLATQHLIDLGHRRIAHITG 123 (265)
T ss_pred HCCCCEEEEeCCC-CChHHHHH-Hh-cCCCEEEECCCcCC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeC
Confidence 56777775 3322 11122222 23 48999987653221 1122 355677777888888887779999999975
Q ss_pred cCCCc-ccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 85 DIDSS-ATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 85 ~~~~g-~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
+.... .....+.+++.+++.|..+.....+... +...-...++++.+. ++++|+ +++...+..+++.+++.|+.-
T Consensus 124 ~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~i 202 (265)
T cd06290 124 PRGHIDARDRLAGYRKALEEAGLEVQPDLIVQGDFEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRV 202 (265)
T ss_pred ccccchhhHHHHHHHHHHHHcCCCCCHHHEEecCCCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCC
Confidence 43311 1122577888888887654321111111 111223345555433 467644 556677888899999999753
No 204
>PRK09492 treR trehalose repressor; Provisional
Probab=92.59 E-value=2.2 Score=43.63 Aligned_cols=145 Identities=10% Similarity=-0.003 Sum_probs=85.9
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+.+|+++|-...+... ...+...++|++...... +.+-.+.+++..-+..+++++...|.++++++...
T Consensus 116 ~~~vdgiIi~~~~~~~---~~~l~~~~~pvv~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~ 184 (315)
T PRK09492 116 RRNVDGVILFGFTGIT---EEMLAPWQDKLVLLARDA--------KGFSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVD 184 (315)
T ss_pred hcCCCEEEEeCCCccc---HHHHHhcCCCEEEEeccC--------CCCcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCC
Confidence 5678887742222111 223334466777654311 12234666777777888899888899999999632
Q ss_pred -CC--CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 043468 86 -ID--SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKD 162 (720)
Q Consensus 86 -~~--~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~ 162 (720)
.. .+.. -.+.+++.+++.|+.+... ....+..+-...++++.+.++++|+ +.+-..+..+++.+++.|+. +
T Consensus 185 ~~~~~~~~~-R~~Gf~~al~~~g~~~~~~--~~~~~~~~~~~~~~~~l~~~~~ai~-~~~D~~A~g~~~al~~~g~~--d 258 (315)
T PRK09492 185 HSDVTTGKR-RHQAYLAFCKQHKLTPVAA--LGGLSMQSGYELVAKVLTPETTALV-CATDTLALGASKYLQEQGRD--D 258 (315)
T ss_pred cccchhHHH-HHHHHHHHHHHcCCCceee--cCCCCchHHHHHHHHHhhcCCCEEE-EcCcHHHHHHHHHHHHcCCC--c
Confidence 21 1222 2688999999999865321 1111111222344555445788865 44557777899999999982 4
Q ss_pred eEEEE
Q 043468 163 YIWIT 167 (720)
Q Consensus 163 ~~~i~ 167 (720)
...++
T Consensus 259 isvig 263 (315)
T PRK09492 259 IQVAG 263 (315)
T ss_pred eEEEe
Confidence 44443
No 205
>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=92.51 E-value=1.4 Score=43.81 Aligned_cols=145 Identities=8% Similarity=-0.008 Sum_probs=80.6
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccC-CCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHh-CCCeEEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKK-QIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQS-WEWHQVTVIY 83 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~-~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~-~~~~~v~ii~ 83 (720)
+++|++||--. +.........+... ++|++..+...+. . +..-.+..+...-...+..++.. .|.++++++.
T Consensus 55 ~~~vdgiI~~~-~~~~~~~~~~~~~~~~~PiV~i~~~~~~--~---~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~ 128 (265)
T cd06354 55 DAGYDLIVGVG-FLLADALKEVAKQYPDQKFAIIDAVVDD--P---PNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIG 128 (265)
T ss_pred hCCCCEEEEcC-cchHHHHHHHHHHCCCCEEEEEecccCC--C---CcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEe
Confidence 57888887522 22223445555554 8999987642211 0 12223444444444444555554 4899999997
Q ss_pred EcCCCcccCcHHHHHHHHHHcC---cEEEEEEecCCC-C-cccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 84 EDIDSSATGILPHLSDALREAG---AEIIHVLALPHF-P-SSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 84 ~~~~~g~~~~~~~~~~~~~~~g---~~v~~~~~~~~~-~-~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
.+.........+.+++.+++.| ..+......... . ..+-...++++.+.++|+ |++.....+..+++.+++.|
T Consensus 129 ~~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pda-I~~~nd~~A~gv~~al~~~g 206 (265)
T cd06354 129 GMDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQGADV-IFAAAGGTGNGVFQAAKEAG 206 (265)
T ss_pred cccChHHHHHHHHHHHHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHCCCcE-EEECCCCCchHHHHHHHhcC
Confidence 5432211221367888888888 643332222211 1 113334556655456887 44456667778889999988
No 206
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=92.27 E-value=2.3 Score=43.73 Aligned_cols=153 Identities=13% Similarity=0.029 Sum_probs=87.4
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
.++|+++|- |.. .......+...++|+|......+ ...++ .+..++..-+..+++++...|.++++++..
T Consensus 112 ~~~vDgiI~~~~~---~~~~~~~l~~~~~pvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~ 182 (327)
T PRK10339 112 IKNVTGILIVGKP---TPALRAAASALTDNICFIDFHEP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGG 182 (327)
T ss_pred cccCCEEEEeCCC---CHHHHHHHHhcCCCEEEEeCCCC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCC
Confidence 356776653 222 22344556677899997653221 11223 366777777888899988889999999965
Q ss_pred cCCC-cccCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 85 DIDS-SATGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 85 ~~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
.... ....-.+.+++.+++.|+ +.....+. ..+..+....++++.+. .+++ +++++...+..+++++++.|+.-
T Consensus 183 ~~~~~~~~~R~~gf~~~~~~~g~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~D~~A~g~~~al~~~g~~v 260 (327)
T PRK10339 183 EDEPGKADIREVAFAEYGRLKQV-VREEDIWRGGFSSSSGYELAKQMLAREDYPKA-LFVASDSIAIGVLRAIHERGLNI 260 (327)
T ss_pred ccccchhhHHHHHHHHHHHHcCC-CChhheeecCcChhHHHHHHHHHHhCCCCCCE-EEECCcHHHHHHHHHHHHcCCCC
Confidence 3321 111124567778888876 11111111 11111233445554432 4666 45556677889999999999853
Q ss_pred C-CeEEEEeC
Q 043468 161 K-DYIWITTD 169 (720)
Q Consensus 161 ~-~~~~i~~~ 169 (720)
+ +...++-+
T Consensus 261 P~di~vigfD 270 (327)
T PRK10339 261 PQDISLISVN 270 (327)
T ss_pred CCceEEEeeC
Confidence 3 34444433
No 207
>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=92.22 E-value=1.9 Score=39.52 Aligned_cols=99 Identities=8% Similarity=0.033 Sum_probs=68.3
Q ss_pred HHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHc--CcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEE
Q 043468 63 QMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREA--GAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVH 140 (720)
Q Consensus 63 ~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~ 140 (720)
....+.+.+...++ +++++..+... .+.+.+.+++. |+.++....-+.... +....++.|+++++|+|++.
T Consensus 36 l~~~l~~~~~~~~~-~ifllG~~~~~-----~~~~~~~l~~~yP~l~ivg~~~g~f~~~-~~~~i~~~I~~~~pdiv~vg 108 (172)
T PF03808_consen 36 LFPDLLRRAEQRGK-RIFLLGGSEEV-----LEKAAANLRRRYPGLRIVGYHHGYFDEE-EEEAIINRINASGPDIVFVG 108 (172)
T ss_pred HHHHHHHHHHHcCC-eEEEEeCCHHH-----HHHHHHHHHHHCCCeEEEEecCCCCChh-hHHHHHHHHHHcCCCEEEEE
Confidence 45666666666554 88888665543 67777777775 777777655433333 88999999999999999998
Q ss_pred cCHHHHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 043468 141 LSLELAVHLFEKANKMKMMEKDYIWITTDAF 171 (720)
Q Consensus 141 ~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 171 (720)
.....-..++.+.++..- . . +++..++.
T Consensus 109 lG~PkQE~~~~~~~~~l~-~-~-v~i~vG~~ 136 (172)
T PF03808_consen 109 LGAPKQERWIARHRQRLP-A-G-VIIGVGGA 136 (172)
T ss_pred CCCCHHHHHHHHHHHHCC-C-C-EEEEECch
Confidence 887777777777665432 1 2 66665553
No 208
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=92.08 E-value=2 Score=44.56 Aligned_cols=146 Identities=13% Similarity=0.058 Sum_probs=81.5
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCc-EEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIP-VLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip-~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+++|+++|=-........+..+.+ ++| +|......+. ...++ +.+++..-+..+++++...|.++++++..
T Consensus 113 ~~~vdgiIi~~~~~~~~~~~~~~~--~~p~vV~i~~~~~~---~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~ 184 (343)
T PRK10727 113 RHRCAALVVHAKMIPDAELASLMK--QIPGMVLINRILPG---FENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCS 184 (343)
T ss_pred hcCCCEEEEecCCCChHHHHHHHh--cCCCEEEEecCCCC---CCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeC
Confidence 467777763111111222333333 577 6655432111 11122 55677777777888888889999999965
Q ss_pred cCCC-cccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 85 DIDS-SATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 85 ~~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
.... ....-.+.+++.+++.|+.+......... +..+-...++++.+. .+++| ++.+...+..+++.+++.|+.-
T Consensus 185 ~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~nD~~A~g~~~al~~~G~~v 263 (343)
T PRK10727 185 NHSISDAEDRLQGYYDALAESGIPANDRLVTFGEPDESGGEQAMTELLGRGRNFTAV-ACYNDSMAAGAMGVLNDNGIDV 263 (343)
T ss_pred CccccchHHHHHHHHHHHHHCCCCCChhhEEeCCCChhHHHHHHHHHHhCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCC
Confidence 4321 11222678899999999754322111111 111222344554433 45664 4556677788999999999853
No 209
>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=91.95 E-value=4.1 Score=41.15 Aligned_cols=144 Identities=14% Similarity=0.103 Sum_probs=80.1
Q ss_pred cCCeEEEE-CCCCChh-hHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC-----CCeE
Q 043468 6 SQKVEAIL-GPQTSEE-TSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW-----EWHQ 78 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~-~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~-----~~~~ 78 (720)
+++|++|| .|..... ...+.. +. .++|+|........ . ..+-.+..+...-++.+++++... |.++
T Consensus 55 ~~~vDgiIi~~~~~~~~~~~l~~-~~-~~iPvV~~~~~~~~--~---~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~ 127 (295)
T TIGR02955 55 SWGADAILLGTVSPEALNHDLAQ-LT-KSIPVFALVNQIDS--N---QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTT 127 (295)
T ss_pred HcCCCEEEEecCChhhhhHHHHH-Hh-cCCCEEEEecCCCc--c---ceeEEEeecHHHHHHHHHHHHHHhcccCCCCee
Confidence 57788775 3332222 122233 33 48999875322111 1 123446677777778788887552 1347
Q ss_pred EEEEEEcCCC-cccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHH
Q 043468 79 VTVIYEDIDS-SATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 79 v~ii~~~~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
++++...... ......+.+++.+++.|+++... .....+..+-...++++.++ ++++| ++....+..+++.+++
T Consensus 128 I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~~-~~~~~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~ 204 (295)
T TIGR02955 128 LAWLPGPKNRGGTKPVTQGFRAALEGSDVEISAI-LWADNDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRS 204 (295)
T ss_pred EEEEeCCCcCCchhHHHHHHHHHHhcCCcEEEEE-ecCCCcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHh
Confidence 9999754432 11223678899999999876542 21111111223344554332 46764 4455667788998888
Q ss_pred cCCC
Q 043468 156 MKMM 159 (720)
Q Consensus 156 ~g~~ 159 (720)
.|+.
T Consensus 205 ~g~~ 208 (295)
T TIGR02955 205 LHMT 208 (295)
T ss_pred hCcc
Confidence 8774
No 210
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=91.32 E-value=3.1 Score=43.16 Aligned_cols=147 Identities=11% Similarity=0.082 Sum_probs=81.8
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCc-EEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIP-VLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip-~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+++++++|--........+..+.. ++| ++......+. ...+ .+..++..-....++++...|.++++++..
T Consensus 113 ~~~vdGiIi~~~~~~~~~~~~~~~--~~p~vV~i~~~~~~---~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~ 184 (346)
T PRK10401 113 RQRCNALIVHSKALSDDELAQFMD--QIPGMVLINRVVPG---YAHR---CVCLDNVSGARMATRMLLNNGHQRIGYLSS 184 (346)
T ss_pred hcCCCEEEEeCCCCChHHHHHHHh--cCCCEEEEecccCC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeC
Confidence 466777653211111223334443 355 6655432211 1122 255676666777788888889999999965
Q ss_pred cCCC-cccCcHHHHHHHHHHcCcEEEEEEecCCCC-cccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 85 DIDS-SATGILPHLSDALREAGAEIIHVLALPHFP-SSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 85 ~~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~-~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
.... ....-.+.+++.+++.|+.+.......... ..+-...+.++.+. ++++|+ +.+...+..+++.+++.|+.-
T Consensus 185 ~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~al~~~G~~v 263 (346)
T PRK10401 185 SHGIEDDAMRRAGWMSALKEQGIIPPESWIGTGTPDMQGGEAAMVELLGRNLQLTAVF-AYNDNMAAGALTALKDNGIAI 263 (346)
T ss_pred CCcCcchHHHHHHHHHHHHHcCCCCChhheecCCCChHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCC
Confidence 4331 111226789999999997543221111111 11222344554433 467644 556677778999999999864
Q ss_pred C
Q 043468 161 K 161 (720)
Q Consensus 161 ~ 161 (720)
+
T Consensus 264 P 264 (346)
T PRK10401 264 P 264 (346)
T ss_pred C
Confidence 3
No 211
>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=91.25 E-value=1.2 Score=45.71 Aligned_cols=60 Identities=13% Similarity=0.220 Sum_probs=38.7
Q ss_pred CCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEe
Q 043468 347 QPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVV 422 (720)
Q Consensus 347 ~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~ 422 (720)
..||||+-..+.|.|+..... .| ++++-.++.|.++++...+ +....+.++.+|++|++.
T Consensus 2 ~~~~i~~~~w~G~~p~~lA~~---------~G----~fe~~l~~~Gl~Ve~~~f~---~~~~~l~Al~aG~iD~~~ 61 (328)
T TIGR03427 2 DKFKVCWSIYAGWMPWGYAAQ---------QG----IVDKWADKYGITIEVVQIN---DYVESINQYTAGKFDGCT 61 (328)
T ss_pred CceEEEecCCccHHHHHHHHH---------cC----chhhhHHHcCCeEEEEECC---ChHHHHHHHHcCCCCEEe
Confidence 368999966666666533211 23 3333345678776665444 468889999999999864
No 212
>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=91.17 E-value=5.1 Score=37.43 Aligned_cols=69 Identities=14% Similarity=0.167 Sum_probs=47.7
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++.. ++...+++.|.+|++|+++........ .+. ..++....+++++++..
T Consensus 19 ~~l~~~l~~~~~~~P~i~i~~~~----~~~~~~~~~l~~g~~Dl~i~~~~~~~~---~~~-~~~l~~~~~~~~~~~~~ 88 (209)
T PF03466_consen 19 SLLPPLLAEFRERHPNIRIEIRE----GDSDELIEALRSGELDLAITFGPPPPP---GLE-SEPLGEEPLVLVVSPDH 88 (209)
T ss_dssp HTHHHHHHHHHHHSTTEEEEEEE----ESHHHHHHHHHTTSSSEEEESSSSSST---TEE-EEEEEEEEEEEEEETTS
T ss_pred HHHHHHHHHHHHHCCCcEEEEEe----ccchhhhHHHhcccccEEEEEeecccc---ccc-cccccceeeeeeeeccc
Confidence 44567788887766 44433433 245899999999999999865554332 232 46888889999998774
No 213
>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=91.10 E-value=3.9 Score=40.26 Aligned_cols=143 Identities=10% Similarity=0.075 Sum_probs=84.1
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+.+++++| -|.... ...+..+ ...+ |++....... . ..-.+.++....+..+++++...|.++++++..
T Consensus 53 ~~~vdgiii~~~~~~-~~~~~~~-~~~~-pvv~~~~~~~----~---~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~ 122 (260)
T cd06286 53 TKQVDGLILCSREND-WEVIEPY-TKYG-PIVLCEEYDS----K---NISSVYIDHYEAFYEALKYLIQKGYRKIAYCIG 122 (260)
T ss_pred HcCCCEEEEeCCCCC-HHHHHHH-hcCC-CEEEEecccC----C---CCCEEEECChHHHHHHHHHHHHCCCceEEEEcC
Confidence 56777665 333222 2333333 3344 8876543211 1 222366777788888899988889999999976
Q ss_pred cCC-CcccCcHHHHHHHHHHcCcEEEEEEecC-CCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 85 DID-SSATGILPHLSDALREAGAEIIHVLALP-HFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 85 ~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
+.. .....-.+.+++.+++.|+++.....+. ..+..+-...+.++.+. .+++| ++++...+..+++.+++.|+.
T Consensus 123 ~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~ 200 (260)
T cd06286 123 RKKSLNSQSRKKAYKDALEEYGLTPDEEWIFEGCFTIEDGERIGHQLLKMKDRPDAI-FTGSDEVAAGIITEAKKQGIR 200 (260)
T ss_pred CcccchhHHHHHHHHHHHHHcCCCCChHheEeCCCCHHHHHHHHHHHHcCCCCCCEE-EEcchHHHHHHHHHHHHcCCC
Confidence 432 1112226788889999886543221111 11111333455555433 56764 456667778899999999985
No 214
>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=91.02 E-value=3.7 Score=41.84 Aligned_cols=147 Identities=10% Similarity=0.004 Sum_probs=86.0
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+.+++++|--........ .....++|++..+... +.+-.+.+++..-+..+++++...|.++++++...
T Consensus 113 ~~~vdGvIi~~~~~~~~~---~l~~~~~p~V~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~ 181 (311)
T TIGR02405 113 KRNVDGVILFGFTGCDEE---ILESWNHKAVVIARDT--------GGFSSVCYDDYGAIELLMANLYQQGHRHISFLGVD 181 (311)
T ss_pred hcCCCEEEEeCCCCCCHH---HHHhcCCCEEEEecCC--------CCccEEEeCcHHHHHHHHHHHHHcCCCcEEEEccC
Confidence 567777763111111111 2344577887665321 11223667777788888999888899999999632
Q ss_pred -CC--CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 043468 86 -ID--SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKD 162 (720)
Q Consensus 86 -~~--~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~ 162 (720)
.. .+.. ..+.+++.+++.|++... .....+..+....++++.+.++++| ++++...+..+++.+.+.|+ .+
T Consensus 182 ~~~~~~~~~-R~~gf~~a~~~~gi~~~~--~~~~~~~~~~~~~~~~~l~~~~tAi-~~~~D~~A~g~~~~l~~~g~--~d 255 (311)
T TIGR02405 182 PSDKTTGLM-RHNAYLAYCESANLEPIY--QTGQLSHESGYVLTDKVLKPETTAL-VCATDTLALGAAKYLQELDR--SD 255 (311)
T ss_pred cccchhHHH-HHHHHHHHHHHcCCCcee--eeCCCCHHHHHHHHHHHHhcCCCEE-EECCcHHHHHHHHHHHHcCC--CC
Confidence 21 2222 267899999999986321 1111111122234445434567775 56677778888999999997 34
Q ss_pred eEEEEeC
Q 043468 163 YIWITTD 169 (720)
Q Consensus 163 ~~~i~~~ 169 (720)
.-.++-+
T Consensus 256 vsvvgfd 262 (311)
T TIGR02405 256 VQVSSVG 262 (311)
T ss_pred eEEEeeC
Confidence 4444433
No 215
>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=90.68 E-value=0.82 Score=46.93 Aligned_cols=71 Identities=6% Similarity=-0.058 Sum_probs=42.0
Q ss_pred HHHHHHHHHhCC-CccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeec------------cceeeeeecccccccceE
Q 043468 381 IELFKALVEKLP-FYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVA------------RRCQYADFTHPYTESGLV 447 (720)
Q Consensus 381 ~dl~~~la~~l~-~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~------------~r~~~~~fs~p~~~~~~~ 447 (720)
..+.+.+++.++ .++ ...+. ++....+..|.+|++|+++....... .+.+.+....+++.....
T Consensus 48 ~~la~~~~~~~~~i~v--~~~~~-~~~~~~~~~l~~G~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~ 124 (320)
T TIGR02122 48 GAIAQLINKKSGKLRV--RVQST-GGSVENVNLLEAGEADLAIVQSDVAYYAYEGDGEFEFEGPVEKLRALASLYPEYIQ 124 (320)
T ss_pred HHHHHHHhccCCCeeE--EEEeC-cchHHHHHHHhCCCCcEEEEcchhHHHHhcCcCccccCCCCccHHhHHHhccccEE
Confidence 356677777776 554 44432 23467889999999999976532210 112223323355566667
Q ss_pred EEEeccc
Q 043468 448 MIFPVQK 454 (720)
Q Consensus 448 ~~v~~~~ 454 (720)
+++++..
T Consensus 125 lvv~~d~ 131 (320)
T TIGR02122 125 IVVRKDS 131 (320)
T ss_pred EEEECCC
Confidence 7777664
No 216
>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=90.26 E-value=1.8 Score=43.43 Aligned_cols=31 Identities=6% Similarity=-0.072 Sum_probs=24.0
Q ss_pred CcchHHHHHhcCcccEEEechhHHHHHHHhc
Q 043468 577 CLGDYASDLKSRKTGAVFLEVAEAKIFLAKY 607 (720)
Q Consensus 577 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 607 (720)
+..+...++.+|++|+++...+.......+.
T Consensus 136 ~~~~~~~al~~g~vda~~~~~p~~~~~~~~~ 166 (288)
T TIGR01728 136 GPSDARAAFAAGQVDAWAIWEPWGSALVEEG 166 (288)
T ss_pred CcHHHHHHHHCCCCCEEEeccchHhHHhhcc
Confidence 3567889999999999999887766555443
No 217
>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=90.20 E-value=8.7 Score=38.93 Aligned_cols=148 Identities=11% Similarity=0.017 Sum_probs=82.7
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCe-EEEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWH-QVTVIY 83 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~-~v~ii~ 83 (720)
.++|++|| .|..+.........+...++|+|......+. .+....+..+...-.+.+++++...+.+ +++++.
T Consensus 52 ~~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~~~~-----~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~ 126 (302)
T TIGR02634 52 ARGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRLIND-----ADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMG 126 (302)
T ss_pred HcCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCcCCC-----CCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEe
Confidence 46677664 3333333345556667789999987543211 1233456678888888889998666655 788876
Q ss_pred EcCC-CcccCcHHHHHHHHHHc----CcEEEEEEecCCCCcccHHHHHHHhhc---CCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 84 EDID-SSATGILPHLSDALREA----GAEIIHVLALPHFPSSRLSEELEKLKG---GQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 84 ~~~~-~g~~~~~~~~~~~~~~~----g~~v~~~~~~~~~~~~d~~~~l~~i~~---~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
.+.. .......+.+++.+++. ++.+............+....++++.. ..+++| ++++...+..+++.+++
T Consensus 127 g~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~aI-~~~~D~~A~g~~~al~~ 205 (302)
T TIGR02634 127 GSPTDNNAKLLRGGQMKVLQPAIDSGDIKIVGDQWVDGWLPENALRIMENALTANDNKVDAV-VASNDATAGGAIQALTA 205 (302)
T ss_pred CCCCCcchHHHHHHHHHHHhhhccCCCeEEecCcCCCCCCHHHHHHHHHHHHHhCCCCccEE-EECCCchHHHHHHHHHH
Confidence 4322 11111245667777764 355432211111111133455555432 246764 44455556688999999
Q ss_pred cCCC
Q 043468 156 MKMM 159 (720)
Q Consensus 156 ~g~~ 159 (720)
.|+.
T Consensus 206 ~g~~ 209 (302)
T TIGR02634 206 QGLA 209 (302)
T ss_pred CCCC
Confidence 9984
No 218
>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=89.90 E-value=3.9 Score=37.40 Aligned_cols=99 Identities=14% Similarity=0.112 Sum_probs=65.7
Q ss_pred HHHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHc--CcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEE
Q 043468 62 AQMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREA--GAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVV 139 (720)
Q Consensus 62 ~~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil 139 (720)
.....+.+.+...+ .+++++...... .+.+.+.+++. |++++....-+.+.. +-...+++|++++||+|++
T Consensus 33 dl~~~ll~~~~~~~-~~v~llG~~~~~-----~~~~~~~l~~~yp~l~i~g~~~g~~~~~-~~~~i~~~I~~~~pdiv~v 105 (171)
T cd06533 33 DLMPALLELAAQKG-LRVFLLGAKPEV-----LEKAAERLRARYPGLKIVGYHHGYFGPE-EEEEIIERINASGADILFV 105 (171)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHHH-----HHHHHHHHHHHCCCcEEEEecCCCCChh-hHHHHHHHHHHcCCCEEEE
Confidence 34566666666554 578888554433 66666667664 778777544333333 5555899999999999999
Q ss_pred EcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 043468 140 HLSLELAVHLFEKANKMKMMEKDYIWITTDA 170 (720)
Q Consensus 140 ~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 170 (720)
......-..++.+..+.. . .-++++.++
T Consensus 106 glG~PkQE~~~~~~~~~l-~--~~v~~~vG~ 133 (171)
T cd06533 106 GLGAPKQELWIARHKDRL-P--VPVAIGVGG 133 (171)
T ss_pred ECCCCHHHHHHHHHHHHC-C--CCEEEEece
Confidence 988877778887776654 2 335565444
No 219
>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=89.60 E-value=0.83 Score=35.48 Aligned_cols=50 Identities=18% Similarity=0.335 Sum_probs=40.6
Q ss_pred cccchhhhhhh-----hccCC-cccccchhHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 043468 502 HQTGTFFWLSF-----NLHGE-KLHSNLSRMTTLVWLFVALVISQTYTANLTSMLT 551 (720)
Q Consensus 502 ~~~~~~~~~~~-----~~~g~-~~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~ 551 (720)
..+.+++|+++ .+.|+ .|.+..+|++.+.+.+.++.+.+...+.+.+.++
T Consensus 23 ~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l~ 78 (79)
T PF07885_consen 23 WSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVLT 78 (79)
T ss_dssp TSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34778899888 56676 4788889999999999999999999999988775
No 220
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=89.20 E-value=8.1 Score=39.78 Aligned_cols=147 Identities=11% Similarity=0.034 Sum_probs=84.5
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+++|+++|= |............+...++|+|......+ .. +....+.+++...++.++++|...|.++++++..
T Consensus 79 ~~~vDGiIi~~~~~~~~~~~l~~~~~~~iPvV~id~~~~---~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~ 153 (330)
T PRK10355 79 NRGVDVLVIIPYNGQVLSNVIKEAKQEGIKVLAYDRMIN---NA--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMG 153 (330)
T ss_pred HcCCCEEEEeCCChhhHHHHHHHHHHCCCeEEEECCCCC---CC--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEe
Confidence 467887753 32222223445667788999998754321 11 1223578899999999999998778888766543
Q ss_pred cCC---CcccCcHHHHHHHHHHc---C-cEEEEEEecCCCCcccHHHHHHHhh-c--CCCeEEEEEcCHHHHHHHHHHHH
Q 043468 85 DID---SSATGILPHLSDALREA---G-AEIIHVLALPHFPSSRLSEELEKLK-G--GQCRVFVVHLSLELAVHLFEKAN 154 (720)
Q Consensus 85 ~~~---~g~~~~~~~~~~~~~~~---g-~~v~~~~~~~~~~~~d~~~~l~~i~-~--~~~~vvil~~~~~~~~~~l~~a~ 154 (720)
... .... ..+.+++.+++. | +++............+-...++++. + ..+++ +++.+...+..+++.++
T Consensus 154 g~~~~~~~~~-R~~gf~~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~lL~~~~~~~~a-I~~~nD~~A~g~l~al~ 231 (330)
T PRK10355 154 GSPVDNNAKL-FRAGQMKVLKPYIDSGKIKVVGDQWVDGWLPENALKIMENALTANNNKIDA-VVASNDATAGGAIQALS 231 (330)
T ss_pred CCCCCccHHH-HHHHHHHHHhhhccCCCeEEecccCCCCCCHHHHHHHHHHHHHhCCCCccE-EEECCCchHHHHHHHHH
Confidence 221 1112 256677777763 4 4442221111111112223444433 2 24665 55566667778999999
Q ss_pred HcCCC
Q 043468 155 KMKMM 159 (720)
Q Consensus 155 ~~g~~ 159 (720)
+.|+.
T Consensus 232 ~~g~~ 236 (330)
T PRK10355 232 AQGLS 236 (330)
T ss_pred HCCCC
Confidence 99986
No 221
>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=89.05 E-value=5.7 Score=39.22 Aligned_cols=145 Identities=8% Similarity=0.028 Sum_probs=79.7
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccC-CCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC-CCeEEEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKK-QIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW-EWHQVTVIY 83 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~-~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~-~~~~v~ii~ 83 (720)
..+|++||=... .....+...++.. ++|++......+. .. ..-.+..++..-++.++.++... |.++++++.
T Consensus 54 ~~~vdgiii~~~-~~~~~~~~~~~~~~~ipvv~~~~~~~~--~~---~~~~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~ 127 (260)
T cd06304 54 AQGYDLIFGVGF-GFMDAVEKVAKEYPDVKFAIIDGVVDA--PP---NVASYVFREYEGSYLAGVLAALMTKTGKVGFVG 127 (260)
T ss_pred HcCCCEEEECCc-chhHHHHHHHHHCCCCEEEEecCccCC--CC---CeeeeecchHHHHHHHHHHHHHhccCCceEEEe
Confidence 467787653221 2234444555443 7898876543211 01 11123344444444455555544 889999997
Q ss_pred EcCCCcccCcHHHHHHHHHHcCcEEEEEEecC-CCC-cccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 84 EDIDSSATGILPHLSDALREAGAEIIHVLALP-HFP-SSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 84 ~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~-~~~-~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
.+.......-.+.+++.+++.|.......... ..+ .++-...++++.+..+++| ++.+...+..+++++++.|
T Consensus 128 ~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 128 GMPIPEVNRFINGFAAGAKSVNPDITVLVIYTGSFFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred ccccHHHHHHHHHHHHHHHHhCCCcEEEEEEecCccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 64321112226788899999886433322221 111 1133345666555567875 6666677778899999988
No 222
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=88.76 E-value=10 Score=38.96 Aligned_cols=151 Identities=12% Similarity=0.103 Sum_probs=80.6
Q ss_pred cCCeEEEEC-CCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHh-----------
Q 043468 6 SQKVEAILG-PQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQS----------- 73 (720)
Q Consensus 6 ~~~v~aiiG-p~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~----------- 73 (720)
.++|+++|= |..+.........+...++|+|......+.-.-...+-...+..++..-.+.+++++.+
T Consensus 79 ~~~vdgiIi~~~~~~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~ 158 (330)
T PRK15395 79 AKGVKALAINLVDPAAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLN 158 (330)
T ss_pred HcCCCEEEEeccCHHHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccC
Confidence 467887763 33333334444567778999998875321100011122334566766666665555432
Q ss_pred -CCCeEEEEEEEcCCC-cccCcHHHHHHHHHHcCcEEEEEEecCCCCc--ccHHHHHHHhhcC----CCeEEEEEcCHHH
Q 043468 74 -WEWHQVTVIYEDIDS-SATGILPHLSDALREAGAEIIHVLALPHFPS--SRLSEELEKLKGG----QCRVFVVHLSLEL 145 (720)
Q Consensus 74 -~~~~~v~ii~~~~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~--~d~~~~l~~i~~~----~~~vvil~~~~~~ 145 (720)
.|..+++++...... ......+.+++.+++.|+.+.... ...+.. .+-...++++.++ ++++| ++++...
T Consensus 159 ~~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~~~~~~~-~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai-~~~~d~~ 236 (330)
T PRK15395 159 KDGKIQYVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQLQ-LDTAMWDTAQAKDKMDAWLSGPNANKIEVV-IANNDAM 236 (330)
T ss_pred CCCceEEEEEecCCCCchHHHHHHHHHHHHHhcCCCeeeee-cccCCcCHHHHHHHHHHHHhhCcCCCeeEE-EECCchH
Confidence 133344555432221 111226788889998887654322 221211 1222344554332 35654 4556677
Q ss_pred HHHHHHHHHHcCC
Q 043468 146 AVHLFEKANKMKM 158 (720)
Q Consensus 146 ~~~~l~~a~~~g~ 158 (720)
+..+++.+++.|+
T Consensus 237 A~gvl~al~~~Gl 249 (330)
T PRK15395 237 AMGAVEALKAHNK 249 (330)
T ss_pred HHHHHHHHHhcCC
Confidence 7889999999998
No 223
>PF13531 SBP_bac_11: Bacterial extracellular solute-binding protein; PDB: 2HXW_B 3FJG_C 3FJM_B 3FJ7_B 3FIR_B 3AXF_C 1WOD_A 1AMF_A 3R26_A 1SBP_A ....
Probab=88.71 E-value=3.2 Score=40.09 Aligned_cols=204 Identities=14% Similarity=0.052 Sum_probs=108.5
Q ss_pred EEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhC-CccEEeeeeeeeccce---eeee--ecccccccceEEEEe
Q 043468 378 GFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLN-NFAGVVGDVAIVARRC---QYAD--FTHPYTESGLVMIFP 451 (720)
Q Consensus 378 G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g-~~Di~~~~~~~t~~r~---~~~~--fs~p~~~~~~~~~v~ 451 (720)
+..-++.+.+.++.++++++...+ -..+...|.+| +.|+.+.+-....++. ..+. -..|+..+.++++++
T Consensus 11 ~~~~~l~~~f~~~~g~~v~v~~~~----s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~vl~~~ 86 (230)
T PF13531_consen 11 PALEELAEAFEKQPGIKVEVSFGG----SGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARSPLVLAVP 86 (230)
T ss_dssp HHHHHHHHHHHHHHCEEEEEEEEC----HHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEEEEEEEEE
T ss_pred HHHHHHHHHHHhccCCeEEEEECC----hHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccCceEEEec
Confidence 444567888888888887666554 36788888876 8899876532221222 2333 457888899999999
Q ss_pred cccC--CCcccccccccchhHHHHHHHHHHHHhhheeeeecccCCCccCccccccchhhhhhhhccCCcccccchhHHHH
Q 043468 452 VQKS--GNKTLLFLKPFTRAVWILVAVISIYNGFVVWLIERNHWPELTGSALHQTGTFFWLSFNLHGEKLHSNLSRMTTL 529 (720)
Q Consensus 452 ~~~~--~~~~~~~~~pf~~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~R~~~~ 529 (720)
++.. ..++..+..| ++ + +....+..+.+++....
T Consensus 87 ~~~~~~~~~~~dL~~~-----------------------------~~--~-------------i~~~dP~~s~~g~~~~~ 122 (230)
T PF13531_consen 87 KGNPKGIRSWADLAQP-----------------------------GL--R-------------IAIPDPSTSPSGLAALQ 122 (230)
T ss_dssp TTSTTSTTCHHHHCST-----------------------------T-----------------EEEE-TTTTHHHHHHHH
T ss_pred cCcccccCCHHHHhhc-----------------------------cC--E-------------EEecCcccChhhHHHHH
Confidence 8861 2222222221 00 0 01111112334442221
Q ss_pred HHHHHHHHHHHhhhhhhhhhhhccccCCCCCChHHhhhcCCeEEEecCcchHHHHHhcCcccEEEechhHHHHHHHhcCC
Q 043468 530 VWLFVALVISQTYTANLTSMLTARGLEPTVNNIETLQSSNAIIGYSRCLGDYASDLKSRKTGAVFLEVAEAKIFLAKYCK 609 (720)
Q Consensus 530 ~~~l~~~ii~~~y~a~L~s~l~~~~~~~~i~s~~dl~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 609 (720)
+ +..... ..-++.+.+. ......+..+....+.+|+.|+.+.......+. ....+
T Consensus 123 ~-------l~~~g~---------------~~~~~~l~~~--~~~~~~~~~~~~~~v~~g~~d~~~~~~s~~~~~-~~~~~ 177 (230)
T PF13531_consen 123 V-------LAAAGG---------------QELLDALQKN--IVQYVPSTSQVLSAVASGEADAGIVYESQAIFA-RQGDP 177 (230)
T ss_dssp H-------HHHHTH---------------CHHHHHHHHT--EEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHC-TSHTT
T ss_pred H-------HHHccc---------------HHHHHHHHHh--CcccccchHHHHHHHHcCCCcceeeHHHHHHHh-hcCCC
Confidence 1 111110 1112222222 334555667888889999999999876655322 11122
Q ss_pred CcE--eeCCeee--cCceeeEecCCCCChHHHHHHHhcccccCcHHHHHHH
Q 043468 610 GFT--VAGPTYK--VGGLGFAFPKGSPLLPSVIEALLKVSESGKLRELETS 656 (720)
Q Consensus 610 ~l~--~~~~~~~--~~~~~~~~~k~s~~~~~in~~i~~~~~~G~~~~~~~~ 656 (720)
+. .+++... ...+.+++.++++-.+.-...+.-|.... .+++..+
T Consensus 178 -~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a~~f~~~L~s~~-~q~~l~~ 226 (230)
T PF13531_consen 178 -LSYVYPPDGVNSPPIDYPIAILKNAPHPEAARAFIDFLLSPE-GQQILAK 226 (230)
T ss_dssp -EEEEE-STTTSSSEEEEEEEEBTTCTTHHHHHHHHHHHTSHH-HHHHHHH
T ss_pred -eEEEECCchhcCCCEEEEEEEecCCCCHHHHHHHHHHHCCHH-HHHHHHH
Confidence 33 3333333 34577888888877777777776666543 4444444
No 224
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=88.62 E-value=1.8 Score=38.97 Aligned_cols=101 Identities=15% Similarity=0.138 Sum_probs=64.0
Q ss_pred HHHHHhCCCeEEEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHH-HHhhcCCCeEEEEEcCHHH
Q 043468 68 AAIVQSWEWHQVTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEEL-EKLKGGQCRVFVVHLSLEL 145 (720)
Q Consensus 68 ~~~l~~~~~~~v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l-~~i~~~~~~vvil~~~~~~ 145 (720)
++++.+.|.++++++..... .......+.+++.+++.|+..............+..... ..+++..+|+ +++++...
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~pda-ii~~~~~~ 79 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDDDSEDAREAQLLWLRRLRPDA-IICSNDRL 79 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESSSHHHHHHHHHHHHHTCSSSE-EEESSHHH
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCCcchhHHHHHHHHHhcCCCcE-EEEcCHHH
Confidence 46788889999999993332 222223678899999999986555544433321222222 2234337786 55588999
Q ss_pred HHHHHHHHHHcCCCC-CCeEEEEeC
Q 043468 146 AVHLFEKANKMKMME-KDYIWITTD 169 (720)
Q Consensus 146 ~~~~l~~a~~~g~~~-~~~~~i~~~ 169 (720)
+..+++.+.+.|+.- .+...++-+
T Consensus 80 a~~~~~~l~~~g~~vP~di~vv~~~ 104 (160)
T PF13377_consen 80 ALGVLRALRELGIRVPQDISVVSFD 104 (160)
T ss_dssp HHHHHHHHHHTTSCTTTTSEEEEES
T ss_pred HHHHHHHHHHcCCcccccccEEEec
Confidence 999999999999853 344444434
No 225
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=88.41 E-value=5.4 Score=40.49 Aligned_cols=103 Identities=13% Similarity=0.042 Sum_probs=65.7
Q ss_pred eecChHHHHHHHHHHHHhCCCeEEEEEEEcCCC-cccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcC-
Q 043468 56 ASQNQLAQMKAIAAIVQSWEWHQVTVIYEDIDS-SATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGG- 132 (720)
Q Consensus 56 ~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~~~~-g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~- 132 (720)
+..++..-+...++++...|.++++++...... ......+.|++.+++.|+++......... +.......+.++.+.
T Consensus 132 V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 211 (309)
T PRK11041 132 VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYVQALRRCGITVDPQYIARGDFTFEAGAKALKQLLDLP 211 (309)
T ss_pred EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHHHHHHHcCCCCCHHHeEeCCCCHHHHHHHHHHHHcCC
Confidence 566777778888888877899999999754332 11223678899999988764322111111 111333455565443
Q ss_pred -CCeEEEEEcCHHHHHHHHHHHHHcCCC
Q 043468 133 -QCRVFVVHLSLELAVHLFEKANKMKMM 159 (720)
Q Consensus 133 -~~~vvil~~~~~~~~~~l~~a~~~g~~ 159 (720)
.+++|+ ++....+..+++++++.|+.
T Consensus 212 ~~~~ai~-~~~d~~a~gv~~al~~~g~~ 238 (309)
T PRK11041 212 QPPTAVF-CHSDVMALGALSQAKRMGLR 238 (309)
T ss_pred CCCCEEE-EcCcHHHHHHHHHHHHcCCC
Confidence 467755 45666666889999999975
No 226
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=88.30 E-value=7.8 Score=42.11 Aligned_cols=142 Identities=13% Similarity=0.208 Sum_probs=81.1
Q ss_pred EECCCCChhhHHHHHhhc-cCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEcCCCcc
Q 043468 12 ILGPQTSEETSSVAEIAS-KKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYEDIDSSA 90 (720)
Q Consensus 12 iiGp~~s~~~~~~~~~~~-~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~~~~g~ 90 (720)
|++|.+.....++..+.+ ...+=+|.++. .-++| .......+.-.++.....-+++.|+|.+-.+..
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~H----------G~i~r--~~~~~~l~~Y~~~~~~~~~~kv~IvY~S~~GnT 265 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSH----------GVVWR--DNPTQIVELYLKWAADYQEDRITIFYDTMSNNT 265 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC----------CceEe--CCHHHHHHHHHHHhhccCcCcEEEEEECCccHH
Confidence 556665554444444443 22344454433 23455 333333444444444445678999999877666
Q ss_pred cCcHHHHHHHHHHc--CcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC------HHHHHHHHHHHHHcCCCCCC
Q 043468 91 TGILPHLSDALREA--GAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS------LELAVHLFEKANKMKMMEKD 162 (720)
Q Consensus 91 ~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~------~~~~~~~l~~a~~~g~~~~~ 162 (720)
+.|++.+.+.+++. |+++... .+. .. +....+..+. ++|.|++.++ ......++.......+.++.
T Consensus 266 e~mA~~ia~gl~~~g~gv~v~~~-~v~--~~-~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~gK~ 339 (479)
T PRK05452 266 RMMADAIAQGIAEVDPRVAVKIF-NVA--RS-DKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFRNKR 339 (479)
T ss_pred HHHHHHHHHHHHhhCCCceEEEE-ECC--CC-CHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCcCCCE
Confidence 77889999999887 4443322 222 22 5555555553 5777877652 23456667777667666655
Q ss_pred eEEEEeCcc
Q 043468 163 YIWITTDAF 171 (720)
Q Consensus 163 ~~~i~~~~~ 171 (720)
...+++-.|
T Consensus 340 ~~vFGSygw 348 (479)
T PRK05452 340 ASAFGSHGW 348 (479)
T ss_pred EEEEECCCc
Confidence 555555444
No 227
>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=88.24 E-value=2.6 Score=40.21 Aligned_cols=65 Identities=15% Similarity=0.133 Sum_probs=38.4
Q ss_pred HHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeec-cceeeee---ecccccccceEEEEeccc
Q 043468 387 LVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVA-RRCQYAD---FTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 387 la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~-~r~~~~~---fs~p~~~~~~~~~v~~~~ 454 (720)
+-++.|.++++.... +...++.+|.+|++|++++....-. .|.+..+ +-..+......+++++..
T Consensus 15 ~f~~~gl~ve~~~~~---~~~~~~~~l~~G~~D~~~~~~~~~~~~~~~g~~~~~i~~~~~~~~~~l~~~~~s 83 (216)
T PF09084_consen 15 YFKEEGLDVEIVFFG---GGGDVLEALASGKADIAVAGPDAVLFARAKGADIKIIAASYQSSPNALVVRKDS 83 (216)
T ss_dssp HHHHTTEEEEEEEES---SHHHHHHHHHTTSHSEEEEECHHHHHHHHTTSTEEEEEEEEEECCEEEEEETTT
T ss_pred CCccCeEEEEEEEec---ChhHHHHHHhcCCceEEeccchHHHHHHhcCCeeEEEEEecCCCceEEEEeccC
Confidence 445667776666553 4688999999999999987553222 2332222 212222344566666554
No 228
>PF12727 PBP_like: PBP superfamily domain; InterPro: IPR024370 This entry represents members of the periplasmic binding domain superfamily []. It is often associated with a helix-turn-helix domain.
Probab=87.41 E-value=5.3 Score=37.33 Aligned_cols=59 Identities=19% Similarity=0.041 Sum_probs=36.0
Q ss_pred cchHHHHHhcCcccEEEechhHHHHHHHhcCCCcEeeCCeeecCceeeEecCCCCChHHHHHHHhc
Q 043468 578 LGDYASDLKSRKTGAVFLEVAEAKIFLAKYCKGFTVAGPTYKVGGLGFAFPKGSPLLPSVIEALLK 643 (720)
Q Consensus 578 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~~~~~in~~i~~ 643 (720)
..+...++.+|..|+.+.....+... +. +..++ +....|-+++++..-..+.+.+.|.-
T Consensus 133 h~~vA~aVa~G~AD~G~g~~~~A~~~---~g--L~Fvp--l~~E~~dlv~~~~~~~~~~vq~ll~~ 191 (193)
T PF12727_consen 133 HLAVAAAVASGKADAGIGIRAAAEEF---YG--LDFVP--LAEERYDLVIRREDLEDPAVQALLDF 191 (193)
T ss_pred hHHHHHHHHcCCCCEEeehHHHHHhh---cC--CCcEE--ccccceEEEEEhhHcCCHHHHHHHHH
Confidence 34566778889999999865554311 11 22221 23356778999887666666666543
No 229
>TIGR00035 asp_race aspartate racemase.
Probab=86.79 E-value=2.1 Score=41.40 Aligned_cols=42 Identities=12% Similarity=0.068 Sum_probs=28.1
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEE
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIH 110 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~ 110 (720)
++.++.++..+.++|+++.....- . ...+++.+++.|++++.
T Consensus 106 ~~~~~~~~~~~~~~VgvLaT~~T~---~-s~~y~~~l~~~g~~v~~ 147 (229)
T TIGR00035 106 EETAEAVKEDGVKKAGLLGTKGTM---K-DGVYEREMKKHGIEIVT 147 (229)
T ss_pred HHHHHHHHHcCCCEEEEEecHHHH---H-hHHHHHHHHHCCCEEEC
Confidence 344445566688899999776653 1 45578888888877653
No 230
>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=86.49 E-value=26 Score=35.39 Aligned_cols=147 Identities=10% Similarity=0.112 Sum_probs=73.3
Q ss_pred cCCeEEEE-CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeec-ChHHHHHHHHHHH-HhC-CCeEEEE
Q 043468 6 SQKVEAIL-GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQ-NQLAQMKAIAAIV-QSW-EWHQVTV 81 (720)
Q Consensus 6 ~~~v~aii-Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p-~~~~~~~~~~~~l-~~~-~~~~v~i 81 (720)
++++++|| .|..+.........+.+.++|+|......+. . .....+.. +.....+..++.+ ++. +..+|++
T Consensus 54 ~~~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~ 128 (302)
T TIGR02637 54 AQKVDAIAISANDPDALVPALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAI 128 (302)
T ss_pred HcCCCEEEEeCCChHHHHHHHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEE
Confidence 45677654 3443333334455577789999987643211 1 12333444 3333344444543 332 3368999
Q ss_pred EEEcCCC-cccCcHHHHHHHHHHcC---cEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHH
Q 043468 82 IYEDIDS-SATGILPHLSDALREAG---AEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 82 i~~~~~~-g~~~~~~~~~~~~~~~g---~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
+..+... ......+.+++.+++.| .+++.... ...+.++-...++++.+. ++++|+. .....+...++.+++
T Consensus 129 i~g~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~L~~~~~~~ai~~-~~d~~a~ga~~al~~ 206 (302)
T TIGR02637 129 LSAASTATNQNAWIEIMKKELKDPKYPKVKLVATVY-GDDDAQKSYQEAQGLLKSYPNLKGIIA-PTTVGIKAAAQAVSD 206 (302)
T ss_pred EECCCCCccHHHHHHHHHHHHhhccCCCCEEEeeec-CCchHHHHHHHHHHHHHhCCCccEEEe-CCCchHHHHHHHHHh
Confidence 9754331 11122466666666643 34332211 111111223344444333 4556554 345666777888888
Q ss_pred cCCC
Q 043468 156 MKMM 159 (720)
Q Consensus 156 ~g~~ 159 (720)
.|..
T Consensus 207 ~g~~ 210 (302)
T TIGR02637 207 AKLI 210 (302)
T ss_pred cCCC
Confidence 8865
No 231
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=84.78 E-value=18 Score=35.35 Aligned_cols=135 Identities=9% Similarity=0.038 Sum_probs=81.6
Q ss_pred cCCeEEEE--CCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHh--CCCeEEEE
Q 043468 6 SQKVEAIL--GPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQS--WEWHQVTV 81 (720)
Q Consensus 6 ~~~v~aii--Gp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~--~~~~~v~i 81 (720)
..+|+++| ++..+ .......++..++|++..+...+. ...++ .+..++..-+..+++.+.. .|.+++++
T Consensus 50 ~~~vdGvIi~~~~~~--~~~~~~~~~~~~~PvV~i~~~~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~~Ia~ 122 (247)
T cd06276 50 KGKYSGYVVMPHFKN--EIQYFLLKKIPKEKLLILDHSIPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKYKKLIL 122 (247)
T ss_pred hcCCCEEEEecCCCC--cHHHHHHhccCCCCEEEEcCcCCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCCCEEEE
Confidence 35666665 32211 121334455578898876643211 11222 3566777778888888878 89999999
Q ss_pred EEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCC
Q 043468 82 IYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMME 160 (720)
Q Consensus 82 i~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~ 160 (720)
+..... .+.. ..+.+++.+++.|+.... .. ... + ... .++++ +++.+...+..+++.+++.|+.-
T Consensus 123 i~~~~~~~~~~-R~~gf~~~l~~~g~~~~~---~~-~~~-~------~~~-~~~~a-i~~~~d~~A~g~~~~l~~~g~~i 188 (247)
T cd06276 123 VFPNKTAIPKE-IKRGFERFCKDYNIETEI---IN-DYE-N------REI-EKGDL-YIILSDTDLVFLIKKARESGLLL 188 (247)
T ss_pred EecCccHhHHH-HHHHHHHHHHHcCCCccc---cc-ccc-h------hhc-cCCcE-EEEeCHHHHHHHHHHHHHcCCcC
Confidence 975432 2222 378889999999976432 11 000 1 001 12355 66667888889999999999854
Q ss_pred C
Q 043468 161 K 161 (720)
Q Consensus 161 ~ 161 (720)
+
T Consensus 189 P 189 (247)
T cd06276 189 G 189 (247)
T ss_pred C
Confidence 4
No 232
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=84.71 E-value=4.3 Score=39.51 Aligned_cols=98 Identities=12% Similarity=0.139 Sum_probs=56.8
Q ss_pred HHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEcCHH
Q 043468 66 AIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHLSLE 144 (720)
Q Consensus 66 ~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~~~~ 144 (720)
.+.+++++.+.+++.++.+...+ ....+.+++.+++.|+++........... .+......+++..++|+|+..+.|.
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~--~~~g~~v~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vGgG~ 86 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY--KAAGEKVEESLKSAGIEVAVIEEFVGDADEDEVEKLVEALRPKDADLIIGVGGGT 86 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH--HHHHHHHHHHHHTTT-EEEEEE-EE---BHHHHHHHHTTS--TT--EEEEEESHH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH--HHHHHHHHHHHHHcCCeEEEEecCCCCCCHHHHHHHHHHhcccCCCEEEEeCCcH
Confidence 45677888788999999887764 22268999999999999874432222221 1455556666667889887777665
Q ss_pred HHHHHHHHHHHcCCCCCCeEEEEe
Q 043468 145 LAVHLFEKANKMKMMEKDYIWITT 168 (720)
Q Consensus 145 ~~~~~l~~a~~~g~~~~~~~~i~~ 168 (720)
-.-..=..|.+.++ .++-+-|
T Consensus 87 i~D~~K~~A~~~~~---p~isVPT 107 (250)
T PF13685_consen 87 IIDIAKYAAFELGI---PFISVPT 107 (250)
T ss_dssp HHHHHHHHHHHHT-----EEEEES
T ss_pred HHHHHHHHHHhcCC---CEEEecc
Confidence 44444444667776 5555544
No 233
>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=83.19 E-value=15 Score=33.71 Aligned_cols=86 Identities=12% Similarity=0.100 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHc--CcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEE
Q 043468 62 AQMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREA--GAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVV 139 (720)
Q Consensus 62 ~~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil 139 (720)
.....+.+.....+ .++.++..... ..+.+.+.+++. |++++.. ......++-...+++|.++++|+|++
T Consensus 35 dl~~~l~~~~~~~~-~~vfllG~~~~-----v~~~~~~~l~~~yP~l~i~g~--~g~f~~~~~~~i~~~I~~s~~dil~V 106 (177)
T TIGR00696 35 DLMEELCQRAGKEK-LPIFLYGGKPD-----VLQQLKVKLIKEYPKLKIVGA--FGPLEPEERKAALAKIARSGAGIVFV 106 (177)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHH-----HHHHHHHHHHHHCCCCEEEEE--CCCCChHHHHHHHHHHHHcCCCEEEE
Confidence 45566666665556 47888754433 266667777664 6777775 22222225567899999999999999
Q ss_pred EcCHHHHHHHHHHHHH
Q 043468 140 HLSLELAVHLFEKANK 155 (720)
Q Consensus 140 ~~~~~~~~~~l~~a~~ 155 (720)
......-..++.+.++
T Consensus 107 glG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 107 GLGCPKQEIWMRNHRH 122 (177)
T ss_pred EcCCcHhHHHHHHhHH
Confidence 8877777777766544
No 234
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=83.13 E-value=1.7 Score=41.22 Aligned_cols=76 Identities=16% Similarity=0.214 Sum_probs=47.3
Q ss_pred eEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeee-------eeeeccceeeeeecccccccceE
Q 043468 375 YFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGD-------VAIVARRCQYADFTHPYTESGLV 447 (720)
Q Consensus 375 ~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~-------~~~t~~r~~~~~fs~p~~~~~~~ 447 (720)
++.|++--|.+.+.+ .++.+.+..+. |+ ..-++.|.+|.+|+++.+ +.-..+..-.++|-.--|.+.-+
T Consensus 25 ~YEGLATGl~~~f~~-~~ip~~~aymR--Ga-~~Rie~l~~g~yDfaVvS~lAA~~~i~~~~~l~i~~~fG~~sYvs~Hv 100 (232)
T PF14503_consen 25 RYEGLATGLYEQFEE-SGIPLNFAYMR--GA-ENRIEALKNGRYDFAVVSKLAAEHYIEEGEDLEIVLEFGPGSYVSEHV 100 (232)
T ss_dssp HHHHHHHHHHCTTT---TS-EEEEE-S---H-HHHHHHHHTTS-SEEEEEHHHHCCCCCC-SSEEEEEE--TTSSS--EE
T ss_pred hhHHHHHHHHHHhcc-CCCceEEEeec--cc-hHHHHHHHhCCcceEeehHHHHHHHHhhccCeEEEEeeCCCCcccceE
Confidence 778998888888876 67665565555 43 678899999999999876 22223444567788777777888
Q ss_pred EEEeccc
Q 043468 448 MIFPVQK 454 (720)
Q Consensus 448 ~~v~~~~ 454 (720)
++.+++.
T Consensus 101 li~~~~~ 107 (232)
T PF14503_consen 101 LIFRDGE 107 (232)
T ss_dssp EEEETT-
T ss_pred EEEecCC
Confidence 8887764
No 235
>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=82.19 E-value=36 Score=30.67 Aligned_cols=69 Identities=13% Similarity=0.175 Sum_probs=45.2
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..++++.+.++. +.+ +..... +...++..|.+|++|+++...... .+.+. ..++.....++++++..
T Consensus 13 ~~l~~~i~~~~~~~p~i~--i~~~~~--~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~~~ 82 (197)
T cd05466 13 YLLPPLLAAFRQRYPGVE--LSLVEG--GSSELLEALLEGELDLAIVALPVD---DPGLE-SEPLFEEPLVLVVPPDH 82 (197)
T ss_pred HHhHHHHHHHHHHCCCCE--EEEEEC--ChHHHHHHHHcCCceEEEEcCCCC---CCcce-EeeeeccceEEEecCCC
Confidence 45566777777665 344 443332 356899999999999998654432 23333 35777888888887764
No 236
>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=82.08 E-value=12 Score=35.71 Aligned_cols=68 Identities=9% Similarity=-0.058 Sum_probs=39.2
Q ss_pred CcchHHHHHhcCcccEEEechhHHHHHHHhcCCCcEeeCC-eeecCceeeEecCCCCChHHHHHHHhcccc
Q 043468 577 CLGDYASDLKSRKTGAVFLEVAEAKIFLAKYCKGFTVAGP-TYKVGGLGFAFPKGSPLLPSVIEALLKVSE 646 (720)
Q Consensus 577 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~k~s~~~~~in~~i~~~~~ 646 (720)
+..+..+.+.+|++|+.+......... ..... ...++. ......+++++.|+++-.+.-...|..+..
T Consensus 137 ~~~~~~~~~~~Ge~~~~~~~~~~~~~~-~~~~~-~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~s 205 (216)
T TIGR01256 137 DVRQALQFVETGNAPAGIVALSDVIPS-KKVGS-VATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLKS 205 (216)
T ss_pred cHHHHHHHHHcCCCCEEeeehhhhccc-CCccE-EEEeCccccCCccccEEEEECCCChHHHHHHHHHHcC
Confidence 456778889999999998755433211 11122 222332 233345688888887765555555544443
No 237
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=81.66 E-value=7.1 Score=41.07 Aligned_cols=87 Identities=11% Similarity=0.158 Sum_probs=59.7
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCC-cccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFP-SSRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~-~~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.+|.+++.|+++..-. ..++.+.+++.+++.|+++.....+.+.. .++....++.+++.++|+||-.+
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~-~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGG 98 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLT-KLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGG 98 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchh-hCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 456777888999999988764332 24458899999999998764443333222 22777888888999999988544
Q ss_pred CHHHHHHHHHH
Q 043468 142 SLELAVHLFEK 152 (720)
Q Consensus 142 ~~~~~~~~l~~ 152 (720)
+.-|+.+.+..
T Consensus 99 S~iD~AK~ia~ 109 (383)
T PRK09860 99 SPHDCAKGIAL 109 (383)
T ss_pred hHHHHHHHHHH
Confidence 44555555543
No 238
>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=81.55 E-value=15 Score=31.35 Aligned_cols=70 Identities=20% Similarity=0.189 Sum_probs=49.8
Q ss_pred EcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc----CHHHHHHHHHHHHHcCCC
Q 043468 84 EDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL----SLELAVHLFEKANKMKMM 159 (720)
Q Consensus 84 ~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~----~~~~~~~~l~~a~~~g~~ 159 (720)
..++...-+ ..-+...++..|++|..--.. . ..+..+..+.+.++|+|.+.+ ....+..+++++++.+..
T Consensus 7 ~~gd~H~lG-~~~~~~~l~~~G~~vi~lG~~----v-p~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~~ 80 (122)
T cd02071 7 PGLDGHDRG-AKVIARALRDAGFEVIYTGLR----Q-TPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGAG 80 (122)
T ss_pred cCCChhHHH-HHHHHHHHHHCCCEEEECCCC----C-CHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCCC
Confidence 334443345 788888899999998775322 2 566788888889999999876 345566677778887664
No 239
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=81.49 E-value=17 Score=36.01 Aligned_cols=94 Identities=6% Similarity=-0.048 Sum_probs=50.0
Q ss_pred CChHHhhhc--CCeEEEecCcchHHHHHhcCcccEEEechhHHHHHHHhc-CCCcEeeCCeeecCce--eeEecCCCCCh
Q 043468 560 NNIETLQSS--NAIIGYSRCLGDYASDLKSRKTGAVFLEVAEAKIFLAKY-CKGFTVAGPTYKVGGL--GFAFPKGSPLL 634 (720)
Q Consensus 560 ~s~~dl~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~--~~~~~k~s~~~ 634 (720)
.+++|.... ++++.-. ...+....+.+|++|+++...+++...-.+. ...+ ..... . .+| .+++++...=.
T Consensus 165 ~t~~di~~n~~~v~~v~~-~~~~~~~al~~g~vDaa~i~~~~a~~a~~~~~~~~l-~~e~~-~-~~~~~~~~v~~~~~~~ 240 (271)
T PRK11063 165 PTVLDIVENPKNLKIVEL-EAPQLPRSLDDAQIALAVINTTYASQIGLTPAKDGI-FVEDK-D-SPYVNLIVAREDNKDA 240 (271)
T ss_pred CCHHHHhcCCCCCEEEEC-cHHHHHHhcccccccEEEEChHHHHHcCCCCCCCee-EECCC-C-CCeEEEEEECCcccCC
Confidence 466776543 3443322 3567778899999999999877765332111 1212 22211 1 133 45666554334
Q ss_pred HHHHHHHhcccccCcHHHHHHHh
Q 043468 635 PSVIEALLKVSESGKLRELETSM 657 (720)
Q Consensus 635 ~~in~~i~~~~~~G~~~~~~~~~ 657 (720)
+.+...+..++....-+.+.++|
T Consensus 241 ~~~~~l~~a~~s~~v~~~i~~~~ 263 (271)
T PRK11063 241 ENVKKFVQAYQSDEVYEAANKVF 263 (271)
T ss_pred HHHHHHHHHHcCHHHHHHHHHHc
Confidence 44555555555555555555553
No 240
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=81.05 E-value=2.5 Score=44.63 Aligned_cols=83 Identities=18% Similarity=0.303 Sum_probs=65.9
Q ss_pred hhHHHHHHHHHHHHhhheeeeecccCCCccCccccccchhhhhhh-----hccCCc-ccccchhHHHHHHHHHHHHHHHh
Q 043468 468 RAVWILVAVISIYNGFVVWLIERNHWPELTGSALHQTGTFFWLSF-----NLHGEK-LHSNLSRMTTLVWLFVALVISQT 541 (720)
Q Consensus 468 ~~~W~~i~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~-----~~~g~~-~~~~~~R~~~~~~~l~~~ii~~~ 541 (720)
...|..-++.+++.+.++++.++....+-.+.....+..++|+.. .+.|+. |.+..+|++..++.++++-+-+.
T Consensus 234 iTt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fsligiSFFAL 313 (654)
T KOG1419|consen 234 ITTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIGISFFAL 313 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHHHHHHhc
Confidence 347888888899999999999988655544444556778999988 677876 89999999999999999888777
Q ss_pred hhhhhhhhh
Q 043468 542 YTANLTSML 550 (720)
Q Consensus 542 y~a~L~s~l 550 (720)
=.+.|-+=+
T Consensus 314 PAGILGSGf 322 (654)
T KOG1419|consen 314 PAGILGSGF 322 (654)
T ss_pred ccccccchh
Confidence 777766644
No 241
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=81.03 E-value=20 Score=31.02 Aligned_cols=83 Identities=16% Similarity=0.105 Sum_probs=55.1
Q ss_pred EEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC----HHHHHHHHHHHH
Q 043468 79 VTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS----LELAVHLFEKAN 154 (720)
Q Consensus 79 v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~----~~~~~~~l~~a~ 154 (720)
+.+-....+....+ .+-+...++..|++|+..-... +.+..++.+++.++|+|.+++. .+....++++++
T Consensus 5 v~~a~~g~D~Hd~g-~~iv~~~l~~~GfeVi~lg~~~-----s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~ 78 (132)
T TIGR00640 5 ILVAKMGQDGHDRG-AKVIATAYADLGFDVDVGPLFQ-----TPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELD 78 (132)
T ss_pred EEEEeeCCCccHHH-HHHHHHHHHhCCcEEEECCCCC-----CHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHH
Confidence 33333333333345 7888889999999988764332 5667888888899999998763 345566677777
Q ss_pred HcCCCCCCeEEEEeC
Q 043468 155 KMKMMEKDYIWITTD 169 (720)
Q Consensus 155 ~~g~~~~~~~~i~~~ 169 (720)
+.|.. ...++..+
T Consensus 79 ~~g~~--~i~vivGG 91 (132)
T TIGR00640 79 KLGRP--DILVVVGG 91 (132)
T ss_pred hcCCC--CCEEEEeC
Confidence 77763 33444443
No 242
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=80.95 E-value=17 Score=35.35 Aligned_cols=88 Identities=11% Similarity=0.095 Sum_probs=56.8
Q ss_pred HHHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHH-cCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEE
Q 043468 62 AQMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALRE-AGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVH 140 (720)
Q Consensus 62 ~~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~ 140 (720)
.....+.+.....+ .++.++...... .+.+.+.+++ .|++++....-..... +....+++|.+++||+|++.
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~v-----~~~a~~~l~~~y~l~i~g~~~Gyf~~~-e~~~i~~~I~~s~~dil~Vg 164 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPEV-----LAQTEAKLRTQWNVNIVGSQDGYFTPE-QRQALFERIHASGAKIVTVA 164 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHHH-----HHHHHHHHHHHhCCEEEEEeCCCCCHH-HHHHHHHHHHhcCCCEEEEE
Confidence 34455555555555 578888544332 5555555543 5888776553222222 56778999999999999998
Q ss_pred cCHHHHHHHHHHHHHc
Q 043468 141 LSLELAVHLFEKANKM 156 (720)
Q Consensus 141 ~~~~~~~~~l~~a~~~ 156 (720)
.....-..++....+.
T Consensus 165 lG~PkQE~~~~~~~~~ 180 (243)
T PRK03692 165 MGSPKQEIFMRDCRLV 180 (243)
T ss_pred CCCcHHHHHHHHHHHh
Confidence 8777767777665543
No 243
>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=80.48 E-value=45 Score=31.27 Aligned_cols=89 Identities=12% Similarity=0.072 Sum_probs=65.1
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc----CHHHHHHHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL----SLELAVHLFEK 152 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~----~~~~~~~~l~~ 152 (720)
.+|.+....++...-+ ..-+...++.+|++|.+-- .+. ..+..++.+++.++|+|.+.+ .......++++
T Consensus 85 ~~vv~~t~~gd~H~lG-~~~v~~~l~~~G~~vi~LG----~~v-p~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~~ 158 (197)
T TIGR02370 85 GKVVCGVAEGDVHDIG-KNIVVTMLRANGFDVIDLG----RDV-PIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDINDK 158 (197)
T ss_pred CeEEEEeCCCchhHHH-HHHHHHHHHhCCcEEEECC----CCC-CHHHHHHHHHHcCCCEEEEccccccCHHHHHHHHHH
Confidence 4666666666665566 8888899999999987642 222 677888888889999998755 45777888999
Q ss_pred HHHcCCCCCCeEEEEeCcc
Q 043468 153 ANKMKMMEKDYIWITTDAF 171 (720)
Q Consensus 153 a~~~g~~~~~~~~i~~~~~ 171 (720)
+++.+...+-.+++++..+
T Consensus 159 l~~~~~~~~v~i~vGG~~~ 177 (197)
T TIGR02370 159 LKEEGYRDSVKFMVGGAPV 177 (197)
T ss_pred HHHcCCCCCCEEEEEChhc
Confidence 9999876544566666554
No 244
>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=80.27 E-value=16 Score=37.68 Aligned_cols=137 Identities=18% Similarity=0.218 Sum_probs=76.2
Q ss_pred cccccCCeEEEECCCCChhhHHHHH------------------------hhccCCCcEEecccCCcccccCCCCeEEEee
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAE------------------------IASKKQIPVLSFADATPNWATERWPFLLQAS 57 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~------------------------~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~ 57 (720)
+|++..+|+.+++-+-++.++++.. .+.+++||+|+.++.
T Consensus 17 ~l~~~g~~d~l~~d~LaE~tma~~~~~~~~~p~~gY~~~~~~~L~~~L~~~~~~gIkvI~NaGg---------------- 80 (362)
T PF07287_consen 17 RLARGGDVDYLVGDYLAERTMAILARAKRKDPTKGYAPDFVRDLRPLLPAAAEKGIKVITNAGG---------------- 80 (362)
T ss_pred HHHhcCCCCEEEEecHHHHHHHHHHHHHhhCCCCCchHHHHHHHHHHHHHHHhCCCCEEEeCCC----------------
Confidence 4667778888888777765544443 444567777654431
Q ss_pred cChHHHHHHHHHHHHhCCCe-EEEEEEEcCCCcccCcHHHHHHHHHHcCc--EEEEEE-ecC-----CCCc-c--cHHHH
Q 043468 58 QNQLAQMKAIAAIVQSWEWH-QVTVIYEDIDSSATGILPHLSDALREAGA--EIIHVL-ALP-----HFPS-S--RLSEE 125 (720)
Q Consensus 58 p~~~~~~~~~~~~l~~~~~~-~v~ii~~~~~~g~~~~~~~~~~~~~~~g~--~v~~~~-~~~-----~~~~-~--d~~~~ 125 (720)
-+....++.+.+++++.|.+ ||++|+.|+.. ..+.+.+. .|. ...... .+. .... . -.+++
T Consensus 81 ~np~~~a~~v~eia~e~Gl~lkvA~V~gDd~~------~~v~~~~~-~g~~~~~l~~~~~l~~~~~~~~~a~aylGa~pI 153 (362)
T PF07287_consen 81 LNPAGCADIVREIARELGLSLKVAVVYGDDLK------DEVKELLA-EGETIRPLDTGPPLSEWDDRIVSANAYLGAEPI 153 (362)
T ss_pred CCHHHHHHHHHHHHHhcCCCeeEEEEECccch------HhHHHHHh-CCCCCccCCCCCCcchhccccceEEEecChHHH
Confidence 12223677888888887764 89999887763 34444443 221 111110 000 0000 0 35566
Q ss_pred HHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Q 043468 126 LEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKD 162 (720)
Q Consensus 126 l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~ 162 (720)
++.|+ .++|+||..=..+.+.-+--.+.+.|+...+
T Consensus 154 ~~AL~-~GADIVI~GR~~D~Al~~a~~~~~~GW~~~d 189 (362)
T PF07287_consen 154 VEALE-AGADIVITGRVADPALFAAPAIHEFGWSEDD 189 (362)
T ss_pred HHHHH-cCCCEEEeCcccchHHHHhHHHHHcCCCccc
Confidence 66665 6899966544444444444456688886443
No 245
>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=80.18 E-value=38 Score=33.31 Aligned_cols=96 Identities=6% Similarity=-0.079 Sum_probs=51.4
Q ss_pred CChHHhhhcC--CeEEEecCcchHHHHHhcCcccEEEechhHHHHHHHhc-CCCcEeeCCeeecCceeeEecCCCCChHH
Q 043468 560 NNIETLQSSN--AIIGYSRCLGDYASDLKSRKTGAVFLEVAEAKIFLAKY-CKGFTVAGPTYKVGGLGFAFPKGSPLLPS 636 (720)
Q Consensus 560 ~s~~dl~~~~--~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~s~~~~~ 636 (720)
.|..|..+.. +++.... ..+...++.+|++|+++...+++...-.+. ...+ .....-.+....++++.+..=.+.
T Consensus 152 ~t~~DI~~n~~~v~~vel~-~~~~~~al~~g~vDaa~v~~~~~~~agl~~~~~~i-~~e~~~~~~~n~l~~r~~~~~~~~ 229 (258)
T TIGR00363 152 PTVLDIVENPKKLNITELE-TSQLPRALDDPKVDLAVINTTYAGQVGLNPQDDGV-FVEDKDSPYVNIIVSREDNKDAEN 229 (258)
T ss_pred CChhhhhcCCCCCEEEEcC-HHHHHHHhhcccccEEEEChHHHHHcCCCcCcCce-eecCCCCCeeEEEEEcCCccCCHH
Confidence 4566665433 3333222 456778899999999999877654331111 1111 111111111234666665445566
Q ss_pred HHHHHhcccccCcHHHHHHHh
Q 043468 637 VIEALLKVSESGKLRELETSM 657 (720)
Q Consensus 637 in~~i~~~~~~G~~~~~~~~~ 657 (720)
+...+..++...+-+.+.++|
T Consensus 230 ~~~lv~~~~s~~v~~~i~~~~ 250 (258)
T TIGR00363 230 VKDFIQSYQSEEVYQAAQKHF 250 (258)
T ss_pred HHHHHHHHcCHHHHHHHHHHc
Confidence 666676677666666666554
No 246
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=80.09 E-value=12 Score=38.30 Aligned_cols=34 Identities=9% Similarity=-0.056 Sum_probs=25.8
Q ss_pred HHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEee
Q 043468 387 LVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVG 423 (720)
Q Consensus 387 la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 423 (720)
+.++.|.++++...+ +...++.++.+|++|++..
T Consensus 45 f~~~~Gl~Ve~~~~~---~~~~~~~al~~G~~D~a~~ 78 (320)
T PRK11480 45 FAKESGATVDWRKFD---SGASIVRALASGDVQIGNL 78 (320)
T ss_pred hHHHcCCeeEEEEeC---CHHHHHHHHHCCCCCEECc
Confidence 345578777776554 4688999999999999854
No 247
>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=79.70 E-value=28 Score=34.66 Aligned_cols=154 Identities=13% Similarity=0.119 Sum_probs=80.5
Q ss_pred cCCeEEEECC-CCChhhHHHHHhhccCCCcEEecccCCcccccCCCC-eEEEeecChHHHHHHHHHHHHhC--CCeEEEE
Q 043468 6 SQKVEAILGP-QTSEETSSVAEIASKKQIPVLSFADATPNWATERWP-FLLQASQNQLAQMKAIAAIVQSW--EWHQVTV 81 (720)
Q Consensus 6 ~~~v~aiiGp-~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~-~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~i 81 (720)
.++|++||=. ...+........+...++|+|........ ....++ .+-.+..++..-+..++++|... |.+++++
T Consensus 54 ~~~vdgiil~~~~~~~~~~~~~~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~ 132 (280)
T cd06315 54 ALKPDGIVLGGVDAAELQAELELAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVI 132 (280)
T ss_pred HcCCCEEEEcCCCHHHHHHHHHHHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEE
Confidence 4677777532 22122233334456789999987653211 000011 13446677777788889988766 8899998
Q ss_pred EEEcCCCcccCcHHHHHHHHHHc-CcEEEEEEecCCC-CcccHHHHHHHhhcC---CCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 82 IYEDIDSSATGILPHLSDALREA-GAEIIHVLALPHF-PSSRLSEELEKLKGG---QCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 82 i~~~~~~g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~-~~~d~~~~l~~i~~~---~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
+..........-.++++..++.. +..+......... ........++++.+. .+++ +++++...+..+++.+++.
T Consensus 133 i~~~~~~~~~~r~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~a-i~~~~D~~A~g~~~~l~~~ 211 (280)
T cd06315 133 FTDSRFSIAKAKANAMKEIIEACKGCTVLSIEDVPISRTATRMPALTARLLQRYGDKWTH-SLAINDLYFDYMAPPLASA 211 (280)
T ss_pred EeCCCCccHHHHHHHHHHHHHhCCCCEEEEecccCcchhhhhhHHHHHHHHHhcCcccce-ecccchhhhHHhHHHHHHh
Confidence 86432211000024555555443 3333221111111 110111344444332 3565 5666677778889999999
Q ss_pred CCCCC
Q 043468 157 KMMEK 161 (720)
Q Consensus 157 g~~~~ 161 (720)
|+..+
T Consensus 212 g~~~p 216 (280)
T cd06315 212 GRKAD 216 (280)
T ss_pred cccCC
Confidence 98643
No 248
>cd08421 PBP2_LTTR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=79.62 E-value=38 Score=30.91 Aligned_cols=69 Identities=14% Similarity=0.143 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++. . ++...+++.|.+|++|+++.... .....+. +.++....+++++++..
T Consensus 13 ~~l~~~l~~~~~~~P~i~i~~~--~--~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~~~ 82 (198)
T cd08421 13 EFLPEDLASFLAAHPDVRIDLE--E--RLSADIVRAVAEGRADLGIVAGN---VDAAGLE-TRPYRTDRLVVVVPRDH 82 (198)
T ss_pred hhhHHHHHHHHHHCCCceEEEE--e--cCcHHHHHHHhcCCceEEEEecC---CCCCCcE-EEEeecCcEEEEeCCCC
Confidence 45567888888875 4443333 2 23578999999999999985332 2223343 36788888888887664
No 249
>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=79.27 E-value=4.2 Score=34.36 Aligned_cols=86 Identities=14% Similarity=0.185 Sum_probs=52.0
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-c--cHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-S--RLSEELEKLKGGQCRVFVVHLSLELAVHLFEKA 153 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~--d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a 153 (720)
|+++|+..++..+.. ...+-+.+.+.|.+|..... .... . ..-+-+.++ ...+|.++++...+....+++++
T Consensus 1 ksiAVvGaS~~~~~~--g~~v~~~l~~~G~~v~~Vnp--~~~~i~G~~~y~sl~e~-p~~iDlavv~~~~~~~~~~v~~~ 75 (116)
T PF13380_consen 1 KSIAVVGASDNPGKF--GYRVLRNLKAAGYEVYPVNP--KGGEILGIKCYPSLAEI-PEPIDLAVVCVPPDKVPEIVDEA 75 (116)
T ss_dssp -EEEEET--SSTTSH--HHHHHHHHHHTT-EEEEEST--TCSEETTEE-BSSGGGC-SST-SEEEE-S-HHHHHHHHHHH
T ss_pred CEEEEEcccCCCCCh--HHHHHHHHHhCCCEEEEECC--CceEECcEEeeccccCC-CCCCCEEEEEcCHHHHHHHHHHH
Confidence 578888876665432 56777777788877655421 1111 0 111122222 46899999999999999999999
Q ss_pred HHcCCCCCCeEEEEeCc
Q 043468 154 NKMKMMEKDYIWITTDA 170 (720)
Q Consensus 154 ~~~g~~~~~~~~i~~~~ 170 (720)
.+.|. +.+|+.++.
T Consensus 76 ~~~g~---~~v~~~~g~ 89 (116)
T PF13380_consen 76 AALGV---KAVWLQPGA 89 (116)
T ss_dssp HHHT----SEEEE-TTS
T ss_pred HHcCC---CEEEEEcch
Confidence 99997 789998884
No 250
>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=79.22 E-value=17 Score=38.06 Aligned_cols=88 Identities=15% Similarity=0.170 Sum_probs=60.0
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.++.+++.|+++.... ..+..+.+++.+++.|+++.....+....+ ++....+...++.++|.||-.+
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~-~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 91 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLA-ALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFGGG 91 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchh-hCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 456777888888999888765442 233478999999999988654433333222 2677788888888999988544
Q ss_pred CHHHHHHHHHHH
Q 043468 142 SLELAVHLFEKA 153 (720)
Q Consensus 142 ~~~~~~~~l~~a 153 (720)
+.-|+..++...
T Consensus 92 SviD~aK~ia~~ 103 (370)
T cd08192 92 SALDLAKAVALM 103 (370)
T ss_pred hHHHHHHHHHHH
Confidence 456666665544
No 251
>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=78.95 E-value=10 Score=39.89 Aligned_cols=86 Identities=16% Similarity=0.240 Sum_probs=58.7
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.++.+|+.|+++.... ..+..+.+.+.+++.|+++.....+..... ++....+..+++.++|.||-.+
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~-~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 90 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMV-KLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGGG 90 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchh-hcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 455667777788899999865443 344578999999999988654444443332 2677888888888999988654
Q ss_pred CHHHHHHHHH
Q 043468 142 SLELAVHLFE 151 (720)
Q Consensus 142 ~~~~~~~~l~ 151 (720)
+.-|+..++.
T Consensus 91 S~~D~AKaia 100 (375)
T cd08194 91 SPIDTAKAIA 100 (375)
T ss_pred hHHHHHHHHH
Confidence 3445554443
No 252
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=78.86 E-value=20 Score=37.25 Aligned_cols=91 Identities=14% Similarity=0.071 Sum_probs=65.4
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
+.+.+.++.+|++|+-|+.+..- ...++.+.+.+.+++.|+++.....+++... +....-+..+++.++|.||-.+
T Consensus 18 ~~l~~~~~~~g~~r~liVTd~~~-~~~g~~~~v~~~L~~~~i~~~if~~v~p~P~~~~v~~~~~~~~~~~~D~iIalGGG 96 (377)
T COG1454 18 KELGEEVKRLGAKRALIVTDRGL-AKLGLLDKVLDSLDAAGIEYEVFDEVEPEPTIETVEAGAEVAREFGPDTIIALGGG 96 (377)
T ss_pred HHHHHHHHhcCCCceEEEECCcc-ccchhHHHHHHHHHhcCCeEEEecCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 55666678889999999977663 3355699999999999977666555544433 2677778888999999998654
Q ss_pred CHHHHHHHHHHHHHc
Q 043468 142 SLELAVHLFEKANKM 156 (720)
Q Consensus 142 ~~~~~~~~l~~a~~~ 156 (720)
+.-|+...+.-..+.
T Consensus 97 S~~D~AK~i~~~~~~ 111 (377)
T COG1454 97 SVIDAAKAIALLAEN 111 (377)
T ss_pred cHHHHHHHHHHHhhC
Confidence 556666666555553
No 253
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=78.64 E-value=11 Score=39.91 Aligned_cols=86 Identities=12% Similarity=0.137 Sum_probs=57.4
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEcC-
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHLS- 142 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~~- 142 (720)
+.+.+.++.+|.+++.|+.+..-. ..+..+.+++.|++.|+++.....+.+..+ ++....++..++.++|+||-.+.
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~-~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGGG 116 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLH-QAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGGG 116 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchh-hCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCCh
Confidence 556777888898887777554332 245578999999999988654433333222 26778888888899999887553
Q ss_pred -HHHHHHHHH
Q 043468 143 -LELAVHLFE 151 (720)
Q Consensus 143 -~~~~~~~l~ 151 (720)
.-|+.+.+.
T Consensus 117 S~iD~AKaia 126 (395)
T PRK15454 117 SVLDAAKAVA 126 (395)
T ss_pred HHHHHHHHHH
Confidence 344444443
No 254
>cd08181 PPD-like 1,3-propanediol dehydrogenase-like (PPD). 1,3-propanediol dehydrogenase-like (PPD). This family is a member of the iron-containing alcohol dehydrogenase superfamily, and exhibits a dehydroquinate synthase-like fold. Protein sequence similarity search and other biochemical evidences suggest that they are close to the iron-containing 1,3-propanediol dehydrogenase (EC 1.1.1.202). 1,3-propanediol dehydrogenase catalyzes the oxidation of propane-1,3-diol to 3-hydroxypropanal with the simultaneous reduction of NADP+ to NADPH. The protein structure of Thermotoga maritima TM0920 gene contains one NADP+ and one iron ion.
Probab=78.62 E-value=9.8 Score=39.65 Aligned_cols=86 Identities=16% Similarity=0.105 Sum_probs=56.8
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.+| +++.|+++....-..+..+.+++.+++.|+++.....+.+..+ ++....++.+++.++|+||-.+
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 93 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLETIMEAVEIAKKFNADFVIGIGGG 93 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34556677777 8888887655433244468899999999987654433333222 2677788888889999988654
Q ss_pred CHHHHHHHHH
Q 043468 142 SLELAVHLFE 151 (720)
Q Consensus 142 ~~~~~~~~l~ 151 (720)
+.-|+.+.+.
T Consensus 94 SviD~aK~ia 103 (357)
T cd08181 94 SPLDAAKAIA 103 (357)
T ss_pred hHHHHHHHHH
Confidence 3445555443
No 255
>PRK10200 putative racemase; Provisional
Probab=78.61 E-value=5.5 Score=38.44 Aligned_cols=40 Identities=10% Similarity=0.067 Sum_probs=26.3
Q ss_pred HHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHc-CcEEE
Q 043468 66 AIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREA-GAEII 109 (720)
Q Consensus 66 ~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~-g~~v~ 109 (720)
+..+.++..+.++|+++.....- . ...+++.+++. |+++.
T Consensus 107 ~~~~~~~~~~~~~VglLaT~~Ti---~-s~~Y~~~l~~~~g~~~~ 147 (230)
T PRK10200 107 ATGRAITGAGMTRVALLGTRYTM---E-QDFYRGRLTEQFSINCL 147 (230)
T ss_pred HHHHHHHHcCCCeEEEeccHHHH---H-HhHHHHHHHHhcCCeEe
Confidence 44444555677899999887663 1 45667776655 87764
No 256
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=78.17 E-value=18 Score=33.82 Aligned_cols=63 Identities=19% Similarity=0.083 Sum_probs=37.6
Q ss_pred chHHHHHhcCcccEEEechhHHHHHHHhcCCCcEeeCCeeecCceeeEecCCCCChHHHHHHHhcccccCc
Q 043468 579 GDYASDLKSRKTGAVFLEVAEAKIFLAKYCKGFTVAGPTYKVGGLGFAFPKGSPLLPSVIEALLKVSESGK 649 (720)
Q Consensus 579 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~~~~~in~~i~~~~~~G~ 649 (720)
...-.++++|++|+-+.-... ..++.-++.. +....|-++++|+.-=++.+...+..|...++
T Consensus 140 ~avA~aVa~G~AD~GvGlr~~----A~~~gL~Fip----l~~E~YD~virke~~~~~~vr~fi~~L~s~~~ 202 (223)
T COG1910 140 DAVASAVASGRADAGVGLRHA----AEKYGLDFIP----LGDEEYDFVIRKERLDKPVVRAFIKALKSEGF 202 (223)
T ss_pred HHHHHHHHcCCCCccccHHHH----HHHcCCceEE----cccceEEEEEehhHccCHHHHHHHHHhccccc
Confidence 445567888999998884433 3333222322 34567789999986555555555555554444
No 257
>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=78.11 E-value=19 Score=37.74 Aligned_cols=90 Identities=16% Similarity=0.205 Sum_probs=60.9
Q ss_pred HHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc-
Q 043468 64 MKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL- 141 (720)
Q Consensus 64 ~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~- 141 (720)
.+.+.+.++.+|.+++.|+++.... ..+..+.+++.+++.|+++.....+....+ ++....++.+++.++|+||..+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~-~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGG 92 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLV-KLGLLDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGG 92 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchh-hcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 3456777888888899888765433 234478899999999987654433433322 2677888888889999988544
Q ss_pred -CHHHHHHHHHHHH
Q 043468 142 -SLELAVHLFEKAN 154 (720)
Q Consensus 142 -~~~~~~~~l~~a~ 154 (720)
+.-|+..++....
T Consensus 93 GS~~D~aK~ia~~~ 106 (374)
T cd08189 93 GSVIDCAKAIAARA 106 (374)
T ss_pred ccHHHHHHHHHHHH
Confidence 4566666554443
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=77.91 E-value=10 Score=40.33 Aligned_cols=87 Identities=14% Similarity=0.089 Sum_probs=59.0
Q ss_pred HHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc-
Q 043468 64 MKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL- 141 (720)
Q Consensus 64 ~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~- 141 (720)
.+.+.+.++.++.+++.|+++.... ..+..+.+.+.+++.|+++.....+....+ ++....++..++.++|+||-.+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~-~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLA-QLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVGG 89 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchh-hcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 3556677888898999998876543 244478999999999987654433332222 2677778888888999988655
Q ss_pred -CHHHHHHHHH
Q 043468 142 -SLELAVHLFE 151 (720)
Q Consensus 142 -~~~~~~~~l~ 151 (720)
+.-|+...+.
T Consensus 90 GSviD~AKaia 100 (414)
T cd08190 90 GSVIDTAKAAN 100 (414)
T ss_pred ccHHHHHHHHH
Confidence 3445554443
No 259
>cd08551 Fe-ADH iron-containing alcohol dehydrogenases (Fe-ADH)-like. Large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. They contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alcohol dehydrogenases which contains different protein domains. There are several distinct families of alcohol dehydrogenases: Zinc-containing long-chain alcohol dehydrogenases; insect-type, or short-chain alcohol dehydrogenases; iron-containing alcohol dehydrogenases, and others. The iron-containing family has a Rossmann fold-like topology that resembles the fold of the zinc-dependent alcohol dehydrogenases, but lacks sequence homology, and differs in strand arrangement. ADH catalyzes the reversible oxidation of alcohol to acetaldehyde with the simultaneous reduction of NAD(P)+ to NAD(P)H.
Probab=77.78 E-value=12 Score=39.21 Aligned_cols=88 Identities=15% Similarity=0.214 Sum_probs=60.4
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
+.+.+.++.++.+++.++++..... ....+.+.+.+++.|+++.....+....+ ++....++.+++.++|+||..+
T Consensus 12 ~~l~~~l~~~~~~~~lvv~~~~~~~-~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGGG 90 (370)
T cd08551 12 EKLGEEIKNLGGRKALIVTDPGLVK-TGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGGG 90 (370)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhh-CccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 5667777888889999998765532 34478999999999987654333332222 2677888888888999988544
Q ss_pred CHHHHHHHHHHH
Q 043468 142 SLELAVHLFEKA 153 (720)
Q Consensus 142 ~~~~~~~~l~~a 153 (720)
+.-|+..++...
T Consensus 91 s~~D~AK~va~~ 102 (370)
T cd08551 91 SVLDTAKAIALL 102 (370)
T ss_pred hHHHHHHHHHHH
Confidence 445666555443
No 260
>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=77.19 E-value=10 Score=34.88 Aligned_cols=107 Identities=13% Similarity=0.098 Sum_probs=63.6
Q ss_pred EEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEec
Q 043468 35 VLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLAL 114 (720)
Q Consensus 35 ~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~ 114 (720)
+||-+++...+.+.-.--+..+.++.....+++.+.- . ..++++++...+.. .+ ...+.+.+ |.++.....
T Consensus 38 iIsRG~ta~~lr~~~~iPVV~I~~s~~Dil~al~~a~-~-~~~~Iavv~~~~~~--~~-~~~~~~ll---~~~i~~~~~- 108 (176)
T PF06506_consen 38 IISRGGTAELLRKHVSIPVVEIPISGFDILRALAKAK-K-YGPKIAVVGYPNII--PG-LESIEELL---GVDIKIYPY- 108 (176)
T ss_dssp EEEEHHHHHHHHCC-SS-EEEE---HHHHHHHHHHCC-C-CTSEEEEEEESS-S--CC-HHHHHHHH---T-EEEEEEE-
T ss_pred EEECCHHHHHHHHhCCCCEEEECCCHhHHHHHHHHHH-h-cCCcEEEEeccccc--HH-HHHHHHHh---CCceEEEEE-
Confidence 5666666555554323456677778777766666633 3 33799999887664 33 66776666 555444332
Q ss_pred CCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 115 PHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 115 ~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
. +..++...++++++.++|+|+..... .+.|.+.|+
T Consensus 109 ~--~~~e~~~~i~~~~~~G~~viVGg~~~------~~~A~~~gl 144 (176)
T PF06506_consen 109 D--SEEEIEAAIKQAKAEGVDVIVGGGVV------CRLARKLGL 144 (176)
T ss_dssp S--SHHHHHHHHHHHHHTT--EEEESHHH------HHHHHHTTS
T ss_pred C--CHHHHHHHHHHHHHcCCcEEECCHHH------HHHHHHcCC
Confidence 2 22399999999999999997765432 456788888
No 261
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=76.56 E-value=69 Score=33.27 Aligned_cols=134 Identities=10% Similarity=0.055 Sum_probs=83.1
Q ss_pred HHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHH
Q 043468 22 SSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDAL 101 (720)
Q Consensus 22 ~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~ 101 (720)
..+.......++-+|.|+. .-+||- +.....++..++.+....++|.++|.+..+....+++.+-+.+
T Consensus 204 ~~~l~~~~~l~i~~IaP~H----------G~i~~~--~~~~i~~~Y~~W~~~~~~~~V~l~Y~smyg~T~~ma~aiaegl 271 (388)
T COG0426 204 LWALKKIKLLKIEMIAPSH----------GPIWRG--NPKEIVEAYRDWAEGQPKGKVDLIYDSMYGNTEKMAQAIAEGL 271 (388)
T ss_pred HHHHhhhcccCccEEEcCC----------CceeeC--CHHHHHHHHHHHHccCCcceEEEEEecccCCHHHHHHHHHHHh
Confidence 3334444445566665543 345554 3445667777777665555899999977655556788999999
Q ss_pred HHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC------HHHHHHHHHHHHHcCCCCCCeEEEEeCcccc
Q 043468 102 REAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS------LELAVHLFEKANKMKMMEKDYIWITTDAFTS 173 (720)
Q Consensus 102 ~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~------~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~ 173 (720)
.+.|+.|..... ... +.+.++..+.+ ++.+++.++ ...+..++-.........+....+++-+|..
T Consensus 272 ~~~gv~v~~~~~---~~~-~~~eI~~~i~~--a~~~vvGsPT~~~~~~p~i~~~l~~v~~~~~~~k~~~vfgS~GW~g 343 (388)
T COG0426 272 MKEGVDVEVINL---EDA-DPSEIVEEILD--AKGLVVGSPTINGGAHPPIQTALGYVLALAPKNKLAGVFGSYGWSG 343 (388)
T ss_pred hhcCCceEEEEc---ccC-CHHHHHHHHhh--cceEEEecCcccCCCCchHHHHHHHHHhccCcCceEEEEeccCCCC
Confidence 999988765433 222 77777777764 555565543 2445555655555555554555666666655
No 262
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=76.37 E-value=26 Score=34.80 Aligned_cols=94 Identities=9% Similarity=-0.030 Sum_probs=50.4
Q ss_pred CCChHHhhhc--CCeEEEecCcchHHHHHhcCcccEEEechhHHHHHHHhcC--CCcEeeCCeeecCce--eeEecCCCC
Q 043468 559 VNNIETLQSS--NAIIGYSRCLGDYASDLKSRKTGAVFLEVAEAKIFLAKYC--KGFTVAGPTYKVGGL--GFAFPKGSP 632 (720)
Q Consensus 559 i~s~~dl~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~--~~~~~k~s~ 632 (720)
-.|..|..+. ++++. .-...+....+.+|++|+++....++.. .... ..-...... ..+| .++++.+..
T Consensus 165 ~~t~~di~~np~~l~~v-e~~~~q~~~al~dg~vD~a~i~~~~~~~--ag~~~~~~~l~~e~~--~~~~~n~~~~r~~~~ 239 (272)
T PRK09861 165 LPTALDITDNPRHLQIM-ELEGAQLPRVLDDPKVDVAIISTTYIQQ--TGLSPVHDSVFIEDK--NSPYVNILVAREDNK 239 (272)
T ss_pred CCCHhHHhcCCCCCEEE-EcCHHHhHhhccCcccCEEEEchhHHHH--cCCCcccceeEEcCC--CCCeEEEEEEcCCcc
Confidence 3456666653 34442 2235667788889999999987766542 1111 111111111 1223 455665543
Q ss_pred ChHHHHHHHhcccccCcHHHHHHHh
Q 043468 633 LLPSVIEALLKVSESGKLRELETSM 657 (720)
Q Consensus 633 ~~~~in~~i~~~~~~G~~~~~~~~~ 657 (720)
=.+.+...+..++....-+.+.++|
T Consensus 240 ~~~~~~~lv~~~~s~~v~~~i~~~~ 264 (272)
T PRK09861 240 NAENVKEFLQSYQSPEVAKAAETIF 264 (272)
T ss_pred CCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 5556666666666665555565554
No 263
>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=76.06 E-value=12 Score=39.43 Aligned_cols=88 Identities=15% Similarity=0.139 Sum_probs=58.4
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.+| +++.|+++....-..+..+.+.+.+++.|+++.....+.+..+ ++....+..+++.++|+||-.+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavGGG 93 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLGGG 93 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 44566677777 8998888755422245578999999999987754433333222 2677777888888999988544
Q ss_pred CHHHHHHHHHHH
Q 043468 142 SLELAVHLFEKA 153 (720)
Q Consensus 142 ~~~~~~~~l~~a 153 (720)
+.-|+...+...
T Consensus 94 S~iD~aK~ia~~ 105 (380)
T cd08185 94 SSMDTAKAIAFM 105 (380)
T ss_pred cHHHHHHHHHHH
Confidence 455665555443
No 264
>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=75.88 E-value=8.2 Score=40.43 Aligned_cols=88 Identities=17% Similarity=0.180 Sum_probs=63.5
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEcC-
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHLS- 142 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~~- 142 (720)
+.+.+.++.+| |+.+|++. .....+..+.+.+.+++.|+++.....+....+ ++....++.+++.++|.||..+.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~-~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 88 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDP-SLSKSGLVDRVLDALEEAGIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAIGGG 88 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEH-HHHHHTHHHHHHHHHHHTTCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEEESH
T ss_pred HHHHHHHHhcC--CEEEEECc-hHHhCccHHHHHHHHhhCceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEcCCC
Confidence 45666777776 99999887 433344589999999999999877765655443 28888999999999999887554
Q ss_pred -HHHHHHHHHHHHH
Q 043468 143 -LELAVHLFEKANK 155 (720)
Q Consensus 143 -~~~~~~~l~~a~~ 155 (720)
.-|+...+..+..
T Consensus 89 S~~D~aK~va~~~~ 102 (366)
T PF00465_consen 89 SVMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHHT
T ss_pred CcCcHHHHHHhhcc
Confidence 4555566655554
No 265
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=75.62 E-value=15 Score=38.72 Aligned_cols=87 Identities=14% Similarity=0.182 Sum_probs=58.1
Q ss_pred HHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc-
Q 043468 64 MKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL- 141 (720)
Q Consensus 64 ~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~- 141 (720)
...+.+.++.+|.+++.|+.+..-. ..++.+.+.+.+++.|+++.....+....+ ++....++.+++.++|+||-.+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~-~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 96 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLV-KCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGG 96 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchh-hCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 3556777888898999888775432 244588999999999987644333332221 2667777888888999987544
Q ss_pred -CHHHHHHHHH
Q 043468 142 -SLELAVHLFE 151 (720)
Q Consensus 142 -~~~~~~~~l~ 151 (720)
+.-|+...+.
T Consensus 97 GS~iD~aK~ia 107 (382)
T PRK10624 97 GSPQDTCKAIG 107 (382)
T ss_pred hHHHHHHHHHH
Confidence 3445554443
No 266
>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=75.33 E-value=15 Score=38.72 Aligned_cols=88 Identities=14% Similarity=0.112 Sum_probs=59.3
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
+.+.+.++.++.+++.|+++..- ...+..+.+++.+++.|+++.....+....+ ++....++.+++.++|.||-.+
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~-~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 93 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGI-LKAGLIDPLLASLEAAGIEVTVFDDVEADPPEAVVEAAVEAARAAGADGVIGFGGG 93 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcch-hhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 45667778888899988876542 2244478999999999987654333333222 2677888888888999987654
Q ss_pred CHHHHHHHHHHH
Q 043468 142 SLELAVHLFEKA 153 (720)
Q Consensus 142 ~~~~~~~~l~~a 153 (720)
+.-|+..++...
T Consensus 94 s~iD~aK~ia~~ 105 (376)
T cd08193 94 SSMDVAKLVAVL 105 (376)
T ss_pred hHHHHHHHHHHH
Confidence 445555555443
No 267
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=75.33 E-value=23 Score=35.51 Aligned_cols=93 Identities=13% Similarity=0.097 Sum_probs=67.1
Q ss_pred CCCCeEEEeecChHHHHHHH----HHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccH
Q 043468 48 ERWPFLLQASQNQLAQMKAI----AAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRL 122 (720)
Q Consensus 48 ~~~~~~fr~~p~~~~~~~~~----~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~ 122 (720)
..-+|.|-+.|+........ ...++..|.|++.++.+-+-. .....+..++.|+++|+.+..........+ .++
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~-~~~~~~~a~~~L~~~~I~~~vyD~v~~ePtv~s~ 116 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIA-KLGLVKVAQDSLEENGINVEVYDKVQPEPTVGSV 116 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChh-hcccHHHHHHHHHHcCCceEEecCccCCCchhhH
Confidence 34578888999887765544 334688999999888765542 234478999999999998766655443332 288
Q ss_pred HHHHHHhhcCCCeEEEEEc
Q 043468 123 SEELEKLKGGQCRVFVVHL 141 (720)
Q Consensus 123 ~~~l~~i~~~~~~vvil~~ 141 (720)
...++-+|..+.|.++..+
T Consensus 117 ~~alefak~~~fDs~vaiG 135 (465)
T KOG3857|consen 117 TAALEFAKKKNFDSFVAIG 135 (465)
T ss_pred HHHHHHHHhcccceEEEEc
Confidence 8888888988999876544
No 268
>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=74.71 E-value=40 Score=33.19 Aligned_cols=45 Identities=16% Similarity=0.111 Sum_probs=35.1
Q ss_pred HHHHHHHHhCCCccceEEecCC--CCHHHHHHHHHhCCccEEeeeee
Q 043468 382 ELFKALVEKLPFYLPYNFIPFN--GSYDDLVKQLYLNNFAGVVGDVA 426 (720)
Q Consensus 382 dl~~~la~~l~~~~~~~~~~~~--~~~~~~~~~l~~g~~Di~~~~~~ 426 (720)
.+.+.+.++.+=++++...+.. +.-..+++.+++|.+|++.....
T Consensus 17 ~f~~~v~e~t~G~v~v~~~~~g~Lg~~~e~~~~v~~G~~d~~~~~~~ 63 (257)
T TIGR00787 17 KFAKLVNEKTNGEIKISVFPSSQLGSDRAMLEALQGGALDMTAPSSS 63 (257)
T ss_pred HHHHHHHHHcCCeEEEEEcCCCCCCChHHHHHHHhCCCccEEecccc
Confidence 5778888988877777776642 45689999999999999975443
No 269
>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=74.62 E-value=13 Score=39.24 Aligned_cols=89 Identities=13% Similarity=0.091 Sum_probs=58.5
Q ss_pred HHHHHHHHhC---CCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEE
Q 043468 65 KAIAAIVQSW---EWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVH 140 (720)
Q Consensus 65 ~~~~~~l~~~---~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~ 140 (720)
+.+.+.++.+ |.+++.|+++.......+..+.+.+.+++.|+++.....+.+..+ ++....++.+++.++|+||..
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 91 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAI 91 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEe
Confidence 4455666665 778999887655432244478999999999987654433332222 267788888888899998854
Q ss_pred c--CHHHHHHHHHHH
Q 043468 141 L--SLELAVHLFEKA 153 (720)
Q Consensus 141 ~--~~~~~~~~l~~a 153 (720)
+ +.-|+..++...
T Consensus 92 GGGS~iD~aK~ia~~ 106 (383)
T cd08186 92 GGGSPIDSAKSAAIL 106 (383)
T ss_pred CCccHHHHHHHHHHH
Confidence 4 455666665443
No 270
>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=74.50 E-value=13 Score=39.22 Aligned_cols=96 Identities=15% Similarity=0.230 Sum_probs=59.6
Q ss_pred CeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHh
Q 043468 51 PFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKL 129 (720)
Q Consensus 51 ~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i 129 (720)
|.-....+... +.+.+.++.++ +|+.|+.+....-..+..+.+++.+++.|+++.....+..... ++....+..+
T Consensus 7 p~~i~~G~g~~---~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~ 82 (382)
T cd08187 7 PTKIIFGKGTE---SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPNPRLETVREGIELC 82 (382)
T ss_pred CCEEEECCCHH---HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCCCCHHHHHHHHHHH
Confidence 33344444433 34566677764 8888886643322234478899999999987654433333322 2677788888
Q ss_pred hcCCCeEEEEEc--CHHHHHHHH
Q 043468 130 KGGQCRVFVVHL--SLELAVHLF 150 (720)
Q Consensus 130 ~~~~~~vvil~~--~~~~~~~~l 150 (720)
++.++|+||..+ +.-|+.+++
T Consensus 83 ~~~~~D~IIaiGGGS~iD~aK~i 105 (382)
T cd08187 83 KEEKVDFILAVGGGSVIDSAKAI 105 (382)
T ss_pred HHcCCCEEEEeCChHHHHHHHHH
Confidence 889999988654 334444444
No 271
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=74.47 E-value=58 Score=28.38 Aligned_cols=87 Identities=20% Similarity=0.142 Sum_probs=59.2
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc----CHHHHHHHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL----SLELAVHLFEK 152 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~----~~~~~~~~l~~ 152 (720)
.+|.+....++....+ ..-+...++..|++|++--. .. ..+..++.+.+.++|+|.+.+ ....+..++.+
T Consensus 4 ~~vl~~~~~gD~H~lG-~~iv~~~lr~~G~eVi~LG~----~v-p~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~~ 77 (137)
T PRK02261 4 KTVVLGVIGADCHAVG-NKILDRALTEAGFEVINLGV----MT-SQEEFIDAAIETDADAILVSSLYGHGEIDCRGLREK 77 (137)
T ss_pred CEEEEEeCCCChhHHH-HHHHHHHHHHCCCEEEECCC----CC-CHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHHH
Confidence 3454444444444455 78888899999999877422 22 667788888888999998865 45677888888
Q ss_pred HHHcCCCCCCeEEEEeCc
Q 043468 153 ANKMKMMEKDYIWITTDA 170 (720)
Q Consensus 153 a~~~g~~~~~~~~i~~~~ 170 (720)
+++.+... -.+|+++..
T Consensus 78 L~~~~~~~-~~i~vGG~~ 94 (137)
T PRK02261 78 CIEAGLGD-ILLYVGGNL 94 (137)
T ss_pred HHhcCCCC-CeEEEECCC
Confidence 88887753 234454433
No 272
>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=74.45 E-value=53 Score=28.45 Aligned_cols=72 Identities=14% Similarity=0.096 Sum_probs=53.2
Q ss_pred cCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc----CHHHHHHHHHHHHHcCCCCCCeEEE
Q 043468 91 TGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL----SLELAVHLFEKANKMKMMEKDYIWI 166 (720)
Q Consensus 91 ~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~----~~~~~~~~l~~a~~~g~~~~~~~~i 166 (720)
.+ .+-+...++++|++|+.--. .. ..+..++.+++.++|+|-+.+ .......+.+.+++.|+.. ..|+
T Consensus 16 iG-k~iv~~~l~~~GfeVi~LG~----~v-~~e~~v~aa~~~~adiVglS~l~~~~~~~~~~~~~~l~~~gl~~--~~vi 87 (134)
T TIGR01501 16 VG-NKILDHAFTNAGFNVVNLGV----LS-PQEEFIKAAIETKADAILVSSLYGHGEIDCKGLRQKCDEAGLEG--ILLY 87 (134)
T ss_pred Hh-HHHHHHHHHHCCCEEEECCC----CC-CHHHHHHHHHHcCCCEEEEecccccCHHHHHHHHHHHHHCCCCC--CEEE
Confidence 45 78889999999999877422 22 677899999999999998754 3455777888889999854 3565
Q ss_pred EeCc
Q 043468 167 TTDA 170 (720)
Q Consensus 167 ~~~~ 170 (720)
..+.
T Consensus 88 vGG~ 91 (134)
T TIGR01501 88 VGGN 91 (134)
T ss_pred ecCC
Confidence 5543
No 273
>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=73.70 E-value=53 Score=31.21 Aligned_cols=74 Identities=16% Similarity=0.170 Sum_probs=52.8
Q ss_pred CeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCC-CCcccHHHHHHHhhcCCCeEEEEEc--CHHHHHHHHHH
Q 043468 76 WHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPH-FPSSRLSEELEKLKGGQCRVFVVHL--SLELAVHLFEK 152 (720)
Q Consensus 76 ~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~-~~~~d~~~~l~~i~~~~~~vvil~~--~~~~~~~~l~~ 152 (720)
..+++||....+. .....+.+...+..+.....=|. ++.+++....+++++.++|+|+++| +....+.++++
T Consensus 125 ~~~vGVivP~~eQ-----~~~~~~kW~~l~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~ 199 (221)
T PF07302_consen 125 GHQVGVIVPLPEQ-----IAQQAEKWQPLGNPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQR 199 (221)
T ss_pred CCeEEEEecCHHH-----HHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHH
Confidence 3799999887654 45566667777665555544333 2223888899999999999999998 66777777765
Q ss_pred HH
Q 043468 153 AN 154 (720)
Q Consensus 153 a~ 154 (720)
+.
T Consensus 200 ~~ 201 (221)
T PF07302_consen 200 AL 201 (221)
T ss_pred Hh
Confidence 53
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=73.19 E-value=18 Score=38.11 Aligned_cols=88 Identities=14% Similarity=0.106 Sum_probs=58.1
Q ss_pred HHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCC-cccHHHHHHHhhcCCCeEEEEEc-
Q 043468 64 MKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFP-SSRLSEELEKLKGGQCRVFVVHL- 141 (720)
Q Consensus 64 ~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~-~~d~~~~l~~i~~~~~~vvil~~- 141 (720)
...+.+.++.+|.+++.|+++... ...++.+.+++.+++.|+++.......... .++....++.+++.++|+|+..+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~-~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGG 95 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDL-IKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGG 95 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcch-hhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 345667788888899998876543 223457899999999998765432232222 12667788888888999988654
Q ss_pred -CHHHHHHHHHH
Q 043468 142 -SLELAVHLFEK 152 (720)
Q Consensus 142 -~~~~~~~~l~~ 152 (720)
+.-|+.+.+..
T Consensus 96 GSviD~aKaia~ 107 (379)
T TIGR02638 96 GSPIDTAKAIGI 107 (379)
T ss_pred hHHHHHHHHHHH
Confidence 34455544433
No 275
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=73.17 E-value=42 Score=35.56 Aligned_cols=104 Identities=10% Similarity=0.165 Sum_probs=65.2
Q ss_pred HHHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHH--HcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEE
Q 043468 62 AQMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALR--EAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVV 139 (720)
Q Consensus 62 ~~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~--~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil 139 (720)
...+.-.++.+...-+++.|+|.+..+..+.+++.+.+.++ +.|++|... .+ ... +....+..+. ++|.|++
T Consensus 233 ~~~~~Y~~~~~~~~~~kv~IvY~S~~GnTe~mA~~ia~g~~~~~~g~~v~~~-~~--~~~-~~~~i~~~~~--~~d~ii~ 306 (394)
T PRK11921 233 QIVEKYLEWAANYQENQVTILYDTMWNSTRRMAEAIAEGIKKANKDVTVKLY-NS--AKS-DKNDIITEVF--KSKAILV 306 (394)
T ss_pred HHHHHHHHHhhcCCcCcEEEEEECCchHHHHHHHHHHHHHhhcCCCCeEEEE-EC--CCC-CHHHHHHHHH--hCCEEEE
Confidence 33444445555555688999999888777777888888887 567765432 22 222 5555565554 4788887
Q ss_pred EcCH------HHHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 043468 140 HLSL------ELAVHLFEKANKMKMMEKDYIWITTDAF 171 (720)
Q Consensus 140 ~~~~------~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 171 (720)
.++. .....++......++.++....+++-+|
T Consensus 307 GspT~~~~~~~~~~~~l~~l~~~~~~~K~~a~FGsygw 344 (394)
T PRK11921 307 GSSTINRGILSSTAAILEEIKGLGFKNKKAAAFGSYGW 344 (394)
T ss_pred ECCCcCccccHHHHHHHHHhhccCcCCCEEEEEecCCC
Confidence 6632 3356667777777776655555555433
No 276
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=72.99 E-value=56 Score=27.50 Aligned_cols=79 Identities=18% Similarity=0.166 Sum_probs=51.3
Q ss_pred cCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC----HHHHHHHHHHHHHcCCCC
Q 043468 85 DIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS----LELAVHLFEKANKMKMME 160 (720)
Q Consensus 85 ~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~----~~~~~~~l~~a~~~g~~~ 160 (720)
.++...-+ ..-+...+++.|++|..-. . .. ..+..++.+.+.++|+|.+.+. ...+..++++.++.+. .
T Consensus 8 ~~e~H~lG-~~~~~~~l~~~G~~V~~lg---~-~~-~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~-~ 80 (119)
T cd02067 8 GGDGHDIG-KNIVARALRDAGFEVIDLG---V-DV-PPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAGL-D 80 (119)
T ss_pred CCchhhHH-HHHHHHHHHHCCCEEEECC---C-CC-CHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcCC-C
Confidence 33333345 7888889999999984432 1 22 5667788888889999988763 4566677777777754 1
Q ss_pred CCeEEEEeCc
Q 043468 161 KDYIWITTDA 170 (720)
Q Consensus 161 ~~~~~i~~~~ 170 (720)
.-.+++++..
T Consensus 81 ~~~i~vGG~~ 90 (119)
T cd02067 81 DIPVLVGGAI 90 (119)
T ss_pred CCeEEEECCC
Confidence 2234554444
No 277
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=72.64 E-value=86 Score=31.65 Aligned_cols=72 Identities=11% Similarity=0.094 Sum_probs=45.8
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.+.. +.++++. . ++...+++.|.+|++|+++..-....+..+.+ .+.++....+++++++..
T Consensus 108 ~~~~~~l~~~~~~~P~v~i~~~--~--~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~~~ 180 (305)
T CHL00180 108 YLMPRLIGLFRQRYPQINVQLQ--V--HSTRRIAWNVANGQIDIAIVGGEVPTELKKIL-EITPYVEDELALIIPKSH 180 (305)
T ss_pred hHHHHHHHHHHHHCCCceEEEE--e--CCHHHHHHHHHcCCccEEEEcCccCcccccce-eEEEeccCcEEEEECCCC
Confidence 45567777777764 3343333 2 23688999999999999985322221111222 357888889999988764
No 278
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=72.09 E-value=12 Score=35.20 Aligned_cols=44 Identities=16% Similarity=0.175 Sum_probs=31.2
Q ss_pred HHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEE
Q 043468 64 MKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHV 111 (720)
Q Consensus 64 ~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~ 111 (720)
.++-+.-+++.|.+|++++.....- . ..-.++.++++|++++..
T Consensus 105 idaTa~~ik~~g~kkvgLLgT~~Tm---~-~~fY~~~l~~~gievvvP 148 (230)
T COG1794 105 IDATAKAIKAAGAKKVGLLGTRFTM---E-QGFYRKRLEEKGIEVVVP 148 (230)
T ss_pred HHHHHHHHHhcCCceeEEeeccchH---H-hHHHHHHHHHCCceEecC
Confidence 3344444566799999999876652 1 456788899999887664
No 279
>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=72.05 E-value=7.6 Score=38.12 Aligned_cols=79 Identities=18% Similarity=0.173 Sum_probs=54.5
Q ss_pred EEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEE-cCHHHHHHHHHHHHHc
Q 043468 79 VTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVH-LSLELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~-~~~~~~~~~l~~a~~~ 156 (720)
|+++..+.+ .+-..+.+.+++.+++.|+++... .....+.....+.++++.+.++|.|++. .+.+....+++.+.+.
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~-~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~~~~ 79 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV-FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKAKAA 79 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE-EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHHHHT
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe-CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHHhhc
Confidence 455554433 222334789999999999987775 2222222256667777777899988876 4667788999999999
Q ss_pred CC
Q 043468 157 KM 158 (720)
Q Consensus 157 g~ 158 (720)
|+
T Consensus 80 gI 81 (257)
T PF13407_consen 80 GI 81 (257)
T ss_dssp TS
T ss_pred Cc
Confidence 87
No 280
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=71.85 E-value=67 Score=32.18 Aligned_cols=70 Identities=10% Similarity=0.032 Sum_probs=47.3
Q ss_pred EEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++.. .+++.... ++...++..|.+|++|+++.... ...+.+ .+.++....+++++++..
T Consensus 104 ~~l~~~l~~~~~~~p-~~~i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~l-~~~~l~~~~~~~~~~~~~ 173 (296)
T PRK11242 104 YLIGPLIDAFHARYP-GITLTIRE--MSQERIEALLADDELDVGIAFAP---VHSPEI-EAQPLFTETLALVVGRHH 173 (296)
T ss_pred hhhHHHHHHHHHHCC-CCEEEEEe--CCHHHHHHHHHCCCCcEEEEecC---CCCcce-eEEEeeeccEEEEEcCCC
Confidence 556778888888752 33344433 23578899999999999985332 222333 347888888998888764
No 281
>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=71.80 E-value=23 Score=34.88 Aligned_cols=86 Identities=14% Similarity=0.098 Sum_probs=51.9
Q ss_pred EEEEEEEcC---CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHH
Q 043468 78 QVTVIYEDI---DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKAN 154 (720)
Q Consensus 78 ~v~ii~~~~---~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~ 154 (720)
||+++++.. ....+...+.+++..++.|+++...+..+ ... ++.+.++++.++++|+|+. ........+.+.|.
T Consensus 1 kva~l~~g~~~D~~~n~~~~~G~~~~~~~~gv~~~~~e~~~-~~~-~~~~~i~~~~~~g~dlIi~-~g~~~~~~~~~vA~ 77 (258)
T cd06353 1 KVAFVYVGPIGDQGWNYAHDEGRKAAEKALGVEVTYVENVP-EGA-DAERVLRELAAQGYDLIFG-TSFGFMDAALKVAK 77 (258)
T ss_pred CEEEEEeCCCCccchhHHHHHHHHHHHHhcCCeEEEEecCC-chH-hHHHHHHHHHHcCCCEEEE-CchhhhHHHHHHHH
Confidence 477887621 12222225666666677888877776553 233 8999999998889999887 33333334445455
Q ss_pred HcCCCCCCeEEEEeCc
Q 043468 155 KMKMMEKDYIWITTDA 170 (720)
Q Consensus 155 ~~g~~~~~~~~i~~~~ 170 (720)
+.. +..|+..+.
T Consensus 78 ~~p----~~~F~~~d~ 89 (258)
T cd06353 78 EYP----DVKFEHCSG 89 (258)
T ss_pred HCC----CCEEEECCC
Confidence 542 444555433
No 282
>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=71.77 E-value=38 Score=33.33 Aligned_cols=144 Identities=10% Similarity=0.046 Sum_probs=73.7
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccC-CCcEEecccCCcccccCCCCeEEEeecChHH---HHHHHHHHHHhCCCe
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKK-QIPVLSFADATPNWATERWPFLLQASQNQLA---QMKAIAAIVQSWEWH 77 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~-~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~---~~~~~~~~l~~~~~~ 77 (720)
+|+ ++++.+||+ .+.....++.+++.++ ++.++...+.. . .|++....+...+ .+-.++..+. +-.
T Consensus 52 ~~~-~~g~dlIi~-~g~~~~~~~~~vA~~~p~~~F~~~d~~~---~---~~Nv~~~~~~~~e~~ylaG~~Aa~~t--~t~ 121 (258)
T cd06353 52 ELA-AQGYDLIFG-TSFGFMDAALKVAKEYPDVKFEHCSGYK---T---APNVGSYFARIYEGRYLAGVVAGKMT--KTN 121 (258)
T ss_pred HHH-HcCCCEEEE-CchhhhHHHHHHHHHCCCCEEEECCCCC---C---CCCeeeEechhhHHHHHHHHHHHHhh--cCC
Confidence 345 467888988 4445555666666655 33333322211 1 1344333333322 2222333333 335
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCC--CCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPH--FPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~--~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
+|++|..-+..........|.+.++..+-++.....+.. .+.+.-....+.+-+.++|+|+-.+ .....+.++++
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~~~aa~~ 198 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVNPDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHT---DSPGVIQAAEE 198 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHCCCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecC---CChHHHHHHHH
Confidence 899997654432222256677666654333322222322 1221234455566678999888777 23467888888
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.|.
T Consensus 199 ~g~ 201 (258)
T cd06353 199 KGV 201 (258)
T ss_pred hCC
Confidence 764
No 283
>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein DctP [, ] and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins []. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component [].; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2HZK_C 2HZL_B 2HPG_C 2XWI_A 2XWK_A 2WX9_A 2CEY_A 2WYP_A 3B50_A 2CEX_B ....
Probab=71.73 E-value=48 Score=33.21 Aligned_cols=49 Identities=10% Similarity=0.076 Sum_probs=38.8
Q ss_pred HHHHHHHHHhCCCccceEEecCC--CCHHHHHHHHHhCCccEEeeeeeeec
Q 043468 381 IELFKALVEKLPFYLPYNFIPFN--GSYDDLVKQLYLNNFAGVVGDVAIVA 429 (720)
Q Consensus 381 ~dl~~~la~~l~~~~~~~~~~~~--~~~~~~~~~l~~g~~Di~~~~~~~t~ 429 (720)
-.+.+.+.++.|=++++...+.+ |+-..+++.+++|.+||+........
T Consensus 16 ~~fa~~v~e~t~G~v~i~v~~~g~lg~~~e~~~~v~~G~vdm~~~~~~~~~ 66 (286)
T PF03480_consen 16 EKFAEEVEERTGGRVKIEVFPAGQLGKEAEVLEAVQDGAVDMAVVSPSYLA 66 (286)
T ss_dssp HHHHHHHHHHTTTSEEEEEEETTSSSSHHHHHHHHHTTSSSEEEEEGGGGT
T ss_pred HHHHHHHHHHcCCeEEEEEecCcccCCHHHHHHHHhCCCccEEeecchhhh
Confidence 67888999999988888777642 46789999999999999975554333
No 284
>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=71.61 E-value=77 Score=30.90 Aligned_cols=154 Identities=12% Similarity=0.053 Sum_probs=85.1
Q ss_pred ccccCCeEEEEC-CCCChhhHHHHHhhcc-CCCcEEecccCC-cccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEE
Q 043468 3 LMDSQKVEAILG-PQTSEETSSVAEIASK-KQIPVLSFADAT-PNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQV 79 (720)
Q Consensus 3 Li~~~~v~aiiG-p~~s~~~~~~~~~~~~-~~ip~is~~~~~-~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v 79 (720)
|.++..+-|||= -..++++.++.++=+. -.|..|+..... +..-...-...+ .+........++...+++|.+++
T Consensus 57 lAdDp~mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aDi~~--~~D~~~~G~~i~~~Ak~mGAktF 134 (275)
T PF12683_consen 57 LADDPDMKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAADIVV--NPDEISRGYTIVWAAKKMGAKTF 134 (275)
T ss_dssp GGG-TTEEEEEEE-SS---HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSSEEE--E--HHHHHHHHHHHHHHTT-S-E
T ss_pred hccCCCccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccCeEe--ccchhhccHHHHHHHHHcCCceE
Confidence 445677777762 2333555555555433 367666655332 222222223444 47888889999999999999998
Q ss_pred EEEEEcCCCcccC---cHHHHHHHHHHcCcEEEEEEecCCCCccc--------HHHHHHHhhcCCCeEEEEEcCHHHHHH
Q 043468 80 TVIYEDIDSSATG---ILPHLSDALREAGAEIIHVLALPHFPSSR--------LSEELEKLKGGQCRVFVVHLSLELAVH 148 (720)
Q Consensus 80 ~ii~~~~~~g~~~---~~~~~~~~~~~~g~~v~~~~~~~~~~~~d--------~~~~l~~i~~~~~~vvil~~~~~~~~~ 148 (720)
+-+...-+-.... -.+.+++.+++.|++.+......+.+..+ .+..-+.++..+.|+-|.++.......
T Consensus 135 Vh~sfprhms~~~l~~Rr~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~ep 214 (275)
T PF12683_consen 135 VHYSFPRHMSYELLARRRDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEP 214 (275)
T ss_dssp EEEEETTGGGSHHHHHHHHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHH
T ss_pred EEEechhhcchHHHHHHHHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHH
Confidence 8886544311122 13567888889999988776654433211 222334455669999999999999999
Q ss_pred HHHHHHHcCC
Q 043468 149 LFEKANKMKM 158 (720)
Q Consensus 149 ~l~~a~~~g~ 158 (720)
+++++.+.|.
T Consensus 215 llk~~~~~g~ 224 (275)
T PF12683_consen 215 LLKQALEYGG 224 (275)
T ss_dssp HHHHHHHH--
T ss_pred HHHHHHHcCC
Confidence 9999999875
No 285
>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=71.33 E-value=74 Score=29.16 Aligned_cols=68 Identities=7% Similarity=0.088 Sum_probs=43.8
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+...++..+.++. +.+ +.... ++. ++++.|.+|++|+++..-... ...+. +.|+.....++++++..
T Consensus 13 ~~l~~~i~~~~~~~P~i~--l~i~~--~~~-~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~h 81 (200)
T cd08462 13 VLLPPVIERVAREAPGVR--FELLP--PDD-QPHELLERGEVDLLIAPERFM---SDGHP-SEPLFEEEFVCVVWADN 81 (200)
T ss_pred HHHHHHHHHHHHHCCCCE--EEEec--CCh-hHHHHHhcCCeeEEEecCCCC---CCCce-eeeeeccceEEEEcCCC
Confidence 34556777777765 344 44433 234 899999999999998532221 12233 34788888888887664
No 286
>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=71.12 E-value=34 Score=32.94 Aligned_cols=118 Identities=17% Similarity=0.130 Sum_probs=70.3
Q ss_pred cCCCcEEeccc-CCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEEEEcCCCcccCcHHHHHHHHHHcCc
Q 043468 30 KKQIPVLSFAD-ATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVIYEDIDSSATGILPHLSDALREAGA 106 (720)
Q Consensus 30 ~~~ip~is~~~-~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~ 106 (720)
..++++++.+. |...+...+++-.+. ++...++.+++.+... ..+++.+. .+.. . ...+.+.+++.|.
T Consensus 76 ~~~~~~~avG~~Ta~~l~~~g~~~~~~---~~~~~~~~L~~~i~~~~~~~~~il~~--~g~~---~-~~~l~~~L~~~g~ 146 (239)
T cd06578 76 LAGLKIAAVGPKTAEALREAGLTADFV---PEEGDSEGLLELLELQDGKGKRILRP--RGGR---A-REDLAEALRERGA 146 (239)
T ss_pred ccCCEEEEECHHHHHHHHHcCCCceeC---CCccCHHHHHHHHHhcCCCCCEEEEE--cCcc---h-hHHHHHHHHHCCC
Confidence 35677776663 333343333333332 2334467788887664 34455444 3322 2 5788899999999
Q ss_pred EEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 107 EIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 107 ~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
.+.....|......+.....+.+.....+ +++..++..+..|++.+.+.+
T Consensus 147 ~v~~~~~Y~~~~~~~~~~~~~~l~~~~~~-~iiftS~~~v~~f~~~~~~~~ 196 (239)
T cd06578 147 EVDEVEVYRTVPPDLDAELLELLEEGAID-AVLFTSPSTVRNLLELLGKEG 196 (239)
T ss_pred EEEEEEEEEEECCCCcHHHHHHHHcCCCc-EEEEeCHHHHHHHHHHHhhhh
Confidence 98888777544321333445555555555 477778888888888877643
No 287
>PRK05569 flavodoxin; Provisional
Probab=70.34 E-value=31 Score=30.16 Aligned_cols=86 Identities=14% Similarity=0.152 Sum_probs=0.0
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCH--------HHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSL--------ELAVH 148 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~--------~~~~~ 148 (720)
+++.|+|.+..+..+.+++.+.+.+++.|.++.....-..... ++. ++|.|++.++. .....
T Consensus 2 ~ki~iiY~S~tGnT~~iA~~i~~~~~~~g~~v~~~~~~~~~~~-~~~---------~~d~iilgsPty~~~~~~~~~~~~ 71 (141)
T PRK05569 2 KKVSIIYWSCGGNVEVLANTIADGAKEAGAEVTIKHVADAKVE-DVL---------EADAVAFGSPSMDNNNIEQEEMAP 71 (141)
T ss_pred CeEEEEEECCCCHHHHHHHHHHHHHHhCCCeEEEEECCcCCHH-HHh---------hCCEEEEECCCcCCCcCChHHHHH
Q ss_pred HHHHHHHcCCCCCCeEEEEeCccc
Q 043468 149 LFEKANKMKMMEKDYIWITTDAFT 172 (720)
Q Consensus 149 ~l~~a~~~g~~~~~~~~i~~~~~~ 172 (720)
++.........++...++++.+|.
T Consensus 72 ~~~~l~~~~~~~K~v~~f~t~g~~ 95 (141)
T PRK05569 72 FLDQFKLTPNENKKCILFGSYGWD 95 (141)
T ss_pred HHHHhhccCcCCCEEEEEeCCCCC
No 288
>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=70.08 E-value=90 Score=28.66 Aligned_cols=72 Identities=13% Similarity=0.009 Sum_probs=47.2
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++. . ++...+++.|.+|++|+++........-...+.+ .++.....+++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~v~i~~~--~--~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~h 85 (202)
T cd08468 13 AVMPRLMARLEELAPSVRLNLV--H--AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIEE-RDWWEDTYVVIASRDH 85 (202)
T ss_pred HHhHHHHHHHHhhCCCCEEEEE--E--CChHhHHHHHHCCCccEEEecccccccCCCCEEE-EEEecCcEEEEEeCCC
Confidence 46678888888876 4444443 3 3458899999999999998543221100123333 5777888888887664
No 289
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=70.04 E-value=13 Score=38.61 Aligned_cols=83 Identities=7% Similarity=0.039 Sum_probs=54.7
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.++ +++.|+++.... .+..+.+.+.+++.|+++.... +....+ ++....++.+++.++|+||-.+
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~--~~~~~~v~~~L~~~~i~~~~~~-~~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 87 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVL--DLVGAKIEESLAAAGIDARFEV-FGGECTRAEIERLAEIARDNGADVVIGIGGG 87 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH--HHHHHHHHHHHHhCCCeEEEEE-eCCcCCHHHHHHHHHHHhhcCCCEEEEecCc
Confidence 34566677665 888888754443 2457899999999999875333 333222 2677788888888999977654
Q ss_pred CHHHHHHHHH
Q 043468 142 SLELAVHLFE 151 (720)
Q Consensus 142 ~~~~~~~~l~ 151 (720)
+.-|+..++.
T Consensus 88 S~iD~aK~ia 97 (351)
T cd08170 88 KTLDTAKAVA 97 (351)
T ss_pred hhhHHHHHHH
Confidence 3344444444
No 290
>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=70.00 E-value=92 Score=28.77 Aligned_cols=70 Identities=16% Similarity=0.161 Sum_probs=47.1
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.. +..... ++...+++.|.+|++|+++...... .+.+.+ .++.....++++++..
T Consensus 13 ~~~~~~l~~~~~~~P~~~--v~~~~~-~~~~~l~~~L~~g~lDl~i~~~~~~---~~~l~~-~~l~~~~~~lv~~~~h 83 (203)
T cd08463 13 LFLPELVARFRREAPGAR--LEIHPL-GPDFDYERALASGELDLVIGNWPEP---PEHLHL-SPLFSDEIVCLMRADH 83 (203)
T ss_pred HHhHHHHHHHHHHCCCCE--EEEEeC-CcchhHHHHHhcCCeeEEEeccccC---CCCcEE-eEeecCceEEEEeCCC
Confidence 56778888888876 344 433321 2347899999999999998532221 122333 6788888998888774
No 291
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=69.67 E-value=41 Score=35.22 Aligned_cols=83 Identities=11% Similarity=0.131 Sum_probs=54.6
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.+| +++.|+++.... .. ..+.+.+.+++.|+++.... ++.... ++....++.+++.++|+||..+
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~-~~-~~~~v~~~l~~~~~~~~~~~-~~~ep~~~~v~~~~~~~~~~~~d~IIavGGG 94 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL-GI-VGDRVEASLKEAGLTVVFEV-FNGECSDNEIDRLVAIAEENGCDVVIGIGGG 94 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH-HH-HHHHHHHHHHhCCCeEEEEE-eCCCCCHHHHHHHHHHHHhcCCCEEEEecCh
Confidence 44566677778 898888754433 12 47888889999998874433 333222 2677777888888999987654
Q ss_pred CHHHHHHHHH
Q 043468 142 SLELAVHLFE 151 (720)
Q Consensus 142 ~~~~~~~~l~ 151 (720)
+.-|+..++.
T Consensus 95 sv~D~aK~iA 104 (366)
T PRK09423 95 KTLDTAKAVA 104 (366)
T ss_pred HHHHHHHHHH
Confidence 3455555554
No 292
>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=69.55 E-value=26 Score=36.86 Aligned_cols=87 Identities=15% Similarity=0.127 Sum_probs=57.4
Q ss_pred HHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc-
Q 043468 64 MKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL- 141 (720)
Q Consensus 64 ~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~- 141 (720)
...+.+.++.+|.+++.|+++.... ..++.+.+.+.+++.|+++.....+....+ .+....+..+++.++|+||-.+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~-~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGG 94 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVI-KAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVGG 94 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchh-hCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 3456677788888999998765432 233478899999999987654333332222 2577778888888999988654
Q ss_pred -CHHHHHHHHH
Q 043468 142 -SLELAVHLFE 151 (720)
Q Consensus 142 -~~~~~~~~l~ 151 (720)
+.-|+.+.+.
T Consensus 95 GsviD~AK~ia 105 (377)
T cd08188 95 GSPIDCAKGIG 105 (377)
T ss_pred chHHHHHHHHH
Confidence 4455554443
No 293
>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=68.76 E-value=21 Score=37.53 Aligned_cols=86 Identities=15% Similarity=0.246 Sum_probs=57.0
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.+|.+++.|+++.... ..+..+.+++.+++.|+++.....+....+ +.....++.+++.++|+||-.+
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~-~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 95 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLV-KIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGG 95 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHh-hcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 456677888888898888765443 124478999999999987644333332222 2677788888888999988654
Q ss_pred CHHHHHHHHH
Q 043468 142 SLELAVHLFE 151 (720)
Q Consensus 142 ~~~~~~~~l~ 151 (720)
+.-|+.+.+.
T Consensus 96 S~iD~aK~ia 105 (377)
T cd08176 96 SPHDCAKAIG 105 (377)
T ss_pred HHHHHHHHHH
Confidence 3344444443
No 294
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=68.40 E-value=1.1e+02 Score=31.01 Aligned_cols=85 Identities=14% Similarity=0.099 Sum_probs=54.4
Q ss_pred CCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeee
Q 043468 346 DQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDV 425 (720)
Q Consensus 346 ~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~ 425 (720)
.+.+|||+.. .+ ...+..++++.+.+... .+++.... ++...+++.|.+|++|+++...
T Consensus 92 ~g~lrIg~~~--~~----------------~~~~l~~~l~~f~~~~P-~i~l~l~~--~~~~~~~~~L~~g~~Dl~i~~~ 150 (316)
T PRK12679 92 SGVLTIATTH--TQ----------------ARYSLPEVIKAFRELFP-EVRLELIQ--GTPQEIATLLQNGEADIGIASE 150 (316)
T ss_pred CceEEEEech--Hh----------------hhcchHHHHHHHHHHCC-CeEEEEec--CCHHHHHHHHHcCCCCEEEecc
Confidence 4689999932 11 13566788888887752 22333332 3457899999999999997532
Q ss_pred eeeccceeeeeecccccccceEEEEeccc
Q 043468 426 AIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 426 ~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
... . ...+. +.++.....++++++..
T Consensus 151 ~~~-~-~~~l~-~~~l~~~~~~~v~~~~h 176 (316)
T PRK12679 151 RLS-N-DPQLV-AFPWFRWHHSLLVPHDH 176 (316)
T ss_pred cCC-C-CCCce-EEEccCCcEEEEecCCC
Confidence 211 1 12333 35888888888887664
No 295
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=68.28 E-value=7 Score=41.03 Aligned_cols=67 Identities=10% Similarity=0.159 Sum_probs=48.0
Q ss_pred HHHHHHhhheeeeecccCCCccCccccccchhhhhhh-----hccCCc-ccccchhHHHHHHHHHHHHHHHhhhhhh
Q 043468 476 VISIYNGFVVWLIERNHWPELTGSALHQTGTFFWLSF-----NLHGEK-LHSNLSRMTTLVWLFVALVISQTYTANL 546 (720)
Q Consensus 476 ~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~-----~~~g~~-~~~~~~R~~~~~~~l~~~ii~~~y~a~L 546 (720)
+.+++.+.++++++|-.+... ...+--++|+.. .+.|+. |++.++|++...-.++++++.+.=..-+
T Consensus 354 ~GI~iFStlvY~~Ek~~~~~~----FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlAlPItiI 426 (477)
T KOG3713|consen 354 VGIVIFSTLVYFAEKDEPDTK----FTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLALPITII 426 (477)
T ss_pred HHHHHHHHHHHHhhhcCCCCC----CccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhhcchHhH
Confidence 345555777888887654331 333556788887 777886 8999999999999999988877643333
No 296
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=68.17 E-value=90 Score=27.96 Aligned_cols=85 Identities=12% Similarity=0.060 Sum_probs=61.5
Q ss_pred HHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhh---cCCCeEEEEE
Q 043468 64 MKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLK---GGQCRVFVVH 140 (720)
Q Consensus 64 ~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~---~~~~~vvil~ 140 (720)
.+.+.+.+..+|-=.+.-+|.+-.. .+.+.+.+...|+++.. ..++. |+.-.+..+. +...|.+++.
T Consensus 43 ~~~i~~~ls~~G~i~~~R~Y~~a~a-----~~~l~~~l~~~Gf~pv~----~kG~~-Dv~laIDame~~~~~~iD~~vLv 112 (160)
T TIGR00288 43 LDEIREILSEYGDIKIGKVLLNQYA-----SDKLIEAVVNQGFEPII----VAGDV-DVRMAVEAMELIYNPNIDAVALV 112 (160)
T ss_pred HHHHHHHHHhcCCeEEEEEEechhc-----cHHHHHHHHHCCceEEE----ecCcc-cHHHHHHHHHHhccCCCCEEEEE
Confidence 4677777888886666666665322 35678899999998663 23444 7666666553 3588999999
Q ss_pred cCHHHHHHHHHHHHHcCC
Q 043468 141 LSLELAVHLFEKANKMKM 158 (720)
Q Consensus 141 ~~~~~~~~~l~~a~~~g~ 158 (720)
++-.+-..++..+++.|.
T Consensus 113 SgD~DF~~Lv~~lre~G~ 130 (160)
T TIGR00288 113 TRDADFLPVINKAKENGK 130 (160)
T ss_pred eccHhHHHHHHHHHHCCC
Confidence 888888889999999886
No 297
>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=68.14 E-value=94 Score=28.12 Aligned_cols=69 Identities=10% Similarity=0.193 Sum_probs=46.2
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++.. ++...+..+|.+|++|+++...... ...+. +.++....+.+++++..
T Consensus 13 ~~l~~~l~~~~~~~P~~~l~~~~----~~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~~ 82 (201)
T cd08420 13 YLLPRLLARFRKRYPEVRVSLTI----GNTEEIAERVLDGEIDLGLVEGPVD---HPDLI-VEPFAEDELVLVVPPDH 82 (201)
T ss_pred hhhHHHHHHHHHHCCCceEEEEe----CCcHHHHHHHHCCCccEEEecCCCC---CcceE-EEeecCccEEEEecCCC
Confidence 56678888888876 45544432 2347789999999999998543322 22333 36788888888887664
No 298
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=68.11 E-value=78 Score=32.17 Aligned_cols=85 Identities=11% Similarity=0.072 Sum_probs=53.4
Q ss_pred CCCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEee
Q 043468 345 KDQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVG 423 (720)
Q Consensus 345 ~~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 423 (720)
..+.++||+.. .. ...+..+++..+.++. +.+ +.... ++...++..|.+|++|+++.
T Consensus 91 ~~g~l~Ig~~~--~~----------------~~~~l~~~l~~~~~~~p~i~--l~~~~--~~~~~~~~~L~~g~~D~~i~ 148 (313)
T PRK12684 91 DQGNLTIATTH--TQ----------------ARYALPAAIKEFKKRYPKVR--LSILQ--GSPTQIAEMVLHGQADLAIA 148 (313)
T ss_pred CCCeEEEEech--HH----------------HHHHhHHHHHHHHHHCCCce--EEEEe--CChHHHHHHHHCCCcCEEEe
Confidence 34689999932 22 1245677888887765 344 33333 24578999999999999975
Q ss_pred eeeeeccceeeeeecccccccceEEEEeccc
Q 043468 424 DVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 424 ~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.-.... ...+. +.|+......+++++..
T Consensus 149 ~~~~~~--~~~l~-~~~l~~~~~~~v~~~~~ 176 (313)
T PRK12684 149 TEAIAD--YKELV-SLPCYQWNHCVVVPPDH 176 (313)
T ss_pred ecCCCC--CCCce-EEEeccceEEEEeCCCC
Confidence 321111 12232 46777888888887664
No 299
>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=68.06 E-value=83 Score=28.73 Aligned_cols=69 Identities=14% Similarity=0.011 Sum_probs=45.5
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++. . ++.+.+...|.+|++|+++...... ...+. +.|+.....++++++..
T Consensus 13 ~~l~~~l~~~~~~~P~v~v~i~--~--~~~~~~~~~l~~g~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~v~~~~~ 82 (201)
T cd08459 13 YFLPRLLAALREVAPGVRIETV--R--LPVDELEEALESGEIDLAIGYLPDL---GAGFF-QQRLFRERYVCLVRKDH 82 (201)
T ss_pred HHHHHHHHHHHHHCCCCeEEEE--e--cCccCHHHHhhCCCceEEEEcCCCC---cccce-EEEeecCceEEEEcCCC
Confidence 45567788888776 3443343 2 2346788999999999998543221 22333 46888888888887664
No 300
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=67.96 E-value=72 Score=27.38 Aligned_cols=72 Identities=18% Similarity=0.149 Sum_probs=52.5
Q ss_pred cCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc----CHHHHHHHHHHHHHcCCCCCCeEEE
Q 043468 91 TGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL----SLELAVHLFEKANKMKMMEKDYIWI 166 (720)
Q Consensus 91 ~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~----~~~~~~~~l~~a~~~g~~~~~~~~i 166 (720)
-+ .+-+...++.+|++|+.--. .. ..+..++..++.++|+|-+.+ .......++.++++.|+. +..++
T Consensus 14 iG-kniv~~~L~~~GfeVidLG~----~v-~~e~~v~aa~~~~adiVglS~L~t~~~~~~~~~~~~l~~~gl~--~v~vi 85 (128)
T cd02072 14 VG-NKILDHAFTEAGFNVVNLGV----LS-PQEEFIDAAIETDADAILVSSLYGHGEIDCKGLREKCDEAGLK--DILLY 85 (128)
T ss_pred HH-HHHHHHHHHHCCCEEEECCC----CC-CHHHHHHHHHHcCCCEEEEeccccCCHHHHHHHHHHHHHCCCC--CCeEE
Confidence 44 78888899999999877532 22 667788888889999998754 445677888888898884 34445
Q ss_pred EeCc
Q 043468 167 TTDA 170 (720)
Q Consensus 167 ~~~~ 170 (720)
..+.
T Consensus 86 vGG~ 89 (128)
T cd02072 86 VGGN 89 (128)
T ss_pred EECC
Confidence 4444
No 301
>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=67.91 E-value=56 Score=27.22 Aligned_cols=85 Identities=13% Similarity=0.053 Sum_probs=44.8
Q ss_pred HHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc--ccHHHHHHHhhcCCCeEEEEEcCHHHHH
Q 043468 70 IVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS--SRLSEELEKLKGGQCRVFVVHLSLELAV 147 (720)
Q Consensus 70 ~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~--~d~~~~l~~i~~~~~~vvil~~~~~~~~ 147 (720)
-+...|.+.|.-+-.|++...+.....+++.+++.|+..+.. .+..+.. ++.....+.+.+...-+++.+-+|..+.
T Consensus 22 ~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~i-Pv~~~~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra~ 100 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHI-PVDGGAITEEDVEAFADALESLPKPVLAHCRSGTRAS 100 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE-----TTT--HHHHHHHHHHHHTTTTSEEEE-SCSHHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEe-ecCCCCCCHHHHHHHHHHHHhCCCCEEEECCCChhHH
Confidence 456689999988877766433433677899999999985443 3332222 1555555555544333544444777777
Q ss_pred HHHHHHHH
Q 043468 148 HLFEKANK 155 (720)
Q Consensus 148 ~~l~~a~~ 155 (720)
.+...++.
T Consensus 101 ~l~~l~~~ 108 (110)
T PF04273_consen 101 ALWALAQA 108 (110)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHhh
Confidence 77655543
No 302
>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=67.82 E-value=20 Score=35.41 Aligned_cols=81 Identities=9% Similarity=0.058 Sum_probs=50.0
Q ss_pred EEEEEEEc-CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHH
Q 043468 78 QVTVIYED-IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~-~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~ 155 (720)
||+++..+ ++.+-..+...+++.+++.|.++.........+.......++++...++|.|++... .......++.+.+
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~~~ 80 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKEAKD 80 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHHHH
Confidence 57777765 232224447888899999998876553211122114455677777789998887543 3333556777777
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.+.
T Consensus 81 ~~i 83 (273)
T cd06310 81 AGI 83 (273)
T ss_pred CCC
Confidence 665
No 303
>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=67.77 E-value=57 Score=33.56 Aligned_cols=98 Identities=10% Similarity=0.101 Sum_probs=60.8
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
+.+.+.++.++.+++.|+++.... ....+.+++.+++. +++.......+. +.++....+..+++.++|+||..+
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~--~~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 88 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVV--KGVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGG 88 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchh--hhHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCc
Confidence 345667777888999999865443 24478889999887 655433322221 112677788888888999987544
Q ss_pred CHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 043468 142 SLELAVHLFEKANKMKMMEKDYIWITT 168 (720)
Q Consensus 142 ~~~~~~~~l~~a~~~g~~~~~~~~i~~ 168 (720)
+.-|+..++......++ .++-+-|
T Consensus 89 s~~D~aK~ia~~~~~~~---p~i~iPT 112 (332)
T cd07766 89 STLDTAKAVAALLNRGL---PIIIVPT 112 (332)
T ss_pred hHHHHHHHHHHHhcCCC---CEEEEeC
Confidence 44566666555443344 3444444
No 304
>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=67.66 E-value=97 Score=28.13 Aligned_cols=69 Identities=16% Similarity=0.132 Sum_probs=45.5
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.+.. +.++++. . ++-..+...|.+|++|+++.... .....+ -+.++....+++++++..
T Consensus 13 ~~l~~~l~~~~~~~P~i~i~~~--~--~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~~~~~~~ 82 (198)
T cd08433 13 VLAVPLLRAVRRRYPGIRLRIV--E--GLSGHLLEWLLNGRLDLALLYGP---PPIPGL-STEPLLEEDLFLVGPADA 82 (198)
T ss_pred hcchHHHHHHHHHCCCcEEEEE--e--cCcHHHHHHHhCCCCcEEEEeCC---CCCCCe-eEEEeccccEEEEecCCC
Confidence 45677888888776 4444443 2 12368899999999999985322 222223 346888888888887664
No 305
>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=67.58 E-value=95 Score=27.97 Aligned_cols=69 Identities=14% Similarity=0.164 Sum_probs=46.6
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++. . ++...+.+.+.+|++|+++... +.....+. ..++.....++++++..
T Consensus 13 ~~l~~~l~~~~~~~P~i~l~i~--~--~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~~~ 82 (193)
T cd08442 13 VRLPPLLAAYHARYPKVDLSLS--T--GTTGALIQAVLEGRLDGAFVAG---PVEHPRLE-QEPVFQEELVLVSPKGH 82 (193)
T ss_pred hhhHHHHHHHHHHCCCceEEEE--e--CCcHHHHHHHHCCCccEEEEeC---CCCCCCcE-EEEeecCcEEEEecCCC
Confidence 55678888888876 4554443 2 2357899999999999997432 22222332 45778888888887764
No 306
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=67.54 E-value=1.1e+02 Score=30.88 Aligned_cols=70 Identities=10% Similarity=0.099 Sum_probs=46.1
Q ss_pred EEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
++...++..+.+... .+++.... ++-+.++++|.+|++|+++....... ..+ .+.++....+++++++..
T Consensus 104 ~~~~~~l~~~~~~~P-~v~i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~---~~l-~~~~l~~~~~~~~~~~~h 173 (305)
T PRK11151 104 YLLPHIIPMLHQTFP-KLEMYLHE--AQTHQLLAQLDSGKLDCAILALVKES---EAF-IEVPLFDEPMLLAVYEDH 173 (305)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEEe--CCHHHHHHHHHcCCccEEEEecCCCC---CCe-EEEEeccCcEEEEecCCC
Confidence 455567777776542 23344443 23488999999999999985432221 222 457899999999987664
No 307
>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=67.11 E-value=84 Score=28.60 Aligned_cols=69 Identities=17% Similarity=0.140 Sum_probs=45.5
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.+ +.... ++...+...|.+|++|+++.... .....+ -+.++....++++++...
T Consensus 13 ~~~~~~i~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~~~ 82 (200)
T cd08417 13 LLLPPLLARLRQEAPGVR--LRFVP--LDRDDLEEALESGEIDLAIGVFP---ELPPGL-RSQPLFEDRFVCVARKDH 82 (200)
T ss_pred HHHHHHHHHHHhhCCCeE--EEecc--CCHHHHHHHHHcCCCCEEEeecc---cCCCcc-chhhhhcCceEEEecCCC
Confidence 45567777777765 334 33332 34678999999999999985432 222233 246888889998887664
No 308
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=66.96 E-value=9.5 Score=38.37 Aligned_cols=46 Identities=15% Similarity=0.090 Sum_probs=29.7
Q ss_pred eEEEEeHHHHHHHHH-hCCCccceEEecCCCCHHHHHHHHHhCCccEEee
Q 043468 375 YFGGFSIELFKALVE-KLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVG 423 (720)
Q Consensus 375 ~~~G~~~dl~~~la~-~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 423 (720)
.+.=+-..|.+.+.+ ..+ ++....+..||-. =++.+.+|++|+++.
T Consensus 38 ~YY~ig~~ia~~~~~~~~~--i~~~v~~tggSv~-Nl~~i~~Ge~d~alv 84 (321)
T COG2358 38 VYYPIGGGLAQLLNKDEKG--IECSVVPTGGSVE-NLKLLASGEADLALV 84 (321)
T ss_pred eeeehHHHHHHHHhccCCC--eEEEEeeccchHH-HHHhHhcCccchhhh
Confidence 344455566666666 445 4466666666644 456889999999864
No 309
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=66.93 E-value=1.4e+02 Score=29.69 Aligned_cols=69 Identities=10% Similarity=0.073 Sum_probs=45.0
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.+.. +.++++.. +....++..+.+|++|+++...... ...+ -..++.....++++++..
T Consensus 102 ~~~~~~l~~~~~~~P~i~i~v~~----~~~~~~~~~l~~g~~Di~i~~~~~~---~~~~-~~~~l~~~~~~lv~~~~h 171 (290)
T PRK10837 102 YILPAMIARYRRDYPQLPLELSV----GNSQDVINAVLDFRVDIGLIEGPCH---SPEL-ISEPWLEDELVVFAAPDS 171 (290)
T ss_pred hhhHHHHHHHHHHCCCceEEEEE----CCHHHHHHHHHhCCceEEEecCCCC---CCce-eEEEeecceEEEEEcCCC
Confidence 45667888888775 44544432 2357899999999999998532221 1222 235777788888887664
No 310
>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=66.11 E-value=29 Score=36.58 Aligned_cols=87 Identities=13% Similarity=0.069 Sum_probs=55.7
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.+| +++.|+++.... ..+..+.+.+.+++.|+++.......+... .+....+...++.++|+||-.+
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~-~~~~~~~v~~~L~~~~~~~~~f~~v~~~~~~~~v~~~~~~~~~~~~D~IIaiGGG 89 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMA-GTPVFAELVQALAAAGVEVEVFDGVLPDLPRSELCDAASAAARAGPDVIIGLGGG 89 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchh-hcchHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 44666778888 888888754432 235578899999999987654333322111 1555666777778999988654
Q ss_pred CHHHHHHHHHHH
Q 043468 142 SLELAVHLFEKA 153 (720)
Q Consensus 142 ~~~~~~~~l~~a 153 (720)
+.-|+..++...
T Consensus 90 S~iD~aK~ia~~ 101 (386)
T cd08191 90 SCIDLAKIAGLL 101 (386)
T ss_pred hHHHHHHHHHHH
Confidence 445555555443
No 311
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=65.58 E-value=77 Score=32.00 Aligned_cols=68 Identities=13% Similarity=0.091 Sum_probs=43.8
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEecc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQ 453 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~ 453 (720)
.+...++..+.++. +..+++. . +....+...|.+|++|+++..-... ...+ .+.|+....+.+++++.
T Consensus 105 ~~~~~~l~~~~~~~p~i~l~~~--~--~~~~~~~~~l~~g~~Di~i~~~~~~---~~~~-~~~~l~~~~~~lv~~~~ 173 (305)
T PRK11233 105 SLTMPLLQAVRAEFPGIVLYLH--E--NSGATLNEKLMNGQLDMAVIYEHSP---VAGL-SSQPLLKEDLFLVGTQD 173 (305)
T ss_pred HHHHHHHHHHHHHCCCcEEEEE--E--CCcHHHHHHHHCCCCCEEEEcCCcC---CCCc-EEEEEeeeeEEEEEcCc
Confidence 44556788887775 4444333 2 2346788999999999998532221 1223 34588888888887765
No 312
>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=65.41 E-value=1.1e+02 Score=27.83 Aligned_cols=71 Identities=13% Similarity=0.146 Sum_probs=46.0
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++. . ++...+...|.+|++|+++...... .....+. +.++....++++++...
T Consensus 13 ~~l~~~l~~~~~~~P~i~l~i~--~--~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~~~ 84 (201)
T cd08418 13 TLMPAVINRFKEQFPDVQISIY--E--GQLSSLLPELRDGRLDFAIGTLPDE-MYLKELI-SEPLFESDFVVVARKDH 84 (201)
T ss_pred hhhHHHHHHHHHHCCCceEEEE--e--CcHHHHHHHHHcCCCcEEEEecCCC-CCCccee-EEeecCCceEEEeCCCC
Confidence 45667788887776 4443343 3 3457899999999999998533211 1122333 36778888888887664
No 313
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=64.96 E-value=12 Score=27.95 Aligned_cols=33 Identities=6% Similarity=-0.176 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhc
Q 043468 685 LFVLSGGISTIALVIFLWRCNWKINENLLVNKK 717 (720)
Q Consensus 685 ~f~il~~g~~ls~~v~~~E~~~~~~~~~~~~~k 717 (720)
++..+++|.+++.++.....+..+++.++.+++
T Consensus 24 il~~f~~G~llg~l~~~~~~~~~r~~~~~~~k~ 56 (68)
T PF06305_consen 24 ILIAFLLGALLGWLLSLPSRLRLRRRIRRLRKE 56 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566788888877777766555555444443
No 314
>cd01569 PBEF_like pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general, nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis.
Probab=64.74 E-value=41 Score=35.19 Aligned_cols=108 Identities=13% Similarity=0.137 Sum_probs=61.8
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEEEcCCCcc--cCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhh-c------
Q 043468 61 LAQMKAIAAIVQSWEWHQVTVIYEDIDSSA--TGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLK-G------ 131 (720)
Q Consensus 61 ~~~~~~~~~~l~~~~~~~v~ii~~~~~~g~--~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~-~------ 131 (720)
..+.+++..+++.++-..++++.+..+... ..+.+.+++.+.+.|.++ .+....++..+......++. +
T Consensus 238 ~~E~~AF~~~~~~fp~~~~~lv~DTYD~~~~~~~~~~~lk~~i~~~g~~l--viRpDSGD~~~l~~~~~~~L~~~FG~~~ 315 (407)
T cd01569 238 ERELEAFRNLLEQFGPGIVSVVSDSYDFWNALTLWGPRLKDEILARGGTL--VIRPDSGDPVDIICGVLEILGEIFGGTV 315 (407)
T ss_pred ccHHHHHHHHHHHcCCCcEEEEecCccHHHHHHHHHHHHHHHHHhcCCcE--EEECCCCCHHHHHHHHHHHHHHHhCCcc
Confidence 346789999998887667778777666321 112334555455567765 34444444322222222222 1
Q ss_pred --CC-----CeEEEEEc---CHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 043468 132 --GQ-----CRVFVVHL---SLELAVHLFEKANKMKMMEKDYIWITTDA 170 (720)
Q Consensus 132 --~~-----~~vvil~~---~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 170 (720)
.+ +++-|+.+ +...+..++..+.+.|....+..|-.++.
T Consensus 316 n~kGykvl~~~v~Ii~gd~ide~~i~~Il~~L~~~G~~~dNi~fGvGt~ 364 (407)
T cd01569 316 NSKGYKVLNPHVRIIQGDGITLERIEEILERLKAKGFASENIVFGMGGG 364 (407)
T ss_pred cCCcccccCCceEEEEcCCCCHHHHHHHHHHHHHCCCccccceEecCcc
Confidence 13 45555554 56778888888998998765555544433
No 315
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=64.58 E-value=15 Score=33.70 Aligned_cols=30 Identities=27% Similarity=0.411 Sum_probs=27.2
Q ss_pred EEEECCCCChhhHHHHHhhccCCCcEEecc
Q 043468 10 EAILGPQTSEETSSVAEIASKKQIPVLSFA 39 (720)
Q Consensus 10 ~aiiGp~~s~~~~~~~~~~~~~~ip~is~~ 39 (720)
.+|+||..|+-+..+..+++.+++|+|+.+
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlstg 32 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDTG 32 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcHh
Confidence 469999999999999999999999999854
No 316
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=64.27 E-value=82 Score=29.92 Aligned_cols=87 Identities=20% Similarity=0.154 Sum_probs=61.3
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc----CHHHHHHHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL----SLELAVHLFEK 152 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~----~~~~~~~~l~~ 152 (720)
.++.+....++...-+ ..-+...++.+|++|.+-- .+. .....+..+++.++|+|.+.+ .......++++
T Consensus 89 ~~vvl~t~~gd~HdiG-~~iv~~~l~~~G~~Vi~LG----~~v-p~e~~v~~~~~~~~~~V~lS~~~~~~~~~~~~~i~~ 162 (213)
T cd02069 89 GKIVLATVKGDVHDIG-KNLVGVILSNNGYEVIDLG----VMV-PIEKILEAAKEHKADIIGLSGLLVPSLDEMVEVAEE 162 (213)
T ss_pred CeEEEEeCCCchhHHH-HHHHHHHHHhCCCEEEECC----CCC-CHHHHHHHHHHcCCCEEEEccchhccHHHHHHHHHH
Confidence 4666665566655566 7888889999999987642 122 667788888888999998765 45677777888
Q ss_pred HHHcCCCCCCeEEEEeCcc
Q 043468 153 ANKMKMMEKDYIWITTDAF 171 (720)
Q Consensus 153 a~~~g~~~~~~~~i~~~~~ 171 (720)
.++.+. .-.+|+++...
T Consensus 163 L~~~~~--~~~i~vGG~~~ 179 (213)
T cd02069 163 MNRRGI--KIPLLIGGAAT 179 (213)
T ss_pred HHhcCC--CCeEEEEChhc
Confidence 888877 23466665443
No 317
>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=63.22 E-value=22 Score=35.81 Aligned_cols=65 Identities=15% Similarity=0.117 Sum_probs=39.0
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEE---EEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEI---IHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS 142 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v---~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~ 142 (720)
+|+|+..-+........+.|++.|++.|... .....-..++.......++++++.++|+|+..+.
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g~~~~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~gt 68 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELGYDEKNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAIGT 68 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT--CCCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEESH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcCCccccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEeCc
Confidence 5677766555333444899999999999865 2222222333337788888899999998776643
No 318
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=62.47 E-value=70 Score=26.83 Aligned_cols=60 Identities=25% Similarity=0.186 Sum_probs=38.5
Q ss_pred cCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-CH---HHHHHHHHHHHHc
Q 043468 91 TGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-SL---ELAVHLFEKANKM 156 (720)
Q Consensus 91 ~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-~~---~~~~~~l~~a~~~ 156 (720)
.+ ...+...+++.|.++..... .. +.....+.+++.++|+|.+.+ .. .....+.+.+++.
T Consensus 15 lG-l~~la~~l~~~G~~v~~~d~----~~-~~~~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~~~~k~~ 78 (121)
T PF02310_consen 15 LG-LLYLAAYLRKAGHEVDILDA----NV-PPEELVEALRAERPDVVGISVSMTPNLPEAKRLARAIKER 78 (121)
T ss_dssp HH-HHHHHHHHHHTTBEEEEEES----SB--HHHHHHHHHHTTCSEEEEEESSSTHHHHHHHHHHHHHTT
T ss_pred HH-HHHHHHHHHHCCCeEEEECC----CC-CHHHHHHHHhcCCCcEEEEEccCcCcHHHHHHHHHHHHhc
Confidence 44 78888889999988765422 11 446677778888999988866 33 3444445544443
No 319
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=62.38 E-value=46 Score=32.35 Aligned_cols=87 Identities=21% Similarity=0.243 Sum_probs=54.1
Q ss_pred HHHHHHHHh--CCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcc-cHHHHHHHhhcCCCeEEEEEc
Q 043468 65 KAIAAIVQS--WEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSS-RLSEELEKLKGGQCRVFVVHL 141 (720)
Q Consensus 65 ~~~~~~l~~--~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~-d~~~~l~~i~~~~~~vvil~~ 141 (720)
..+++.+.. ...+++.++..+. . ...+.+.+++.|.++.....|...... +.......+...+.|+ ++..
T Consensus 112 ~~l~~~l~~~~~~~~~ili~~~~~-----~-~~~l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~~~~~~d~-ivft 184 (249)
T PRK05928 112 SELLLELPELLLKGKRVLYLRGNG-----G-REVLGDTLEERGAEVDECEVYERVPPKLDGAELLARLQSGEVDA-VIFT 184 (249)
T ss_pred hHHHHhChhhhcCCCEEEEECCCC-----C-HHHHHHHHHHCCCEEeEEEEEEeeCCCCChHHHHHHHHhCCCCE-EEEC
Confidence 444444322 3456766663332 2 678899999999998877766433221 3444455555557777 5566
Q ss_pred CHHHHHHHHHHHHHcCC
Q 043468 142 SLELAVHLFEKANKMKM 158 (720)
Q Consensus 142 ~~~~~~~~l~~a~~~g~ 158 (720)
++..+..+++.+.+.+.
T Consensus 185 S~~~v~~~~~~~~~~~~ 201 (249)
T PRK05928 185 SPSTVRAFFSLAPELGR 201 (249)
T ss_pred CHHHHHHHHHHhcccch
Confidence 78888888887766553
No 320
>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=62.19 E-value=33 Score=33.82 Aligned_cols=78 Identities=8% Similarity=0.103 Sum_probs=50.5
Q ss_pred EEEEEEEc--CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-CHHHHHHHHHHHH
Q 043468 78 QVTVIYED--IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-SLELAVHLFEKAN 154 (720)
Q Consensus 78 ~v~ii~~~--~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-~~~~~~~~l~~a~ 154 (720)
+|+++..+ +.+. ..+.+.+.+.+++.|+++.... ...+.......++.+.+.++|.|++.. ........++.+.
T Consensus 1 ~Ig~i~~~~~~~~~-~~~~~gi~~~~~~~g~~~~~~~--~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~~ 77 (273)
T cd06305 1 RIAVVRYGGSGDFD-QAYLAGTKAEAEALGGDLRVYD--AGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRAL 77 (273)
T ss_pred CeEEEeecCCCcHH-HHHHHHHHHHHHHcCCEEEEEC--CCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHHH
Confidence 35666653 3333 3447899999999999876642 222221445666777677999988864 4444566788888
Q ss_pred HcCC
Q 043468 155 KMKM 158 (720)
Q Consensus 155 ~~g~ 158 (720)
+.|+
T Consensus 78 ~~~i 81 (273)
T cd06305 78 DAGI 81 (273)
T ss_pred HcCC
Confidence 8776
No 321
>PRK00865 glutamate racemase; Provisional
Probab=62.04 E-value=27 Score=34.50 Aligned_cols=111 Identities=12% Similarity=0.078 Sum_probs=56.8
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+.++.+|+=+.+++.+.++-.+-+..++|+|+ .- .++.......+.++|+|+...
T Consensus 65 ~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig-i~------------------------~a~~~a~~~~~~~~igVLaT~ 119 (261)
T PRK00865 65 EYGVKMLVIACNTASAVALPDLRERYDIPVVG-IV------------------------PAIKPAAALTRNGRIGVLATP 119 (261)
T ss_pred hCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe-eH------------------------HHHHHHHHhcCCCeEEEEECH
Confidence 45666666556655544444555555677765 21 111112223345677777665
Q ss_pred CCCcccCcHHHHHHHHHHcC--cEEEEEEe------cCCC---Cc---ccHHHHHHHhhcCCCeEEEEEcCHHH
Q 043468 86 IDSSATGILPHLSDALREAG--AEIIHVLA------LPHF---PS---SRLSEELEKLKGGQCRVFVVHLSLEL 145 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g--~~v~~~~~------~~~~---~~---~d~~~~l~~i~~~~~~vvil~~~~~~ 145 (720)
..-- ...+++.+++.| .+|..... +..+ .. ..+...++.+.+.++|+|++.|..-.
T Consensus 120 ~Ti~----s~~y~~~i~~~~~~~~v~~~~~~~lv~~ie~g~~~~~~~~~~l~~~l~~l~~~g~d~iILGCTh~p 189 (261)
T PRK00865 120 GTVK----SAAYRDLIARFAPDCQVESLACPELVPLVEAGILGGPVTLEVLREYLAPLLAAGIDTLVLGCTHYP 189 (261)
T ss_pred HHhh----chHHHHHHHHhCCCCEEEEecCHHHHHHHhCCCcCCHHHHHHHHHHHHHHhcCCCCEEEECCcCHH
Confidence 4321 234455555554 33211100 0111 11 14666777777779999999986533
No 322
>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=61.99 E-value=30 Score=35.87 Aligned_cols=85 Identities=13% Similarity=0.124 Sum_probs=54.7
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.++ +|+.++++.... ....+.+.+.+++.|+++.....+....+ ++....++..++.++|+||-.+
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~--~~~~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGG 88 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL--AAAKDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGG 88 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH--HHHHHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCc
Confidence 44566676666 888888765433 22367888999999987654444433322 2566777777788999988654
Q ss_pred CHHHHHHHHHH
Q 043468 142 SLELAVHLFEK 152 (720)
Q Consensus 142 ~~~~~~~~l~~ 152 (720)
+.-|+..++..
T Consensus 89 s~~D~aK~ia~ 99 (345)
T cd08171 89 KAIDTVKVLAD 99 (345)
T ss_pred HHHHHHHHHHH
Confidence 34555555543
No 323
>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=61.93 E-value=37 Score=35.58 Aligned_cols=85 Identities=12% Similarity=0.121 Sum_probs=56.8
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.+|.+++.|+++.... ..+.+++.+++.|+++.....+..... +.....++.+++.++|+||-.+
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 87 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA----IASGLTDILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVGGG 87 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH----HHHHHHHHHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCc
Confidence 456677778888999999765543 257788889988876654433433322 2567777788888999988644
Q ss_pred CHHHHHHHHHHH
Q 043468 142 SLELAVHLFEKA 153 (720)
Q Consensus 142 ~~~~~~~~l~~a 153 (720)
+.-|+..++...
T Consensus 88 s~~D~aK~ia~~ 99 (367)
T cd08182 88 SVLDTAKALAAL 99 (367)
T ss_pred HHHHHHHHHHHH
Confidence 445666555543
No 324
>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=61.85 E-value=28 Score=34.40 Aligned_cols=80 Identities=13% Similarity=0.110 Sum_probs=51.1
Q ss_pred EEEEEEEcC--CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHH
Q 043468 78 QVTVIYEDI--DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKAN 154 (720)
Q Consensus 78 ~v~ii~~~~--~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~ 154 (720)
||+++..+. +.+-..+.+.+++.+++.|..+..... ...+.......++++...++|.+++... .+.....++.+.
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~-~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~~ 79 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGP-ETFDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRAV 79 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECC-CCCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHHH
Confidence 467777653 333234478889999999988755432 1112224556777777789998888653 333456678887
Q ss_pred HcCC
Q 043468 155 KMKM 158 (720)
Q Consensus 155 ~~g~ 158 (720)
+.|.
T Consensus 80 ~~~i 83 (271)
T cd06312 80 AAGI 83 (271)
T ss_pred HCCC
Confidence 7765
No 325
>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=61.61 E-value=29 Score=36.43 Aligned_cols=82 Identities=22% Similarity=0.283 Sum_probs=54.8
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.++ +|+.|+++.... ..+.+.+.+++.|+++.... +....+ ++....++..++.++|+||-.+
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~----~~~~v~~~L~~~g~~~~~~~-~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 85 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL----RAAWLIEALRAAGIEVTHVV-VAGEPSVELVDAAVAEARNAGCDVVIAIGGG 85 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH----HHHHHHHHHHHcCCeEEEec-CCCCcCHHHHHHHHHHHHhcCCCEEEEecCc
Confidence 34566677665 888888765443 37889999999998765443 332221 2677788888888999988654
Q ss_pred CHHHHHHHHHH
Q 043468 142 SLELAVHLFEK 152 (720)
Q Consensus 142 ~~~~~~~~l~~ 152 (720)
+.-|+..++..
T Consensus 86 S~~D~aK~ia~ 96 (374)
T cd08183 86 SVIDAGKAIAA 96 (374)
T ss_pred hHHHHHHHHHH
Confidence 44555555544
No 326
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=61.53 E-value=57 Score=33.45 Aligned_cols=50 Identities=18% Similarity=0.163 Sum_probs=38.6
Q ss_pred HHHHHHHHHhCCCccceEEecCC--CCHHHHHHHHHhCCccEEeeeeeeecc
Q 043468 381 IELFKALVEKLPFYLPYNFIPFN--GSYDDLVKQLYLNNFAGVVGDVAIVAR 430 (720)
Q Consensus 381 ~dl~~~la~~l~~~~~~~~~~~~--~~~~~~~~~l~~g~~Di~~~~~~~t~~ 430 (720)
..+-+++.++.|-++++...|.+ |.=..++++|++|.+|+.+.+...-..
T Consensus 47 ~~fa~~v~ekt~G~l~i~vfP~~qLG~~~~~ie~l~~G~id~~~~s~~~l~~ 98 (332)
T COG1638 47 KKFAELVEEKTGGRLKIEVFPNSQLGGEAEMIEQLRSGTLDIGVVSLGFLAG 98 (332)
T ss_pred HHHHHHHHHHhCCeEEEEECCCcccCcHHHHHHHHhcCCeeEEeccchhhcc
Confidence 34677788999999888888742 445789999999999999876654443
No 327
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=61.39 E-value=1.4e+02 Score=27.93 Aligned_cols=89 Identities=13% Similarity=0.111 Sum_probs=60.9
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc----CHHHHHHHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL----SLELAVHLFEK 152 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~----~~~~~~~~l~~ 152 (720)
.++.+....++...-+ ..-+...++..|++|.+- . ... ..+..++.+++.++|+|.+.+ .......++++
T Consensus 83 ~~vl~~~~~gd~H~lG-~~~v~~~l~~~G~~vi~l---G-~~~-p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i~~ 156 (201)
T cd02070 83 GKVVIGTVEGDIHDIG-KNLVATMLEANGFEVIDL---G-RDV-PPEEFVEAVKEHKPDILGLSALMTTTMGGMKEVIEA 156 (201)
T ss_pred CeEEEEecCCccchHH-HHHHHHHHHHCCCEEEEC---C-CCC-CHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHH
Confidence 4665555555554455 788889999999998543 2 122 667788888888999998765 44667777888
Q ss_pred HHHcCCCCCCeEEEEeCcc
Q 043468 153 ANKMKMMEKDYIWITTDAF 171 (720)
Q Consensus 153 a~~~g~~~~~~~~i~~~~~ 171 (720)
.++.+....-.+++++...
T Consensus 157 lr~~~~~~~~~i~vGG~~~ 175 (201)
T cd02070 157 LKEAGLRDKVKVMVGGAPV 175 (201)
T ss_pred HHHCCCCcCCeEEEECCcC
Confidence 8888653333466665544
No 328
>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=60.57 E-value=40 Score=33.24 Aligned_cols=81 Identities=7% Similarity=0.078 Sum_probs=49.4
Q ss_pred EEEEEEEcCC-CcccCcHHHHHHHHHHc---CcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHH
Q 043468 78 QVTVIYEDID-SSATGILPHLSDALREA---GAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEK 152 (720)
Q Consensus 78 ~v~ii~~~~~-~g~~~~~~~~~~~~~~~---g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~ 152 (720)
||+++..+.. .+...+.+.+++.+++. |.++.........+.......++++...++|.|++... .......+..
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~~ 80 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALNPVIEE 80 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHHHHH
Confidence 4666664432 23234478888888888 87432222222222225667888888889999988654 3334556777
Q ss_pred HHHcCC
Q 043468 153 ANKMKM 158 (720)
Q Consensus 153 a~~~g~ 158 (720)
+.+.|.
T Consensus 81 ~~~~~i 86 (272)
T cd06300 81 ACEAGI 86 (272)
T ss_pred HHHCCC
Confidence 777765
No 329
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=60.51 E-value=16 Score=26.92 Aligned_cols=32 Identities=19% Similarity=0.064 Sum_probs=24.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 043468 684 VLFVLSGGISTIALVIFLWRCNWKINENLLVN 715 (720)
Q Consensus 684 ~~f~il~~g~~ls~~v~~~E~~~~~~~~~~~~ 715 (720)
+.++-++.|++++++-++..++++.++.+|+.
T Consensus 33 W~aIGvi~gi~~~~lt~ltN~YFK~k~drr~~ 64 (68)
T PF04971_consen 33 WAAIGVIGGIFFGLLTYLTNLYFKIKEDRRKA 64 (68)
T ss_pred chhHHHHHHHHHHHHHHHhHhhhhhhHhhhHh
Confidence 66666777888899999999888877665544
No 330
>PRK09271 flavodoxin; Provisional
Probab=60.46 E-value=64 Score=28.99 Aligned_cols=86 Identities=10% Similarity=0.094 Sum_probs=52.4
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-------HHHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-------LELAVHLF 150 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-------~~~~~~~l 150 (720)
++.|+|.+-.+..+.+++.+.+.+++.|.++.... ++. . ++......+ .++++|++.++ ++.+..|+
T Consensus 2 kv~IvY~S~tGnTe~~A~~ia~~l~~~g~~v~~~~-~~~--~-~~~~~~~~~--~~~d~vilgt~T~~~G~~p~~~~~f~ 75 (160)
T PRK09271 2 RILLAYASLSGNTREVAREIEERCEEAGHEVDWVE-TDV--Q-TLAEYPLDP--EDYDLYLLGTWTDNAGRTPPEMKRFI 75 (160)
T ss_pred eEEEEEEcCCchHHHHHHHHHHHHHhCCCeeEEEe-ccc--c-cccccccCc--ccCCEEEEECcccCCCcCCHHHHHHH
Confidence 68899987766656678888999999998764221 111 1 222221111 35788887662 33578888
Q ss_pred HHHHHcCCCCCCeEEEEeC
Q 043468 151 EKANKMKMMEKDYIWITTD 169 (720)
Q Consensus 151 ~~a~~~g~~~~~~~~i~~~ 169 (720)
....+....++.+..+++.
T Consensus 76 ~~l~~~~~~~k~~avfgsg 94 (160)
T PRK09271 76 AELAETIGKPPNVAVFGTG 94 (160)
T ss_pred HHHHHHhccCCeEEEEecC
Confidence 8877644344456666654
No 331
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=60.34 E-value=46 Score=34.31 Aligned_cols=81 Identities=14% Similarity=0.062 Sum_probs=54.4
Q ss_pred CCeEEEEEEEcC--CCcccCcHHHHHHHHHHcCcEEEEEEecCCCC-cccHHHHHHHhhcCCCeEEEEEc-CHHHHHHHH
Q 043468 75 EWHQVTVIYEDI--DSSATGILPHLSDALREAGAEIIHVLALPHFP-SSRLSEELEKLKGGQCRVFVVHL-SLELAVHLF 150 (720)
Q Consensus 75 ~~~~v~ii~~~~--~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~-~~d~~~~l~~i~~~~~~vvil~~-~~~~~~~~l 150 (720)
...+++++.... ++. ..+.+.+++.+++.|+++.... +... ...-.+.++.+.++++|.|++.. +.+.....+
T Consensus 22 ~~~~i~~v~k~~~~pf~-~~~~~Gi~~aa~~~G~~v~~~~--~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~l 98 (336)
T PRK15408 22 AAERIAFIPKLVGVGFF-TSGGNGAKEAGKELGVDVTYDG--PTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPAL 98 (336)
T ss_pred CCcEEEEEECCCCCHHH-HHHHHHHHHHHHHhCCEEEEEC--CCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHHH
Confidence 456888887533 233 3347888999999998886432 2211 11233567777788999988854 556567889
Q ss_pred HHHHHcCC
Q 043468 151 EKANKMKM 158 (720)
Q Consensus 151 ~~a~~~g~ 158 (720)
+++.+.|.
T Consensus 99 ~~a~~~gI 106 (336)
T PRK15408 99 KRAMQRGV 106 (336)
T ss_pred HHHHHCCC
Confidence 99999886
No 332
>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=60.03 E-value=33 Score=33.62 Aligned_cols=78 Identities=10% Similarity=0.166 Sum_probs=49.0
Q ss_pred EEEEEEcC-CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 79 VTVIYEDI-DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 79 v~ii~~~~-~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
|+++..+. +.+-..+.+.+.+.+++.|+.+..... ..... ...+.++++.+.++|.|++..........++.+.+.|
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~~~~~-~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ 79 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT-DYDAE-READAVETLLRQRVDGLILTVADAATSPALDLLDAER 79 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC-CCCHH-HHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhCC
Confidence 56666432 222233478899999999998776432 11122 4556777777789999887543222334677787777
Q ss_pred C
Q 043468 158 M 158 (720)
Q Consensus 158 ~ 158 (720)
.
T Consensus 80 i 80 (266)
T cd06282 80 V 80 (266)
T ss_pred C
Confidence 6
No 333
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=59.88 E-value=39 Score=33.39 Aligned_cols=81 Identities=10% Similarity=-0.005 Sum_probs=49.5
Q ss_pred EEEEEEEc-CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHH
Q 043468 78 QVTVIYED-IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~-~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~ 155 (720)
+++++..+ ++.+-..+.+.+++.+++.|+++.........+...-...++++...++|.|++... .......++.+.+
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~~ 80 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVERAKK 80 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHHHH
Confidence 46677654 222224447888999999998876543222222113445677777788998877543 3334456777777
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.+.
T Consensus 81 ~~i 83 (275)
T cd06320 81 KGI 83 (275)
T ss_pred CCC
Confidence 765
No 334
>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=59.69 E-value=37 Score=30.94 Aligned_cols=69 Identities=7% Similarity=0.044 Sum_probs=47.1
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.+.. +.++++. . ++..++.+.|.+|++|+++...... ...+ .+.++.....++++++..
T Consensus 13 ~~l~~~l~~~~~~~P~i~l~i~--~--~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v~~~~~ 82 (196)
T cd08415 13 SLLPRAIARFRARHPDVRISLH--T--LSSSTVVEAVLSGQADLGLASLPLD---HPGL-ESEPLASGRAVCVLPPGH 82 (196)
T ss_pred cccHHHHHHHHHHCCCcEEEEE--e--cchHHHHHHHHcCCccEEEEeCCCC---CCcc-eeeeecccceEEEEcCCC
Confidence 56678888888776 4444443 3 2357899999999999998543221 2223 356888888888887653
No 335
>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=59.26 E-value=1.4e+02 Score=27.28 Aligned_cols=69 Identities=16% Similarity=0.167 Sum_probs=45.4
Q ss_pred EEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++.. .+++.... ++. .+++.|.+|++|+++..... ....+. ..++....+++++++..
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~l~~--~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~h 81 (200)
T cd08460 13 AFGPALLAAVAAEAP-GVRLRFVP--ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVRAGH 81 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec--Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEeCCC
Confidence 566778888888762 23344433 234 68899999999999853222 122333 46888888888887664
No 336
>PRK10537 voltage-gated potassium channel; Provisional
Probab=59.09 E-value=18 Score=38.04 Aligned_cols=49 Identities=16% Similarity=0.203 Sum_probs=36.4
Q ss_pred cccchhhhhhh-----hccCCc-ccccchhHHHHHHHHHHHHHHHhhhhhhhhhh
Q 043468 502 HQTGTFFWLSF-----NLHGEK-LHSNLSRMTTLVWLFVALVISQTYTANLTSML 550 (720)
Q Consensus 502 ~~~~~~~~~~~-----~~~g~~-~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l 550 (720)
..+.+++|+++ .+.|+. |.+..+|++.+++.++++.+..+..+.+...+
T Consensus 167 ~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~ 221 (393)
T PRK10537 167 ESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPV 221 (393)
T ss_pred CCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45778899888 455554 78889999999999998877666555555433
No 337
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=59.03 E-value=2e+02 Score=29.31 Aligned_cols=68 Identities=15% Similarity=0.138 Sum_probs=45.6
Q ss_pred EEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+...++..+.+... ++++...+ .++++..|.+|++|+++..... ..+.+. +.++....++++++...
T Consensus 130 ~~l~~~l~~f~~~~P-~i~i~~~~----~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~lv~~~~h 197 (317)
T PRK11482 130 LVMPVIYQAIKTHYP-QLLLRNIP----ISDAENQLSQFQTDLIIDTHSC---SNRTIQ-HHVLFTDNVVLVCRQGH 197 (317)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec----chhHHHHHHCCCcCEEEeccCC---CCCceE-EEEEecCcEEEEEeCCC
Confidence 356677777777663 33344322 4678999999999999854332 223444 36888888998887664
No 338
>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=58.67 E-value=81 Score=32.74 Aligned_cols=83 Identities=14% Similarity=0.091 Sum_probs=52.2
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCC-CcccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHF-PSSRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
..+.+.++.+| +++.|+++.... ....+.+.+.+++.|+.+.... +... +.+.....++.+++.++|.||-.+
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~--~~~~~~v~~~l~~~~i~~~~~~-~~~~p~~~~v~~~~~~~~~~~~d~IIavGGG 87 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL--KKSRPRFEAALAKSIIVVDVIV-FGGECSTEEVVKALCGAEEQEADVIIGVGGG 87 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH--HHHHHHHHHHHHhcCCeeEEEE-cCCCCCHHHHHHHHHHHHhcCCCEEEEecCc
Confidence 44667777888 788787654432 1336888899999887653333 3322 222566777777888999877544
Q ss_pred CHHHHHHHHH
Q 043468 142 SLELAVHLFE 151 (720)
Q Consensus 142 ~~~~~~~~l~ 151 (720)
+.-|+..++.
T Consensus 88 s~~D~aK~ia 97 (349)
T cd08550 88 KTLDTAKAVA 97 (349)
T ss_pred HHHHHHHHHH
Confidence 3345555443
No 339
>PRK06756 flavodoxin; Provisional
Probab=58.34 E-value=68 Score=28.28 Aligned_cols=83 Identities=12% Similarity=0.232 Sum_probs=50.4
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-------HHHHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-------LELAVHL 149 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-------~~~~~~~ 149 (720)
.++.|+|.+..+..+.+++.+.+.+++.|.++..... .... + ...+. +.|.|++.++ +.....|
T Consensus 2 mkv~IiY~S~tGnTe~vA~~ia~~l~~~g~~v~~~~~-~~~~--~----~~~~~--~~d~vi~gspt~~~g~~p~~~~~f 72 (148)
T PRK06756 2 SKLVMIFASMSGNTEEMADHIAGVIRETENEIEVIDI-MDSP--E----ASILE--QYDGIILGAYTWGDGDLPDDFLDF 72 (148)
T ss_pred ceEEEEEECCCchHHHHHHHHHHHHhhcCCeEEEeeh-hccC--C----HHHHh--cCCeEEEEeCCCCCCCCcHHHHHH
Confidence 3789999887665566678888888888877543221 1111 1 12232 5677777542 2347777
Q ss_pred HHHHHHcCCCCCCeEEEEe
Q 043468 150 FEKANKMKMMEKDYIWITT 168 (720)
Q Consensus 150 l~~a~~~g~~~~~~~~i~~ 168 (720)
+.+..+..+.++....+++
T Consensus 73 l~~l~~~~l~~k~~~~fgt 91 (148)
T PRK06756 73 YDAMDSIDLTGKKAAVFGS 91 (148)
T ss_pred HHHHhcCCCCCCEEEEEeC
Confidence 7777666666655555554
No 340
>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=58.28 E-value=36 Score=33.58 Aligned_cols=80 Identities=8% Similarity=0.019 Sum_probs=48.8
Q ss_pred EEEEEEEcC--CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 78 QVTVIYEDI--DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~~--~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
+|+++..+- .+. ..+...+++.+++.|.++.....-...+..+....++.+.+.++|.|++.....+....++.+.+
T Consensus 1 ~Igvi~~~~~~~f~-~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~~~ 79 (268)
T cd06306 1 KLCVLYPHLKDAYW-LSVNYGMVEEAKRLGVSLKLLEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQVA 79 (268)
T ss_pred CeEEEcCCCCCHHH-HHHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHHHH
Confidence 467777642 232 33478888999999988766432111111134456777777899998886543333225677777
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.|+
T Consensus 80 ~gi 82 (268)
T cd06306 80 ASI 82 (268)
T ss_pred CCC
Confidence 776
No 341
>cd06316 PBP1_ABC_sugar_binding_like_7 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=58.15 E-value=30 Score=34.73 Aligned_cols=80 Identities=8% Similarity=0.164 Sum_probs=48.7
Q ss_pred EEEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHH
Q 043468 78 QVTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~ 155 (720)
||+++..+.. .....+...+++.+++.|.++..... ...........++.+...++|.|++... .......++++.+
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~-~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~~~~ 79 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATTD-AQFDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKKVAE 79 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEecC-CCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHHHHH
Confidence 4677765432 22233467888889999988753321 2222213445666666778998877543 3334677888888
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.|.
T Consensus 80 ~~i 82 (294)
T cd06316 80 AGI 82 (294)
T ss_pred cCC
Confidence 776
No 342
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=57.97 E-value=99 Score=24.93 Aligned_cols=62 Identities=15% Similarity=0.123 Sum_probs=39.8
Q ss_pred HHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc---CHHHHHHHHHHHHHcCC
Q 043468 94 LPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL---SLELAVHLFEKANKMKM 158 (720)
Q Consensus 94 ~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~---~~~~~~~~l~~a~~~g~ 158 (720)
...+++.+++.|++.... .-..+.. .-...+...- .++|+||+.. +......+-++|++.+.
T Consensus 12 ~~~~~~~~~~~G~~~~~h-g~~~~~~-~~~~~l~~~i-~~aD~VIv~t~~vsH~~~~~vk~~akk~~i 76 (97)
T PF10087_consen 12 ERRYKRILEKYGGKLIHH-GRDGGDE-KKASRLPSKI-KKADLVIVFTDYVSHNAMWKVKKAAKKYGI 76 (97)
T ss_pred HHHHHHHHHHcCCEEEEE-ecCCCCc-cchhHHHHhc-CCCCEEEEEeCCcChHHHHHHHHHHHHcCC
Confidence 789999999999987776 2122221 2332344322 3678777644 56777777777888776
No 343
>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=57.67 E-value=40 Score=33.93 Aligned_cols=80 Identities=13% Similarity=0.049 Sum_probs=50.0
Q ss_pred EEEEEEEc-CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHH
Q 043468 78 QVTVIYED-IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~-~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~ 155 (720)
+|+++..+ ++.+...+.+.+++.+++.|.++........... .....++.+.+.++|.|++... .+.....++++.+
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~~~~~d~~-~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~ 79 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVGPTTADAA-GQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKARE 79 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEECCCCCCHH-HHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHH
Confidence 35666643 2222234578899999999988764322111111 4556777777789998888653 3444677788887
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.+.
T Consensus 80 ~~i 82 (298)
T cd06302 80 AGI 82 (298)
T ss_pred CCC
Confidence 776
No 344
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=57.40 E-value=60 Score=28.07 Aligned_cols=84 Identities=14% Similarity=0.255 Sum_probs=49.7
Q ss_pred EEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC----H----HHHHHHH
Q 043468 79 VTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS----L----ELAVHLF 150 (720)
Q Consensus 79 v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~----~----~~~~~~l 150 (720)
|.|+|.+..+..+.+++.+.+.+++.|.++.... +. .. +.. ++. +.|.|++.++ + .....++
T Consensus 1 v~Iiy~S~tGnT~~~A~~i~~~~~~~g~~v~~~~-~~--~~-~~~----~l~--~~d~iilgspty~~g~~p~~~~~~f~ 70 (140)
T TIGR01753 1 ILIVYASMTGNTEEMANIIAEGLKEAGAEVDLLE-VA--DA-DAE----DLL--SYDAVLLGCSTWGDEDLEQDDFEPFF 70 (140)
T ss_pred CEEEEECCCcHHHHHHHHHHHHHHhcCCeEEEEE-cc--cC-CHH----HHh--cCCEEEEEcCCCCCCCCCcchHHHHH
Confidence 4578877665555567888888888887754332 11 11 221 333 3677776541 1 3556777
Q ss_pred HHHHHcCCCCCCeEEEEeCccc
Q 043468 151 EKANKMKMMEKDYIWITTDAFT 172 (720)
Q Consensus 151 ~~a~~~g~~~~~~~~i~~~~~~ 172 (720)
....+..+.++.+.++++..+.
T Consensus 71 ~~l~~~~~~gk~~~vfgt~g~~ 92 (140)
T TIGR01753 71 EELEDIDLGGKKVALFGSGDWG 92 (140)
T ss_pred HHhhhCCCCCCEEEEEecCCCC
Confidence 7777666666666666665543
No 345
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=57.39 E-value=1.2e+02 Score=30.62 Aligned_cols=70 Identities=13% Similarity=0.112 Sum_probs=45.8
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..++++.+.+.. +.++++. . ++-+.+.+.|.+|++|+++..... .....+. +.|+.....+++++...
T Consensus 106 ~~l~~~l~~~~~~~P~i~i~i~--~--~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~l~-~~~l~~~~~~~~~~~~~ 176 (309)
T PRK12682 106 YVLPRVVAAFRKRYPKVNLSLH--Q--GSPDEIARMVISGEADIGIATESL--ADDPDLA-TLPCYDWQHAVIVPPDH 176 (309)
T ss_pred HHHHHHHHHHHHhCCCeEEEEe--c--CCHHHHHHHHHcCCccEEEecCcc--cCCCcce-EEEeeeeeEEEEecCCC
Confidence 45667888887765 3443333 2 234789999999999999853221 1112333 45788888888887764
No 346
>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=57.38 E-value=58 Score=29.40 Aligned_cols=81 Identities=10% Similarity=0.079 Sum_probs=49.7
Q ss_pred CeEEEEEEEcCCCc---ccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhh-cCCCeEEEEEc-----CHHHH
Q 043468 76 WHQVTVIYEDIDSS---ATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLK-GGQCRVFVVHL-----SLELA 146 (720)
Q Consensus 76 ~~~v~ii~~~~~~g---~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~-~~~~~vvil~~-----~~~~~ 146 (720)
.-++++|...|.-+ +.. ...+...+++.|.++.....++.... .+.+.+++.. ..++|+|+..+ ..+.+
T Consensus 4 ~~rv~vit~~d~~~~~~d~n-~~~l~~~L~~~G~~v~~~~iv~Dd~~-~i~~~l~~~~~~~~~DlVIttGGtg~g~~D~t 81 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTS-GQYLVERLTEAGHRLADRAIVKDDIY-QIRAQVSAWIADPDVQVILITGGTGFTGRDVT 81 (163)
T ss_pred ccEEEEEEEeCcCCccCCCc-HHHHHHHHHHCCCeEEEEEEcCCCHH-HHHHHHHHHHhcCCCCEEEECCCcCCCCCCCc
Confidence 35788876655421 122 56788889999999887777665433 5666666654 35789988754 23444
Q ss_pred HHHHHHHHHcCC
Q 043468 147 VHLFEKANKMKM 158 (720)
Q Consensus 147 ~~~l~~a~~~g~ 158 (720)
.+.++.+-+..+
T Consensus 82 ~eal~~l~~~~l 93 (163)
T TIGR02667 82 PEALEPLFDKTV 93 (163)
T ss_pred HHHHHHHHCCcC
Confidence 555554433333
No 347
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=57.15 E-value=36 Score=33.83 Aligned_cols=80 Identities=14% Similarity=0.066 Sum_probs=49.1
Q ss_pred EEEEEEEcC---CCcccCcHHHHHHHHHHcCcEEEEEEecCCC--CcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHH
Q 043468 78 QVTVIYEDI---DSSATGILPHLSDALREAGAEIIHVLALPHF--PSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEK 152 (720)
Q Consensus 78 ~v~ii~~~~---~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~ 152 (720)
||++|..+. ++. ..+.+.+.+.+++.|.++......... +.......++.+.+.++|.|++..........++.
T Consensus 1 ~Igvi~~~~~~~~~~-~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~ 79 (280)
T cd06303 1 KIAVIYPGQQISDYW-VRNIASFTARLEELNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIER 79 (280)
T ss_pred CeeEEecCccHHHHH-HHHHHHHHHHHHHcCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHH
Confidence 477777652 333 334788899999999877654322211 11144556677778899998886543333455666
Q ss_pred HHHcCC
Q 043468 153 ANKMKM 158 (720)
Q Consensus 153 a~~~g~ 158 (720)
+.+.+.
T Consensus 80 l~~~~~ 85 (280)
T cd06303 80 VLASGK 85 (280)
T ss_pred HHhCCC
Confidence 666654
No 348
>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=57.15 E-value=34 Score=33.71 Aligned_cols=79 Identities=13% Similarity=0.120 Sum_probs=50.9
Q ss_pred EEEEEEEcCC-CcccCcHHHHHHHHHH-cCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHH
Q 043468 78 QVTVIYEDID-SSATGILPHLSDALRE-AGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKAN 154 (720)
Q Consensus 78 ~v~ii~~~~~-~g~~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~ 154 (720)
+|+++..+.. ..-..+.+.+.+.+++ .|+++..... ..+.......++++.+.++|.+++... .+.....+..+.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~--~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l~ 78 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDA--KNDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAAN 78 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCC--CCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHHH
Confidence 4677776432 2223447888899999 8988776432 122225556777777789998887653 333456777777
Q ss_pred HcCC
Q 043468 155 KMKM 158 (720)
Q Consensus 155 ~~g~ 158 (720)
+.+.
T Consensus 79 ~~~i 82 (272)
T cd06301 79 AAGI 82 (272)
T ss_pred HCCC
Confidence 7776
No 349
>PRK08105 flavodoxin; Provisional
Probab=57.01 E-value=54 Score=29.09 Aligned_cols=83 Identities=17% Similarity=0.131 Sum_probs=50.4
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-------CHHHHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-------SLELAVHL 149 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-------~~~~~~~~ 149 (720)
+++.|+|....+..+.+++.+.+.+.+.|.++..... . ++ ..+...+.+.+++.+ .++++..|
T Consensus 2 ~~i~I~YgS~tGnte~~A~~l~~~l~~~g~~~~~~~~-~-----~~----~~~~~~~~~~vi~~~sT~G~Ge~p~~~~~f 71 (149)
T PRK08105 2 AKVGIFVGTVYGNALLVAEEAEAILTAQGHEVTLFED-P-----EL----SDWQPYQDELVLVVTSTTGQGDLPDSIVPL 71 (149)
T ss_pred CeEEEEEEcCchHHHHHHHHHHHHHHhCCCceEEech-h-----hC----CchhcccCCeEEEEECCCCCCCCChhHHHH
Confidence 4789999988776677789999999999887643321 1 11 122222234444322 34677888
Q ss_pred HHHHHHc--CCCCCCeEEEEeC
Q 043468 150 FEKANKM--KMMEKDYIWITTD 169 (720)
Q Consensus 150 l~~a~~~--g~~~~~~~~i~~~ 169 (720)
+..+.+. .+.+..+..++.+
T Consensus 72 ~~~l~~~~~~l~~~~~avfGlG 93 (149)
T PRK08105 72 FQALKDTAGYQPNLRYGVIALG 93 (149)
T ss_pred HHHHHhcCcccCCCEEEEEeee
Confidence 8887765 4555455555543
No 350
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=56.81 E-value=1.7e+02 Score=29.34 Aligned_cols=154 Identities=14% Similarity=0.096 Sum_probs=83.1
Q ss_pred cccccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecCh----HHHHHHHHHHHHhCC--
Q 043468 2 DLMDSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQ----LAQMKAIAAIVQSWE-- 75 (720)
Q Consensus 2 ~Li~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~----~~~~~~~~~~l~~~~-- 75 (720)
.+|.+.-=+.||+|..+.....+.+.+...+||+|++. ..+.+..+.|. +.... ..|+.+++..++...
T Consensus 76 n~i~qg~~vlvi~a~d~~~l~~~i~~A~~~gikViaYD---RlI~n~dvd~Y--vsFDN~~VG~lQa~~l~~~lk~k~~~ 150 (341)
T COG4213 76 NMINQGVKVLVIGAIDGGVLSNAVEKAKSEGIKVIAYD---RLINNADVDFY--VSFDNEKVGELQAKALVKGLKLKPLT 150 (341)
T ss_pred HHHhcCCCEEEEEeccchhHHHHHHHHHHcCCeEEEee---cccccCCccEE--EEecchhHHHHHHHHHHHHhccCCCC
Confidence 35543333456899999999999999999999999763 33333333333 33333 346667766665543
Q ss_pred -CeEEEEEEEcCCCc-ccCcHHHHHHHHH---HcC-cEEEEEEecCCCCcccHHHHHHHhh---cCCCeEEEEEcCHHHH
Q 043468 76 -WHQVTVIYEDIDSS-ATGILPHLSDALR---EAG-AEIIHVLALPHFPSSRLSEELEKLK---GGQCRVFVVHLSLELA 146 (720)
Q Consensus 76 -~~~v~ii~~~~~~g-~~~~~~~~~~~~~---~~g-~~v~~~~~~~~~~~~d~~~~l~~i~---~~~~~vvil~~~~~~~ 146 (720)
-..+.++..+.+.. ...+....-+-|+ +.| +.++.....+.=....-.+.+..+. ..+.|.|+-..+ ..+
T Consensus 151 ~~gn~~l~~GSp~DnNA~lf~~G~m~VLkp~idsGkik~~Ge~~~d~W~ps~Aq~~men~lta~~~~vdaVvA~nD-gta 229 (341)
T COG4213 151 SEGNYVLLGGSPDDNNAKLFFAGAMKVLKPLIDSGKIKVVGEQWTDGWLPSNAQQIMENLLTANYNDIDAVVAPND-GTA 229 (341)
T ss_pred CCCCEEEecCCCCCcchHHHHhcHHHHHHHHhhCCceEEeeeccccccCHHHHHHHHHHHHhcccCceeEEEcCCC-chh
Confidence 44555565432211 1111222333333 334 4443333222111112223333332 235677666656 666
Q ss_pred HHHHHHHHHcCCCCC
Q 043468 147 VHLFEKANKMKMMEK 161 (720)
Q Consensus 147 ~~~l~~a~~~g~~~~ 161 (720)
...+..+...|+.++
T Consensus 230 gGaI~aL~a~Gl~g~ 244 (341)
T COG4213 230 GGAIAALKAQGLAGK 244 (341)
T ss_pred HHHHHHHHhcccCCC
Confidence 777888888999744
No 351
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=56.57 E-value=88 Score=30.55 Aligned_cols=91 Identities=20% Similarity=0.155 Sum_probs=65.2
Q ss_pred HHHHHHHHHHHHhCC--CeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcc-cHHHHHHHhhcCCCeEE
Q 043468 61 LAQMKAIAAIVQSWE--WHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSS-RLSEELEKLKGGQCRVF 137 (720)
Q Consensus 61 ~~~~~~~~~~l~~~~--~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~-d~~~~l~~i~~~~~~vv 137 (720)
...++.+++.+.... .+++.++-.+.. ...+.+.+.+.|++|.....|...... +.......++..+.|+
T Consensus 106 ~~~~~~l~~~l~~~~~~~~~vl~~~~~~~------r~~l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~~~~~~d~- 178 (248)
T COG1587 106 DGDSEGLLEELPELLKGGKRVLILRGNGG------REVLEEKLEERGAEVREVEVYRTEPPPLDEATLIELLKLGEVDA- 178 (248)
T ss_pred ccchHHHHHHhhhhccCCCeEEEEcCCCc------hHHHHHHHHhCCCEEEEEeeeeecCCCccHHHHHHHHHhCCCCE-
Confidence 556778888876654 367766644332 468999999999999999888765542 4334456677778888
Q ss_pred EEEcCHHHHHHHHHHHHHcCC
Q 043468 138 VVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 138 il~~~~~~~~~~l~~a~~~g~ 158 (720)
++..++..+..|+..+.+.+.
T Consensus 179 v~ftS~~~v~~~~~~~~~~~~ 199 (248)
T COG1587 179 VVFTSSSAVRALLALAPESGI 199 (248)
T ss_pred EEEeCHHHHHHHHHHccccch
Confidence 556778889999988887664
No 352
>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=56.44 E-value=1.6e+02 Score=26.76 Aligned_cols=69 Identities=10% Similarity=0.155 Sum_probs=44.8
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.+ +.... ++...+++.|.+|++|+++..... ....+. ..++.....++++++..
T Consensus 14 ~~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~ 83 (200)
T cd08411 14 YLLPRLLPALRQAYPKLR--LYLRE--DQTERLLEKLRSGELDAALLALPV---DEPGLE-EEPLFDEPFLLAVPKDH 83 (200)
T ss_pred hhhHHHHHHHHHHCCCcE--EEEEe--CcHHHHHHHHHcCCccEEEEeccC---CCCCce-EEEeeccceEEEecCCC
Confidence 45677888887775 344 44333 245789999999999999853221 122233 35777788888887654
No 353
>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=56.21 E-value=30 Score=33.72 Aligned_cols=76 Identities=20% Similarity=0.166 Sum_probs=48.9
Q ss_pred EEEEEEc--CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 79 VTVIYED--IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~--~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
++++..+ +.+. ..+.+.+++.+++.|+++..... ..+.+...+.++++.+.++|.|++......... ++.+.+.
T Consensus 2 i~~v~~~~~~~~~-~~~~~g~~~~~~~~g~~~~~~~~--~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~ 77 (264)
T cd06267 2 IGVIVPDISNPFF-AELLRGIEEAAREAGYSVLLCNS--DEDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELAAL 77 (264)
T ss_pred EEEEECCCCCHHH-HHHHHHHHHHHHHcCCEEEEEcC--CCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHHHc
Confidence 5666655 3333 33478888889889988765422 221114566777787889999888665444444 7777777
Q ss_pred CC
Q 043468 157 KM 158 (720)
Q Consensus 157 g~ 158 (720)
|.
T Consensus 78 ~i 79 (264)
T cd06267 78 GI 79 (264)
T ss_pred CC
Confidence 76
No 354
>PF14981 FAM165: FAM165 family
Probab=56.18 E-value=33 Score=22.80 Aligned_cols=33 Identities=9% Similarity=-0.011 Sum_probs=25.3
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 043468 679 PSGFWVLFVLSGGISTIALVIFLWRCNWKINEN 711 (720)
Q Consensus 679 l~~~~~~f~il~~g~~ls~~v~~~E~~~~~~~~ 711 (720)
++++--++||++.--++-|+.|..-.+|.+++.
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~krl 35 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKRL 35 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 456667889999888888888888777766544
No 355
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=56.17 E-value=62 Score=31.75 Aligned_cols=76 Identities=9% Similarity=0.121 Sum_probs=46.2
Q ss_pred EEEEEEc----CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHH
Q 043468 79 VTVIYED----IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKAN 154 (720)
Q Consensus 79 v~ii~~~----~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~ 154 (720)
|+++..+ ++.....+.+.+++.+++.|.++..... ..... .....+..+.+.++|.|++.....+ ..+..+.
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~~~~~-~~~~~~~~l~~~~vdgiii~~~~~~--~~~~~l~ 77 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKFV-SDEDE-EEFELPSFLEDGKVDGIILLGGIST--EYIKEIK 77 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEeC-CCChH-HHHHHHHHHHHCCCCEEEEeCCCCh--HHHHHHh
Confidence 5666655 2322244478889999999988765532 21111 3344556677789999988664333 2366677
Q ss_pred HcCC
Q 043468 155 KMKM 158 (720)
Q Consensus 155 ~~g~ 158 (720)
+.+.
T Consensus 78 ~~~i 81 (268)
T cd06277 78 ELGI 81 (268)
T ss_pred hcCC
Confidence 7665
No 356
>COG4588 AcfC Accessory colonization factor AcfC, contains ABC-type periplasmic domain [General function prediction only]
Probab=56.15 E-value=1.5e+02 Score=27.51 Aligned_cols=71 Identities=13% Similarity=0.088 Sum_probs=41.3
Q ss_pred EeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeec---cceeeeeec----ccccccceEEEEe
Q 043468 379 FSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVA---RRCQYADFT----HPYTESGLVMIFP 451 (720)
Q Consensus 379 ~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~---~r~~~~~fs----~p~~~~~~~~~v~ 451 (720)
-..|+.+...++.+..+.+..-|. .+|.+- ..+.+|+.+++-..+- .+.-.=+|| .|++.-...++|+
T Consensus 34 aL~~vA~~~~ektg~kVnvt~GPq-~tW~~k----AkknADilfgaseqsalaia~~~~~~fs~~~i~ply~R~aiIlvk 108 (252)
T COG4588 34 ALKDVAKKYEEKTGIKVNVTAGPQ-ATWNEK----AKKNADILFGASEQSALAIAEDHKDSFSEKNIQPLYLRPAIILVK 108 (252)
T ss_pred HHHHHHHHHHHHhCeEEEEecCCc-chhhhh----hhccCceeecccHHHHHHHHHhccccccccccceeeeeceEEEec
Confidence 346778888888898877766563 367643 5788999876432110 000000122 4666666666666
Q ss_pred ccc
Q 043468 452 VQK 454 (720)
Q Consensus 452 ~~~ 454 (720)
+.+
T Consensus 109 kgN 111 (252)
T COG4588 109 KGN 111 (252)
T ss_pred CCC
Confidence 664
No 357
>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=56.12 E-value=31 Score=31.53 Aligned_cols=70 Identities=10% Similarity=0.118 Sum_probs=45.5
Q ss_pred EEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+...++..+.++.. .+++.... ++...+.+.|.+|++|+++..... ....+. +.++.....+++++++.
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~ 83 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLRE--MPQERIEAALADDRLDLGIAFAPV---RSPDID-AQPLFDERLALVVGATH 83 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE--CcHHHHHHHHHcCCccEEEEecCC---CCCCcE-EEEeccccEEEEecCCC
Confidence 445678888887753 23344433 234778999999999999853322 223333 46788888888887664
No 358
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=56.08 E-value=45 Score=32.65 Aligned_cols=77 Identities=12% Similarity=0.119 Sum_probs=47.8
Q ss_pred EEEEEEc--CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 79 VTVIYED--IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~--~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
|+++..+ +.+. ..+.+.+++.+++.|+++.... ...+...-...++++.+.++|.|++.....+....++.+.+.
T Consensus 2 I~vi~~~~~~~~~-~~~~~g~~~~a~~~g~~~~~~~--~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (268)
T cd06289 2 IGLVINDLTNPFF-AELAAGLEEVLEEAGYTVFLAN--SGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAES 78 (268)
T ss_pred EEEEecCCCcchH-HHHHHHHHHHHHHcCCeEEEec--CCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhc
Confidence 5666653 2233 3347888889999998875431 111121445677778788999888865433333467777777
Q ss_pred CC
Q 043468 157 KM 158 (720)
Q Consensus 157 g~ 158 (720)
|.
T Consensus 79 ~i 80 (268)
T cd06289 79 GI 80 (268)
T ss_pred CC
Confidence 76
No 359
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=55.94 E-value=50 Score=32.71 Aligned_cols=115 Identities=14% Similarity=0.104 Sum_probs=65.8
Q ss_pred CCcEEecc-cCCcccccCCCCeEEEeecChHHHHHHHHHH-HHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEE
Q 043468 32 QIPVLSFA-DATPNWATERWPFLLQASQNQLAQMKAIAAI-VQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEII 109 (720)
Q Consensus 32 ~ip~is~~-~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~-l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~ 109 (720)
+++++..| +|+..+...++.- -..|. ...++.++++ +.....++|.++-.+ .| ...+.+.+++.|.+|.
T Consensus 95 ~~~~~AVG~~TA~aL~~~G~~~--~~~P~-~~~se~Ll~l~~~~~~g~~vLi~rg~--~g----r~~L~~~L~~~G~~V~ 165 (266)
T PRK08811 95 RAHWLSVGEGTARALQACGIDE--VVRPT-RMDSEGLLALPLAQAPLQAVGLITAP--GG----RGLLAPTLQQRGARIL 165 (266)
T ss_pred CCeEEEECHHHHHHHHHcCCCc--eeCCC-CCCcHHHHhChhhhCCCCEEEEEeCC--Cc----HHHHHHHHHHCCCEEe
Confidence 55555555 3333343322111 23344 3447777776 554455677666443 22 5789999999999998
Q ss_pred EEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 110 HVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 110 ~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
....|.......-...+..+...+...+++++++..+..|++.+.+
T Consensus 166 ~~~vY~~~~~~~~~~~~~~l~~~~~~d~i~ftS~sav~~f~~~l~~ 211 (266)
T PRK08811 166 RADVYQRVPLRLRASTLAALSRAAPRSVLALSSAEALTLILQQLPD 211 (266)
T ss_pred EEEEEeeeCCCCCHHHHHHHHHhCCCCEEEEChHHHHHHHHHHhhh
Confidence 8877754332111134444433344445777778888888776643
No 360
>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=55.40 E-value=54 Score=32.18 Aligned_cols=78 Identities=13% Similarity=0.146 Sum_probs=46.5
Q ss_pred EEEEEEcC--CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 79 VTVIYEDI--DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~~--~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
|+++..+. .++ ..+.+.+++.+++.|.++........... .....++.+...++|.|++..........++.+.+.
T Consensus 2 I~vi~~~~~~~~~-~~~~~gi~~~~~~~g~~~~~~~~~~~~~~-~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 79 (270)
T cd01545 2 IGLLYDNPSPGYV-SEIQLGALDACRDTGYQLVIEPCDSGSPD-LAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEA 79 (270)
T ss_pred EEEEEcCCCcccH-HHHHHHHHHHHHhCCCeEEEEeCCCCchH-HHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhc
Confidence 56666542 233 33478888999999988765533211111 344455567677899888754322234566777776
Q ss_pred CC
Q 043468 157 KM 158 (720)
Q Consensus 157 g~ 158 (720)
+.
T Consensus 80 ~i 81 (270)
T cd01545 80 GV 81 (270)
T ss_pred CC
Confidence 65
No 361
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=55.35 E-value=1.4e+02 Score=26.05 Aligned_cols=77 Identities=22% Similarity=0.220 Sum_probs=53.6
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc----CHHHHHHHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL----SLELAVHLFEK 152 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~----~~~~~~~~l~~ 152 (720)
.+|.+.-.--+....+ .+-+...+.+.|++|...-.++ .....+....+.++++|.+++ .-+....+..+
T Consensus 13 prvlvak~GlDgHd~g-akvia~~l~d~GfeVi~~g~~~-----tp~e~v~aA~~~dv~vIgvSsl~g~h~~l~~~lve~ 86 (143)
T COG2185 13 PRVLVAKLGLDGHDRG-AKVIARALADAGFEVINLGLFQ-----TPEEAVRAAVEEDVDVIGVSSLDGGHLTLVPGLVEA 86 (143)
T ss_pred ceEEEeccCccccccc-hHHHHHHHHhCCceEEecCCcC-----CHHHHHHHHHhcCCCEEEEEeccchHHHHHHHHHHH
Confidence 3444444333333355 8899999999999987764433 345677777778999998876 34666777888
Q ss_pred HHHcCCC
Q 043468 153 ANKMKMM 159 (720)
Q Consensus 153 a~~~g~~ 159 (720)
+++.|..
T Consensus 87 lre~G~~ 93 (143)
T COG2185 87 LREAGVE 93 (143)
T ss_pred HHHhCCc
Confidence 9999984
No 362
>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=55.35 E-value=28 Score=33.50 Aligned_cols=116 Identities=20% Similarity=0.242 Sum_probs=73.5
Q ss_pred CCCcEEecc-cCCcccccCCCCeEEEeecChHHHHHHHHHHHHh-CCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEE
Q 043468 31 KQIPVLSFA-DATPNWATERWPFLLQASQNQLAQMKAIAAIVQS-WEWHQVTVIYEDIDSSATGILPHLSDALREAGAEI 108 (720)
Q Consensus 31 ~~ip~is~~-~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~-~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v 108 (720)
.+++++..| .|...+...+..-. ..|+....++.+++.+.. ...+++.++..+.. ...+.+.+++.|.+|
T Consensus 72 ~~~~i~avG~~Ta~~l~~~G~~~~--~~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~~------~~~l~~~L~~~g~~v 143 (231)
T PF02602_consen 72 KNIKIFAVGPKTAEALREYGFQPD--FVPSSEGSSEGLAELLKEQLRGKRVLILRGEGG------RPDLPEKLREAGIEV 143 (231)
T ss_dssp HHSEEEESSHHHHHHHHHTT-EEC--EE-TTSSSHHHHHGGHHHCCTTEEEEEEESSSS------CHHHHHHHHHTTEEE
T ss_pred cCCeEEEEcHHHHHHHHHcCCCcc--ccCCCCCCHHHHHHHHHhhCCCCeEEEEcCCCc------cHHHHHHHHHCCCeE
Confidence 366777666 33444443222221 256645567888888764 44578777654432 578889999999999
Q ss_pred EEEEecCCCCcc-cHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 109 IHVLALPHFPSS-RLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 109 ~~~~~~~~~~~~-d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
.....|.. ... ........+...+.|+ ++..++..+..+++...+.
T Consensus 144 ~~~~vY~~-~~~~~~~~~~~~l~~~~~~~-v~ftS~~~~~~~~~~~~~~ 190 (231)
T PF02602_consen 144 TEVIVYET-PPEELSPELKEALDRGEIDA-VVFTSPSAVRAFLELLKKN 190 (231)
T ss_dssp EEEECEEE-EEHHHHHHHHHHHHHTTTSE-EEESSHHHHHHHHHHSSGH
T ss_pred EEEEEeec-ccccchHHHHHHHHcCCCCE-EEECCHHHHHHHHHHhHhh
Confidence 99888876 222 3344555566667777 5667778888888776653
No 363
>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=55.23 E-value=1.6e+02 Score=26.58 Aligned_cols=69 Identities=7% Similarity=0.031 Sum_probs=45.1
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++. . ++...++..+.+|++|+++...... ...+. +.++.....++++++..
T Consensus 13 ~~l~~~l~~~~~~~P~i~l~i~--~--~~~~~~~~~l~~~~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~h 82 (199)
T cd08426 13 ELLPSLIARFRQRYPGVFFTVD--V--ASTADVLEAVLSGEADIGLAFSPPP---EPGIR-VHSRQPAPIGAVVPPGH 82 (199)
T ss_pred HHHHHHHHHHHHhCCCeEEEEE--e--CCcHHHHHHHHCCCccEEEecCCCC---CCCeE-EEeeccCcEEEEecCCC
Confidence 44567777777765 4443333 2 2347899999999999998533221 12233 46788888888887654
No 364
>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=55.08 E-value=40 Score=32.54 Aligned_cols=78 Identities=19% Similarity=0.127 Sum_probs=49.8
Q ss_pred EEEEEEEcC--C-CcccCcHHHHHHHHHH--cCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHH
Q 043468 78 QVTVIYEDI--D-SSATGILPHLSDALRE--AGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEK 152 (720)
Q Consensus 78 ~v~ii~~~~--~-~g~~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~ 152 (720)
+|+++.... . ++ ..+.+.+++.+++ .++++..... .....+....++++...++|.|++.............
T Consensus 1 ~Ig~i~~~~~~~~~~-~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~ 77 (269)
T cd01391 1 KIGVLLPLSGSAPFG-AQLLAGIELAAEEIGRGLEVILADS--QSDPERALEALRDLIQQGVDGIIGPPSSSSALAVVEL 77 (269)
T ss_pred CceEEeecCCCcHHH-HHHHHHHHHHHHHhCCceEEEEecC--CCCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHHHH
Confidence 467777655 2 33 3336788888888 6766554432 1111156677777777799999887665555556777
Q ss_pred HHHcCC
Q 043468 153 ANKMKM 158 (720)
Q Consensus 153 a~~~g~ 158 (720)
+.+.+.
T Consensus 78 ~~~~~i 83 (269)
T cd01391 78 AAAAGI 83 (269)
T ss_pred HHHcCC
Confidence 777665
No 365
>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=55.06 E-value=50 Score=33.01 Aligned_cols=78 Identities=21% Similarity=0.188 Sum_probs=51.7
Q ss_pred EEEEEEcC-CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-CHHHHHHHHHHHHHc
Q 043468 79 VTVIYEDI-DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-SLELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~~-~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-~~~~~~~~l~~a~~~ 156 (720)
|+++..+. +.+-..+.+.+++.+++.|+++...... .+.......++.+.+.++|.|++.. ..+.....++++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~~ 79 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNAN--GDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKAADA 79 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECCC--CCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHHC
Confidence 67777642 2222344789999999999987664321 1111455777777778999888764 445556778888887
Q ss_pred CC
Q 043468 157 KM 158 (720)
Q Consensus 157 g~ 158 (720)
|.
T Consensus 80 ~i 81 (288)
T cd01538 80 GI 81 (288)
T ss_pred CC
Confidence 75
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=55.03 E-value=43 Score=32.67 Aligned_cols=79 Identities=15% Similarity=0.156 Sum_probs=49.8
Q ss_pred EEEEEEEcC-CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHH
Q 043468 78 QVTVIYEDI-DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~~-~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~ 155 (720)
+|++|..+. +.+...+.+.+++.+++.|+++.....- .+.......++++...++|.|++... .......+..+.+
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~~--~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~l~~ 78 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDAQ--NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKKANA 78 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECCC--CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHHHHH
Confidence 467887653 3222334788888999999887554321 12214556777777779998887653 3333446677776
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.+.
T Consensus 79 ~~i 81 (267)
T cd01536 79 AGI 81 (267)
T ss_pred CCC
Confidence 665
No 367
>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=54.87 E-value=30 Score=33.64 Aligned_cols=78 Identities=17% Similarity=0.198 Sum_probs=48.8
Q ss_pred EEEEEEEcC-C-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 78 QVTVIYEDI-D-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~~-~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
+++++.... . ++ ..+.+.+++.+++.|+++..... ..+.+.....++++.+.++|.|++..........+..+.+
T Consensus 1 ~ig~v~~~~~~~~~-~~~~~g~~~~~~~~g~~l~~~~~--~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~ 77 (264)
T cd01537 1 TIGVLVPDLDNPFF-AQVLKGIEEAAKAAGYQVLLANS--QNDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLARK 77 (264)
T ss_pred CeEEEEcCCCChHH-HHHHHHHHHHHHHcCCeEEEEeC--CCCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhhh
Confidence 467777652 2 33 33478888999999987654432 1111146677777777799988876543333335666666
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.+.
T Consensus 78 ~~i 80 (264)
T cd01537 78 AGI 80 (264)
T ss_pred cCC
Confidence 665
No 368
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=54.87 E-value=2.3e+02 Score=28.34 Aligned_cols=85 Identities=8% Similarity=-0.008 Sum_probs=51.6
Q ss_pred CCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCC-CccceEEecCCCCHHHHHHHHHhCCccEEeee
Q 043468 346 DQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLP-FYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGD 424 (720)
Q Consensus 346 ~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~-~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~ 424 (720)
.+.++||+.. .+. ..+..+++..+.++.- .++.+. . ++...+++.|.+|++|++++.
T Consensus 91 ~g~l~Ig~~~--~~~----------------~~~l~~~l~~~~~~~p~i~i~i~--~--~~~~~~~~~l~~g~~Dl~i~~ 148 (300)
T PRK11074 91 RGQLSIAVDN--IVR----------------PDRTRQLIVDFYRHFDDVELIIR--Q--EVFNGVWDALADGRVDIAIGA 148 (300)
T ss_pred CceEEEEEcC--ccc----------------hhHHHHHHHHHHHhCCCceEEEE--e--hhhhHHHHHHHCCCCCEEEec
Confidence 4789999832 221 1344567777776653 443333 2 234779999999999999853
Q ss_pred eeeeccceeeeeecccccccceEEEEeccc
Q 043468 425 VAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 425 ~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
... ......+. +.++....+++++++..
T Consensus 149 ~~~-~~~~~~l~-~~~l~~~~~~~v~~~~h 176 (300)
T PRK11074 149 TRA-IPVGGRFA-FRDMGMLSWACVVSSDH 176 (300)
T ss_pred Ccc-CCcccccc-eeecccceEEEEEcCCC
Confidence 221 11112222 35778888888887664
No 369
>PRK06703 flavodoxin; Provisional
Probab=53.29 E-value=84 Score=27.80 Aligned_cols=83 Identities=10% Similarity=0.103 Sum_probs=48.6
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-------HHHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-------LELAVHLF 150 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-------~~~~~~~l 150 (720)
++.|+|.+..+..+.+++.+.+.+++.|.++.... .. .. +.. .+. +.|.|++.++ +.....|+
T Consensus 3 kv~IiY~S~tGnT~~iA~~ia~~l~~~g~~v~~~~-~~--~~-~~~----~l~--~~d~viigspt~~~g~~p~~~~~f~ 72 (151)
T PRK06703 3 KILIAYASMSGNTEDIADLIKVSLDAFDHEVVLQE-MD--GM-DAE----ELL--AYDGIILGSYTWGDGDLPYEAEDFH 72 (151)
T ss_pred eEEEEEECCCchHHHHHHHHHHHHHhcCCceEEEe-hh--hC-CHH----HHh--cCCcEEEEECCCCCCcCcHHHHHHH
Confidence 68899988766556667888888888887654332 11 11 211 232 4566666442 33577788
Q ss_pred HHHHHcCCCCCCeEEEEeCc
Q 043468 151 EKANKMKMMEKDYIWITTDA 170 (720)
Q Consensus 151 ~~a~~~g~~~~~~~~i~~~~ 170 (720)
....+..+.++.+..+++..
T Consensus 73 ~~l~~~~l~~k~~~vfg~g~ 92 (151)
T PRK06703 73 EDLENIDLSGKKVAVFGSGD 92 (151)
T ss_pred HHHhcCCCCCCEEEEEccCC
Confidence 77766555554444444443
No 370
>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=53.08 E-value=46 Score=34.92 Aligned_cols=77 Identities=16% Similarity=0.069 Sum_probs=50.4
Q ss_pred CCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--CHHHHHHHHH
Q 043468 75 EWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL--SLELAVHLFE 151 (720)
Q Consensus 75 ~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~--~~~~~~~~l~ 151 (720)
+.+++.|+++....-..+..+.+.+.+++.|+++.....+.+..+ +.....++.+++.++|.||-.+ +.-|+.+.+.
T Consensus 22 ~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK~ia 101 (375)
T cd08179 22 KGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIALGGGSPIDAAKAMW 101 (375)
T ss_pred cCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHHHH
Confidence 457888887654432234478899999999987654333332222 2677788888889999988654 4455555544
No 371
>cd08197 DOIS 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes neomycin, kanamycin, gentamicin, and ribostamycin. They are important antibacterial agents. DOIS is a homologue of the dehydroquinate synthase which catalyzes the cyclization of 3-deoxy-D-arabino-heputulosonate-7-phosphate to dehydroquinate (DHQ) in the shikimate pathway.
Probab=52.83 E-value=1.5e+02 Score=30.92 Aligned_cols=98 Identities=17% Similarity=0.117 Sum_probs=60.1
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc----ccHHHHHHHhhcCCCe---EE
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS----SRLSEELEKLKGGQCR---VF 137 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~----~d~~~~l~~i~~~~~~---vv 137 (720)
..+.+.++.++.+++.++++.... ..+.+.+.+.+++.|+++... .++.+.. +.....+..+++.++| +|
T Consensus 12 ~~l~~~l~~~g~~rvlvVtd~~v~--~~~~~~l~~~L~~~g~~~~~~-~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~I 88 (355)
T cd08197 12 DSVLGYLPELNADKYLLVTDSNVE--DLYGHRLLEYLREAGAPVELL-SVPSGEEHKTLSTLSDLVERALALGATRRSVI 88 (355)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH--HHHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEE
Confidence 335566777777899888775543 224688999999998865332 2333222 1577778888888887 66
Q ss_pred EEEc--CHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 043468 138 VVHL--SLELAVHLFEKANKMKMMEKDYIWITT 168 (720)
Q Consensus 138 il~~--~~~~~~~~l~~a~~~g~~~~~~~~i~~ 168 (720)
+..+ ..-|+..++......|+ .++.+-|
T Consensus 89 IAvGGGsv~D~ak~~A~~~~rgi---p~I~IPT 118 (355)
T cd08197 89 VALGGGVVGNIAGLLAALLFRGI---RLVHIPT 118 (355)
T ss_pred EEECCcHHHHHHHHHHHHhccCC---CEEEecC
Confidence 6443 44566666554443344 4454444
No 372
>PRK05568 flavodoxin; Provisional
Probab=52.76 E-value=93 Score=27.08 Aligned_cols=84 Identities=11% Similarity=0.221 Sum_probs=50.7
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCH--------HHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSL--------ELAVH 148 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~--------~~~~~ 148 (720)
+++.|+|.+..+..+.+++.+.+.+++.|.++... .+.. . +.. .+ .++|.|++.++. .....
T Consensus 2 ~~~~IvY~S~~GnT~~~a~~i~~~~~~~g~~v~~~-~~~~--~-~~~----~~--~~~d~iilgsp~y~~~~~~~~~~~~ 71 (142)
T PRK05568 2 KKINIIYWSGTGNTEAMANLIAEGAKENGAEVKLL-NVSE--A-SVD----DV--KGADVVALGSPAMGDEVLEEGEMEP 71 (142)
T ss_pred CeEEEEEECCCchHHHHHHHHHHHHHHCCCeEEEE-ECCC--C-CHH----HH--HhCCEEEEECCccCcccccchhHHH
Confidence 47899998877666666788888888888765433 2322 1 221 23 367888876531 34667
Q ss_pred HHHHHHHcCCCCCCeEEEEeCcc
Q 043468 149 LFEKANKMKMMEKDYIWITTDAF 171 (720)
Q Consensus 149 ~l~~a~~~g~~~~~~~~i~~~~~ 171 (720)
|+...... +.++....+++.+|
T Consensus 72 f~~~~~~~-~~~k~~~~f~t~G~ 93 (142)
T PRK05568 72 FVESISSL-VKGKKLVLFGSYGW 93 (142)
T ss_pred HHHHhhhh-hCCCEEEEEEccCC
Confidence 77665432 33444555555554
No 373
>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=52.67 E-value=57 Score=32.09 Aligned_cols=78 Identities=15% Similarity=0.196 Sum_probs=48.0
Q ss_pred EEEEEEcC-CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 79 VTVIYEDI-DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 79 v~ii~~~~-~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
|+++..+- +..-..+.+.+.+.+++.|..+..... ..+.+.....++.+.+.++|.|++.....+...+++.+++.+
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~--~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~~ 79 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANS--LNDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALASLD 79 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeC--CCChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhCC
Confidence 56676542 222233478888999999988765432 111114556777787788998887654333345666677766
Q ss_pred C
Q 043468 158 M 158 (720)
Q Consensus 158 ~ 158 (720)
.
T Consensus 80 i 80 (269)
T cd06281 80 L 80 (269)
T ss_pred C
Confidence 5
No 374
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=52.61 E-value=55 Score=33.81 Aligned_cols=82 Identities=7% Similarity=0.066 Sum_probs=51.7
Q ss_pred CeEEEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-CHHHHHHHHHHH
Q 043468 76 WHQVTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-SLELAVHLFEKA 153 (720)
Q Consensus 76 ~~~v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-~~~~~~~~l~~a 153 (720)
-++|+++..+.. .+-..+.+.+++.+++.|.++.....-...+.+.....++.+.+.++|.|++.. ..+.....+ ++
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~~~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l-~~ 124 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGGYYNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL-EL 124 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-HH
Confidence 478998886532 222334788999999999887654321111111344667777778999888765 444444555 67
Q ss_pred HHcCC
Q 043468 154 NKMKM 158 (720)
Q Consensus 154 ~~~g~ 158 (720)
.+.|.
T Consensus 125 ~~~gi 129 (343)
T PRK10936 125 QAANI 129 (343)
T ss_pred HHCCC
Confidence 77765
No 375
>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=52.45 E-value=40 Score=30.60 Aligned_cols=69 Identities=9% Similarity=0.098 Sum_probs=45.9
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++. . ++...+.+.|.+|++|+++..... ....+. +.++.....++++++..
T Consensus 13 ~~l~~~l~~~~~~~p~v~i~i~--~--~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~~ 82 (197)
T cd08440 13 TLLPPVLAAFRRRHPGIRVRLR--D--VSAEQVIEAVRSGEVDFGIGSEPE---ADPDLE-FEPLLRDPFVLVCPKDH 82 (197)
T ss_pred hHHHHHHHHHHHhCCCcEEEEE--e--CChHHHHHHHHcCCccEEEEeCCC---CCCCee-EEEeecccEEEEecCCC
Confidence 55678888888775 3444343 2 245789999999999999854322 222233 35788888888887664
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=52.36 E-value=61 Score=31.69 Aligned_cols=76 Identities=18% Similarity=0.095 Sum_probs=48.6
Q ss_pred EEEEEEc--CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 79 VTVIYED--IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~--~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
|+++..+ +++. ..+.+.+.+.+++.|+++..... . .+.....+.++.+.+.++|.|++.....+. ..++++.+.
T Consensus 2 igvv~~~~~~~~~-~~~~~gi~~~~~~~g~~~~~~~~-~-~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~~~ 77 (265)
T cd06299 2 IGVIVPDIRNPYF-ASLATAIQDAASAAGYSTIIGNS-D-ENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLLKR 77 (265)
T ss_pred EEEEecCCCCccH-HHHHHHHHHHHHHcCCEEEEEeC-C-CCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHHhC
Confidence 5666653 2233 33478889999999988775532 1 122145567778888899988886533222 347778777
Q ss_pred CC
Q 043468 157 KM 158 (720)
Q Consensus 157 g~ 158 (720)
|.
T Consensus 78 ~i 79 (265)
T cd06299 78 GI 79 (265)
T ss_pred CC
Confidence 76
No 377
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=52.06 E-value=1.2e+02 Score=29.27 Aligned_cols=113 Identities=12% Similarity=0.067 Sum_probs=67.8
Q ss_pred CCcEEecc-cCCcccccCCCCeEEEeecChHHHHHHHHHHHHhC--CCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEE
Q 043468 32 QIPVLSFA-DATPNWATERWPFLLQASQNQLAQMKAIAAIVQSW--EWHQVTVIYEDIDSSATGILPHLSDALREAGAEI 108 (720)
Q Consensus 32 ~ip~is~~-~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~--~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v 108 (720)
+++++..| .|+..+.+.++.-. .|. ...++.+++.+... ..+++.++..+. + .+.+.+.+++.|..|
T Consensus 75 ~~~~~aVG~~Ta~~l~~~G~~~~---~~~-~~~~e~L~~~~~~~~~~~~~vL~~rg~~-----~-r~~l~~~L~~~G~~v 144 (240)
T PRK09189 75 ALPLFAVGEATAEAARELGFRHV---IEG-GGDGVRLAETVAAALAPTARLLYLAGRP-----R-APVFEDRLAAAGIPF 144 (240)
T ss_pred CCeEEEEcHHHHHHHHHcCCCCC---cCC-CCCHHHHHHHHHHhcCCCCcEEEeccCc-----c-cchhHHHHHhCCCee
Confidence 56666665 33444443333322 233 23477788876442 456766664322 2 567888999999998
Q ss_pred EEEEecCCCCcc-cHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 109 IHVLALPHFPSS-RLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 109 ~~~~~~~~~~~~-d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
.....|...... +.......+++.+.|+|++.+ +..+..|++...+
T Consensus 145 ~~~~vY~~~~~~~~~~~~~~~l~~~~~d~i~f~S-~~~~~~f~~~~~~ 191 (240)
T PRK09189 145 RVAECYDMLPVMYSPATLSAILGGAPFDAVLLYS-RVAARRFFALMRL 191 (240)
T ss_pred EEEEEEEeecCCCChHHHHHHHhcCCCCEEEEeC-HHHHHHHHHHHhh
Confidence 887777433221 344555666667788866555 5568888877654
No 378
>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=51.89 E-value=1.9e+02 Score=26.37 Aligned_cols=69 Identities=14% Similarity=0.056 Sum_probs=45.1
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.+ +.... ++...+++.|.+|++|+++.... .. ...+. ..++....+++++++..
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~g~~D~~i~~~~--~~-~~~~~-~~~l~~~~~~~v~~~~h 82 (200)
T cd08467 13 ALLPRLAPRLRERAPGLD--LRLCP--IGDDLAERGLEQGTIDLAVGRFA--VP-PDGLV-VRRLYDDGFACLVRHGH 82 (200)
T ss_pred HHHHHHHHHHHhhCCCCE--EEEec--CCcccHHHHhhCCCcCEEEecCC--CC-Cccce-eEEeeeccEEEEEcCCC
Confidence 45667888887765 344 44333 23467899999999999984321 11 22333 35788888888887653
No 379
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=51.89 E-value=1.3e+02 Score=31.45 Aligned_cols=102 Identities=12% Similarity=0.148 Sum_probs=61.5
Q ss_pred CeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc----ccHHHHH
Q 043468 51 PFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS----SRLSEEL 126 (720)
Q Consensus 51 ~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~----~d~~~~l 126 (720)
|+-..+.+.. .+.+.+.++.++.+++.++++.... ..+.+.+.+.+++.|+++... .++.+.. +.....+
T Consensus 9 ~~~v~~G~g~---~~~l~~~l~~~~~~~~livtd~~~~--~~~~~~v~~~L~~~gi~~~~~-~~~~~e~~~~~~~v~~~~ 82 (358)
T PRK00002 9 SYPIIIGKGL---LSELGELLAPLKGKKVAIVTDETVA--PLYLEKLRASLEAAGFEVDVV-VLPDGEQYKSLETLEKIY 82 (358)
T ss_pred CCcEEEeCCh---HHHHHHHHHhcCCCeEEEEECCchH--HHHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHH
Confidence 4555555543 2446666777777899999865443 234788899999999876532 2232211 2566677
Q ss_pred HHhhcCCC---eEEEEEc--CHHHHHHHHHHHHHcCC
Q 043468 127 EKLKGGQC---RVFVVHL--SLELAVHLFEKANKMKM 158 (720)
Q Consensus 127 ~~i~~~~~---~vvil~~--~~~~~~~~l~~a~~~g~ 158 (720)
+.+++.++ |.|+..+ +.-|+..++......|.
T Consensus 83 ~~~~~~~~~r~d~IIavGGGsv~D~aK~iA~~~~~gi 119 (358)
T PRK00002 83 DALLEAGLDRSDTLIALGGGVIGDLAGFAAATYMRGI 119 (358)
T ss_pred HHHHHcCCCCCCEEEEEcCcHHHHHHHHHHHHhcCCC
Confidence 77766654 8877544 44566666554444444
No 380
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=51.83 E-value=1.1e+02 Score=30.07 Aligned_cols=32 Identities=6% Similarity=0.266 Sum_probs=22.3
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccCCCcEEe
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKKQIPVLS 37 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is 37 (720)
+.++.+++=|.+++.+.+...+-+..++|+|+
T Consensus 59 ~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~ 90 (251)
T TIGR00067 59 RHNIKLLVVACNTASALALEDLQRNFDFPVVG 90 (251)
T ss_pred hCCCCEEEEeCchHHHHHHHHHHHHCCCCEEe
Confidence 56777777677776656666666666788776
No 381
>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=50.84 E-value=1.9e+02 Score=26.10 Aligned_cols=69 Identities=14% Similarity=0.018 Sum_probs=45.4
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++.. ++...++..+.+|++|+++..... ....+. +.++.....++++++..
T Consensus 13 ~~l~~~l~~f~~~~P~v~i~i~~----~~~~~~~~~l~~~~~Di~i~~~~~---~~~~~~-~~~l~~~~~~lv~~~~~ 82 (198)
T cd08461 13 AILPPLLAALRQEAPGVRVAIRD----LESDNLEAQLERGEVDLALTTPEY---APDGLR-SRPLFEERYVCVTRRGH 82 (198)
T ss_pred HHhHHHHHHHHHHCCCcEEEEee----CCcccHHHHHhcCCCcEEEecCcc---CCccce-eeeeecCcEEEEEcCCC
Confidence 55677888888776 45544432 123568899999999999853221 122232 56888888888887664
No 382
>PF13155 Toprim_2: Toprim-like
Probab=50.81 E-value=32 Score=27.61 Aligned_cols=42 Identities=12% Similarity=0.317 Sum_probs=34.2
Q ss_pred HHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcC
Q 043468 63 QMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAG 105 (720)
Q Consensus 63 ~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g 105 (720)
....+.++++..+.++|.+..++|..|... .+.+.+.+++.+
T Consensus 34 ~~~~~~~~l~~~~~~~i~l~~DnD~aG~~~-~~~~~~~l~~~~ 75 (96)
T PF13155_consen 34 SEKQQIKFLKENPYKKIVLAFDNDEAGRKA-AEKLQKELKEEG 75 (96)
T ss_pred HHHHHHHHHHhCCCCcEEEEeCCCHHHHHH-HHHHHHHHHhhC
Confidence 345788888766668898888999888887 899999998877
No 383
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=50.65 E-value=1.2e+02 Score=33.89 Aligned_cols=89 Identities=15% Similarity=0.030 Sum_probs=61.6
Q ss_pred CCeEEEEEEEcCCCcccCcHHHHHHHHHHcCc-EEEEEEecC--CCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHH
Q 043468 75 EWHQVTVIYEDIDSSATGILPHLSDALREAGA-EIIHVLALP--HFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFE 151 (720)
Q Consensus 75 ~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~-~v~~~~~~~--~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~ 151 (720)
+..+|.|+.+-|..|..+ ..-+.+.+++.|. .+...++-. .+-. =-...++++.+.+++.||..--|.....-++
T Consensus 68 ~~e~I~I~gDyD~DGits-tail~~~L~~~g~~~~~~~IP~R~~eGYG-l~~~~i~~~~~~~~~LiItvD~Gi~~~e~i~ 145 (575)
T PRK11070 68 EGTRIIVVGDFDADGATS-TALSVLALRSLGCSNVDYLVPNRFEDGYG-LSPEVVDQAHARGAQLIVTVDNGISSHAGVA 145 (575)
T ss_pred CCCEEEEEEecCccHHHH-HHHHHHHHHHcCCCceEEEeCCCCcCCCC-CCHHHHHHHHhcCCCEEEEEcCCcCCHHHHH
Confidence 346888888878788888 7888899999998 454443211 1111 1225677777778898888766777778888
Q ss_pred HHHHcCCCCCCeEEEEeCc
Q 043468 152 KANKMKMMEKDYIWITTDA 170 (720)
Q Consensus 152 ~a~~~g~~~~~~~~i~~~~ 170 (720)
.|++.|+ + .|.++.
T Consensus 146 ~a~~~gi---d--vIVtDH 159 (575)
T PRK11070 146 HAHALGI---P--VLVTDH 159 (575)
T ss_pred HHHHCCC---C--EEEECC
Confidence 8999988 3 355565
No 384
>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=50.52 E-value=1.2e+02 Score=31.31 Aligned_cols=82 Identities=9% Similarity=0.000 Sum_probs=52.4
Q ss_pred HHHHHHHh-CCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc--C
Q 043468 66 AIAAIVQS-WEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL--S 142 (720)
Q Consensus 66 ~~~~~l~~-~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~--~ 142 (720)
.+.++++. .+.+++.++.+.... ..+.+.+++.+++.| .+... ..+..+.+.....++.+++.++|+||..+ .
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~~--~~~~~~v~~~l~~~~-~~~~~-~~~~~~~~~v~~~~~~~~~~~~d~iIaiGGGs 89 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTTK--SIAGKKVEALLEDEG-EVDVV-IVEDATYEEVEKVESSARDIGADFVIGVGGGR 89 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCchH--HHHHHHHHHHHHhcC-CeEEE-EeCCCCHHHHHHHHHHhhhcCCCEEEEeCCch
Confidence 35566663 566898888754433 234678889998888 54333 22333333677888888888999887544 4
Q ss_pred HHHHHHHHH
Q 043468 143 LELAVHLFE 151 (720)
Q Consensus 143 ~~~~~~~l~ 151 (720)
.-|+..++.
T Consensus 90 ~~D~aK~~a 98 (339)
T cd08173 90 VIDVAKVAA 98 (339)
T ss_pred HHHHHHHHH
Confidence 455555554
No 385
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=50.24 E-value=46 Score=32.99 Aligned_cols=79 Identities=13% Similarity=0.088 Sum_probs=49.2
Q ss_pred EEEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHH
Q 043468 78 QVTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~ 155 (720)
+|+++..+.. .+-..+...+.+.+++.|.++..... ..+.......+..+...++|.|++... .+.....++.+.+
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~--~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~~ 78 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKALGYELISTDA--QGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAKA 78 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEcC--CCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHHHH
Confidence 3566665422 22233478899999999998765322 112113456778888889999888643 3333456777777
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.|.
T Consensus 79 ~~i 81 (282)
T cd06318 79 AGV 81 (282)
T ss_pred CCC
Confidence 776
No 386
>COG1832 Predicted CoA-binding protein [General function prediction only]
Probab=50.12 E-value=1.7e+02 Score=25.35 Aligned_cols=99 Identities=15% Similarity=0.145 Sum_probs=67.9
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc---ccHHHHHHHhhcCCCeEEEEEc
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS---SRLSEELEKLKGGQCRVFVVHL 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~---~d~~~~l~~i~~~~~~vvil~~ 141 (720)
+.+.++++.. |++|++.-++... .. .-.+-+.|.++|.+|.-...--.+.. .-.-+-|..|. ...|+|-++=
T Consensus 7 ~~i~~iL~~~--K~IAvVG~S~~P~-r~-sy~V~kyL~~~GY~ViPVNP~~~~~eiLG~k~y~sL~dIp-e~IDiVdvFR 81 (140)
T COG1832 7 EDIAEILKSA--KTIAVVGASDKPD-RP-SYRVAKYLQQKGYRVIPVNPKLAGEEILGEKVYPSLADIP-EPIDIVDVFR 81 (140)
T ss_pred HHHHHHHHhC--ceEEEEecCCCCC-cc-HHHHHHHHHHCCCEEEeeCcccchHHhcCchhhhcHHhCC-CCCcEEEEec
Confidence 4455566554 7999998877653 33 68889999999998766543101100 01122334443 5789999999
Q ss_pred CHHHHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 043468 142 SLELAVHLFEKANKMKMMEKDYIWITTDAF 171 (720)
Q Consensus 142 ~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 171 (720)
.++.+..+.+++-+.+. +..|+--+..
T Consensus 82 ~~e~~~~i~~eal~~~~---kv~W~QlGi~ 108 (140)
T COG1832 82 RSEAAPEVAREALEKGA---KVVWLQLGIR 108 (140)
T ss_pred ChhhhHHHHHHHHhhCC---CeEEEecCcC
Confidence 99999999999999994 7788865543
No 387
>PF03401 TctC: Tripartite tricarboxylate transporter family receptor; InterPro: IPR005064 Bordetella pertussis, the causative agent of human whooping cough (pertussis), is an obligate human pathogen with diverse high-affinity transport systems for the assimilation of iron, a biometal that is essential for growth []. Periplasmic binding proteins of a new family, particularly well represented in this organism (and more generally in beta-proteobacteria), have been called Bug receptors []. They adopt a characteristic Venus flytrap fold with two globular domains bisected by a ligand-binding cleft. The family is specific for carboxylated solutes, with a characteristic mode of binding involving two highly conserved beta strand-beta turn-alpha helix motifs originating from each domain. These two motifs form hydrogen bonds with a carboxylate group of the ligand, both directly and via conserved water molecules, and have thus been termed the carboxylate pincers. Domain 1 recognises the ligand and the carboxylate group serves as an initial anchoring point. Domain 2 discriminates between productively and non-productively bound ligands as proper interactions with this domain is needed for the of the closed conformation []. BugE has a glutamate bound ligand. No charged residues are involved in glutamate binding by BugE, unlike what has been described for all glutamate receptors reported so far. The Bug architecture is highly conserved despite limited sequence identity [].; GO: 0030288 outer membrane-bounded periplasmic space; PDB: 2QPQ_C 2DVZ_A 2F5X_A.
Probab=50.03 E-value=93 Score=30.96 Aligned_cols=102 Identities=20% Similarity=0.202 Sum_probs=66.1
Q ss_pred CCCCCChHHhhh------cCCeEEEecC--------------------------cchHHHHHhcCcccEEEechhHHHHH
Q 043468 556 EPTVNNIETLQS------SNAIIGYSRC--------------------------LGDYASDLKSRKTGAVFLEVAEAKIF 603 (720)
Q Consensus 556 ~~~i~s~~dl~~------~~~~~~~~~~--------------------------~~~~~~~l~~~~~~~~~~~~~~~~~~ 603 (720)
..+++|++||++ ..+.+|.... -.+.+.+|..|++|+.+........+
T Consensus 87 dsp~~t~~eli~~ak~~p~~~~~g~~g~g~~~hl~~~~l~~~~G~~~~~Vpy~G~~~~~~allgG~vd~~~~~~~~~~~~ 166 (274)
T PF03401_consen 87 DSPYKTLEELIEYAKANPGKLTFGSSGPGSSDHLAAALLAKAAGIKFTHVPYDGGAEALTALLGGHVDAAFGSPGEALPY 166 (274)
T ss_dssp TSS-SSHHHHHHHHHCSCCC-EEEESSTTSHHHHHHHHHHHHHT---EEEE-SSHHHHHHHHHTTSSSEEEEEHHHHHHH
T ss_pred CCccccHHHHHHHHHhCCCCeEEEecCCCchHHHHHHHHHHHhCCceEEEEeCCccHHHHHHhCCeeeEEeecHHHHHHH
Confidence 678999999864 2367776532 55677788899999999987766666
Q ss_pred HHhcC-CCcE--------------eeC-----CeeecCceeeEecCCCC--ChHHHHHHHhcccccCcHHHHHHHh
Q 043468 604 LAKYC-KGFT--------------VAG-----PTYKVGGLGFAFPKGSP--LLPSVIEALLKVSESGKLRELETSM 657 (720)
Q Consensus 604 ~~~~~-~~l~--------------~~~-----~~~~~~~~~~~~~k~s~--~~~~in~~i~~~~~~G~~~~~~~~~ 657 (720)
++... +-+- .+. +.......++..||+-| .++.+..++.+..++-.+.+..++.
T Consensus 167 ~~~G~~k~Lav~~~~r~~~~pdvPT~~E~G~~d~~~~~~~g~~~p~gtp~~~~~~l~~a~~~~~~~pe~~~~~~~~ 242 (274)
T PF03401_consen 167 VEAGDLKPLAVFSDERSPALPDVPTFKEQGYPDIVFGSWRGLFAPKGTPDEIVDKLADAIKKALEDPEFQEFLEKM 242 (274)
T ss_dssp HHTTSEEEEEECSSS-BTTCTTS-BTTTTT-TTG--EEEEEEEEETTS-HHHHHHHHHHHHHHHT-HHHHHHHHHH
T ss_pred HhCCCceEEEEecCccccccCCCCCHHHhCccceeeeeeeeeecCCCCCHHHHHHHHHHHHHHhCCHHHHHHHHHC
Confidence 55320 0011 111 11122345889999987 9999999999999988777766653
No 388
>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=49.97 E-value=51 Score=32.47 Aligned_cols=78 Identities=13% Similarity=0.073 Sum_probs=48.5
Q ss_pred EEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHHcC
Q 043468 79 VTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANKMK 157 (720)
Q Consensus 79 v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~~g 157 (720)
|+++....+.+-..+...+.+.+++.|+.+..... ...........+..+.+.++|.+++... .......++.+.+ +
T Consensus 2 i~~v~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~-~ 79 (271)
T cd06314 2 IAVVTNGASPFWKIAEAGVKAAGKELGVDVEFVVP-QQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAAA-G 79 (271)
T ss_pred eEEEcCCCcHHHHHHHHHHHHHHHHcCCeEEEeCC-CCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHhc-C
Confidence 56665433322234578888999999988665421 1112114556777888889998888653 3334567777766 6
Q ss_pred C
Q 043468 158 M 158 (720)
Q Consensus 158 ~ 158 (720)
.
T Consensus 80 i 80 (271)
T cd06314 80 I 80 (271)
T ss_pred C
Confidence 4
No 389
>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=49.88 E-value=62 Score=31.69 Aligned_cols=78 Identities=8% Similarity=0.057 Sum_probs=48.6
Q ss_pred EEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHHc
Q 043468 79 VTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~~ 156 (720)
|+++..+.. .+-..+.+.+++.+++.|.++.... ...+.......++++.+.++|.|++... .......++++.+.
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~--~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~ 79 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSI--ANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKKA 79 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEec--CCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHHC
Confidence 455555432 2223347889999999998875432 1122214556777777789999888543 34345667878777
Q ss_pred CC
Q 043468 157 KM 158 (720)
Q Consensus 157 g~ 158 (720)
|.
T Consensus 80 ~i 81 (267)
T cd06322 80 GI 81 (267)
T ss_pred CC
Confidence 75
No 390
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=49.78 E-value=12 Score=35.19 Aligned_cols=32 Identities=34% Similarity=0.510 Sum_probs=25.8
Q ss_pred CeEEEECCCCChhhHHHHHhhccCCCcEEecc
Q 043468 8 KVEAILGPQTSEETSSVAEIASKKQIPVLSFA 39 (720)
Q Consensus 8 ~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~ 39 (720)
+|.+|+||++++-+..+..++++++.|+|+..
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~D 33 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQKTGAPVISLD 33 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHHHH--EEEEE-
T ss_pred cEEEEECCCCCChhHHHHHHHHHhCCCEEEec
Confidence 57899999999999999999999999999854
No 391
>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=49.71 E-value=1.9e+02 Score=25.88 Aligned_cols=69 Identities=16% Similarity=0.195 Sum_probs=45.8
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++.. +....++.++.+|++|+++....... ..+ .+.++....++++++...
T Consensus 12 ~~l~~~l~~~~~~~P~i~l~i~~----~~~~~~~~~l~~g~~Dl~i~~~~~~~---~~~-~~~~l~~~~~~~~~~~~~ 81 (197)
T cd08419 12 YFAPRLLGAFCRRHPGVEVSLRV----GNREQVLERLADNEDDLAIMGRPPED---LDL-VAEPFLDNPLVVIAPPDH 81 (197)
T ss_pred hHhhHHHHHHHHHCCCceEEEEE----CCHHHHHHHHhcCCccEEEecCCCCC---CCe-EEEEeccCCEEEEecCCC
Confidence 45667788887775 55544432 24577899999999999985432211 122 346888888888887664
No 392
>PRK09701 D-allose transporter subunit; Provisional
Probab=49.53 E-value=89 Score=31.69 Aligned_cols=85 Identities=9% Similarity=0.012 Sum_probs=52.6
Q ss_pred CCCeEEEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHH
Q 043468 74 WEWHQVTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFE 151 (720)
Q Consensus 74 ~~~~~v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~ 151 (720)
+.-.+|+++..+.. .+-..+.+.+.+.+++.|+++.........+..+....++.+.+.++|.|++... .+.....+.
T Consensus 22 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~ 101 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVMPVA 101 (311)
T ss_pred ccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHH
Confidence 44568999986532 2223347888899999998876532111111114456677777789999888653 333444566
Q ss_pred HHHHcCC
Q 043468 152 KANKMKM 158 (720)
Q Consensus 152 ~a~~~g~ 158 (720)
++.+.|+
T Consensus 102 ~~~~~gi 108 (311)
T PRK09701 102 RAWKKGI 108 (311)
T ss_pred HHHHCCC
Confidence 7777765
No 393
>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=49.47 E-value=49 Score=32.98 Aligned_cols=78 Identities=14% Similarity=0.221 Sum_probs=50.1
Q ss_pred EEEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHH
Q 043468 78 QVTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~ 155 (720)
+|+++..+.. .+-..+.+.+.+.+++.|.++..... .... .....++++...++|.|++... .......++++.+
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~--~~~~-~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~~ 77 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKIDV--PDGE-KVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKAKA 77 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEccC--CCHH-HHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHHHh
Confidence 3666665422 22233478888999999988754322 1221 4456777777889998888653 3445667888888
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.|.
T Consensus 78 ~~i 80 (289)
T cd01540 78 YNM 80 (289)
T ss_pred CCC
Confidence 776
No 394
>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=49.38 E-value=2e+02 Score=25.95 Aligned_cols=69 Identities=13% Similarity=0.047 Sum_probs=44.5
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
++...++..+.++. +.++++. . ++...+++.|.+|++|+++..... . ...+ -+.++....++++++...
T Consensus 13 ~~l~~~l~~~~~~~P~v~l~i~--~--~~~~~~~~~l~~g~~D~~i~~~~~--~-~~~~-~~~~l~~~~~~~v~~~~~ 82 (200)
T cd08464 13 WLAPPLLAALRAEAPGVRLVFR--Q--VDPFNVGDMLDRGEIDLAIGVFGE--L-PAWL-KREVLYTEGYACLFDPQQ 82 (200)
T ss_pred HHHHHHHHHHHHHCCCcEEEEe--c--CCcccHHHHHhcCcccEEEecCCC--C-cccc-eeeeecccceEEEEeCCC
Confidence 45667788887775 4444343 3 234678899999999999853221 1 2233 346888888888876653
No 395
>COG0371 GldA Glycerol dehydrogenase and related enzymes [Energy production and conversion]
Probab=49.08 E-value=92 Score=32.14 Aligned_cols=91 Identities=8% Similarity=0.065 Sum_probs=60.0
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHH
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLE 144 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~ 144 (720)
..+.+++...+.+++.+++++... .-..+.+.+.++..|. .+.....+..+.++......++...++|+|+--+.|.
T Consensus 19 ~~~~~~~~~~~~~~~lvv~g~~~~--~~~~~~~~~~l~~~g~-~~~~~~~~~a~~~ev~~~~~~~~~~~~d~vIGVGGGk 95 (360)
T COG0371 19 NKLLEVLLKLGLSRALVVTGENTY--AIAGEKVEKSLKDEGL-VVHVVFVGEASEEEVERLAAEAGEDGADVVIGVGGGK 95 (360)
T ss_pred hhHHHHHHhccCCceEEEEChhHH--HHHHHHHHHHhcccCc-ceeeeecCccCHHHHHHHHHHhcccCCCEEEEecCcH
Confidence 345566666666888888777664 2226889999999998 4454444443333666666666667899988777665
Q ss_pred HHHHHHHHHHHcCC
Q 043468 145 LAVHLFEKANKMKM 158 (720)
Q Consensus 145 ~~~~~l~~a~~~g~ 158 (720)
..-..=-.|.++|+
T Consensus 96 ~iD~aK~~A~~~~~ 109 (360)
T COG0371 96 TIDTAKAAAYRLGL 109 (360)
T ss_pred HHHHHHHHHHHcCC
Confidence 55444444667776
No 396
>cd08430 PBP2_IlvY The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic binding fold. In Escherichia coli, IlvY is required for the regulation of ilvC gene expression that encodes acetohydroxy acid isomeroreductase (AHIR), a key enzyme in the biosynthesis of branched-chain amino acids (isoleucine, valine, and leucine). The ilvGMEDA operon genes encode remaining enzyme activities required for the biosynthesis of these amino acids. Activation of ilvC transcription by IlvY requires the additional binding of a co-inducer molecule (either alpha-acetolactate or alpha-acetohydoxybutyrate, the substrates for AHIR) to a preformed complex of IlvY protein-DNA. Like many other LysR-family members, IlvY negatively auto-regulates the transcription of its own divergently transcribed ilvY gene in an inducer-i
Probab=48.88 E-value=85 Score=28.48 Aligned_cols=70 Identities=13% Similarity=0.093 Sum_probs=46.6
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++. . ++...++.+|.+|++|+++...... ....+. +.++....+.+++++..
T Consensus 13 ~~l~~~l~~~~~~~P~v~l~~~--~--~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~-~~~l~~~~~~~~~~~~~ 83 (199)
T cd08430 13 SFLPPILERFRAQHPQVEIKLH--T--GDPADAIDKVLNGEADIAIAARPDK--LPARLA-FLPLATSPLVFIAPNIA 83 (199)
T ss_pred eeccHHHHHHHHHCCCceEEEE--e--CCHHHHHHHHHCCCCCEEEEecCCC--CCcccE-EEeeccceEEEEEeCCc
Confidence 56678899998887 5554443 2 3467899999999999998532211 112233 35677778888877653
No 397
>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=48.68 E-value=53 Score=29.82 Aligned_cols=70 Identities=11% Similarity=0.185 Sum_probs=46.8
Q ss_pred EEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++.. .+++.... ++..+++..|.+|++|+++..... ....+. ..++....+++++++..
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~--~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~ 82 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE--YGGKKVEQAVLNGELDVGITVLPV---DEEEFD-SQPLCNEPLVAVLPRGH 82 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE--cCcHHHHHHHHcCCCCEEEEeccc---ccCCce-eEEeccccEEEEecCCC
Confidence 566788888888763 23344433 234789999999999999854332 122333 35778888888887764
No 398
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=48.66 E-value=78 Score=32.26 Aligned_cols=80 Identities=16% Similarity=0.177 Sum_probs=48.4
Q ss_pred CeEEEEEEEcC--CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHH
Q 043468 76 WHQVTVIYEDI--DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKA 153 (720)
Q Consensus 76 ~~~v~ii~~~~--~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a 153 (720)
-+.|+++..+. .+. ..+.+.+.+.+++.|.++..... ..........++.+.+.++|.|++..........++.+
T Consensus 61 ~~~Igvv~~~~~~~~~-~~l~~gi~~~~~~~g~~~~~~~~--~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 137 (328)
T PRK11303 61 TRSIGLIIPDLENTSY-ARIAKYLERQARQRGYQLLIACS--DDQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQRL 137 (328)
T ss_pred CceEEEEeCCCCCchH-HHHHHHHHHHHHHcCCEEEEEeC--CCCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHHHH
Confidence 45788887642 232 33467888899999998765432 11111334566677777899988864322223456666
Q ss_pred HHcCC
Q 043468 154 NKMKM 158 (720)
Q Consensus 154 ~~~g~ 158 (720)
.+.+.
T Consensus 138 ~~~~i 142 (328)
T PRK11303 138 QNDGL 142 (328)
T ss_pred HhcCC
Confidence 66665
No 399
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=48.58 E-value=3e+02 Score=27.65 Aligned_cols=96 Identities=13% Similarity=0.206 Sum_probs=60.8
Q ss_pred eEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEE--ee---cC---hHHHHHHHHHHHHhC------
Q 043468 9 VEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQ--AS---QN---QLAQMKAIAAIVQSW------ 74 (720)
Q Consensus 9 v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr--~~---p~---~~~~~~~~~~~l~~~------ 74 (720)
+.-++||-..+....++.++.+.++=++..+...+. ....|+.| +. |. .....+++.++.+.+
T Consensus 11 iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~~d~---~~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~~i 87 (289)
T PRK13010 11 VLTLACPSAPGIVAAVSGFLAEKGCYIVELTQFDDD---ESGRFFMRVSFHAQSAEAASVDTFRQEFQPVAEKFDMQWAI 87 (289)
T ss_pred EEEEECCCCCCcHHHHHHHHHHCCCCEEeccccccc---ccCcEEEEEEEEcCCCCCCCHHHHHHHHHHHHHHhCCeEEE
Confidence 778899999999999999999999998876654221 22245655 22 22 234445555555543
Q ss_pred ----CCeEEEEEEEcCCCcccCcHHHHHHHHHHcC--cEEEEE
Q 043468 75 ----EWHQVTVIYEDIDSSATGILPHLSDALREAG--AEIIHV 111 (720)
Q Consensus 75 ----~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g--~~v~~~ 111 (720)
..+|++|+.+-.. +. ++.+.+..++.. .+|+..
T Consensus 88 ~~~~~~~kiavl~Sg~g---~n-l~al~~~~~~~~l~~~i~~v 126 (289)
T PRK13010 88 HPDGQRPKVVIMVSKFD---HC-LNDLLYRWRMGELDMDIVGI 126 (289)
T ss_pred ecCCCCeEEEEEEeCCC---cc-HHHHHHHHHCCCCCcEEEEE
Confidence 3568998877553 33 566666665543 344443
No 400
>COG0608 RecJ Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]
Probab=48.54 E-value=1.4e+02 Score=32.61 Aligned_cols=88 Identities=16% Similarity=0.122 Sum_probs=64.1
Q ss_pred CCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHH
Q 043468 74 WEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKA 153 (720)
Q Consensus 74 ~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a 153 (720)
...++|.|+.+.|..|..+ ..-+.+.++..|.++..... ..-...+. .+.+++..+++.|+...-+.....-++.+
T Consensus 34 ~~~~~I~I~~d~DaDGitS-~ail~~~L~~~g~~~~~~ip--~~~~~~~g-~~~~~~~~~~~liItvD~G~~~~~~i~~~ 109 (491)
T COG0608 34 EKGEKILIYGDYDADGITS-AAILAKALRRLGADVDYYIP--NRFEEGYG-AIRKLKEEGADLIITVDNGSGSLEEIARA 109 (491)
T ss_pred HcCCEEEEEEecCcccHHH-HHHHHHHHHHcCCceEEEeC--CCccccch-HHHHHHhcCCCEEEEECCCcccHHHHHHH
Confidence 3567899998888899888 88999999999976554433 22111344 46678888999998888787788888888
Q ss_pred HHcCCCCCCeEEEEeCc
Q 043468 154 NKMKMMEKDYIWITTDA 170 (720)
Q Consensus 154 ~~~g~~~~~~~~i~~~~ 170 (720)
.+.|. -.|.++.
T Consensus 110 ~~~g~-----~vIVtDH 121 (491)
T COG0608 110 KELGI-----DVIVTDH 121 (491)
T ss_pred HhCCC-----cEEEECC
Confidence 87776 2355555
No 401
>PRK10481 hypothetical protein; Provisional
Probab=48.44 E-value=85 Score=30.00 Aligned_cols=67 Identities=21% Similarity=0.113 Sum_probs=43.3
Q ss_pred CCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEcCHHHH
Q 043468 75 EWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHLSLELA 146 (720)
Q Consensus 75 ~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~~~~~~ 146 (720)
+.++++|+....+. .+...+.+.+.|.++.....-|.... .......+++++.++|+|++.|.+-..
T Consensus 128 ~g~riGVitP~~~q-----i~~~~~kw~~~G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~ 195 (224)
T PRK10481 128 GGHQVGVIVPVEEQ-----LAQQAQKWQVLQKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQ 195 (224)
T ss_pred CCCeEEEEEeCHHH-----HHHHHHHHHhcCCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH
Confidence 45899999876553 34444555555888775543222121 146667777778899999999965444
No 402
>PRK07377 hypothetical protein; Provisional
Probab=48.20 E-value=28 Score=31.48 Aligned_cols=44 Identities=14% Similarity=0.164 Sum_probs=35.9
Q ss_pred EEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEee
Q 043468 377 GGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVG 423 (720)
Q Consensus 377 ~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~ 423 (720)
-+-.++.++.+.++++.++++...+ +-..+.+++.+|++|.+.+
T Consensus 92 ~~~l~~~l~~~~~~y~~rlElv~y~---~~~~l~~aL~~~eVh~~c~ 135 (184)
T PRK07377 92 FDQLIDQLRTILDKYHLRLELVVYP---DLQALEQALRDKEVHAICL 135 (184)
T ss_pred HHHHHHHHHHHHHHhCceeeEEecC---CHHHHHHHHhcCCccEEec
Confidence 3446778899999999887776666 4689999999999998864
No 403
>PF13362 Toprim_3: Toprim domain
Probab=48.13 E-value=47 Score=26.66 Aligned_cols=53 Identities=11% Similarity=0.053 Sum_probs=38.1
Q ss_pred CCCeEEEEEEEcCCC--cccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHh
Q 043468 74 WEWHQVTVIYEDIDS--SATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKL 129 (720)
Q Consensus 74 ~~~~~v~ii~~~~~~--g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i 129 (720)
...++|.|..++|.. |... ...+.+.+.+.|..+..... +.... |++..+++-
T Consensus 39 ~~~~~vii~~D~D~~~~G~~~-a~~~~~~~~~~g~~~~~~~p-~~~g~-D~ND~l~~~ 93 (96)
T PF13362_consen 39 EPGRRVIIAADNDKANEGQKA-AEKAAERLEAAGIAVSIVEP-GPEGK-DWNDLLQAR 93 (96)
T ss_pred CCCCeEEEEECCCCchhhHHH-HHHHHHHHHhCCCeEEEECC-CCCCc-hHHHHHHhh
Confidence 367889888787777 7776 88888888889987665544 22223 888887753
No 404
>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=48.00 E-value=88 Score=30.63 Aligned_cols=76 Identities=14% Similarity=0.171 Sum_probs=46.9
Q ss_pred EEEEEEc--CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 79 VTVIYED--IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~--~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
|+++..+ +.+. ..+.+.+++.+++.|.++..... . ...+.-...++.+.+.++|.|++....... ..++++.+.
T Consensus 2 igvi~p~~~~~~~-~~~~~g~~~~a~~~g~~~~~~~~-~-~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~~~ 77 (268)
T cd06270 2 IGLVVSDLDGPFF-GPLLSGVESVARKAGKHLIITAG-H-HSAEKEREAIEFLLERRCDALILHSKALSD-DELIELAAQ 77 (268)
T ss_pred EEEEEccccCcch-HHHHHHHHHHHHHCCCEEEEEeC-C-CchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhC
Confidence 4555543 2233 33478889999999998765432 1 111145567777778899988886542222 226777777
Q ss_pred CC
Q 043468 157 KM 158 (720)
Q Consensus 157 g~ 158 (720)
|.
T Consensus 78 ~i 79 (268)
T cd06270 78 VP 79 (268)
T ss_pred CC
Confidence 76
No 405
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=47.88 E-value=92 Score=33.48 Aligned_cols=150 Identities=12% Similarity=0.063 Sum_probs=89.3
Q ss_pred CeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccc--cCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEc
Q 043468 8 KVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWA--TERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYED 85 (720)
Q Consensus 8 ~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~--~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~ 85 (720)
+...++|.+.+.....+.+++++.||-+..... +..+. ..-....+...-++. .++++..+.+.++...+.+-+.
T Consensus 194 ~~vnl~G~~~~~~~~~i~~lL~~lGI~v~~~lp-~~~~~eL~~~~~~~~~c~~~P~-ls~aa~~Le~~~gvp~~~~P~P- 270 (457)
T CHL00073 194 PPLVLFGSLPSTVASQLTLELKRQGIKVSGWLP-SQRYTDLPSLGEGVYVCGVNPF-LSRTATTLMRRRKCKLIGAPFP- 270 (457)
T ss_pred CcEEEEEecCcccHHHHHHHHHHcCCeEeEEeC-CCCHHHHHhhCcccEEEEcCcc-hHHHHHHHHHHhCCceeecCCc-
Confidence 457789999999999999999999999876554 43333 122244444433332 2344444457788777665433
Q ss_pred CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhc--CCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCe
Q 043468 86 IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKG--GQCRVFVVHLSLELAVHLFEKANKMKMMEKDY 163 (720)
Q Consensus 86 ~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~--~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~ 163 (720)
.|..+..+.+++..+-.|.. ...+..... .....+...+. .+-++. +.++++....+.+.+.++|| ..
T Consensus 271 --iGi~~Td~fLr~Ia~~~G~~---pe~l~~Er~-rl~dal~d~~~~L~GKrva-i~Gdp~~~i~LarfL~elGm---ev 340 (457)
T CHL00073 271 --IGPDGTRAWIEKICSVFGIE---PQGLEEREE-QIWESLKDYLDLVRGKSVF-FMGDNLLEISLARFLIRCGM---IV 340 (457)
T ss_pred --CcHHHHHHHHHHHHHHhCcC---HHHHHHHHH-HHHHHHHHHHHHHCCCEEE-EECCCcHHHHHHHHHHHCCC---EE
Confidence 66666455566655556742 222211000 11122222111 245554 88888999999999999999 55
Q ss_pred EEEEeCc
Q 043468 164 IWITTDA 170 (720)
Q Consensus 164 ~~i~~~~ 170 (720)
+.+++..
T Consensus 341 V~vgt~~ 347 (457)
T CHL00073 341 YEIGIPY 347 (457)
T ss_pred EEEEeCC
Confidence 5555543
No 406
>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=47.72 E-value=79 Score=31.39 Aligned_cols=80 Identities=11% Similarity=0.032 Sum_probs=50.6
Q ss_pred eEEEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCH-HHHHHHHHHHH
Q 043468 77 HQVTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSL-ELAVHLFEKAN 154 (720)
Q Consensus 77 ~~v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~-~~~~~~l~~a~ 154 (720)
++|+++..+-. .+...+.+.+.+.+++.|.++.... ...+.+...+.++.+...++|.|++.... +.....++.+.
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~--~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~~ 78 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILD--GRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELELAQ 78 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEEC--CCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHHH
Confidence 46788876532 2223457888899999998875542 22222245567888888899998886532 32345556666
Q ss_pred HcCC
Q 043468 155 KMKM 158 (720)
Q Consensus 155 ~~g~ 158 (720)
+.+.
T Consensus 79 ~~~i 82 (280)
T cd06315 79 KAGI 82 (280)
T ss_pred HCCC
Confidence 6665
No 407
>TIGR00646 MG010 DNA primase-related protein. The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown.
Probab=47.56 E-value=65 Score=30.48 Aligned_cols=63 Identities=8% Similarity=0.099 Sum_probs=44.4
Q ss_pred HHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHh
Q 043468 64 MKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKL 129 (720)
Q Consensus 64 ~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i 129 (720)
...=+.+++....++|.+.+++|..|..+ ..+..+.+.+.|..+. ....|.... |+...+..-
T Consensus 142 T~~q~~lLkr~~~~~Iil~~D~D~AG~~A-a~r~~~~L~~~G~~v~-vv~lP~~~K-DwNEllk~~ 204 (218)
T TIGR00646 142 SDKQMKFFKQKKIEKIFICFDNDFAGKNA-AANLEEILKKAGFITK-VIEIKAAAK-DWNDLFLLN 204 (218)
T ss_pred HHHHHHHHhccCCCEEEEEeCCCHHHHHH-HHHHHHHHHHCCCeEE-EEeCCCcCC-ChhHHHHHh
Confidence 33334456655568999999999988887 7778888888998753 344455444 888887653
No 408
>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=46.96 E-value=1e+02 Score=30.31 Aligned_cols=78 Identities=14% Similarity=0.157 Sum_probs=46.5
Q ss_pred CeEEEEEEEc--------CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHH
Q 043468 76 WHQVTVIYED--------IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAV 147 (720)
Q Consensus 76 ~~~v~ii~~~--------~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~ 147 (720)
.+.|++|..+ ++..-..+.+.+++.+++.|+++..... . .. +.....+.+.+.++|.|++.....+ .
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~~-~--~~-~~~~~~~~l~~~~~dgiii~~~~~~-~ 77 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSFV-S--SP-DRDWLARYLASGRADGVILIGQHDQ-D 77 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEeC-C--ch-hHHHHHHHHHhCCCCEEEEeCCCCC-h
Confidence 4678888864 2212233467788999999988765422 1 11 2334444556678998887543222 2
Q ss_pred HHHHHHHHcCC
Q 043468 148 HLFEKANKMKM 158 (720)
Q Consensus 148 ~~l~~a~~~g~ 158 (720)
..++.+.+.|.
T Consensus 78 ~~~~~~~~~~i 88 (275)
T cd06295 78 PLPERLAETGL 88 (275)
T ss_pred HHHHHHHhCCC
Confidence 44677777776
No 409
>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=46.61 E-value=97 Score=30.41 Aligned_cols=78 Identities=13% Similarity=0.121 Sum_probs=48.2
Q ss_pred EEEEEEcC-CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HH---HHHHHHHHH
Q 043468 79 VTVIYEDI-DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LE---LAVHLFEKA 153 (720)
Q Consensus 79 v~ii~~~~-~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~---~~~~~l~~a 153 (720)
|+++..+. +.....+.+.+.+.+++.|.++...... .+.+...+.++.+.+.++|.+++... .+ .....+.++
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~--~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~ 79 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQYGYTVLLCNTY--RGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHYERL 79 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHCCCEEEEEeCC--CChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHH
Confidence 45565532 2222334789999999999987543221 12225667788888889998887542 22 233456667
Q ss_pred HHcCC
Q 043468 154 NKMKM 158 (720)
Q Consensus 154 ~~~g~ 158 (720)
.+.|.
T Consensus 80 ~~~~i 84 (273)
T cd06292 80 AERGL 84 (273)
T ss_pred HhCCC
Confidence 77666
No 410
>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=46.55 E-value=2.1e+02 Score=31.59 Aligned_cols=140 Identities=9% Similarity=0.046 Sum_probs=77.7
Q ss_pred eEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEEcCCC
Q 043468 9 VEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYEDIDS 88 (720)
Q Consensus 9 v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~~~~~ 88 (720)
+.++.|....+...+........-=.+||-++|+.-+...-.-=+.-+..+.....+++... +.++ ++++++...+..
T Consensus 32 ~~v~~~~~~~~~~~a~~~~~~~~~dviIsrG~ta~~i~~~~~iPVv~i~~s~~Dil~al~~a-~~~~-~~ia~vg~~~~~ 109 (526)
T TIGR02329 32 ITPIQLGFEDAVREIRQRLGAERCDVVVAGGSNGAYLKSRLSLPVIVIKPTGFDVMQALARA-RRIA-SSIGVVTHQDTP 109 (526)
T ss_pred EEEEeccHHHHHHHHHHHHHhCCCcEEEECchHHHHHHHhCCCCEEEecCChhhHHHHHHHH-HhcC-CcEEEEecCccc
Confidence 66666655433332222233221123677776665554321222555666766666665433 4444 467777664442
Q ss_pred cccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeEEEEe
Q 043468 89 SATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKDYIWITT 168 (720)
Q Consensus 89 g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 168 (720)
.+ .+.+.+.+ ++++..... .. . +|....++++++.+.++|+.... ....|+++|+ ..+.+.+
T Consensus 110 --~~-~~~~~~ll---~~~i~~~~~-~~-~-~e~~~~~~~l~~~G~~~viG~~~------~~~~A~~~gl---~~ili~s 171 (526)
T TIGR02329 110 --PA-LRRFQAAF---NLDIVQRSY-VT-E-EDARSCVNDLRARGIGAVVGAGL------ITDLAEQAGL---HGVFLYS 171 (526)
T ss_pred --HH-HHHHHHHh---CCceEEEEe-cC-H-HHHHHHHHHHHHCCCCEEECChH------HHHHHHHcCC---ceEEEec
Confidence 22 44444444 555443322 22 2 29999999999999999884432 2356889999 5555544
No 411
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=46.45 E-value=79 Score=31.70 Aligned_cols=82 Identities=5% Similarity=0.108 Sum_probs=52.5
Q ss_pred CCeEEEEEEEcC-CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCH-HHHHHHHHH
Q 043468 75 EWHQVTVIYEDI-DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSL-ELAVHLFEK 152 (720)
Q Consensus 75 ~~~~v~ii~~~~-~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~-~~~~~~l~~ 152 (720)
.-+.++++..+- +.+...+...+++.+++.|+++..... . .+.......++++...++|.+++.... +.....++.
T Consensus 25 ~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~-~-~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~ 102 (295)
T PRK10653 25 AKDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDS-Q-NNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKM 102 (295)
T ss_pred cCCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecC-C-CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHH
Confidence 467899888642 222244578899999999998765322 1 111144566777777789977775433 333466777
Q ss_pred HHHcCC
Q 043468 153 ANKMKM 158 (720)
Q Consensus 153 a~~~g~ 158 (720)
+.+.|.
T Consensus 103 ~~~~~i 108 (295)
T PRK10653 103 ANQANI 108 (295)
T ss_pred HHHCCC
Confidence 777765
No 412
>cd08485 PBP2_ClcR The C-terminal substrate binding domain of LysR-type transcriptional regulator ClcR involved in the chlorocatechol catabolism, contains type 2 periplasmic binding fold. In soil bacterium Pseudomonas putida, the ortho-pathways of catechol and 3-chlorocatechol are central catabolic pathways that convert aromatic and chloroaromaric compounds to tricarboxylic acid (TCA) cycle intermediates. The 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR and an intermediate of the pathway, 2-chloromuconate, as an inducer for activation. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding th
Probab=46.32 E-value=52 Score=30.23 Aligned_cols=69 Identities=10% Similarity=-0.049 Sum_probs=43.3
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++. . ++-++++.+|.+|++|+++...... ...+. +.++....+.+++++..
T Consensus 14 ~~l~~~l~~~~~~~P~i~l~~~--~--~~~~~~~~~l~~~~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~~~~~~~ 83 (198)
T cd08485 14 HTLPLLLRQLLSVAPSATVSLT--Q--MSKNRQIEALDAGTIDIGFGRFYPY---QEGVV-VRNVTNERLFLGAQKSR 83 (198)
T ss_pred HHHHHHHHHHHHhCCCcEEEEE--E--CCHHHHHHHHHcCCccEEEecCCCC---CCCeE-EEEeeccceEEEeCCCC
Confidence 45667787777665 4444443 2 2347899999999999998542221 12232 45777777777776553
No 413
>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=46.23 E-value=1.6e+02 Score=30.59 Aligned_cols=84 Identities=8% Similarity=0.191 Sum_probs=52.3
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCC-Cc--ccHHHHHHHhhcCCCeEEEEEc
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHF-PS--SRLSEELEKLKGGQCRVFVVHL 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~--~d~~~~l~~i~~~~~~vvil~~ 141 (720)
..+.++++.++.+++.|+.+.... ... .+.+.+.+++.|+++......... .. +.....++.+++ ++|+|+..+
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~-~~~-~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIG 88 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTY-AAA-GKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVG 88 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHH-HHH-HHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEEC
Confidence 446677777888898888754332 123 578888999999866433323221 12 155666666766 899987544
Q ss_pred --CHHHHHHHHH
Q 043468 142 --SLELAVHLFE 151 (720)
Q Consensus 142 --~~~~~~~~l~ 151 (720)
+.-|+..++.
T Consensus 89 GGs~~D~aK~vA 100 (348)
T cd08175 89 SGTINDITKYVS 100 (348)
T ss_pred CcHHHHHHHHHH
Confidence 4455555554
No 414
>PRK07308 flavodoxin; Validated
Probab=46.19 E-value=1.3e+02 Score=26.39 Aligned_cols=81 Identities=15% Similarity=0.251 Sum_probs=49.1
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc--C-----HHHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL--S-----LELAVHLF 150 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~--~-----~~~~~~~l 150 (720)
++.|+|.+..+..+.+++.+.+.+++.|.++... ... .. +. ..+. +.|.|++.+ . ++.+..|+
T Consensus 3 ~~~IvY~S~tGnTe~iA~~ia~~l~~~g~~~~~~-~~~--~~-~~----~~l~--~~d~vi~g~~t~g~G~~p~~~~~fl 72 (146)
T PRK07308 3 LAKIVYASMTGNTEEIADIVADKLRELGHDVDVD-ECT--TV-DA----SDFE--DADIAIVATYTYGDGELPDEIVDFY 72 (146)
T ss_pred eEEEEEECCCchHHHHHHHHHHHHHhCCCceEEE-ecc--cC-CH----hHhc--cCCEEEEEeCccCCCCCCHHHHHHH
Confidence 6889998766655666788888888888765432 111 11 21 1333 456666543 1 24677788
Q ss_pred HHHHHcCCCCCCeEEEEe
Q 043468 151 EKANKMKMMEKDYIWITT 168 (720)
Q Consensus 151 ~~a~~~g~~~~~~~~i~~ 168 (720)
....+.++.++.+..+++
T Consensus 73 ~~l~~~~l~~k~~~vfG~ 90 (146)
T PRK07308 73 EDLADLDLSGKIYGVVGS 90 (146)
T ss_pred HHHhcCCCCCCEEEEEee
Confidence 888777666555554544
No 415
>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=46.18 E-value=56 Score=33.16 Aligned_cols=88 Identities=22% Similarity=0.190 Sum_probs=52.1
Q ss_pred eEEEEEEEc---CCCcccCcHHHHHHHHHHc-CcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHH
Q 043468 77 HQVTVIYED---IDSSATGILPHLSDALREA-GAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEK 152 (720)
Q Consensus 77 ~~v~ii~~~---~~~g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~ 152 (720)
++++++... |....+...+.+++..++. |+++...+..+.... ++.+.++++.+.++|+|+..+..-. ..+.+-
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~~~i~~~~~e~~~~~~~-~~~~~~~~~~~~g~dlIi~~g~~~~-~~~~~v 79 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKELDGIEIIYVENVPETDA-DYEEAIRQLADQGYDLIIGHGFEYS-DALQEV 79 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHCTTEEEEEEES-S-TCH-HHHHHHHHHHHTT-SEEEEESGGGH-HHHHHH
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHcCCceEEEEecCCccHH-HHHHHHHHHHHcCCCEEEEccHHHH-HHHHHH
Confidence 456666432 2222233467777777788 999888887663333 9999999999999999888663221 233333
Q ss_pred HHHcCCCCCCeEEEEeCc
Q 043468 153 ANKMKMMEKDYIWITTDA 170 (720)
Q Consensus 153 a~~~g~~~~~~~~i~~~~ 170 (720)
|.+. ++..|+..+.
T Consensus 80 A~~y----Pd~~F~~~d~ 93 (306)
T PF02608_consen 80 AKEY----PDTKFIIIDG 93 (306)
T ss_dssp HTC-----TTSEEEEESS
T ss_pred HHHC----CCCEEEEEec
Confidence 4333 2445555554
No 416
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=46.04 E-value=43 Score=25.77 Aligned_cols=40 Identities=10% Similarity=0.193 Sum_probs=31.6
Q ss_pred HHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEE
Q 043468 68 AAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEII 109 (720)
Q Consensus 68 ~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~ 109 (720)
.++++.+ .++|.+.+++|..|... .+.+.+.+.+.|.++.
T Consensus 36 ~~~L~~~-~~~vii~~D~D~aG~~a-~~~~~~~l~~~g~~~~ 75 (79)
T cd03364 36 AELLKRL-AKEVILAFDGDEAGQKA-ALRALELLLKLGLNVR 75 (79)
T ss_pred HHHHHhc-CCeEEEEECCCHHHHHH-HHHHHHHHHHCCCeEE
Confidence 4555544 58899999999888777 8889999999988754
No 417
>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=46.01 E-value=29 Score=35.85 Aligned_cols=85 Identities=11% Similarity=-0.010 Sum_probs=52.7
Q ss_pred HHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCC-cccHHHHHHHhhcCCCeEEEEEc-
Q 043468 64 MKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFP-SSRLSEELEKLKGGQCRVFVVHL- 141 (720)
Q Consensus 64 ~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~-~~d~~~~l~~i~~~~~~vvil~~- 141 (720)
.+.+.+.++.++.+++.|+.+....- . ..+.+.+.+++.+..+. . .+.... .+.....++.+++.++|.||..+
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~~-~-~~~~v~~~l~~~~~~~~-~-~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGG 86 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLAT-K-LAERVASALGDRVAGTF-D-GAVMHTPVEVTEAAVAAAREAGADGIVAIGG 86 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHHH-H-HHHHHHHHhccCCcEEe-C-CCCCCCCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 35567788888989998887654432 2 36778888877754332 1 122222 12566777777788999987654
Q ss_pred -CHHHHHHHHHH
Q 043468 142 -SLELAVHLFEK 152 (720)
Q Consensus 142 -~~~~~~~~l~~ 152 (720)
+.-|+..++..
T Consensus 87 Gs~iD~aK~ia~ 98 (337)
T cd08177 87 GSTIDLAKAIAL 98 (337)
T ss_pred cHHHHHHHHHHH
Confidence 34555555543
No 418
>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=45.95 E-value=60 Score=29.53 Aligned_cols=70 Identities=10% Similarity=0.020 Sum_probs=47.3
Q ss_pred EEEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 377 GGFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 377 ~G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
..+..+++..+.++. +.++++. . ++..+++..|.+|++|+++..... ....+. +.|+.....++++++..
T Consensus 12 ~~~l~~~l~~~~~~~P~i~l~i~--~--~~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~~ 82 (198)
T cd08412 12 PYYLPGLLRRFREAYPGVEVRVV--E--GNQEELEEGLRSGELDLALTYDLD---LPEDIA-FEPLARLPPYVWLPADH 82 (198)
T ss_pred hhhhHHHHHHHHHHCCCcEEEEE--E--CCHHHHHHHHHcCCCcEEEEcCCC---CCcccc-eeeeeccceEEEecCCC
Confidence 356778888888876 4554444 2 245788999999999999853221 123332 46888888888887664
No 419
>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=45.81 E-value=82 Score=30.84 Aligned_cols=77 Identities=12% Similarity=0.110 Sum_probs=46.5
Q ss_pred EEEEEEc-CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 79 VTVIYED-IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 79 v~ii~~~-~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
++++..+ ++.+-..+.+.+++.+++.|+++...... .......+.++.+.+.++|.|++.....+. ..++.+.+.+
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~--~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~~ 78 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYDVVLSESG--RRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALRRTG 78 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecCC--CchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHhcCC
Confidence 5566654 22222344788889999999887554332 111145567777888899988775432222 3467776666
Q ss_pred C
Q 043468 158 M 158 (720)
Q Consensus 158 ~ 158 (720)
.
T Consensus 79 i 79 (270)
T cd06296 79 I 79 (270)
T ss_pred C
Confidence 5
No 420
>PRK09426 methylmalonyl-CoA mutase; Reviewed
Probab=45.72 E-value=1.8e+02 Score=33.47 Aligned_cols=84 Identities=15% Similarity=0.117 Sum_probs=55.6
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc----CHHHHHHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL----SLELAVHLFEKA 153 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~----~~~~~~~~l~~a 153 (720)
+|.+..-..+....+ .+-+...++..|++|.... ... +.+..++..+++++++|++++ +.+....+++.+
T Consensus 584 kV~LatlG~d~H~~r-a~fv~~~l~~~GfeV~~~~----~~~-s~e~~v~aa~~~~a~ivvlcs~d~~~~e~~~~l~~~L 657 (714)
T PRK09426 584 RILVAKMGQDGHDRG-AKVIATAFADLGFDVDIGP----LFQ-TPEEAARQAVENDVHVVGVSSLAAGHKTLVPALIEAL 657 (714)
T ss_pred eEEEEecCCcchhHh-HHHHHHHHHhCCeeEecCC----CCC-CHHHHHHHHHHcCCCEEEEeccchhhHHHHHHHHHHH
Confidence 555544433333344 7888888999999984332 222 666888888899999999976 345566778888
Q ss_pred HHcCCCCCCeEEEEeC
Q 043468 154 NKMKMMEKDYIWITTD 169 (720)
Q Consensus 154 ~~~g~~~~~~~~i~~~ 169 (720)
++.|.. +..++.++
T Consensus 658 k~~G~~--~v~vl~GG 671 (714)
T PRK09426 658 KKLGRE--DIMVVVGG 671 (714)
T ss_pred HhcCCC--CcEEEEeC
Confidence 888852 34445443
No 421
>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=45.66 E-value=67 Score=31.58 Aligned_cols=78 Identities=17% Similarity=0.161 Sum_probs=48.1
Q ss_pred EEEEEEcC--CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHH
Q 043468 79 VTVIYEDI--DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANK 155 (720)
Q Consensus 79 v~ii~~~~--~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~ 155 (720)
|+++..+. +.+...+.+.+++.+++.|+++..... ..........++.+.+.++|.|++... .+.....++.+.+
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~--~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~~ 79 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLDA--NGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAKQ 79 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEcC--CcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHHH
Confidence 56666543 322234478888889999988765421 111113445566666779998887653 3334566777777
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.+.
T Consensus 80 ~~i 82 (275)
T cd06317 80 AGI 82 (275)
T ss_pred CCC
Confidence 766
No 422
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=45.59 E-value=2.2e+02 Score=29.57 Aligned_cols=103 Identities=19% Similarity=0.237 Sum_probs=58.8
Q ss_pred HHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcc-cHHHHHHHhhcCCCeEEEEEc
Q 043468 63 QMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSS-RLSEELEKLKGGQCRVFVVHL 141 (720)
Q Consensus 63 ~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~-d~~~~l~~i~~~~~~vvil~~ 141 (720)
....++-+.+..||+ ++++..|..- .+..+.+++-+.+.++.+..+ |...+.. -...-+.+.|..+.|+||+.+
T Consensus 117 tc~KlA~y~kkkG~K-~~LvcaDTFR--agAfDQLkqnA~k~~iP~ygs--yte~dpv~ia~egv~~fKke~fdvIIvDT 191 (483)
T KOG0780|consen 117 TCTKLAYYYKKKGYK-VALVCADTFR--AGAFDQLKQNATKARVPFYGS--YTEADPVKIASEGVDRFKKENFDVIIVDT 191 (483)
T ss_pred eHHHHHHHHHhcCCc-eeEEeecccc--cchHHHHHHHhHhhCCeeEec--ccccchHHHHHHHHHHHHhcCCcEEEEeC
Confidence 345667777888875 5666555542 333677888788888766553 2221111 334456777888999999988
Q ss_pred CHHHH--HHHHHHHHHc-CCCCCCeEEEEeCc
Q 043468 142 SLELA--VHLFEKANKM-KMMEKDYIWITTDA 170 (720)
Q Consensus 142 ~~~~~--~~~l~~a~~~-g~~~~~~~~i~~~~ 170 (720)
++..- ..++.+..+. +...++-+.++.++
T Consensus 192 SGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDa 223 (483)
T KOG0780|consen 192 SGRHKQEASLFEEMKQVSKAIKPDEIIFVMDA 223 (483)
T ss_pred CCchhhhHHHHHHHHHHHhhcCCCeEEEEEec
Confidence 76432 2334333331 22334545555444
No 423
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=45.49 E-value=1.6e+02 Score=30.63 Aligned_cols=94 Identities=11% Similarity=0.100 Sum_probs=56.9
Q ss_pred CeEEEeecChHHHHHHHHHHHHhCCC-eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHh
Q 043468 51 PFLLQASQNQLAQMKAIAAIVQSWEW-HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKL 129 (720)
Q Consensus 51 ~~~fr~~p~~~~~~~~~~~~l~~~~~-~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i 129 (720)
|+-+.+.+.. ...+.++++.++. +++.||.+..... . ..+.+++.+++.| ++... ..+..+.+.....++++
T Consensus 11 p~~i~~G~g~---l~~l~~~l~~~~~~~~~livtd~~~~~-~-~~~~l~~~l~~~~-~~~~~-~~~~~t~~~v~~~~~~~ 83 (350)
T PRK00843 11 PRDVVVGHGV---LDDIGDVCSDLKLTGRALIVTGPTTKK-I-AGDRVEENLEDAG-DVEVV-IVDEATMEEVEKVEEKA 83 (350)
T ss_pred CCeEEECCCH---HHHHHHHHHHhCCCCeEEEEECCcHHH-H-HHHHHHHHHHhcC-CeeEE-eCCCCCHHHHHHHHHHh
Confidence 4444444543 3445666777665 7888887655431 2 2577888888887 54322 22222222677788888
Q ss_pred hcCCCeEEEEEc--CHHHHHHHHH
Q 043468 130 KGGQCRVFVVHL--SLELAVHLFE 151 (720)
Q Consensus 130 ~~~~~~vvil~~--~~~~~~~~l~ 151 (720)
++.++|+|+..+ ..-|+..++.
T Consensus 84 ~~~~~d~IIaiGGGsv~D~ak~vA 107 (350)
T PRK00843 84 KDVNAGFLIGVGGGKVIDVAKLAA 107 (350)
T ss_pred hccCCCEEEEeCCchHHHHHHHHH
Confidence 888899887544 4456666654
No 424
>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=45.19 E-value=99 Score=27.48 Aligned_cols=63 Identities=17% Similarity=0.210 Sum_probs=39.5
Q ss_pred EEEEEEEcCC--Ccc-c-CcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhc-CCCeEEEEEc
Q 043468 78 QVTVIYEDID--SSA-T-GILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKG-GQCRVFVVHL 141 (720)
Q Consensus 78 ~v~ii~~~~~--~g~-~-~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~-~~~~vvil~~ 141 (720)
+++||...+. .|. . .-...+.+.+++.|.++.....++.... ++.+.+++..+ +++|+|+..+
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd~~-~i~~~l~~~~~~~~~DlVittG 69 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVPDDKD-EIREALIEWADEDGVDLILTTG 69 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcCCCHH-HHHHHHHHHHhcCCCCEEEECC
Confidence 5677766554 221 1 1145678889999998877766665433 55666665543 3789888754
No 425
>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=45.18 E-value=1.6e+02 Score=29.93 Aligned_cols=145 Identities=12% Similarity=0.077 Sum_probs=75.2
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccC-CCcEEecccCCcccccCCCCeEEEeecChHH---HHHHHHHHHHhCCCeEEEE
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKK-QIPVLSFADATPNWATERWPFLLQASQNQLA---QMKAIAAIVQSWEWHQVTV 81 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~-~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~---~~~~~~~~l~~~~~~~v~i 81 (720)
+++...||+ .+.....++..++.++ ++-++...+.... ..+++..+.....+ .+-.++..+.+ -+++++
T Consensus 59 ~~g~dlIi~-~g~~~~~~~~~vA~~yPd~~F~~~d~~~~~----~~~Nv~~~~f~~~e~~fLaG~~Aa~~tk--t~~vg~ 131 (306)
T PF02608_consen 59 DQGYDLIIG-HGFEYSDALQEVAKEYPDTKFIIIDGYIDA----PEPNVISITFREEEASFLAGYLAALMTK--TGKVGF 131 (306)
T ss_dssp HTT-SEEEE-ESGGGHHHHHHHHTC-TTSEEEEESS---S----T-TTEEEEEE-HHHHHHHHHHHHHHHHS--STEEEE
T ss_pred HcCCCEEEE-ccHHHHHHHHHHHHHCCCCEEEEEecCcCC----CCCcEEEEEccccchhHHHHHHHHHHhc--cCcccc
Confidence 578888887 4456667778888877 5555544432221 11466555555443 22233333333 357888
Q ss_pred EE---EcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCC--CcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 82 IY---EDIDSSATGILPHLSDALREAGAEIIHVLALPHF--PSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 82 i~---~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
+. ..+..........|..-++...-++.....+... +.+.-....+.+-..++|+|+-.+. .....++.++++.
T Consensus 132 ig~i~G~~~p~~~~~~~gF~~Ga~~~np~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~~ag-~~~~gv~~aa~e~ 210 (306)
T PF02608_consen 132 IGDIGGMDIPPVNRFINGFIAGAKYVNPDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFPVAG-GSGQGVIQAAKEA 210 (306)
T ss_dssp EEEEES--SCTTHHHHHHHHHHHHHTTTT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEEE-C-CCHHHHHHHHHHH
T ss_pred cccccCCCcHhHHHHHHHHHHHHHHhCcCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEECCC-CCchHHHHHHHHc
Confidence 87 4443322333667777777755444444443322 2213334445555689999877443 5556677888888
Q ss_pred CC
Q 043468 157 KM 158 (720)
Q Consensus 157 g~ 158 (720)
|.
T Consensus 211 g~ 212 (306)
T PF02608_consen 211 GV 212 (306)
T ss_dssp TH
T ss_pred CC
Confidence 76
No 426
>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=45.10 E-value=69 Score=32.33 Aligned_cols=78 Identities=10% Similarity=0.082 Sum_probs=48.0
Q ss_pred EEEEEEcC--CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHH
Q 043468 79 VTVIYEDI--DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKAN 154 (720)
Q Consensus 79 v~ii~~~~--~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~ 154 (720)
|+++..+. +.+-..+.+.+++.+++.|.++..... ..+.......++.+.+. ++|.|++..........++.+.
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~v~~~~~--~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~~ 79 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIELEVLYA--ERDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLAE 79 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCeEEEEeC--CCCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHHH
Confidence 56666543 222233477888889999988755422 11111344567777777 8999888643333455677777
Q ss_pred HcCC
Q 043468 155 KMKM 158 (720)
Q Consensus 155 ~~g~ 158 (720)
+.|.
T Consensus 80 ~~gi 83 (305)
T cd06324 80 GAGV 83 (305)
T ss_pred hCCC
Confidence 7776
No 427
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=44.95 E-value=1.6e+02 Score=29.75 Aligned_cols=69 Identities=9% Similarity=0.096 Sum_probs=47.4
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
++..+++..+.++. +.++++.. ++...++..|.+|++|+++..... ....+.+ .++.....++++++..
T Consensus 125 ~~l~~~l~~f~~~~P~i~l~i~~----~~~~~~~~~l~~g~~Di~i~~~~~---~~~~l~~-~~l~~~~~~lv~~~~h 194 (314)
T PRK09508 125 RLTSQIYNRIEQIAPNIHVVFKS----SLNQNIEHQLRYQETEFVISYEEF---DRPEFTS-VPLFKDELVLVASKNH 194 (314)
T ss_pred HHHHHHHHHHHHhCCCcEEEEEe----CcchhHHHHHhcCCccEEEecCCC---Cccccce-eeeecCceEEEEcCCC
Confidence 46678888888876 55544442 234788999999999999864322 1233433 4778888898887764
No 428
>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=44.95 E-value=79 Score=27.34 Aligned_cols=46 Identities=17% Similarity=0.235 Sum_probs=32.1
Q ss_pred HHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc
Q 043468 94 LPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL 141 (720)
Q Consensus 94 ~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~ 141 (720)
...+.+.+++.|.++......+.... .+.+.+++..+ ++|+|+..+
T Consensus 21 ~~~l~~~l~~~G~~v~~~~~v~Dd~~-~i~~~i~~~~~-~~DlvittG 66 (133)
T cd00758 21 GPALEALLEDLGCEVIYAGVVPDDAD-SIRAALIEASR-EADLVLTTG 66 (133)
T ss_pred HHHHHHHHHHCCCEEEEeeecCCCHH-HHHHHHHHHHh-cCCEEEECC
Confidence 56788889999999877655554332 66667766654 389988754
No 429
>PRK05723 flavodoxin; Provisional
Probab=44.90 E-value=1.2e+02 Score=27.06 Aligned_cols=80 Identities=14% Similarity=0.090 Sum_probs=47.1
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-------CHHHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-------SLELAVHLF 150 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-------~~~~~~~~l 150 (720)
++.|+|....+..+.+++.+.+.+.+.|.++..... .+..++ ....++.+++.+ .++++..|.
T Consensus 2 ~i~I~ygS~tG~ae~~A~~la~~l~~~g~~~~~~~~---~~~~~~-------~~~~~~~li~~~sT~G~Ge~Pd~~~~f~ 71 (151)
T PRK05723 2 KVAILSGSVYGTAEEVARHAESLLKAAGFEAWHNPR---ASLQDL-------QAFAPEALLAVTSTTGMGELPDNLMPLY 71 (151)
T ss_pred eEEEEEEcCchHHHHHHHHHHHHHHHCCCceeecCc---CCHhHH-------HhCCCCeEEEEECCCCCCCCchhHHHHH
Confidence 688999887766666788898999888887643211 111022 122344444433 347777887
Q ss_pred HHHHHc---CCCCCCeEEEE
Q 043468 151 EKANKM---KMMEKDYIWIT 167 (720)
Q Consensus 151 ~~a~~~---g~~~~~~~~i~ 167 (720)
+.+.+. .+.+..|..++
T Consensus 72 ~~L~~~~~~~l~~~~~aVfG 91 (151)
T PRK05723 72 SAIRDQLPAAWRGLPGAVIA 91 (151)
T ss_pred HHHHhcCccCCCCCEEEEEe
Confidence 777653 44444444443
No 430
>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=44.88 E-value=60 Score=34.43 Aligned_cols=78 Identities=14% Similarity=0.082 Sum_probs=52.0
Q ss_pred CCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--CHHHHHHHH
Q 043468 74 WEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL--SLELAVHLF 150 (720)
Q Consensus 74 ~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~--~~~~~~~~l 150 (720)
.+.+++.|+++..- ...+..+.+.+.+++.|+++.....+.+..+ +.....+..+++.++|+||-.+ +.-|+..++
T Consensus 19 ~~~~k~liVtd~~~-~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~i 97 (398)
T cd08178 19 KGKKRAFIVTDRFM-VKLGYVDKVIDVLKRRGVETEVFSDVEPDPSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKIM 97 (398)
T ss_pred cCCCeEEEEcChhH-HhCccHHHHHHHHHHCCCeEEEecCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHHH
Confidence 35689888875432 2233588999999999987654433433332 2677888888888999988544 456666665
Q ss_pred HH
Q 043468 151 EK 152 (720)
Q Consensus 151 ~~ 152 (720)
..
T Consensus 98 A~ 99 (398)
T cd08178 98 WL 99 (398)
T ss_pred HH
Confidence 43
No 431
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=44.64 E-value=1.5e+02 Score=31.12 Aligned_cols=123 Identities=19% Similarity=0.198 Sum_probs=71.4
Q ss_pred CCCcEEecc-cCCcccccCCCCeEEEeecChHHHHHHHHHHHHh--CCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcE
Q 043468 31 KQIPVLSFA-DATPNWATERWPFLLQASQNQLAQMKAIAAIVQS--WEWHQVTVIYEDIDSSATGILPHLSDALREAGAE 107 (720)
Q Consensus 31 ~~ip~is~~-~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~--~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~ 107 (720)
.+++++..+ .|+..+...+. .--..| ....++.+++.+.. ...++|.+.......|... ...+.+.+++.|.+
T Consensus 97 ~~~~i~aVG~~Ta~aL~~~G~--~~~~~p-~~~~~e~L~~~l~~~~~~g~~vli~~~~~~~~~~~-~~~L~~~L~~~G~~ 172 (381)
T PRK07239 97 SSARLLARGPKATGAIRAAGL--REEWSP-ASESSAEVLEYLLEEGVAGKRIAVQLHGATDEWEP-LPEFLEALRAAGAE 172 (381)
T ss_pred cCCeEEEECccHHHHHHHcCC--CCccCC-CCCccHHHHHHHhcCCCCCCEEEEEcCCCccccCc-hHHHHHHHHHCCCE
Confidence 355566555 33444443221 111233 33346777777654 3456766653332222233 46799999999999
Q ss_pred EEEEEecCCCCcc---cHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCC
Q 043468 108 IIHVLALPHFPSS---RLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 108 v~~~~~~~~~~~~---d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~ 158 (720)
|.....|...... .....+..+.+.+.|+ +++.++..+..|+..+.+.++
T Consensus 173 V~~~~vY~~~~~~~~~~~~~~~~~l~~~~~d~-v~FtS~stv~~f~~~l~~~~~ 225 (381)
T PRK07239 173 VVPVPVYRWVPPPDPGPLDRLVDAIASRGLDA-VTFTSAPAVAALLERAREMGL 225 (381)
T ss_pred EEEeCcEEEcCCCChhHHHHHHHHHHcCCccE-EEEcCHHHHHHHHHHHHHcCC
Confidence 8888777432211 2345566676667887 455668888888888876554
No 432
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=44.60 E-value=64 Score=33.13 Aligned_cols=42 Identities=10% Similarity=-0.017 Sum_probs=29.2
Q ss_pred EEeHHHHHHHHHhCCCc-cceEEecCCCCHHHHHHHHHhCCccEEe
Q 043468 378 GFSIELFKALVEKLPFY-LPYNFIPFNGSYDDLVKQLYLNNFAGVV 422 (720)
Q Consensus 378 G~~~dl~~~la~~l~~~-~~~~~~~~~~~~~~~~~~l~~g~~Di~~ 422 (720)
++.+-.-+-+.++.+.+ +++...+ +|...++.|..|.+|++.
T Consensus 45 ~~~va~~kG~f~~~Gl~~v~~~~~~---~~~~~~~~l~~G~~D~a~ 87 (335)
T COG0715 45 PLYVAKEKGFFKKEGLDDVELVEFT---GGAPVLEALAAGALDFAV 87 (335)
T ss_pred HHHHHHHhChHhHhCCCceEEEEcC---CChHHHHHHhcCCcCccc
Confidence 33344444456677763 6655544 589999999999999994
No 433
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=44.41 E-value=81 Score=31.81 Aligned_cols=79 Identities=18% Similarity=0.207 Sum_probs=49.2
Q ss_pred EEEEEEEcCC-CcccCcHHHHHHHHHH--cCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-CHHHHHHHHHHH
Q 043468 78 QVTVIYEDID-SSATGILPHLSDALRE--AGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-SLELAVHLFEKA 153 (720)
Q Consensus 78 ~v~ii~~~~~-~g~~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-~~~~~~~~l~~a 153 (720)
+|+++..+.. .+-..+.+.+++.+++ .|+++..... ..+.+.....++++.+.++|.|++.. ..+.....++.+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~~--~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~~ 78 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYDA--KNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVINKA 78 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEecC--CCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHHHHH
Confidence 4667765432 2223346788888988 7776554321 11211344677778888999887754 444456778888
Q ss_pred HHcCC
Q 043468 154 NKMKM 158 (720)
Q Consensus 154 ~~~g~ 158 (720)
.+.|.
T Consensus 79 ~~~gi 83 (303)
T cd01539 79 KQKNI 83 (303)
T ss_pred HHCCC
Confidence 87776
No 434
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=43.79 E-value=1.4e+02 Score=26.06 Aligned_cols=77 Identities=18% Similarity=0.175 Sum_probs=48.8
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC-CCeEEEEEcC-HHHHHHHHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG-QCRVFVVHLS-LELAVHLFEKANK 155 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~-~~~vvil~~~-~~~~~~~l~~a~~ 155 (720)
.|+++..+... ...+.+.+.+.|+-+...........-++...++-+.+. +.++|+++.. ..+...|++.+++
T Consensus 3 ~valisQSG~~-----~~~~~~~~~~~g~g~s~~vs~Gn~~dv~~~d~l~~~~~D~~t~~I~ly~E~~~d~~~f~~~~~~ 77 (138)
T PF13607_consen 3 GVALISQSGAL-----GTAILDWAQDRGIGFSYVVSVGNEADVDFADLLEYLAEDPDTRVIVLYLEGIGDGRRFLEAARR 77 (138)
T ss_dssp SEEEEES-HHH-----HHHHHHHHHHTT-EESEEEE-TT-SSS-HHHHHHHHCT-SS--EEEEEES--S-HHHHHHHHHH
T ss_pred CEEEEECCHHH-----HHHHHHHHHHcCCCeeEEEEeCccccCCHHHHHHHHhcCCCCCEEEEEccCCCCHHHHHHHHHH
Confidence 36666554432 566777888888877766665443322788888887654 7899999885 5778999999999
Q ss_pred cCCC
Q 043468 156 MKMM 159 (720)
Q Consensus 156 ~g~~ 159 (720)
....
T Consensus 78 a~~~ 81 (138)
T PF13607_consen 78 AARR 81 (138)
T ss_dssp HCCC
T ss_pred HhcC
Confidence 8775
No 435
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=43.70 E-value=1.3e+02 Score=28.29 Aligned_cols=85 Identities=16% Similarity=0.138 Sum_probs=48.4
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcc-cCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCH
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSA-TGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSL 143 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~ 143 (720)
+-+.+.++.. .++|+.|-..+-..+ ..+.+.+++.+++.|..+..-..... +.+.+-+++. ++|+|++.+
T Consensus 22 ~~i~n~l~g~-~~~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg~~v~~L~l~~~----~~~~Ie~~l~--~~d~IyVgG-- 92 (224)
T COG3340 22 PFIANFLQGK-RKTIAFIPTASVDSEDDFYVEKVRNALAKLGLEVSELHLSKP----PLAAIENKLM--KADIIYVGG-- 92 (224)
T ss_pred HHHHHHhcCC-CceEEEEecCccccchHHHHHHHHHHHHHcCCeeeeeeccCC----CHHHHHHhhh--hccEEEECC--
Confidence 3344444333 458888855433211 22478999999999998877655443 2222333332 577776654
Q ss_pred HHHHHHHHHHHHcCC
Q 043468 144 ELAVHLFEKANKMKM 158 (720)
Q Consensus 144 ~~~~~~l~~a~~~g~ 158 (720)
.....+++.+++-|+
T Consensus 93 GNTF~LL~~lke~gl 107 (224)
T COG3340 93 GNTFNLLQELKETGL 107 (224)
T ss_pred chHHHHHHHHHHhCc
Confidence 445556666666554
No 436
>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=43.55 E-value=93 Score=30.21 Aligned_cols=77 Identities=19% Similarity=0.220 Sum_probs=46.8
Q ss_pred EEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 79 VTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 79 v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
|+++..+.. .....+.+.+++.+++.|.++..... ..+.+.....++++...++|.+++..... ....+..+.+.+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~--~~~~~~~~~~i~~l~~~~~dgii~~~~~~-~~~~~~~~~~~~ 78 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQMLLMNT--NFSIEKEIEALELLARQKVDGIILLATTI-TDEHREAIKKLN 78 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCEEEEEeC--CCCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHhcCC
Confidence 456665422 22233478888999999998755432 11221455677788788999988865432 134556666655
Q ss_pred C
Q 043468 158 M 158 (720)
Q Consensus 158 ~ 158 (720)
.
T Consensus 79 i 79 (259)
T cd01542 79 V 79 (259)
T ss_pred C
Confidence 4
No 437
>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=43.08 E-value=88 Score=31.45 Aligned_cols=66 Identities=17% Similarity=0.115 Sum_probs=42.2
Q ss_pred CcHHHHHHHHHHcCc-EEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHHcCC
Q 043468 92 GILPHLSDALREAGA-EIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANKMKM 158 (720)
Q Consensus 92 ~~~~~~~~~~~~~g~-~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~~g~ 158 (720)
.+.+.+++.+++.|. .+..... ...+.....+.++.+.+.++|.|++... .+.....++++.+.|.
T Consensus 15 ~~~~gi~~~a~~~g~~~~i~~~~-~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~gi 82 (302)
T TIGR02637 15 AANKGAEEAAKELGSVYIIYTGP-TGTTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGI 82 (302)
T ss_pred HHHHHHHHHHHHhCCeeEEEECC-CCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCC
Confidence 347888889999994 3322111 1112224556777777789998888653 4555677888888776
No 438
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=43.03 E-value=1.6e+02 Score=30.79 Aligned_cols=26 Identities=31% Similarity=0.515 Sum_probs=15.3
Q ss_pred cccCCeEEEECCCCChhhHHHHHhhc
Q 043468 4 MDSQKVEAILGPQTSEETSSVAEIAS 29 (720)
Q Consensus 4 i~~~~v~aiiGp~~s~~~~~~~~~~~ 29 (720)
+++.++.+++||..++-+..++.++.
T Consensus 134 ~~~g~ii~lvGptGvGKTTtiakLA~ 159 (374)
T PRK14722 134 MERGGVFALMGPTGVGKTTTTAKLAA 159 (374)
T ss_pred ccCCcEEEEECCCCCCHHHHHHHHHH
Confidence 34455666666666665555555554
No 439
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=42.98 E-value=62 Score=31.46 Aligned_cols=97 Identities=9% Similarity=0.067 Sum_probs=58.6
Q ss_pred HHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHc--CcEEEEEEe-cCCCCcccHHHHHHHhhcCCCeEEEE
Q 043468 63 QMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREA--GAEIIHVLA-LPHFPSSRLSEELEKLKGGQCRVFVV 139 (720)
Q Consensus 63 ~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~--g~~v~~~~~-~~~~~~~d~~~~l~~i~~~~~~vvil 139 (720)
...++.+.+...+ ++|.++..... ..+...+.+.+. |..++.... |-..+. + ...+++|++++||++++
T Consensus 96 l~~~Ll~~a~~~~-~~vfllGgkp~-----V~~~a~~~l~~~~p~l~ivg~h~GYf~~~e-~-~~i~~~I~~s~pdil~V 167 (253)
T COG1922 96 LVEALLKRAAEEG-KRVFLLGGKPG-----VAEQAAAKLRAKYPGLKIVGSHDGYFDPEE-E-EAIVERIAASGPDILLV 167 (253)
T ss_pred HHHHHHHHhCccC-ceEEEecCCHH-----HHHHHHHHHHHHCCCceEEEecCCCCChhh-H-HHHHHHHHhcCCCEEEE
Confidence 4555555554443 57776644332 245555555553 356766652 222221 4 68999999999999999
Q ss_pred EcCHHHHHHHHHHHHHcCCCCCCeEEEEeCc
Q 043468 140 HLSLELAVHLFEKANKMKMMEKDYIWITTDA 170 (720)
Q Consensus 140 ~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 170 (720)
......-..++.+.++.-- .-++++.++
T Consensus 168 gmG~P~QE~wi~~~~~~~~---~~v~igVGg 195 (253)
T COG1922 168 GMGVPRQEIWIARNRQQLP---VAVAIGVGG 195 (253)
T ss_pred eCCCchhHHHHHHhHHhcC---CceEEeccc
Confidence 8877777777776665322 235565544
No 440
>cd01980 Chlide_reductase_Y Chlide_reductase_Y : Y subunit of chlorophyllide (chlide) reductase (BchY). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase catalyzes the reduction of the B-ring of the tetrapyrolle. Chlide reductase is a three subunit enzyme (subunits are designated BchX, BchY and BchZ). The similarity between these three subunits and the subunits for nitrogenase suggests that BchX serves as an electron donor for the BchY-BchY catalytic subunits.
Probab=42.97 E-value=1.5e+02 Score=31.63 Aligned_cols=150 Identities=9% Similarity=0.017 Sum_probs=83.9
Q ss_pred CeEEEECCCCChhhHHHHHhhccCCCcEEeccc--CCccccc-CCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 8 KVEAILGPQTSEETSSVAEIASKKQIPVLSFAD--ATPNWAT-ERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 8 ~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~--~~~~l~~-~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
+-+.++|..+......+.++++..|+..+.... +-.++.+ ..-...+-+.|+.. ..++.|+++|... +.
T Consensus 160 ~~vniiG~~~~~d~~ei~~lL~~~Gl~~~~~l~~~~~~el~~~~~A~~~i~~~~~~~----~~a~~Le~~GvP~---~~- 231 (416)
T cd01980 160 PSLALLGEMFPADPVAIGSVLERMGLAAVPVVPTREWRELYAAGDAAAVAALHPFYT----ATIRELEEAGRPI---VS- 231 (416)
T ss_pred CeEEEEccCCCCCHHHHHHHHHHcCCceeeEeCCCCHHHHhhcccCcEEEEeChhHH----HHHHHHHHcCCce---ec-
Confidence 345566988877778899999999999875322 2122221 22344555556543 4477777776653 22
Q ss_pred cCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCeE
Q 043468 85 DIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMKMMEKDYI 164 (720)
Q Consensus 85 ~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g~~~~~~~ 164 (720)
....|..+..+.+++..+-.|..+...+.+......-+...++..+.-+-++ ++.++.+....+.+.+.++|+ ..+
T Consensus 232 ~~piG~~~td~~l~~la~~~g~~~~~~e~~~~~e~~~~~~~ld~~~~l~gkv-~v~g~~~~~~~la~~L~elGm---evv 307 (416)
T cd01980 232 GAPVGADGTAAWLEAVGEALGLDMDQVRKVANEEKAAAKGAIRAFSPIKGRV-LVSGYEGNELLVARLLIESGA---EVP 307 (416)
T ss_pred CCCcCchHHHHHHHHHHHHhCcCchhHHHHHHHHHHHHHHHHhhHHhhCceE-EEECCCchhHHHHHHHHHcCC---EEE
Confidence 3567777744555555555675442112221111001222222222112244 456666668889999999999 667
Q ss_pred EEEeC
Q 043468 165 WITTD 169 (720)
Q Consensus 165 ~i~~~ 169 (720)
.+.+.
T Consensus 308 ~~~t~ 312 (416)
T cd01980 308 YVSTS 312 (416)
T ss_pred EEecC
Confidence 77665
No 441
>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=42.61 E-value=1e+02 Score=30.06 Aligned_cols=77 Identities=18% Similarity=0.149 Sum_probs=47.7
Q ss_pred EEEEEEcC-CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 79 VTVIYEDI-DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 79 v~ii~~~~-~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
|++|..+. +.+...+.+.+.+.+++.|.++..... ..... +..+.++.+.+.++|.|++...... ...++.+.+.+
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~~~~~-~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~~~~ 78 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAAGYQLLLGNT-GYSPE-REEELLRTLLSRRPAGLILTGLEHT-ERTRQLLRAAG 78 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHcCCEEEEecC-CCCch-hHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHHhcC
Confidence 56666542 222244478889999999988765332 22222 5677888888889998887653222 34555566666
Q ss_pred C
Q 043468 158 M 158 (720)
Q Consensus 158 ~ 158 (720)
.
T Consensus 79 i 79 (268)
T cd01575 79 I 79 (268)
T ss_pred C
Confidence 5
No 442
>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=42.53 E-value=70 Score=29.17 Aligned_cols=69 Identities=20% Similarity=0.104 Sum_probs=46.2
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.+ +.... ++...++.+|.+|++|+++.... .....+ -+.++.....++++++..
T Consensus 13 ~~l~~~l~~f~~~~P~v~--l~~~~--~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~lv~~~~~ 82 (200)
T cd08466 13 LLLPRLLARLKQLAPNIS--LRESP--SSEEDLFEDLRLQEVDLVIDYVP---FRDPSF-KSELLFEDELVCVARKDH 82 (200)
T ss_pred HHHHHHHHHHHHHCCCCE--EEEec--CchHhHHHHHHcCCccEEEeccc---CCCCCc-eeeeecccceEEEEeCCC
Confidence 45567788887776 444 33333 34578999999999999985322 112233 246888889999988764
No 443
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=42.32 E-value=1.3e+02 Score=32.39 Aligned_cols=93 Identities=14% Similarity=0.102 Sum_probs=62.0
Q ss_pred CCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCc--EEEEEEecCCCCcc--cHHHHHHHhhcCCCeEEEEEcCHHHHHHH
Q 043468 74 WEWHQVTVIYEDIDSSATGILPHLSDALREAGA--EIIHVLALPHFPSS--RLSEELEKLKGGQCRVFVVHLSLELAVHL 149 (720)
Q Consensus 74 ~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~--~v~~~~~~~~~~~~--d~~~~l~~i~~~~~~vvil~~~~~~~~~~ 149 (720)
+..++|+||..++..+.. -..+.+.+.+.|. .|..... ...... ..-+.+..+. ..+|.++++.....+...
T Consensus 5 ~~p~siavvGaS~~~~~~--g~~~~~~l~~~gf~g~v~~Vnp-~~~~i~G~~~~~sl~~lp-~~~Dlavi~vp~~~~~~~ 80 (447)
T TIGR02717 5 FNPKSVAVIGASRDPGKV--GYAIMKNLIEGGYKGKIYPVNP-KAGEILGVKAYPSVLEIP-DPVDLAVIVVPAKYVPQV 80 (447)
T ss_pred cCCCEEEEEccCCCCCch--HHHHHHHHHhCCCCCcEEEECC-CCCccCCccccCCHHHCC-CCCCEEEEecCHHHHHHH
Confidence 567899999776665433 4667777777775 4433321 111110 1222344553 478999999999999999
Q ss_pred HHHHHHcCCCCCCeEEEEeCcccc
Q 043468 150 FEKANKMKMMEKDYIWITTDAFTS 173 (720)
Q Consensus 150 l~~a~~~g~~~~~~~~i~~~~~~~ 173 (720)
++++.+.|. ..+|+.++++..
T Consensus 81 l~e~~~~gv---~~~vi~s~gf~e 101 (447)
T TIGR02717 81 VEECGEKGV---KGAVVITAGFKE 101 (447)
T ss_pred HHHHHhcCC---CEEEEECCCccc
Confidence 999999998 678888877654
No 444
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=42.02 E-value=2.4e+02 Score=32.25 Aligned_cols=118 Identities=22% Similarity=0.211 Sum_probs=69.4
Q ss_pred CCCcEEecc-cCCcccccCCCCe-EEEe-e-------cChHHHHHHHHHHHHh----CCCeEEEEEEEcCCCcccCcHHH
Q 043468 31 KQIPVLSFA-DATPNWATERWPF-LLQA-S-------QNQLAQMKAIAAIVQS----WEWHQVTVIYEDIDSSATGILPH 96 (720)
Q Consensus 31 ~~ip~is~~-~~~~~l~~~~~~~-~fr~-~-------p~~~~~~~~~~~~l~~----~~~~~v~ii~~~~~~g~~~~~~~ 96 (720)
.+++++..| .|...+...++.- ++++ . |+....++.+++.+.. ...++|.++..+. + ...
T Consensus 80 ~~~~i~AVG~~Ta~aL~~~Gi~~~~~~~~~P~~~~~~p~~~~~se~Ll~~l~~~~~~~~g~rVLi~rG~~-----g-r~~ 153 (656)
T PRK06975 80 HALPVAVVGPGSVAALARHGIAAPAHRVIAPDAPADGGEARYDSEALFAEIDAAFGALAGKRVLIVRGDG-----G-REW 153 (656)
T ss_pred cCCeEEEECHHHHHHHHHcCCCCceeeccccccccCCCCCccchHHHHHhHHHhccCCCCCEEEEEcCCC-----C-cHH
Confidence 356666666 3344454333322 2222 1 3344567888888643 3457887765432 2 567
Q ss_pred HHHHHHHcCcEEEEEEecCCCCcc-cH--HHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 97 LSDALREAGAEIIHVLALPHFPSS-RL--SEELEKLKGGQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 97 ~~~~~~~~g~~v~~~~~~~~~~~~-d~--~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
+.+.+++.|.+|.....|...... +. ...+.++...+.|+| ++.++..+..|++.+.+
T Consensus 154 L~~~L~~~Ga~V~~v~vY~~~~~~~~~~~~~~~~~~l~~~idav-~fTS~s~v~~f~~la~~ 214 (656)
T PRK06975 154 LAERLREAGAEVELVEAYRRVVPEPSIGAWERVHALLSGAPHAW-LLTSSEAVRNLDELARA 214 (656)
T ss_pred HHHHHHHCCCEEEEEeEEEeeCCCcchhHHHHHHHHHhCCCcEE-EECCHHHHHHHHHHHHh
Confidence 889999999999888877532110 11 123343444567774 47778888888887654
No 445
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=41.96 E-value=1.2e+02 Score=31.14 Aligned_cols=80 Identities=15% Similarity=0.136 Sum_probs=50.4
Q ss_pred CeEEEEEEEcC--CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHH
Q 043468 76 WHQVTVIYEDI--DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKA 153 (720)
Q Consensus 76 ~~~v~ii~~~~--~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a 153 (720)
-+.++++..+. .+. ..+.+.+.+.+++.|..+..... . .+.......++.+.+.++|.|++..........+..+
T Consensus 64 ~~~Igvv~~~~~~~~~-~~i~~gi~~~a~~~g~~~~~~~~-~-~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 140 (342)
T PRK10014 64 SGVIGLIVRDLSAPFY-AELTAGLTEALEAQGRMVFLLQG-G-KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMA 140 (342)
T ss_pred CCEEEEEeCCCccchH-HHHHHHHHHHHHHcCCEEEEEeC-C-CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHH
Confidence 34788888642 233 33467888999999987654321 1 1211455677788888999988865333334566667
Q ss_pred HHcCC
Q 043468 154 NKMKM 158 (720)
Q Consensus 154 ~~~g~ 158 (720)
.+.+.
T Consensus 141 ~~~~i 145 (342)
T PRK10014 141 EEKGI 145 (342)
T ss_pred hhcCC
Confidence 77665
No 446
>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=41.81 E-value=98 Score=30.22 Aligned_cols=77 Identities=22% Similarity=0.208 Sum_probs=46.4
Q ss_pred EEEEEEc-CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 79 VTVIYED-IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 79 v~ii~~~-~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
|+++..+ ++.....+.+.+.+.+++.|.++...... .... .....++.+...++|.|++.....+.. .++.+.+.+
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~-~~~~~i~~l~~~~vdgiii~~~~~~~~-~~~~~~~~~ 78 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARERGYQLLIACSD-DDPE-TERETVETLIARQVDALIVAGSLPPDD-PYYLCQKAG 78 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHHCCCEEEEEeCC-CCHH-HHHHHHHHHHHcCCCEEEEcCCCCchH-HHHHHHhcC
Confidence 4566554 22222344788889999999887554321 1111 455677788888999888765322222 266666666
Q ss_pred C
Q 043468 158 M 158 (720)
Q Consensus 158 ~ 158 (720)
.
T Consensus 79 i 79 (264)
T cd06274 79 L 79 (264)
T ss_pred C
Confidence 5
No 447
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=41.68 E-value=68 Score=30.03 Aligned_cols=65 Identities=17% Similarity=0.169 Sum_probs=38.3
Q ss_pred CeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCH
Q 043468 76 WHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSL 143 (720)
Q Consensus 76 ~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~ 143 (720)
.++|+++..|..- -+..+.++...+..|+.+..... .....+.....+++.+..+.|+|++...|
T Consensus 29 ~~~v~lis~D~~R--~ga~eQL~~~a~~l~vp~~~~~~-~~~~~~~~~~~l~~~~~~~~D~vlIDT~G 93 (196)
T PF00448_consen 29 GKKVALISADTYR--IGAVEQLKTYAEILGVPFYVART-ESDPAEIAREALEKFRKKGYDLVLIDTAG 93 (196)
T ss_dssp T--EEEEEESTSS--THHHHHHHHHHHHHTEEEEESST-TSCHHHHHHHHHHHHHHTTSSEEEEEE-S
T ss_pred cccceeecCCCCC--ccHHHHHHHHHHHhccccchhhc-chhhHHHHHHHHHHHhhcCCCEEEEecCC
Confidence 6789999876542 33378888888889876543211 11111023345666666789999997753
No 448
>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=41.21 E-value=1.3e+02 Score=29.29 Aligned_cols=78 Identities=18% Similarity=0.219 Sum_probs=45.3
Q ss_pred EEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 79 VTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 79 v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
|+++..+.+ .....+...+++.+++.|+.+..... ...........++.+.+.++|.|++.....+.. .+.++.+.|
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~~~~ 79 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSML-AEADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAAPAD 79 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeC-CCCchHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHHhcC
Confidence 556664332 22233478899999999988755432 111111456677778888899988765432222 234455555
Q ss_pred C
Q 043468 158 M 158 (720)
Q Consensus 158 ~ 158 (720)
.
T Consensus 80 i 80 (264)
T cd01574 80 V 80 (264)
T ss_pred C
Confidence 4
No 449
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=41.10 E-value=31 Score=30.94 Aligned_cols=28 Identities=18% Similarity=0.150 Sum_probs=20.4
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHhh
Q 043468 681 GFWVLFVLSGGISTIALVIFLWRCNWKI 708 (720)
Q Consensus 681 ~~~~~f~il~~g~~ls~~v~~~E~~~~~ 708 (720)
.+.-+||++++..++.++.|++..++-+
T Consensus 93 ~l~R~~~Vl~g~s~l~i~yfvir~~R~r 120 (163)
T PF06679_consen 93 MLKRALYVLVGLSALAILYFVIRTFRLR 120 (163)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3667788888888888888888765433
No 450
>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=41.07 E-value=1.1e+02 Score=30.19 Aligned_cols=62 Identities=19% Similarity=0.101 Sum_probs=42.4
Q ss_pred EEEEEEEc----CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC
Q 043468 78 QVTVIYED----IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS 142 (720)
Q Consensus 78 ~v~ii~~~----~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~ 142 (720)
||+++.++ +......+.+.+++.+++.|.++...... ... +....++.+.+.++|.|++...
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~~gy~~~i~~~~--~~~-~~~~~i~~l~~~~vdgiI~~~~ 66 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKELGIEYKYVESK--SDA-DYEPNLEQLADAGYDLIVGVGF 66 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHHcCCeEEEEecC--CHH-HHHHHHHHHHhCCCCEEEEcCc
Confidence 46777754 22222344789999999999987765332 222 5667788888889999988653
No 451
>PRK09004 FMN-binding protein MioC; Provisional
Probab=41.06 E-value=1.3e+02 Score=26.52 Aligned_cols=80 Identities=18% Similarity=0.231 Sum_probs=48.3
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-------CHHHHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-------SLELAVHL 149 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-------~~~~~~~~ 149 (720)
+++.|+|....+..+.+++.+.+.+++.|.++... .. . + ...+... +.+++.+ .++++..|
T Consensus 2 ~~i~I~ygS~tGnae~~A~~l~~~~~~~g~~~~~~---~~--~-~----~~~l~~~--~~li~~~sT~G~Ge~p~~~~~f 69 (146)
T PRK09004 2 ADITLISGSTLGGAEYVADHLAEKLEEAGFSTETL---HG--P-L----LDDLSAS--GLWLIVTSTHGAGDLPDNLQPF 69 (146)
T ss_pred CeEEEEEEcCchHHHHHHHHHHHHHHHcCCceEEe---cc--C-C----HHHhccC--CeEEEEECCCCCCCCChhHHHH
Confidence 47899999888766777889999999998876532 11 1 2 2344433 3333322 23566777
Q ss_pred HHHHHHc--CCCCCCeEEEEe
Q 043468 150 FEKANKM--KMMEKDYIWITT 168 (720)
Q Consensus 150 l~~a~~~--g~~~~~~~~i~~ 168 (720)
+..+.+. .+.+..+..++.
T Consensus 70 ~~~L~~~~~~l~g~~~aVfGl 90 (146)
T PRK09004 70 FEELQEQKPDLSQVRFAAIGI 90 (146)
T ss_pred HHHHHhcCCCCCCCEEEEEee
Confidence 7766553 344444544443
No 452
>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=40.99 E-value=1.2e+02 Score=24.53 Aligned_cols=56 Identities=23% Similarity=0.274 Sum_probs=43.1
Q ss_pred HHHHHHHHHHcCc-EEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc--CHHHHHHHHHHHHHcC
Q 043468 94 LPHLSDALREAGA-EIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL--SLELAVHLFEKANKMK 157 (720)
Q Consensus 94 ~~~~~~~~~~~g~-~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~--~~~~~~~~l~~a~~~g 157 (720)
.+.+++.++..|. ++... . +....++.++...+|+|++.. ...+...++++.++.+
T Consensus 11 ~~~l~~~l~~~~~~~v~~~---~-----~~~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~ 69 (112)
T PF00072_consen 11 RELLEKLLERAGYEEVTTA---S-----SGEEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQIN 69 (112)
T ss_dssp HHHHHHHHHHTTEEEEEEE---S-----SHHHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHT
T ss_pred HHHHHHHHHhCCCCEEEEE---C-----CHHHHHHHhcccCceEEEEEeeecccccccccccccccc
Confidence 7888899998888 43321 1 666778888888899999974 5677888888888877
No 453
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=40.97 E-value=33 Score=40.50 Aligned_cols=48 Identities=10% Similarity=0.202 Sum_probs=39.1
Q ss_pred chhhhhhh-----hccCCc-ccccchhHHHHHHHHHHHHHHHhhhhhhhhhhhc
Q 043468 505 GTFFWLSF-----NLHGEK-LHSNLSRMTTLVWLFVALVISQTYTANLTSMLTA 552 (720)
Q Consensus 505 ~~~~~~~~-----~~~g~~-~~~~~~R~~~~~~~l~~~ii~~~y~a~L~s~l~~ 552 (720)
..++|+++ .+.|+- |.+...|++.++++++++.+.++..+++++.+..
T Consensus 252 i~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~ 305 (823)
T PLN03192 252 ISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVE 305 (823)
T ss_pred HHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677776 456664 7899999999999999999999999999887643
No 454
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=40.86 E-value=1.1e+02 Score=29.85 Aligned_cols=77 Identities=10% Similarity=0.135 Sum_probs=46.7
Q ss_pred EEEEEEcC-CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 79 VTVIYEDI-DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 79 v~ii~~~~-~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
|+++..+. +..-..+.+.+.+.+++.|.++..... ..+.....+.++.+.+.++|.|++.....+. ..++++.+.+
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~--~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~~ 78 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYSTFVANT--GDNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELTRRG 78 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC--CCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHHHcC
Confidence 56666642 222233478899999999988654321 1111145567777788899988876533222 3467777766
Q ss_pred C
Q 043468 158 M 158 (720)
Q Consensus 158 ~ 158 (720)
.
T Consensus 79 i 79 (265)
T cd06285 79 V 79 (265)
T ss_pred C
Confidence 5
No 455
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=40.32 E-value=1.4e+02 Score=29.28 Aligned_cols=111 Identities=18% Similarity=0.139 Sum_probs=63.9
Q ss_pred CcEEecc-cCCcccccCCCCeEEEeecChHHHHHHHHHH--HHh---CCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCc
Q 043468 33 IPVLSFA-DATPNWATERWPFLLQASQNQLAQMKAIAAI--VQS---WEWHQVTVIYEDIDSSATGILPHLSDALREAGA 106 (720)
Q Consensus 33 ip~is~~-~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~--l~~---~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~ 106 (720)
++++..+ .|...+...++. -..|+....++.+++. +.. ...++|.++-.+ . + ...+.+.|++.|.
T Consensus 84 ~~~~aVG~~Ta~al~~~G~~---~~~~p~~~~se~Ll~~~~l~~~~~~~~~~vLi~rg~--~---~-r~~L~~~L~~~G~ 154 (255)
T PRK05752 84 QPWFSVGAATAAILQDYGLD---VSYPEQGDDSEALLALPALRQALAVPDPRVLIMRGE--G---G-RELLAERLREQGA 154 (255)
T ss_pred CEEEEECHHHHHHHHHcCCC---cccCCCCCCcHHHHhChhhhccccCCCCEEEEEccC--c---c-HHHHHHHHHHCCC
Confidence 4555555 334444432221 1223334446677765 333 234566555333 2 2 5679999999999
Q ss_pred EEEEEEecCCCCcc-cHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHH
Q 043468 107 EIIHVLALPHFPSS-RLSEELEKLKGGQCRVFVVHLSLELAVHLFEKA 153 (720)
Q Consensus 107 ~v~~~~~~~~~~~~-d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a 153 (720)
+|.....|...... +.......+...+.|+|++. ++..+..|++.+
T Consensus 155 ~v~~~~vY~~~~~~~~~~~~~~~~~~~~~d~v~ft-S~~~~~~~~~~~ 201 (255)
T PRK05752 155 SVDYLELYRRCLPDYPAGTLLQRVEAERLNGLVVS-SGQGFEHLQQLA 201 (255)
T ss_pred EEeEEEEEeecCCCCCHHHHHHHHHhCCCCEEEEC-CHHHHHHHHHHh
Confidence 98888777533221 44556666776778885554 777777776654
No 456
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=40.22 E-value=1.3e+02 Score=32.23 Aligned_cols=152 Identities=9% Similarity=0.046 Sum_probs=84.5
Q ss_pred CeEEEECCCCC------hhhHHHHHhhccCCCcEEecccCCccccc--CCCCeEEEeecChHHHHHHHHHHHH-hCCCeE
Q 043468 8 KVEAILGPQTS------EETSSVAEIASKKQIPVLSFADATPNWAT--ERWPFLLQASQNQLAQMKAIAAIVQ-SWEWHQ 78 (720)
Q Consensus 8 ~v~aiiGp~~s------~~~~~~~~~~~~~~ip~is~~~~~~~l~~--~~~~~~fr~~p~~~~~~~~~~~~l~-~~~~~~ 78 (720)
+-+-|||.... +....+.++++..|+.+....+....+.+ .-..--+.+.... ..+..+++.|+ .+|...
T Consensus 162 ~~VNliG~~~~~~~~~~~d~~ei~~lL~~~Gi~v~~~~~~~~~~~ei~~~~~A~lniv~~~-~~g~~~a~~Lee~~GiP~ 240 (426)
T cd01972 162 DSVNIIGLWGGPERTEQEDVDEFKRLLNELGLRVNAIIAGGCSVEELERASEAAANVTLCL-DLGYYLGAALEQRFGVPE 240 (426)
T ss_pred CCEEEEccCCCccccccccHHHHHHHHHHcCCeEEEEeCCCCCHHHHHhcccCCEEEEECh-hHHHHHHHHHHHHhCCCe
Confidence 34557886654 55688899999999998766554444431 1112233333332 24567788884 577765
Q ss_pred EEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcC--CCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 79 VTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGG--QCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~--~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
+.+ .-..|..+..+.+++..+..|.+......+..... .+...+.+.+.. +-++ ++.+.++.+..+.+.+.++
T Consensus 241 ~~~---~~P~G~~~T~~~l~~ia~~~g~~~~~e~~i~~e~~-~~~~~l~~~~~~l~Gk~~-~i~~~~~~~~~~~~~l~el 315 (426)
T cd01972 241 IKA---PQPYGIEATDKWLREIAKVLGMEAEAEAVIEREHE-RVAPEIEELRKALKGKKA-IVETGAAYGHLLIAVLREL 315 (426)
T ss_pred Eec---CCccCHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH-HHHHHHHHHHHHhCCCEE-EEEeCCccHHHHHHHHHHc
Confidence 432 34466566456666666666743111101111000 233333333222 3344 5667778888889999999
Q ss_pred C-CCCCCeEEEEe
Q 043468 157 K-MMEKDYIWITT 168 (720)
Q Consensus 157 g-~~~~~~~~i~~ 168 (720)
| + ..+.+.+
T Consensus 316 G~~---~v~~~~~ 325 (426)
T cd01972 316 GFG---EVPVVLV 325 (426)
T ss_pred CCc---eEEEEEe
Confidence 9 7 4455544
No 457
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=40.04 E-value=1.2e+02 Score=31.02 Aligned_cols=80 Identities=10% Similarity=0.083 Sum_probs=52.9
Q ss_pred CeEEEEEEEcC--CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCH-HHHHHHHHH
Q 043468 76 WHQVTVIYEDI--DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSL-ELAVHLFEK 152 (720)
Q Consensus 76 ~~~v~ii~~~~--~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~-~~~~~~l~~ 152 (720)
-.+|+++..+- .+.. .+.+.+++.+++.|.++..... . .........++.+.+.++|.|++.... +.....++.
T Consensus 25 ~~~Ig~i~~~~~~~f~~-~~~~gi~~~a~~~g~~l~i~~~-~-~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~~ 101 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQ-KDRDIFVKKAESLGAKVFVQSA-N-GNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVIKE 101 (330)
T ss_pred CceEEEEecCCCchHHH-HHHHHHHHHHHHcCCEEEEECC-C-CCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHHHH
Confidence 46788887543 2443 3488999999999998765422 1 111146677888888899999887643 333456777
Q ss_pred HHHcCC
Q 043468 153 ANKMKM 158 (720)
Q Consensus 153 a~~~g~ 158 (720)
+.+.+.
T Consensus 102 ~~~~~i 107 (330)
T PRK10355 102 AKQEGI 107 (330)
T ss_pred HHHCCC
Confidence 777765
No 458
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=39.86 E-value=2.2e+02 Score=32.81 Aligned_cols=26 Identities=27% Similarity=0.431 Sum_probs=20.9
Q ss_pred cCCeEEEECCCCChhhHHHHHhhccC
Q 043468 6 SQKVEAILGPQTSEETSSVAEIASKK 31 (720)
Q Consensus 6 ~~~v~aiiGp~~s~~~~~~~~~~~~~ 31 (720)
..+|.+++||..++-+..++.++..+
T Consensus 184 ~g~Vi~lVGpnGvGKTTTiaKLA~~~ 209 (767)
T PRK14723 184 QGGVLALVGPTGVGKTTTTAKLAARC 209 (767)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHhhH
Confidence 35699999999998888888877643
No 459
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=39.74 E-value=2.4e+02 Score=24.09 Aligned_cols=38 Identities=24% Similarity=0.269 Sum_probs=28.3
Q ss_pred cHHHHHHHhhcCCCeEEEEEc------CHHHHHHHHHHHHHcCC
Q 043468 121 RLSEELEKLKGGQCRVFVVHL------SLELAVHLFEKANKMKM 158 (720)
Q Consensus 121 d~~~~l~~i~~~~~~vvil~~------~~~~~~~~l~~a~~~g~ 158 (720)
.+...++.+++...|+|++.- ...+...+++.+.+.|.
T Consensus 53 ~~~~ll~~~~~~~~d~ivv~~~~Rl~R~~~~~~~~~~~l~~~gi 96 (137)
T cd00338 53 GLQRLLADVKAGKIDVVLVEKLDRLSRNLVDLLELLELLEAHGV 96 (137)
T ss_pred HHHHHHHHHHcCCCCEEEEEecchhhCCHHHHHHHHHHHHHCCC
Confidence 778888888777778877643 55677778888887776
No 460
>PRK13054 lipid kinase; Reviewed
Probab=39.73 E-value=1.8e+02 Score=29.43 Aligned_cols=76 Identities=9% Similarity=0.009 Sum_probs=47.5
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
+++.+|+.....+... ...+.+.+++.|+++.... ..... +....++++.+.+.|+|++.+.-.....++..+.+.
T Consensus 4 ~~~~~i~N~~~~~~~~-~~~~~~~l~~~g~~~~v~~--t~~~~-~a~~~a~~~~~~~~d~vvv~GGDGTl~evv~~l~~~ 79 (300)
T PRK13054 4 PKSLLILNGKSAGNEE-LREAVGLLREEGHTLHVRV--TWEKG-DAARYVEEALALGVATVIAGGGDGTINEVATALAQL 79 (300)
T ss_pred ceEEEEECCCccchHH-HHHHHHHHHHcCCEEEEEE--ecCCC-cHHHHHHHHHHcCCCEEEEECCccHHHHHHHHHHhh
Confidence 5677777633333333 5667777888998754322 22222 677777777667888888777666666666666543
No 461
>COG0503 Apt Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]
Probab=39.64 E-value=47 Score=30.57 Aligned_cols=103 Identities=12% Similarity=0.129 Sum_probs=62.2
Q ss_pred ccCCeEEEECCCCChhhHHHHHhhccCCCcEEecccCCcccccCCCCeEEEeecChHHHHHHHHHHHHhCCCeEEEEEEE
Q 043468 5 DSQKVEAILGPQTSEETSSVAEIASKKQIPVLSFADATPNWATERWPFLLQASQNQLAQMKAIAAIVQSWEWHQVTVIYE 84 (720)
Q Consensus 5 ~~~~v~aiiGp~~s~~~~~~~~~~~~~~ip~is~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~v~ii~~ 84 (720)
..++++.|+|+-..+...+ +.++...++|++-.-= ...+..+.+...+..... ........+.++ ..++|.|+=+
T Consensus 50 ~~~~id~Iv~iea~Gi~~a-~~vA~~Lgvp~v~vRK-~~kl~~~~~~~~~~~~~~-~~~l~~~~~~l~--~G~rVlIVDD 124 (179)
T COG0503 50 KDDGIDKIVTIEARGIPLA-AAVALELGVPFVPVRK-KGKLPEESVVETYYLEYG-SETLELHKDALK--PGDRVLIVDD 124 (179)
T ss_pred cccCCCEEEEEccccchhH-HHHHHHhCCCEEEEEe-cCCCCCcceeEEEEEecc-ceEEEEEhhhCC--CCCEEEEEec
Confidence 4568999999888877554 7788899999985431 122222233333333332 111111112222 5688888733
Q ss_pred cCCCcccCcHHHHHHHHHHcCcEEEEEEec
Q 043468 85 DIDSSATGILPHLSDALREAGAEIIHVLAL 114 (720)
Q Consensus 85 ~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~ 114 (720)
=-+.| .. +..+.+.+++.|.+|+.....
T Consensus 125 llaTG-gT-~~a~~~Ll~~~ga~vvg~~~~ 152 (179)
T COG0503 125 LLATG-GT-ALALIELLEQAGAEVVGAAFV 152 (179)
T ss_pred chhcC-hH-HHHHHHHHHHCCCEEEEEEEE
Confidence 22243 23 899999999999999888654
No 462
>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=39.59 E-value=91 Score=30.67 Aligned_cols=78 Identities=14% Similarity=0.137 Sum_probs=47.1
Q ss_pred EEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHHc
Q 043468 79 VTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~~ 156 (720)
++++..+.. .+-..+.+.+++.+++.|.++..... ..+.....+.++++.+.++|.|++... .+.....++.+.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~--~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~~~~ 79 (277)
T cd06319 2 IAYIVSDLRIPFWQIMGRGVKSKAKALGYDAVELSA--ENSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLAAQA 79 (277)
T ss_pred eEEEeCCCCchHHHHHHHHHHHHHHhcCCeEEEecC--CCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHHHHC
Confidence 566665322 22233478888889999988754321 122113445666777789998877553 33344667777777
Q ss_pred CC
Q 043468 157 KM 158 (720)
Q Consensus 157 g~ 158 (720)
|.
T Consensus 80 ~i 81 (277)
T cd06319 80 KI 81 (277)
T ss_pred CC
Confidence 75
No 463
>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=39.55 E-value=72 Score=29.34 Aligned_cols=70 Identities=11% Similarity=0.046 Sum_probs=45.4
Q ss_pred EEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
++..+++..+.++.. .+++.... ++..+++++|.+|++|+++...... ...+.. .++....+++++++..
T Consensus 13 ~~l~~~l~~f~~~~P-~i~l~i~~--~~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~~-~~l~~~~~~lv~~~~h 82 (200)
T cd08465 13 LVLPALMRQLRAEAP-GIDLAVSQ--ASREAMLAQVADGEIDLALGVFPEL---PEELHA-ETLFEERFVCLADRAT 82 (200)
T ss_pred HhhhHHHHHHHHHCC-CcEEEEec--CChHhHHHHHHCCCccEEEeccccC---CcCeeE-EEeeeccEEEEEeCCC
Confidence 566677888866542 23344333 3568899999999999998533221 223333 4677788888887764
No 464
>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=39.50 E-value=1.7e+02 Score=29.77 Aligned_cols=80 Identities=16% Similarity=0.192 Sum_probs=49.0
Q ss_pred CeEEEEEEEc--CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHH
Q 043468 76 WHQVTVIYED--IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKA 153 (720)
Q Consensus 76 ~~~v~ii~~~--~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a 153 (720)
-+.++++..+ +.+. ..+.+.+.+.+++.|..+..... .. +.......++.+...++|.|++..........++.+
T Consensus 60 ~~~Igvi~~~~~~~~~-~~~~~~i~~~~~~~gy~~~i~~~-~~-~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 136 (327)
T TIGR02417 60 SRTIGLVIPDLENYSY-ARIAKELEQQCREAGYQLLIACS-DD-NPDQEKVVIENLLARQVDALIVASCMPPEDAYYQKL 136 (327)
T ss_pred CceEEEEeCCCCCccH-HHHHHHHHHHHHHCCCEEEEEeC-CC-CHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHHHH
Confidence 3578888764 2233 33478888999999998765432 11 211345567777778899888764322123455666
Q ss_pred HHcCC
Q 043468 154 NKMKM 158 (720)
Q Consensus 154 ~~~g~ 158 (720)
.+.+.
T Consensus 137 ~~~~i 141 (327)
T TIGR02417 137 QNEGL 141 (327)
T ss_pred HhcCC
Confidence 66665
No 465
>PHA02594 nadV nicotinamide phosphoribosyl transferase; Provisional
Probab=39.48 E-value=4.4e+02 Score=28.49 Aligned_cols=106 Identities=11% Similarity=0.122 Sum_probs=58.5
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHH---HHHHHHHHcCcEEEEEEecCCCCcccHHHH-HHHh-------
Q 043468 61 LAQMKAIAAIVQSWEWHQVTVIYEDIDSSATGILP---HLSDALREAGAEIIHVLALPHFPSSRLSEE-LEKL------- 129 (720)
Q Consensus 61 ~~~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~---~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~-l~~i------- 129 (720)
..+.+++..+++.+.-.-++++.+..+.. .+..+ .+++.+.+.|..+ .+....++..+.... ++.+
T Consensus 246 ~~E~~AF~~~~~~~p~~~~s~v~DTYD~~-~~v~~~i~~l~~~i~~~~~~l--~IR~DSGD~~~l~~~~~~~L~~~FG~~ 322 (470)
T PHA02594 246 ENEDEAFKNSLTLYGTGIYSIVSDTYDFK-RAVTEILPELKDEIMARGGKL--VIRPDSGDPVDIICGALETLGEIFGGT 322 (470)
T ss_pred chHHHHHHHHHHHCCCCcEEEEEecccHH-HHHHHHHHHHHHHHHhCCCcE--EEeCCCCCHHHHHHHHHHHHHHhcCCc
Confidence 34678888888888655566676666532 13111 3444444566665 444444433233222 4444
Q ss_pred -hcCC-----CeEEEEEc---CHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 043468 130 -KGGQ-----CRVFVVHL---SLELAVHLFEKANKMKMMEKDYIWITTD 169 (720)
Q Consensus 130 -~~~~-----~~vvil~~---~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 169 (720)
.+.+ +++-|+.+ +...+..++..+.+.|....+..|-.++
T Consensus 323 ln~~G~kvL~~~v~Ii~gd~ide~~i~~il~~L~~~G~~a~n~~fGvGt 371 (470)
T PHA02594 323 VNSKGYKVLDEHVRLIQGDGITLERINRILTRMKENGFASENVAFGMGG 371 (470)
T ss_pred ccCccccccCCCeEEEEcCCCCHHHHHHHHHHHHHCCCCCCcceEecCc
Confidence 1222 35555554 5677888888888899765544444333
No 466
>PRK07475 hypothetical protein; Provisional
Probab=39.25 E-value=1e+02 Score=30.08 Aligned_cols=26 Identities=19% Similarity=0.204 Sum_probs=18.1
Q ss_pred CCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcE
Q 043468 75 EWHQVTVIYEDIDSSATGILPHLSDALREAGAE 107 (720)
Q Consensus 75 ~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~ 107 (720)
+.+||+|+..+... -.++.+++.|++
T Consensus 121 ~~~kIGILtt~~t~-------l~~~~l~~~Gi~ 146 (245)
T PRK07475 121 AGQKVGILTADASS-------LTPAHLLAVGVP 146 (245)
T ss_pred CCCeEEEEeCCchh-------hhHHHHHhCCCC
Confidence 36899999877653 124668888875
No 467
>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=38.83 E-value=1.2e+02 Score=29.83 Aligned_cols=78 Identities=8% Similarity=0.170 Sum_probs=46.8
Q ss_pred EEEEEEcC-CCcccCcHHHHHHHHHH--cCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHH
Q 043468 79 VTVIYEDI-DSSATGILPHLSDALRE--AGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKAN 154 (720)
Q Consensus 79 v~ii~~~~-~~g~~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~ 154 (720)
|+++..+. +.+-..+.+.+.+.+++ .|.++.... ...+.....+.++.+.+.++|.|++... .+.....++.+.
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~~~~ 79 (271)
T cd06321 2 IGVSVGDLGNPFFVALAKGAEAAAKKLNPGVKVTVVS--ADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVKRAQ 79 (271)
T ss_pred eEEEecccCCHHHHHHHHHHHHHHHHhCCCeEEEEcc--CCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHHHHH
Confidence 56666542 22334458889999999 666654332 1122113445666777788998887653 333456677777
Q ss_pred HcCC
Q 043468 155 KMKM 158 (720)
Q Consensus 155 ~~g~ 158 (720)
+.+.
T Consensus 80 ~~~i 83 (271)
T cd06321 80 AAGI 83 (271)
T ss_pred HCCC
Confidence 7665
No 468
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=38.74 E-value=2e+02 Score=29.44 Aligned_cols=83 Identities=12% Similarity=0.132 Sum_probs=50.9
Q ss_pred CCCeEEEEEEEcCC-CcccCcHHHHHHHHHHcC-cEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-CHHHHHHHH
Q 043468 74 WEWHQVTVIYEDID-SSATGILPHLSDALREAG-AEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-SLELAVHLF 150 (720)
Q Consensus 74 ~~~~~v~ii~~~~~-~g~~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-~~~~~~~~l 150 (720)
.+-+.|+++..+.. .+-..+.+.+.+.+++.| ..+.... +..+...-...+..+...++|.|++.. +.......+
T Consensus 22 ~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~--~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~l 99 (330)
T PRK15395 22 AADTRIGVTIYKYDDNFMSVVRKAIEKDAKAAPDVQLLMND--SQNDQSKQNDQIDVLLAKGVKALAINLVDPAAAPTVI 99 (330)
T ss_pred cCCceEEEEEecCcchHHHHHHHHHHHHHHhcCCeEEEEec--CCCCHHHHHHHHHHHHHcCCCEEEEeccCHHHHHHHH
Confidence 34578898886432 222334778888888886 4544421 112221233567777778999888864 444455677
Q ss_pred HHHHHcCC
Q 043468 151 EKANKMKM 158 (720)
Q Consensus 151 ~~a~~~g~ 158 (720)
+++.+.|.
T Consensus 100 ~~l~~~gi 107 (330)
T PRK15395 100 EKARGQDV 107 (330)
T ss_pred HHHHHCCC
Confidence 88888776
No 469
>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=38.73 E-value=1.2e+02 Score=29.72 Aligned_cols=80 Identities=10% Similarity=0.032 Sum_probs=48.5
Q ss_pred EEEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEec--CCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHH
Q 043468 78 QVTVIYEDID-SSATGILPHLSDALREAGAEIIHVLAL--PHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKA 153 (720)
Q Consensus 78 ~v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~--~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a 153 (720)
+|+++..+.. ..-..+.+.+.+.+++.|..+...... ...+.....+.++.+.. ++|.+++... .......++++
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~~~ 79 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDARIRVRIHFVESFDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVARL 79 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhccCceEEEEEccCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHHHH
Confidence 4677776532 222334788888888888654443322 21121144566777767 8998887553 34445678888
Q ss_pred HHcCC
Q 043468 154 NKMKM 158 (720)
Q Consensus 154 ~~~g~ 158 (720)
.+.|.
T Consensus 80 ~~~~i 84 (275)
T cd06307 80 AAAGV 84 (275)
T ss_pred HHCCC
Confidence 88776
No 470
>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=38.64 E-value=1.1e+02 Score=29.70 Aligned_cols=77 Identities=19% Similarity=0.215 Sum_probs=46.0
Q ss_pred EEEEEEc-CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHcC
Q 043468 79 VTVIYED-IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKMK 157 (720)
Q Consensus 79 v~ii~~~-~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~g 157 (720)
|+++..+ ++.+...+.+.+++.+++.|+.+.... ...+.......++++.+.++|.|++.....+. ..++++.+.+
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~--~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~-~~l~~~~~~~ 78 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAHGYQVLVCN--SDNDPEKEKEYLESLLAYQVDGLIVNPTGNNK-ELYQRLAKNG 78 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEc--CCCCHHHHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHhcCC
Confidence 4555543 222334447899999999998875432 22221145567777777899988876532222 2356666666
Q ss_pred C
Q 043468 158 M 158 (720)
Q Consensus 158 ~ 158 (720)
.
T Consensus 79 i 79 (267)
T cd06283 79 K 79 (267)
T ss_pred C
Confidence 5
No 471
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=38.53 E-value=2.7e+02 Score=24.25 Aligned_cols=38 Identities=11% Similarity=0.115 Sum_probs=25.6
Q ss_pred cHHHHHHHhhcCCCeEEEEEc------CHHHHHHHHHHHHHc-CC
Q 043468 121 RLSEELEKLKGGQCRVFVVHL------SLELAVHLFEKANKM-KM 158 (720)
Q Consensus 121 d~~~~l~~i~~~~~~vvil~~------~~~~~~~~l~~a~~~-g~ 158 (720)
.+...++.+++.+.|+|++.- +..+...+++.+.+. |.
T Consensus 56 ~l~~ll~~~~~g~vd~vvv~~ldRl~R~~~d~~~~~~~l~~~~gv 100 (140)
T cd03770 56 GFNRMIEDIEAGKIDIVIVKDMSRLGRNYLKVGLYMEILFPKKGV 100 (140)
T ss_pred HHHHHHHHHHcCCCCEEEEeccchhccCHHHHHHHHHHHHhhcCc
Confidence 677778878777888877753 445555566666654 65
No 472
>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=38.44 E-value=96 Score=30.24 Aligned_cols=78 Identities=10% Similarity=0.113 Sum_probs=47.8
Q ss_pred EEEEEEc-CCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCH-HHHHHHHHHHHHc
Q 043468 79 VTVIYED-IDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSL-ELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~-~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~-~~~~~~l~~a~~~ 156 (720)
|+++..+ ++.+...+.+.+.+.+++.|+.+.... ...+..+....++++...++|.|++.... ......++.+.+.
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~--~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~~ 79 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYELTVLD--AQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANEA 79 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCceEEecC--CCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHC
Confidence 4555543 222223347889999999998875422 11222145567777777889988775433 3335677777776
Q ss_pred CC
Q 043468 157 KM 158 (720)
Q Consensus 157 g~ 158 (720)
+.
T Consensus 80 ~i 81 (268)
T cd06323 80 GI 81 (268)
T ss_pred CC
Confidence 65
No 473
>cd08169 DHQ-like Dehydroquinate synthase-like which includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. Dehydroquinate synthase-like. This group contains dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. They exhibit the dehydroquinate synthase structural fold. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes ne
Probab=37.99 E-value=2.7e+02 Score=28.74 Aligned_cols=100 Identities=10% Similarity=0.048 Sum_probs=56.6
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHH-cCcEEEEEEecCCCCc-ccHHHHHHHhhcC---CCeEEEE
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALRE-AGAEIIHVLALPHFPS-SRLSEELEKLKGG---QCRVFVV 139 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~---~~~vvil 139 (720)
..+.++++.++.+++.++.+.... ..+.+.+.+.+++ .++++........... +.....+..+++. ++|.|+.
T Consensus 12 ~~l~~~~~~~~~~k~livtd~~v~--~~~~~~v~~~L~~~~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~~r~d~IIa 89 (344)
T cd08169 12 ESVESYTTRDLFDQYFFISDSGVA--DLIAHYIAEYLSKILPVHILVIEGGEEYKTFETVTRILERAIALGANRRTAIVA 89 (344)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH--HHHHHHHHHHHHhhcCceEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 445566777777888888765443 2347888888877 5665432211111111 1456666666644 4888876
Q ss_pred Ec--CHHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 043468 140 HL--SLELAVHLFEKANKMKMMEKDYIWITTD 169 (720)
Q Consensus 140 ~~--~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 169 (720)
.+ ...|+..++......|+ .++-+-|.
T Consensus 90 iGGGsv~D~ak~vA~~~~rgi---p~i~VPTT 118 (344)
T cd08169 90 VGGGATGDVAGFVASTLFRGI---AFIRVPTT 118 (344)
T ss_pred ECCcHHHHHHHHHHHHhccCC---cEEEecCC
Confidence 54 44666666655444454 44444443
No 474
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=37.97 E-value=2.8e+02 Score=24.25 Aligned_cols=91 Identities=16% Similarity=0.066 Sum_probs=56.4
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEec----CCCCcccHHHH---HHHhhcCCCeEE
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLAL----PHFPSSRLSEE---LEKLKGGQCRVF 137 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~----~~~~~~d~~~~---l~~i~~~~~~vv 137 (720)
..+.+.+...+.-...-.|.+.... .. ...+.+.+++.|+++...... ..... |..-. ++.+...+.|.+
T Consensus 27 ~~l~~~~~~~~~~~~~r~y~~~~~~-~~-~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~-D~~l~~d~~~~~~~~~~d~i 103 (149)
T cd06167 27 RKLLEFLRDGGEIVLARAYGNWTSP-ER-QRGFLDALRRLGFEPIQKPLRTRGSGKKGV-DVALAIDALELAYKRRIDTI 103 (149)
T ss_pred HHHHHHHHhCCeEEEEEEEEecCCc-hh-HHHHHHHHHHCCcEEEEEcceecCCcccCc-cHHHHHHHHHHhhhcCCCEE
Confidence 4455555443333444455544321 23 688999999999998776543 12222 44333 223333478888
Q ss_pred EEEcCHHHHHHHHHHHHHcCC
Q 043468 138 VVHLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 138 il~~~~~~~~~~l~~a~~~g~ 158 (720)
++.+.-.+-...++.+++.|.
T Consensus 104 vLvSgD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 104 VLVSGDSDFVPLVERLRELGK 124 (149)
T ss_pred EEEECCccHHHHHHHHHHcCC
Confidence 888877788888999999876
No 475
>cd08446 PBP2_Chlorocatechol The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of LysR-type regulators CbnR, ClcR and TfdR, which are involved in the regulation of chlorocatechol breakdown. The chlorocatechol-degradative pathway is often found in bacteria that can use chlorinated aromatic compounds as carbon and energy sources. CbnR is found in the 3-chlorobenzoate degradative bacterium Ralstonia eutropha NH9 and forms a tetramer. CbnR activates the expression of the cbnABCD genes, which are responsible for the degradation of chlorocatechol converted from 3-chlorobenzoate and are transcribed divergently from cbnR. In soil bacterium Pseudomonas putida, the 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR for activation. TfdR is involved in the activation of tf
Probab=37.94 E-value=89 Score=28.41 Aligned_cols=69 Identities=10% Similarity=0.028 Sum_probs=45.3
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
++..+++..+.++. +.+ +.... +++..+...|.+|++|+++..... ....+ -+.++......+++++..
T Consensus 14 ~~l~~~i~~~~~~~P~v~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~~~ 83 (198)
T cd08446 14 DTVPRLLRAFLTARPDVT--VSLHN--MTKDEQIEALRAGRIHIGFGRFYP---VEPDI-AVENVAQERLYLAVPKSH 83 (198)
T ss_pred HHHHHHHHHHHHHCCCeE--EEEee--CCHHHHHHHHHCCCccEEEEecCC---CCCCc-eeEEeeeccEEEEEeCCC
Confidence 45567888887776 344 43332 356789999999999999853222 12222 245777888888887664
No 476
>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=37.86 E-value=95 Score=28.40 Aligned_cols=70 Identities=13% Similarity=0.119 Sum_probs=46.5
Q ss_pred EEeHHHHHHHHHhCC-CccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKLP-FYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l~-~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++.. .++++. . +....+.+.+.+|++|+++..... .....+. +.++.....++++++..
T Consensus 13 ~~l~~~l~~~~~~~P~i~v~~~--~--~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~~h 83 (198)
T cd08413 13 YVLPPVIAAFRKRYPKVKLSLH--Q--GTPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCVIVPPGH 83 (198)
T ss_pred hhccHHHHHHHHhCCceEEEEE--e--CCHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEEEecCCC
Confidence 566778888888763 343333 3 346789999999999999843221 1112233 46788888998887664
No 477
>PRK12359 flavodoxin FldB; Provisional
Probab=37.85 E-value=97 Score=28.26 Aligned_cols=78 Identities=13% Similarity=0.233 Sum_probs=36.1
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCH-------HHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSL-------ELAVHLF 150 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~-------~~~~~~l 150 (720)
+++|+|.+..+..+.+++.+.+.+ |...+....+.... . ..+. +.|+|++.++. ++...++
T Consensus 2 ki~I~Y~S~TGNTe~vAe~I~~~l---g~~~v~v~~i~~~~---~----~~l~--~yD~iIlG~pTw~~Gel~~d~~~~~ 69 (172)
T PRK12359 2 KIGLFYGSSTCYTEMAAEKIRDII---GEELVDLHNLKDDP---P----KLME--QYDVLILGIPTWDFGEIQEDWEAVW 69 (172)
T ss_pred eEEEEEECCCCHHHHHHHHHHHHh---CCCeEEEEEcccCC---h----hHHc--cCCEEEEEecccCCCcCcHHHHHHH
Confidence 577888777654344344444433 33222222222111 1 1221 35666654422 2335555
Q ss_pred HHHHHcCCCCCCeEEEE
Q 043468 151 EKANKMKMMEKDYIWIT 167 (720)
Q Consensus 151 ~~a~~~g~~~~~~~~i~ 167 (720)
..+.+.++.++....++
T Consensus 70 ~~l~~~dl~gK~vAlFG 86 (172)
T PRK12359 70 DQLDDLNLEGKIVALYG 86 (172)
T ss_pred HHHhhCCCCCCEEEEEe
Confidence 55666666665555444
No 478
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=37.74 E-value=73 Score=32.09 Aligned_cols=86 Identities=8% Similarity=0.080 Sum_probs=55.3
Q ss_pred CCCeEEeecCCCccccceEeeeccCCCceeEEEEeHHHHHHHHHhCCCccceEEecCCCCHHHHHHHHHhCCccEEeeee
Q 043468 346 DQPLRIGVPIGSEFQQYVNVEYDELRNFTYFGGFSIELFKALVEKLPFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDV 425 (720)
Q Consensus 346 ~~~l~v~~~~~~p~~p~~~~~~~~~~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~ 425 (720)
.++++|++.+ .. ...+..+++..+.++.. .+++.... ++..+++.+|.+|++|+++...
T Consensus 94 ~g~l~I~~~~---~~---------------~~~~l~~~l~~~~~~~p-~i~~~~~~--~~~~~~~~~l~~g~~Di~i~~~ 152 (302)
T PRK09791 94 AGQINIGMGA---SI---------------ARSLMPAVISRFHQQHP-QVKVRIME--GQLVSMINELRQGELDFTINTY 152 (302)
T ss_pred ceEEEEEech---HH---------------HHhhhHHHHHHHHHHCC-CeEEEEEe--CChHHHHHHHHCCCccEEEEec
Confidence 4789999942 21 12456677888877664 23333332 2458899999999999998532
Q ss_pred eeeccceeeeeecccccccceEEEEeccc
Q 043468 426 AIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 426 ~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
... .....+.+ .|+.....++++++..
T Consensus 153 ~~~-~~~~~~~~-~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 153 YQG-PYDHEFTF-EKLLEKQFAVFCRPGH 179 (302)
T ss_pred CCc-ccccceeE-EEeccceEEEEEcCCC
Confidence 111 11233443 6888999999988775
No 479
>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=37.60 E-value=1.4e+02 Score=26.25 Aligned_cols=46 Identities=26% Similarity=0.315 Sum_probs=33.4
Q ss_pred HHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc
Q 043468 94 LPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL 141 (720)
Q Consensus 94 ~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~ 141 (720)
...+.+.+++.|.++......+.... ++.+.++++.+ ++|+||..+
T Consensus 29 ~~~l~~~l~~~G~~v~~~~~v~Dd~~-~i~~~l~~~~~-~~DliIttG 74 (144)
T TIGR00177 29 GPLLAALLEEAGFNVSRLGIVPDDPE-EIREILRKAVD-EADVVLTTG 74 (144)
T ss_pred HHHHHHHHHHCCCeEEEEeecCCCHH-HHHHHHHHHHh-CCCEEEECC
Confidence 56888889999999887776665433 56666666543 799988854
No 480
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=37.47 E-value=85 Score=27.81 Aligned_cols=71 Identities=17% Similarity=0.145 Sum_probs=41.9
Q ss_pred EEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-CHHHHHHHH
Q 043468 78 QVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-SLELAVHLF 150 (720)
Q Consensus 78 ~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-~~~~~~~~l 150 (720)
+|+|+..++.. ....+...+.+++.|+.......-.-.+...+...++++...++++||... -...+..++
T Consensus 2 ~V~Ii~gs~SD--~~~~~~a~~~L~~~gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lpgvv 73 (150)
T PF00731_consen 2 KVAIIMGSTSD--LPIAEEAAKTLEEFGIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAALPGVV 73 (150)
T ss_dssp EEEEEESSGGG--HHHHHHHHHHHHHTT-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--HHHHH
T ss_pred eEEEEeCCHHH--HHHHHHHHHHHHHcCCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccchhhh
Confidence 67788766554 334789999999999654433322111222677778887777888777543 444555554
No 481
>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=37.39 E-value=1.1e+02 Score=30.09 Aligned_cols=66 Identities=11% Similarity=0.044 Sum_probs=45.3
Q ss_pred cCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcC-HHHHHHHHHHHHHcCC
Q 043468 91 TGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLS-LELAVHLFEKANKMKM 158 (720)
Q Consensus 91 ~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~-~~~~~~~l~~a~~~g~ 158 (720)
..+.+.+++.+++.|.++.....- .+.+.....++.+.+.++|.|++... .+.....++++.+.+.
T Consensus 15 ~~~~~~~~~~a~~~g~~~~~~~~~--~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~i 81 (273)
T cd06309 15 TAETKSIKDAAEKRGFDLKFADAQ--QKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGI 81 (273)
T ss_pred HHHHHHHHHHHHhcCCEEEEeCCC--CCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCC
Confidence 334899999999999988764321 12224556788888889998887553 3333566788888776
No 482
>PRK15138 aldehyde reductase; Provisional
Probab=37.39 E-value=1.1e+02 Score=32.19 Aligned_cols=83 Identities=14% Similarity=0.280 Sum_probs=48.7
Q ss_pred HHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEc--
Q 043468 65 KAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHL-- 141 (720)
Q Consensus 65 ~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~-- 141 (720)
+.+.+.++. + +++.|++++...-..+..+.+++.++ |+++.....+.+... ++....++..++.++|+||-.+
T Consensus 20 ~~l~~~l~~-~-~~~livt~~~~~~~~g~~~~v~~~L~--~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 95 (387)
T PRK15138 20 AGLREQIPA-D-ARVLITYGGGSVKKTGVLDQVLDALK--GMDVLEFGGIEPNPTYETLMKAVKLVREEKITFLLAVGGG 95 (387)
T ss_pred HHHHHHHhc-C-CeEEEECCCchHHhcCcHHHHHHHhc--CCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCh
Confidence 444455555 4 78888865443222344677888885 655543333332222 2677788888888999988544
Q ss_pred CHHHHHHHHH
Q 043468 142 SLELAVHLFE 151 (720)
Q Consensus 142 ~~~~~~~~l~ 151 (720)
+.-|+.+.+.
T Consensus 96 S~iD~AK~ia 105 (387)
T PRK15138 96 SVLDGTKFIA 105 (387)
T ss_pred HHHHHHHHHH
Confidence 3444444443
No 483
>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=37.30 E-value=90 Score=28.30 Aligned_cols=70 Identities=11% Similarity=0.144 Sum_probs=46.6
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++. . ++..++...+.+|++|+++...... ....+ .+.++....++++++...
T Consensus 14 ~~l~~~l~~~~~~~P~i~l~i~--~--~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~~ 84 (199)
T cd08451 14 PLVPGLIRRFREAYPDVELTLE--E--ANTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVALPAGH 84 (199)
T ss_pred cccHHHHHHHHHHCCCcEEEEe--c--CChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEecCCC
Confidence 36677888888876 4454443 3 2457889999999999998543221 11223 346788888888887653
No 484
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=37.04 E-value=82 Score=27.79 Aligned_cols=40 Identities=18% Similarity=0.095 Sum_probs=26.7
Q ss_pred CCCCCCCcccccchhHHHHHHHHHHHHHHHHHHHHHHhhh
Q 043468 670 DDDDISSLSPSGFWVLFVLSGGISTIALVIFLWRCNWKIN 709 (720)
Q Consensus 670 ~~~~~~~l~l~~~~~~f~il~~g~~ls~~v~~~E~~~~~~ 709 (720)
+-..+.+.+.--....|.++++.++++++++++-...+++
T Consensus 7 DI~~P~~vswwP~a~GWwll~~lll~~~~~~~~~~~r~~~ 46 (146)
T PF14316_consen 7 DIHLPPPVSWWPLAPGWWLLLALLLLLLILLLWRLWRRWR 46 (146)
T ss_pred CCCCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445667777777888888887777777766665444333
No 485
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=36.47 E-value=1.9e+02 Score=29.47 Aligned_cols=81 Identities=10% Similarity=0.138 Sum_probs=50.4
Q ss_pred eEEEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCC-CCcccHHHHHHHhhcCCCeEEEE-EcCHHHHHHHHHHH
Q 043468 77 HQVTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPH-FPSSRLSEELEKLKGGQCRVFVV-HLSLELAVHLFEKA 153 (720)
Q Consensus 77 ~~v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~-~~~~d~~~~l~~i~~~~~~vvil-~~~~~~~~~~l~~a 153 (720)
.++++++.... .+-..+.+.+++..++.|... .....+. .+...-.+.++.+-.+++|.|++ ..+.......++.|
T Consensus 34 ~~i~~~~~~~~~~f~~~~~~g~~~~a~~~g~~~-~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~~~~~v~~a 112 (322)
T COG1879 34 KTIGVVVPTLGNPFFQAVRKGAEAAAKKLGVVV-AVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPDALTPAVKKA 112 (322)
T ss_pred ceEEEEeccCCChHHHHHHHHHHHHHHHcCCcE-EEEecccccChHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHH
Confidence 56777776433 333445777888888888611 1111111 11112333444444679998877 55889999999999
Q ss_pred HHcCC
Q 043468 154 NKMKM 158 (720)
Q Consensus 154 ~~~g~ 158 (720)
.+.|.
T Consensus 113 ~~aGI 117 (322)
T COG1879 113 KAAGI 117 (322)
T ss_pred HHCCC
Confidence 99997
No 486
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=36.39 E-value=46 Score=25.74 Aligned_cols=33 Identities=9% Similarity=0.260 Sum_probs=22.2
Q ss_pred CeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEE
Q 043468 76 WHQVTVIYEDIDSSATGILPHLSDALREAGAEII 109 (720)
Q Consensus 76 ~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~ 109 (720)
.++|.+.+++|..|... ...+.+.+...|++|.
T Consensus 46 ~~~Vii~~D~D~~G~~~-a~~i~~~l~~~gi~v~ 78 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKA-AQKIAKKLLPLGIRVT 78 (81)
T ss_dssp -SEEEEEEESSHHHHHH-HHHHHHHHG-------
T ss_pred CceEEEEeCcCHHHHHH-HHHHHHHHHhhccccc
Confidence 68999999999988777 8888888888887653
No 487
>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=36.30 E-value=1.1e+02 Score=30.22 Aligned_cols=65 Identities=9% Similarity=0.050 Sum_probs=44.1
Q ss_pred CcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-CHHHHHHHHHHHHHcCC
Q 043468 92 GILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-SLELAVHLFEKANKMKM 158 (720)
Q Consensus 92 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-~~~~~~~~l~~a~~~g~ 158 (720)
.+.+.+.+.+++.|.++..... ..+.......++.+.+.++|.|++.. ..+.....++++.+.+.
T Consensus 16 ~~~~gi~~~~~~~G~~~~~~~~--~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~i 81 (272)
T cd06313 16 QGKQAADEAGKLLGVDVTWYGG--ALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGI 81 (272)
T ss_pred HHHHHHHHHHHHcCCEEEEecC--CCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCC
Confidence 3467888889999988766532 22221455667777778999988865 33445667788887776
No 488
>PF02502 LacAB_rpiB: Ribose/Galactose Isomerase; InterPro: IPR003500 This entry represents the sugar isomerase enzymes ribose 5-phosphate isomerase B (rpiB), galactose isomerase subunit A (LacA) and galactose isomerase subunit B (LacB). Galactose-6-phosphate isomerase (5.3.1.26 from EC) is a heteromultimeric protein consisting of subunits LacA and LacB, and catalyses the conversion of D-galactose 6-phosphate to D-tagatose and 6-phosphate in the tagatose 6-phosphate pathway of lactose catabolism []. Galactose-6-phosphate isomerase is induced by galactose or lactose. This entry represents the LacB subunit. Ribose 5-phosphate isomerase (5.3.1.6 from EC) forms a homodimer and catalyses the interconversion of D-ribose 5-phosphate and D-ribulose 5-phosphate in the non-oxidative branch of the pentose phosphate pathway. This reaction permits the synthesis of ribose from other sugars, as well as the recycling of sugars from nucleotide breakdown. Two unrelated enzymes can catalyse this reaction: RpiA (found in most organisms) and RpiB (found in some bacteria and eukaryotes). RpiB is also involved in metabolism of the rare sugar, allose, in addition to ribose sugars. The structures of RpiA and RpiB are distinct, RpiB having a Rossmann-type alpha/beta/alpha sandwich topology [].; GO: 0005975 carbohydrate metabolic process; PDB: 3HEE_A 3HE8_A 3PH3_B 3PH4_B 3ONO_A 4EM8_B 3S5P_B 1O1X_A 2BES_D 2VVP_D ....
Probab=36.30 E-value=1.5e+02 Score=25.88 Aligned_cols=57 Identities=12% Similarity=0.178 Sum_probs=36.0
Q ss_pred CcHHHHHHHHHHcCcEEEEEEecCCCCcccHHH----HHHHhhcCCCeEEEEEcCHHHHHHH
Q 043468 92 GILPHLSDALREAGAEIIHVLALPHFPSSRLSE----ELEKLKGGQCRVFVVHLSLELAVHL 149 (720)
Q Consensus 92 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~----~l~~i~~~~~~vvil~~~~~~~~~~ 149 (720)
.+.+.+.+.|++.|.+|...-....... ||-. ..+.+.+.++|.-|+.|.......+
T Consensus 12 ~lK~~i~~~L~~~g~eV~D~G~~~~~~~-dy~~~a~~va~~V~~~~~d~GIliCgtGiG~~i 72 (140)
T PF02502_consen 12 ELKEAIKEYLEEKGYEVIDFGTYSEDSV-DYPDFAEKVAEAVASGEADRGILICGTGIGMSI 72 (140)
T ss_dssp HHHHHHHHHHHHTTEEEEEESESSTST---HHHHHHHHHHHHHTTSSSEEEEEESSSHHHHH
T ss_pred HHHHHHHHHHHHCCCEEEEeCCCCCCCC-CHHHHHHHHHHHHHcccCCeEEEEcCCChhhhh
Confidence 3489999999999999988877765443 4443 3334455566666665554444443
No 489
>KOG2670 consensus Enolase [Carbohydrate transport and metabolism]
Probab=36.27 E-value=2.8e+02 Score=27.84 Aligned_cols=128 Identities=8% Similarity=0.084 Sum_probs=79.2
Q ss_pred HHhhccCCCcEEecccCCcccc-cCCCCeEEEeecChHH---HHHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHH
Q 043468 25 AEIASKKQIPVLSFADATPNWA-TERWPFLLQASQNQLA---QMKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDA 100 (720)
Q Consensus 25 ~~~~~~~~ip~is~~~~~~~l~-~~~~~~~fr~~p~~~~---~~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~ 100 (720)
..-+...+-..|.-...++.+. +..|..=|...|++.+ ..+.+.++-+.+ .+..-|+.-.|++.+.. ...-...
T Consensus 232 i~kagyt~kikIgmDvAaseF~~dgkYDLdfk~~~~d~s~~~s~~~L~dlY~~~-~k~yPivSiEDPFdqdD-w~~w~~~ 309 (433)
T KOG2670|consen 232 INKAGYTGKVKIGMDVAASEFYKDGKYDLDFKSPNSDPSRWLSGDQLADLYKSF-IKDYPIVSIEDPFDQDD-WEAWSKF 309 (433)
T ss_pred HHhcCCCCceEEEEeechhhhhcCCcccccCcCCCCCcccccCHHHHHHHHHHH-HhcCCeeeecCCcchhh-HHHHHHH
Confidence 3445556666676665555554 6678887877665543 344555544333 12223344456655555 5666666
Q ss_pred HHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEE----EcCHHHHHHHHHHHHHcCC
Q 043468 101 LREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVV----HLSLELAVHLFEKANKMKM 158 (720)
Q Consensus 101 ~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil----~~~~~~~~~~l~~a~~~g~ 158 (720)
....+++++...-.-. +...+-..+.+..++.+++ .++..+.....+.+++.||
T Consensus 310 ~~~~~iqiVgDDLtvT----npkri~~Ai~~k~cN~LLlKvNQIGtvtEsiea~~~a~~~gw 367 (433)
T KOG2670|consen 310 FKEVGIQIVGDDLTVT----NPKRIATAIEEKACNALLLKVNQIGTVTESIEAAKLARSAGW 367 (433)
T ss_pred hhccceEEecCccccc----CHHHHHHHHHHhhccceEeeccccccHHHHHHHHHHHHhcCc
Confidence 6678999888754332 4445555566666777766 3577888888999999998
No 490
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=36.20 E-value=51 Score=25.50 Aligned_cols=31 Identities=16% Similarity=0.130 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcc
Q 043468 686 FVLSGGISTIALVIFLWRCNWKINENLLVNKKI 718 (720)
Q Consensus 686 f~il~~g~~ls~~v~~~E~~~~~~~~~~~~~k~ 718 (720)
++.+.+.++++++|+.+ .+..+++.+++||+
T Consensus 9 iialiv~~iiaIvvW~i--v~ieYrk~~rqrkI 39 (81)
T PF00558_consen 9 IIALIVALIIAIVVWTI--VYIEYRKIKRQRKI 39 (81)
T ss_dssp HHHHHHHHHHHHHHHHH--H------------C
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhH
Confidence 34444555555555544 34444444444554
No 491
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=36.12 E-value=73 Score=28.10 Aligned_cols=76 Identities=14% Similarity=0.082 Sum_probs=45.8
Q ss_pred eEEEEEEEcCCCcccCcHHHHHHHHHHc-CcEEEEEEecCCC-CcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHH
Q 043468 77 HQVTVIYEDIDSSATGILPHLSDALREA-GAEIIHVLALPHF-PSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKA 153 (720)
Q Consensus 77 ~~v~ii~~~~~~g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~-~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a 153 (720)
++|-|+|+.|..-.......+.+.|++. |++|.....-... ...+...-+.+-. ..+|.|++.|+.......-..+
T Consensus 1 ~kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~-~~ad~Vliv~S~~~~~~~~~~~ 78 (150)
T PF08357_consen 1 RKVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQI-READKVLIVCSPGYKERYDKKA 78 (150)
T ss_pred CeEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHH-hcCCEEEEEeccchhHHHHHhh
Confidence 4788999877643334478888888998 9998776543322 1115555554432 3567666666644444443333
No 492
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=36.04 E-value=2.3e+02 Score=22.85 Aligned_cols=56 Identities=18% Similarity=0.181 Sum_probs=36.2
Q ss_pred HHHHHHHHHHcCcEEEEEEecCCCCc--c------cHHHHHHHhhcCCCeEEEEEc--CHHHHHHH
Q 043468 94 LPHLSDALREAGAEIIHVLALPHFPS--S------RLSEELEKLKGGQCRVFVVHL--SLELAVHL 149 (720)
Q Consensus 94 ~~~~~~~~~~~g~~v~~~~~~~~~~~--~------d~~~~l~~i~~~~~~vvil~~--~~~~~~~~ 149 (720)
++.++..++..|++|+.......... . -....-..++..++|+|++.. ++.....+
T Consensus 10 l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~Lsp~Q~rNL 75 (95)
T PF13167_consen 10 LEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNELSPSQQRNL 75 (95)
T ss_pred HHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCCCCHHHHHHH
Confidence 78888999999999998776543211 1 344444445556889888876 44444443
No 493
>PRK10586 putative oxidoreductase; Provisional
Probab=35.88 E-value=2.3e+02 Score=29.50 Aligned_cols=73 Identities=16% Similarity=0.157 Sum_probs=44.4
Q ss_pred HHHHHHHHHhCCCeEEEEEEEcCCCcccCcHHHHHHHHHHcCcEEEEEEecCCCCc-ccHHHHHHHhhcCCCeEEEEEcC
Q 043468 64 MKAIAAIVQSWEWHQVTVIYEDIDSSATGILPHLSDALREAGAEIIHVLALPHFPS-SRLSEELEKLKGGQCRVFVVHLS 142 (720)
Q Consensus 64 ~~~~~~~l~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~d~~~~l~~i~~~~~~vvil~~~ 142 (720)
...+.++++.+|.+++.++++.... ......+.+.+++.|+.+. .+..... .+.....+.. ..++|+|+-.+.
T Consensus 22 ~~~l~~~~~~~g~~~~lvv~g~~~~--~~~~~~~~~~l~~~~~~~~---~~~g~~~~~~v~~l~~~~-~~~~d~iiavGG 95 (362)
T PRK10586 22 IDHLHDFFTDEQLSRAVWIYGERAI--AAAQPYLPPAFELPGAKHI---LFRGHCSESDVAQLAAAS-GDDRQVVIGVGG 95 (362)
T ss_pred HHHHHHHHHhcCCCeEEEEEChHHH--HHHHHHHHHHHHHcCCeEE---EeCCCCCHHHHHHHHHHh-ccCCCEEEEecC
Confidence 3567778888898999888775543 2213567788888887553 2322221 1444444433 357898776553
No 494
>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=35.73 E-value=1.1e+02 Score=27.63 Aligned_cols=69 Identities=9% Similarity=-0.001 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++. . ++..++...+.+|++|+++.... .....+. +.++....++++++...
T Consensus 13 ~~l~~~l~~~~~~~P~i~i~i~--~--~~~~~~~~~l~~~~~Di~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~~h 82 (197)
T cd08448 13 RGLPRILRAFRAEYPGIEVALH--E--MSSAEQIEALLRGELDLGFVHSR---RLPAGLS-ARLLHREPFVCCLPAGH 82 (197)
T ss_pred HHHHHHHHHHHHHCCCCeEEEE--e--CCHHHHHHHHHcCCcceEEEeCC---CCCcCce-EEEEecCcEEEEeeCCC
Confidence 55677888888776 4554443 2 34688999999999999975322 2223333 46788888888877653
No 495
>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=35.52 E-value=1.1e+02 Score=29.88 Aligned_cols=75 Identities=16% Similarity=0.113 Sum_probs=44.9
Q ss_pred EEEEEEcC-CCcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHHc
Q 043468 79 VTVIYEDI-DSSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANKM 156 (720)
Q Consensus 79 v~ii~~~~-~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~~ 156 (720)
|+++..+- +.....+.+.+++.+++.|.++..... ..+.. ...+.++.+.+.++|.|++...... ...++.+.+.
T Consensus 2 i~~i~~~~~~~~~~~i~~gi~~~~~~~g~~~~~~~~-~~~~~-~~~~~i~~l~~~~vdgiii~~~~~~-~~~~~~~~~~ 77 (260)
T cd06286 2 IGVVLPYINHPYFSQLVDGIEKAALKHGYKVVLLQT-NYDKE-KELEYLELLKTKQVDGLILCSREND-WEVIEPYTKY 77 (260)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeC-CCChH-HHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHhcC
Confidence 56666642 222234478999999999998765432 21111 4556777788889998887653222 2345555443
No 496
>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=35.48 E-value=89 Score=28.29 Aligned_cols=69 Identities=9% Similarity=-0.020 Sum_probs=45.4
Q ss_pred EEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 378 GFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 378 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
.+..+++..+.++. +.++++ .. ++...+++++.+|++|+++...... ...+. +.++.....++++++..
T Consensus 13 ~~l~~~l~~~~~~~P~i~~~i--~~--~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~~~ 82 (196)
T cd08456 13 SFLPRAIKAFLQRHPDVTISI--HT--RDSPTVEQWLSAQQCDLGLVSTLHE---PPGIE-RERLLRIDGVCVLPPGH 82 (196)
T ss_pred hhHHHHHHHHHHHCCCcEEEE--Ee--CCHHHHHHHHHcCCccEEEEecCCC---CCCee-EEEeeccCeEEEecCCC
Confidence 55678888888876 444444 33 2357788999999999998532221 22232 45777788888877653
No 497
>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=35.36 E-value=1.6e+02 Score=29.85 Aligned_cols=79 Identities=13% Similarity=0.171 Sum_probs=51.2
Q ss_pred CCCeEEEEEEEcCC--Ccc--cCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc-CHHHHHH
Q 043468 74 WEWHQVTVIYEDID--SSA--TGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL-SLELAVH 148 (720)
Q Consensus 74 ~~~~~v~ii~~~~~--~g~--~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~-~~~~~~~ 148 (720)
+...+++||...+. .|. ......+++.+++.|.++......+.... .+.+.+.++.+.++|+|++.+ .+.+...
T Consensus 157 ~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~Dd~~-~I~~ai~~~~~~g~DlIItTGGtsvg~~D 235 (312)
T cd03522 157 FRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVPHDEA-AIAAAIAEALEAGAELLILTGGASVDPDD 235 (312)
T ss_pred cCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcCCCHH-HHHHHHHHHhcCCCCEEEEeCCcccCCcc
Confidence 45568999987553 221 11156788889999999888777765443 677777777666789988754 3334444
Q ss_pred HHHHH
Q 043468 149 LFEKA 153 (720)
Q Consensus 149 ~l~~a 153 (720)
+..++
T Consensus 236 ~tp~A 240 (312)
T cd03522 236 VTPAA 240 (312)
T ss_pred hHHHH
Confidence 43333
No 498
>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=35.23 E-value=67 Score=32.05 Aligned_cols=78 Identities=18% Similarity=0.133 Sum_probs=52.1
Q ss_pred eEEEEEEEcCC-CcccCcHHHHHHHHHHcCcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEcCHHHHHHHHHHHHH
Q 043468 77 HQVTVIYEDID-SSATGILPHLSDALREAGAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHLSLELAVHLFEKANK 155 (720)
Q Consensus 77 ~~v~ii~~~~~-~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~~~~~~~~~l~~a~~ 155 (720)
+.+++|..+.. ..-..+...+.+.+++.|..+.....- .+. +-+.+++.+.+.++|.||+.+...+...+ ....+
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~--~~~-~~e~~i~~l~~~~vDGiI~~s~~~~~~~l-~~~~~ 77 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTG--DDE-EKEEYIELLLQRRVDGIILASSENDDEEL-RRLIK 77 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEET--TTH-HHHHHHHHHHHTTSSEEEEESSSCTCHHH-HHHHH
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCC--Cch-HHHHHHHHHHhcCCCEEEEecccCChHHH-HHHHH
Confidence 46888887655 222335899999999999987664432 222 44488899999999999988765553333 33444
Q ss_pred cCC
Q 043468 156 MKM 158 (720)
Q Consensus 156 ~g~ 158 (720)
.+.
T Consensus 78 ~~i 80 (279)
T PF00532_consen 78 SGI 80 (279)
T ss_dssp TTS
T ss_pred cCC
Confidence 454
No 499
>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=35.16 E-value=1.6e+02 Score=26.77 Aligned_cols=71 Identities=11% Similarity=0.068 Sum_probs=46.5
Q ss_pred EEEeHHHHHHHHHhC-CCccceEEecCCCCHHHHHHHHHhCCccEEeeeeeeeccceeeeeecccccccceEEEEeccc
Q 043468 377 GGFSIELFKALVEKL-PFYLPYNFIPFNGSYDDLVKQLYLNNFAGVVGDVAIVARRCQYADFTHPYTESGLVMIFPVQK 454 (720)
Q Consensus 377 ~G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~ 454 (720)
..+..+++..+.++. +.++++. . ++...++..+.+|++|+++..... .....+. +.++.....++++++..
T Consensus 12 ~~~l~~~l~~f~~~~P~~~i~i~--~--~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~~h 83 (198)
T cd08443 12 RYVLPPVIKGFIERYPRVSLQMH--Q--GSPTQIAEMVSKGLVDFAIATEAL--HDYDDLI-TLPCYHWNRCVVVKRDH 83 (198)
T ss_pred eeECcHHHHHHHHHCCCeEEEEE--e--CCHHHHHHHHHCCCccEEEEeccc--cccCCce-EeeeeeceEEEEEcCCC
Confidence 466778888888775 4443333 2 345789999999999999843221 1122333 46778888888887664
No 500
>cd03146 GAT1_Peptidase_E Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption.
Probab=35.11 E-value=2e+02 Score=27.25 Aligned_cols=82 Identities=16% Similarity=0.142 Sum_probs=50.4
Q ss_pred HHHHHHHHhC--CCeEEEEEEEcCCCcccCcHHHHHHHHHHc-CcEEEEEEecCCCCcccHHHHHHHhhcCCCeEEEEEc
Q 043468 65 KAIAAIVQSW--EWHQVTVIYEDIDSSATGILPHLSDALREA-GAEIIHVLALPHFPSSRLSEELEKLKGGQCRVFVVHL 141 (720)
Q Consensus 65 ~~~~~~l~~~--~~~~v~ii~~~~~~g~~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~d~~~~l~~i~~~~~~vvil~~ 141 (720)
..+.+++... .-.++++|-..+... ..+.+.+++.+++. |.++....... .. +. .++|. ++|+|++.+
T Consensus 18 ~~l~~~l~~~~~~~~~i~~IptAs~~~-~~~~~~~~~a~~~l~G~~~~~~~~~~--~~-~~---~~~l~--~ad~I~l~G 88 (212)
T cd03146 18 PAIDDLLLSLTKARPKVLFVPTASGDR-DEYTARFYAAFESLRGVEVSHLHLFD--TE-DP---LDALL--EADVIYVGG 88 (212)
T ss_pred HHHHHHHHHhccCCCeEEEECCCCCCH-HHHHHHHHHHHhhccCcEEEEEeccC--cc-cH---HHHHh--cCCEEEECC
Confidence 4555555444 346788887665533 23478899999999 98776654433 21 32 33333 689999887
Q ss_pred CHHHHHHHHHHHHHcC
Q 043468 142 SLELAVHLFEKANKMK 157 (720)
Q Consensus 142 ~~~~~~~~l~~a~~~g 157 (720)
+ +...+++.+++.+
T Consensus 89 -G-~~~~~~~~l~~~~ 102 (212)
T cd03146 89 -G-NTFNLLAQWREHG 102 (212)
T ss_pred -c-hHHHHHHHHHHcC
Confidence 3 5555555555544
Done!